Query 032483
Match_columns 139
No_of_seqs 156 out of 1209
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 14:40:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032483.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032483hhsearch_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 99.9 9.8E-23 2.1E-27 150.7 10.1 91 1-139 139-231 (346)
2 KOG0148 Apoptosis-promoting RN 99.9 5.6E-23 1.2E-27 143.4 7.6 105 1-137 94-200 (321)
3 TIGR01645 half-pint poly-U bin 99.8 1.1E-20 2.4E-25 147.1 10.4 102 1-139 139-242 (612)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 2.6E-20 5.6E-25 138.4 9.9 90 1-138 35-126 (352)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 6.2E-19 1.3E-23 131.0 14.1 41 99-139 267-307 (352)
6 KOG0145 RNA-binding protein EL 99.8 3.6E-19 7.8E-24 124.1 11.0 139 1-139 159-316 (360)
7 TIGR01622 SF-CC1 splicing fact 99.8 2.7E-19 5.9E-24 137.1 11.1 103 1-139 121-224 (457)
8 KOG4205 RNA-binding protein mu 99.8 3.8E-20 8.1E-25 134.2 5.8 97 1-139 38-135 (311)
9 KOG0131 Splicing factor 3b, su 99.8 6.6E-20 1.4E-24 121.5 6.0 92 1-139 41-135 (203)
10 KOG0144 RNA-binding protein CU 99.8 6.7E-20 1.4E-24 135.0 5.1 91 1-138 66-161 (510)
11 KOG0117 Heterogeneous nuclear 99.8 7E-19 1.5E-23 130.1 8.1 136 1-136 115-294 (506)
12 KOG0145 RNA-binding protein EL 99.8 3.9E-19 8.5E-24 123.9 5.8 91 1-139 73-165 (360)
13 TIGR01628 PABP-1234 polyadenyl 99.8 2.6E-18 5.6E-23 134.8 9.4 91 1-137 32-124 (562)
14 KOG0127 Nucleolar protein fibr 99.7 2.8E-17 6.1E-22 124.3 12.0 138 1-139 149-330 (678)
15 TIGR01642 U2AF_lg U2 snRNP aux 99.7 9.7E-17 2.1E-21 124.5 11.6 115 5-138 217-332 (509)
16 TIGR01648 hnRNP-R-Q heterogene 99.7 6.5E-17 1.4E-21 125.9 10.4 90 4-136 175-270 (578)
17 TIGR01628 PABP-1234 polyadenyl 99.7 4.7E-16 1E-20 122.1 10.9 93 2-138 121-215 (562)
18 KOG0127 Nucleolar protein fibr 99.7 3.5E-16 7.7E-21 118.4 8.6 112 2-138 38-154 (678)
19 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 2.7E-15 5.9E-20 115.9 11.7 94 9-138 36-133 (481)
20 KOG0124 Polypyrimidine tract-b 99.6 9.8E-16 2.1E-20 111.5 6.8 101 1-138 145-247 (544)
21 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 2.9E-14 6.2E-19 110.3 12.8 116 10-137 312-432 (481)
22 TIGR01648 hnRNP-R-Q heterogene 99.6 8.7E-15 1.9E-19 114.2 7.7 78 1-133 90-171 (578)
23 KOG0123 Polyadenylate-binding 99.5 3E-14 6.6E-19 106.4 8.2 81 2-138 31-113 (369)
24 KOG0110 RNA-binding protein (R 99.5 3.2E-14 7E-19 110.5 8.2 89 9-136 558-648 (725)
25 TIGR01642 U2AF_lg U2 snRNP aux 99.5 1.4E-13 3E-18 106.9 10.8 116 1-136 327-454 (509)
26 KOG0109 RNA-binding protein LA 99.5 3E-14 6.5E-19 100.9 4.8 76 11-136 36-113 (346)
27 TIGR01622 SF-CC1 splicing fact 99.4 9.1E-12 2E-16 95.7 11.3 45 1-45 218-264 (457)
28 KOG0147 Transcriptional coacti 99.3 5E-13 1.1E-17 101.4 3.2 105 1-139 211-316 (549)
29 KOG0105 Alternative splicing f 99.3 2.9E-11 6.3E-16 81.0 10.4 107 9-137 43-151 (241)
30 KOG0149 Predicted RNA-binding 99.3 1.5E-12 3.2E-17 89.9 2.9 45 1-45 44-89 (247)
31 PLN03134 glycine-rich RNA-bind 99.3 1.9E-11 4.1E-16 80.4 7.3 49 1-49 66-116 (144)
32 KOG0123 Polyadenylate-binding 99.2 5.2E-11 1.1E-15 89.2 7.3 88 10-138 115-204 (369)
33 PLN03134 glycine-rich RNA-bind 99.2 1.4E-10 3E-15 76.4 6.9 42 98-139 31-72 (144)
34 KOG4212 RNA-binding protein hn 99.1 4.1E-10 8.9E-15 84.2 9.5 133 6-138 81-252 (608)
35 KOG0149 Predicted RNA-binding 99.1 4.8E-11 1E-15 82.5 4.3 42 98-139 9-50 (247)
36 KOG0122 Translation initiation 99.1 1.4E-10 3.1E-15 80.6 4.6 47 1-47 221-269 (270)
37 smart00361 RRM_1 RNA recogniti 99.1 2.9E-10 6.3E-15 65.9 4.7 40 2-41 26-69 (70)
38 KOG0146 RNA-binding protein ET 99.0 3.7E-09 8E-14 74.7 10.2 42 98-139 282-323 (371)
39 KOG4207 Predicted splicing fac 99.0 1.8E-10 3.9E-15 78.4 3.5 44 1-44 45-90 (256)
40 KOG0111 Cyclophilin-type pepti 99.0 4.5E-10 9.8E-15 77.3 4.6 47 1-47 42-90 (298)
41 COG0724 RNA-binding proteins ( 99.0 3.5E-09 7.6E-14 74.9 9.5 112 1-136 147-260 (306)
42 TIGR01659 sex-lethal sex-letha 99.0 2.1E-09 4.6E-14 80.1 6.6 42 98-139 104-145 (346)
43 KOG4206 Spliceosomal protein s 98.9 2.2E-08 4.8E-13 69.0 10.4 127 5-135 46-180 (221)
44 PF00076 RRM_1: RNA recognitio 98.9 3.2E-09 6.9E-14 60.8 4.3 33 104-136 1-33 (70)
45 KOG0126 Predicted RNA-binding 98.8 4.9E-10 1.1E-14 74.9 -0.2 39 101-139 35-73 (219)
46 TIGR01645 half-pint poly-U bin 98.8 1.3E-08 2.9E-13 80.3 5.8 47 1-47 236-284 (612)
47 KOG0125 Ataxin 2-binding prote 98.7 1.1E-08 2.4E-13 74.0 3.6 40 8-47 133-174 (376)
48 KOG4208 Nucleolar RNA-binding 98.7 1.7E-08 3.6E-13 68.8 4.1 45 2-46 83-129 (214)
49 KOG0113 U1 small nuclear ribon 98.7 2.1E-08 4.6E-13 71.7 4.5 44 1-44 133-178 (335)
50 PLN03213 repressor of silencin 98.7 3.3E-08 7.2E-13 75.3 5.2 38 99-136 8-45 (759)
51 PF14259 RRM_6: RNA recognitio 98.7 4.3E-08 9.2E-13 56.4 4.6 35 104-138 1-35 (70)
52 KOG0121 Nuclear cap-binding pr 98.7 2E-08 4.4E-13 63.7 3.2 42 98-139 33-74 (153)
53 KOG0144 RNA-binding protein CU 98.6 3.6E-08 7.8E-13 73.7 4.5 42 98-139 31-72 (510)
54 KOG0114 Predicted RNA-binding 98.6 6.7E-08 1.5E-12 59.2 4.5 42 98-139 15-56 (124)
55 smart00360 RRM RNA recognition 98.6 1.2E-07 2.6E-12 53.5 4.8 41 2-42 29-71 (71)
56 KOG4211 Splicing factor hnRNP- 98.5 6.3E-07 1.4E-11 68.1 8.6 96 5-137 43-140 (510)
57 KOG0108 mRNA cleavage and poly 98.5 1.3E-07 2.9E-12 72.0 5.0 47 1-47 50-98 (435)
58 PF00076 RRM_1: RNA recognitio 98.5 8.6E-08 1.9E-12 54.7 3.1 35 6-40 34-70 (70)
59 PF14259 RRM_6: RNA recognitio 98.5 1.1E-07 2.4E-12 54.6 3.5 38 2-40 31-70 (70)
60 KOG4205 RNA-binding protein mu 98.5 4.5E-08 9.7E-13 71.6 2.1 52 1-52 129-181 (311)
61 smart00362 RRM_2 RNA recogniti 98.5 2.4E-07 5.1E-12 52.5 4.4 35 103-137 1-35 (72)
62 KOG0113 U1 small nuclear ribon 98.5 1.5E-07 3.3E-12 67.4 4.1 41 99-139 99-139 (335)
63 PF13893 RRM_5: RNA recognitio 98.5 4.7E-07 1E-11 49.8 5.0 34 11-44 21-56 (56)
64 KOG0106 Alternative splicing f 98.5 1.9E-07 4.2E-12 64.7 4.0 95 11-133 35-131 (216)
65 KOG0125 Ataxin 2-binding prote 98.4 3.8E-07 8.2E-12 66.2 5.3 36 101-136 96-131 (376)
66 KOG0226 RNA-binding proteins [ 98.4 1E-07 2.2E-12 67.0 2.3 45 1-45 222-268 (290)
67 KOG0126 Predicted RNA-binding 98.4 3.8E-08 8.2E-13 66.0 0.0 44 1-44 67-112 (219)
68 KOG1457 RNA binding protein (c 98.4 7.2E-06 1.6E-10 57.0 10.9 32 102-133 211-242 (284)
69 COG0724 RNA-binding proteins ( 98.4 4E-07 8.7E-12 64.4 4.9 38 101-138 115-152 (306)
70 KOG0122 Translation initiation 98.4 1.1E-06 2.5E-11 61.5 5.8 41 99-139 187-227 (270)
71 cd00590 RRM RRM (RNA recogniti 98.4 9.9E-07 2.1E-11 50.1 4.7 36 103-138 1-36 (74)
72 KOG0147 Transcriptional coacti 98.3 5E-07 1.1E-11 69.4 4.1 45 1-45 310-356 (549)
73 KOG0107 Alternative splicing f 98.3 9E-07 2E-11 59.1 4.2 37 101-137 10-46 (195)
74 smart00362 RRM_2 RNA recogniti 98.3 1.5E-06 3.2E-11 49.1 4.7 35 8-42 36-72 (72)
75 KOG0131 Splicing factor 3b, su 98.3 1.6E-06 3.4E-11 58.3 4.7 49 1-49 129-179 (203)
76 PLN03120 nucleic acid binding 98.3 1.8E-06 3.9E-11 61.5 5.2 37 10-46 42-79 (260)
77 KOG4207 Predicted splicing fac 98.2 1.5E-06 3.3E-11 59.6 4.3 42 98-139 10-51 (256)
78 KOG0146 RNA-binding protein ET 98.2 8.9E-07 1.9E-11 62.9 2.2 48 2-49 318-367 (371)
79 KOG0117 Heterogeneous nuclear 98.2 1.4E-05 2.9E-10 60.5 8.2 40 99-138 81-120 (506)
80 smart00360 RRM RNA recognition 98.1 3.2E-06 6.9E-11 47.5 3.5 33 106-138 1-33 (71)
81 KOG0130 RNA-binding protein RB 98.1 4.3E-06 9.4E-11 53.7 4.3 42 98-139 69-110 (170)
82 KOG4210 Nuclear localization s 98.1 1.1E-05 2.3E-10 58.8 6.2 98 4-139 123-223 (285)
83 KOG0130 RNA-binding protein RB 98.1 3.2E-06 7E-11 54.3 3.1 45 3-47 106-152 (170)
84 KOG0415 Predicted peptidyl pro 98.1 3.4E-06 7.5E-11 62.1 3.3 42 98-139 236-277 (479)
85 KOG0148 Apoptosis-promoting RN 98.1 3E-06 6.5E-11 60.3 2.8 38 102-139 63-100 (321)
86 PLN03213 repressor of silencin 98.1 5.2E-06 1.1E-10 63.6 4.1 40 5-46 44-87 (759)
87 cd00590 RRM RRM (RNA recogniti 98.0 1.5E-05 3.3E-10 45.1 4.9 34 9-42 38-73 (74)
88 KOG0108 mRNA cleavage and poly 98.0 6E-06 1.3E-10 63.1 3.8 38 102-139 19-56 (435)
89 KOG0120 Splicing factor U2AF, 98.0 1.8E-05 3.8E-10 61.3 5.7 107 8-139 220-327 (500)
90 KOG4212 RNA-binding protein hn 98.0 1E-05 2.2E-10 61.1 4.1 37 98-134 533-569 (608)
91 KOG0121 Nuclear cap-binding pr 97.9 1.7E-05 3.6E-10 50.6 4.2 43 3-45 70-114 (153)
92 PLN03121 nucleic acid binding 97.9 2.2E-05 4.9E-10 55.3 4.8 42 1-45 37-79 (243)
93 KOG0129 Predicted RNA-binding 97.9 9.7E-05 2.1E-09 56.8 8.4 41 98-138 367-408 (520)
94 KOG0107 Alternative splicing f 97.9 1.6E-05 3.4E-10 53.3 3.5 39 9-47 45-85 (195)
95 KOG0153 Predicted RNA-binding 97.9 2.3E-05 4.9E-10 57.6 4.3 42 96-137 223-264 (377)
96 KOG2193 IGF-II mRNA-binding pr 97.8 2.3E-06 5E-11 64.3 -0.9 73 11-133 37-112 (584)
97 KOG0533 RRM motif-containing p 97.8 2.4E-05 5.1E-10 55.5 3.9 39 100-138 82-120 (243)
98 KOG0132 RNA polymerase II C-te 97.7 2.7E-05 5.9E-10 62.4 3.4 39 99-137 419-457 (894)
99 KOG1190 Polypyrimidine tract-b 97.7 0.00098 2.1E-08 50.3 10.9 110 12-134 336-447 (492)
100 KOG0128 RNA-binding protein SA 97.6 3E-05 6.4E-10 62.7 2.2 69 5-137 703-772 (881)
101 KOG0111 Cyclophilin-type pepti 97.6 1.9E-05 4.2E-10 54.8 0.8 41 99-139 8-48 (298)
102 KOG0110 RNA-binding protein (R 97.6 0.00014 3E-09 57.9 4.9 41 6-46 4-46 (725)
103 PF04059 RRM_2: RNA recognitio 97.5 0.00018 4E-09 44.0 4.4 45 1-45 35-85 (97)
104 KOG4454 RNA binding protein (R 97.5 3.5E-05 7.5E-10 53.5 1.1 37 5-42 44-82 (267)
105 KOG1456 Heterogeneous nuclear 97.5 0.0038 8.3E-08 46.7 11.5 40 98-137 284-324 (494)
106 KOG4206 Spliceosomal protein s 97.5 0.00021 4.5E-09 49.7 4.3 35 101-135 9-47 (221)
107 KOG0415 Predicted peptidyl pro 97.5 8.8E-05 1.9E-09 54.9 2.6 46 1-46 271-318 (479)
108 KOG0151 Predicted splicing reg 97.5 0.00024 5.3E-09 56.7 5.2 40 98-137 171-210 (877)
109 KOG0116 RasGAP SH3 binding pro 97.4 0.00013 2.7E-09 55.8 3.1 35 101-135 288-322 (419)
110 KOG4454 RNA binding protein (R 97.4 7.3E-05 1.6E-09 51.9 1.4 41 98-138 6-46 (267)
111 KOG0124 Polypyrimidine tract-b 97.4 8.2E-05 1.8E-09 55.2 1.5 40 100-139 112-151 (544)
112 KOG4209 Splicing factor RNPS1, 97.4 0.00026 5.7E-09 50.1 4.0 44 1-44 133-177 (231)
113 KOG0120 Splicing factor U2AF, 97.3 0.00042 9.1E-09 53.8 5.2 47 1-47 321-369 (500)
114 KOG4661 Hsp27-ERE-TATA-binding 97.3 0.00084 1.8E-08 52.7 6.1 40 98-137 402-441 (940)
115 KOG0153 Predicted RNA-binding 97.0 0.00084 1.8E-08 49.5 3.6 37 10-46 263-302 (377)
116 KOG0226 RNA-binding proteins [ 97.0 0.0015 3.2E-08 46.4 4.4 41 99-139 188-228 (290)
117 KOG4661 Hsp27-ERE-TATA-binding 96.9 0.0014 3.1E-08 51.5 4.0 44 2-45 438-483 (940)
118 KOG4307 RNA binding protein RB 96.9 0.0081 1.8E-07 48.4 8.2 120 8-136 349-470 (944)
119 KOG1190 Polypyrimidine tract-b 96.8 0.0015 3.4E-08 49.2 3.7 40 99-138 26-65 (492)
120 KOG0129 Predicted RNA-binding 96.7 0.0017 3.8E-08 50.2 3.7 32 98-129 256-287 (520)
121 PF08777 RRM_3: RNA binding mo 96.7 0.0024 5.2E-08 39.8 3.6 35 102-136 2-36 (105)
122 KOG4660 Protein Mei2, essentia 96.7 0.0013 2.8E-08 51.2 2.7 36 98-133 72-107 (549)
123 KOG4211 Splicing factor hnRNP- 96.6 0.016 3.4E-07 44.8 8.1 39 6-44 140-179 (510)
124 KOG0116 RasGAP SH3 binding pro 96.6 0.012 2.6E-07 45.2 7.4 39 8-46 327-366 (419)
125 KOG1365 RNA-binding protein Fu 96.6 0.00072 1.6E-08 50.6 0.8 105 6-127 201-306 (508)
126 KOG1548 Transcription elongati 96.6 0.025 5.5E-07 42.0 8.6 39 8-46 180-220 (382)
127 KOG1365 RNA-binding protein Fu 96.5 0.014 3E-07 44.0 6.6 42 6-47 97-139 (508)
128 PF07292 NID: Nmi/IFP 35 domai 96.5 0.0063 1.4E-07 36.6 4.0 70 14-123 1-74 (88)
129 KOG1548 Transcription elongati 96.4 0.0039 8.5E-08 46.1 3.5 33 98-130 131-163 (382)
130 KOG0115 RNA-binding protein p5 96.4 0.0082 1.8E-07 42.8 5.0 35 102-136 32-66 (275)
131 KOG0114 Predicted RNA-binding 96.3 0.009 1.9E-07 37.0 4.2 42 6-47 52-95 (124)
132 KOG0132 RNA polymerase II C-te 96.1 0.0087 1.9E-07 48.6 4.4 39 9-47 455-495 (894)
133 PF13893 RRM_5: RNA recognitio 96.1 0.0075 1.6E-07 32.7 2.8 20 118-137 1-20 (56)
134 PF11608 Limkain-b1: Limkain b 96.0 0.016 3.6E-07 34.4 4.2 35 10-44 38-74 (90)
135 KOG1855 Predicted RNA-binding 95.9 0.011 2.4E-07 45.0 3.8 39 98-136 228-266 (484)
136 KOG0109 RNA-binding protein LA 95.9 0.013 2.8E-07 42.6 3.9 40 10-49 111-152 (346)
137 KOG1456 Heterogeneous nuclear 95.7 0.14 3.1E-06 38.6 8.8 111 10-134 324-440 (494)
138 KOG3152 TBP-binding protein, a 95.6 0.014 3.1E-07 41.6 3.3 37 100-136 73-109 (278)
139 KOG4209 Splicing factor RNPS1, 95.5 0.0094 2E-07 42.3 2.0 41 98-138 98-138 (231)
140 PF08675 RNA_bind: RNA binding 95.3 0.024 5.2E-07 33.7 3.0 29 100-129 8-36 (87)
141 smart00361 RRM_1 RNA recogniti 95.3 0.021 4.6E-07 32.5 2.8 24 115-138 2-30 (70)
142 KOG4676 Splicing factor, argin 95.1 0.015 3.4E-07 43.8 2.3 35 100-134 150-184 (479)
143 PF14605 Nup35_RRM_2: Nup53/35 95.1 0.041 8.8E-07 29.8 3.3 32 102-134 2-33 (53)
144 KOG2314 Translation initiation 94.8 0.035 7.6E-07 43.8 3.5 40 2-42 97-139 (698)
145 KOG4210 Nuclear localization s 94.2 0.046 1E-06 40.0 2.8 49 1-49 217-266 (285)
146 PF04059 RRM_2: RNA recognitio 94.1 0.13 2.9E-06 31.5 4.3 38 102-139 2-41 (97)
147 KOG1995 Conserved Zn-finger pr 94.0 0.046 1E-06 40.7 2.4 47 1-47 106-154 (351)
148 KOG0112 Large RNA-binding prot 93.4 0.07 1.5E-06 44.3 2.7 35 99-133 453-487 (975)
149 KOG0533 RRM motif-containing p 93.2 0.21 4.5E-06 35.8 4.6 42 6-47 119-162 (243)
150 KOG0106 Alternative splicing f 93.0 0.069 1.5E-06 37.5 1.9 35 10-44 132-168 (216)
151 PF14111 DUF4283: Domain of un 92.6 0.046 1E-06 35.8 0.6 83 10-134 54-138 (153)
152 KOG4660 Protein Mei2, essentia 92.5 0.2 4.4E-06 39.4 4.1 37 4-40 105-143 (549)
153 KOG1457 RNA binding protein (c 92.1 0.21 4.6E-06 35.2 3.4 35 99-133 32-66 (284)
154 KOG0112 Large RNA-binding prot 91.7 0.061 1.3E-06 44.6 0.5 38 98-135 369-406 (975)
155 KOG4208 Nucleolar RNA-binding 91.3 0.43 9.3E-06 33.2 4.1 42 98-139 46-88 (214)
156 PF08952 DUF1866: Domain of un 90.7 0.51 1.1E-05 31.1 3.9 36 12-47 71-107 (146)
157 PF02714 DUF221: Domain of unk 90.2 0.7 1.5E-05 34.2 4.9 31 14-44 1-31 (325)
158 KOG0128 RNA-binding protein SA 88.4 0.014 2.9E-07 47.9 -5.6 34 101-134 667-700 (881)
159 COG5175 MOT2 Transcriptional r 87.1 0.57 1.2E-05 35.1 2.5 35 101-135 114-154 (480)
160 COG5175 MOT2 Transcriptional r 85.9 1.1 2.4E-05 33.6 3.5 31 14-44 168-200 (480)
161 KOG1995 Conserved Zn-finger pr 85.7 0.68 1.5E-05 34.7 2.3 33 98-130 63-95 (351)
162 KOG2202 U2 snRNP splicing fact 84.7 0.73 1.6E-05 33.1 2.0 37 8-44 107-145 (260)
163 PF08777 RRM_3: RNA binding mo 84.6 1.7 3.6E-05 27.0 3.4 30 13-42 39-75 (105)
164 KOG0151 Predicted splicing reg 84.6 0.94 2E-05 37.1 2.8 37 8-44 216-254 (877)
165 PF05172 Nup35_RRM: Nup53/35/4 84.6 1.3 2.8E-05 27.3 2.8 31 101-132 6-36 (100)
166 KOG4849 mRNA cleavage factor I 83.1 1.9 4.1E-05 32.5 3.7 39 4-42 117-157 (498)
167 PF15513 DUF4651: Domain of un 81.2 2.2 4.8E-05 23.8 2.6 18 116-133 9-26 (62)
168 KOG2891 Surface glycoprotein [ 80.8 1.7 3.7E-05 31.8 2.7 35 101-135 149-195 (445)
169 PF15023 DUF4523: Protein of u 79.5 4.9 0.00011 26.6 4.2 35 11-45 125-160 (166)
170 KOG1996 mRNA splicing factor [ 78.9 2.7 5.8E-05 31.0 3.2 31 14-44 332-364 (378)
171 PF05172 Nup35_RRM: Nup53/35/4 78.2 4.1 8.9E-05 25.1 3.4 34 11-44 54-89 (100)
172 KOG4849 mRNA cleavage factor I 77.0 1.4 3.1E-05 33.2 1.4 28 99-126 78-105 (498)
173 PF03880 DbpA: DbpA RNA bindin 76.9 4.2 9.2E-05 23.3 3.1 32 12-44 41-74 (74)
174 PF10567 Nab6_mRNP_bdg: RNA-re 75.1 3.2 6.8E-05 30.6 2.6 39 99-137 13-51 (309)
175 COG0030 KsgA Dimethyladenosine 73.9 3.7 7.9E-05 29.8 2.8 35 102-136 96-130 (259)
176 PRK09937 stationary phase/star 73.8 2.1 4.6E-05 24.8 1.3 9 9-17 11-19 (74)
177 PRK14998 cold shock-like prote 73.1 2.1 4.6E-05 24.7 1.2 10 9-18 11-20 (73)
178 PF08206 OB_RNB: Ribonuclease 72.1 3.2 7E-05 22.6 1.7 36 9-45 6-44 (58)
179 PF10309 DUF2414: Protein of u 71.7 10 0.00022 21.2 3.6 23 102-125 6-28 (62)
180 PRK15464 cold shock-like prote 71.2 2.2 4.9E-05 24.4 1.0 11 9-19 14-24 (70)
181 TIGR02381 cspD cold shock doma 69.9 2.9 6.4E-05 23.7 1.3 12 9-20 11-22 (68)
182 PRK15463 cold shock-like prote 69.9 2.6 5.6E-05 24.1 1.0 10 9-18 14-23 (70)
183 PRK09507 cspE cold shock prote 69.5 2.6 5.7E-05 24.0 1.0 9 9-17 13-21 (69)
184 PF11411 DNA_ligase_IV: DNA li 69.1 4.4 9.5E-05 20.0 1.6 15 112-126 20-34 (36)
185 KOG4307 RNA binding protein RB 68.9 4.1 8.8E-05 33.7 2.2 36 9-44 38-74 (944)
186 PRK10943 cold shock-like prote 68.1 2.9 6.2E-05 23.8 1.0 9 9-17 13-21 (69)
187 PRK09890 cold shock protein Cs 66.4 3.3 7.2E-05 23.6 1.0 9 9-17 14-22 (70)
188 PRK10354 RNA chaperone/anti-te 65.9 3.4 7.4E-05 23.5 1.0 9 9-17 14-22 (70)
189 KOG2318 Uncharacterized conser 64.8 12 0.00027 30.2 4.1 38 98-135 171-213 (650)
190 PF11767 SET_assoc: Histone ly 63.8 14 0.0003 20.9 3.2 16 15-30 37-52 (66)
191 PF00313 CSD: 'Cold-shock' DNA 61.3 7.5 0.00016 21.5 1.9 12 9-20 10-21 (66)
192 KOG4008 rRNA processing protei 60.7 8.4 0.00018 27.6 2.3 34 99-132 38-71 (261)
193 KOG2591 c-Mpl binding protein, 60.7 4.4 9.5E-05 32.5 1.0 28 15-42 216-247 (684)
194 KOG2068 MOT2 transcription fac 59.5 2.7 5.9E-05 31.4 -0.3 32 14-45 128-161 (327)
195 cd04458 CSP_CDS Cold-Shock Pro 59.3 5.9 0.00013 21.8 1.2 11 10-20 11-21 (65)
196 PTZ00338 dimethyladenosine tra 58.5 9 0.0002 28.3 2.3 34 103-136 103-136 (294)
197 PF00398 RrnaAD: Ribosomal RNA 57.3 12 0.00025 27.0 2.7 34 101-134 97-132 (262)
198 COG1278 CspC Cold shock protei 56.6 5.1 0.00011 22.8 0.6 13 8-20 10-22 (67)
199 PF03108 DBD_Tnp_Mut: MuDR fam 56.3 16 0.00034 20.3 2.6 29 17-45 9-37 (67)
200 KOG2135 Proteins containing th 54.6 7.2 0.00016 30.7 1.3 35 13-47 411-446 (526)
201 PRK00274 ksgA 16S ribosomal RN 53.7 14 0.0003 26.8 2.6 33 103-135 107-139 (272)
202 PF15407 Spo7_2_N: Sporulation 51.9 6.4 0.00014 22.4 0.5 22 99-120 25-46 (67)
203 COG5584 Predicted small secret 49.5 17 0.00038 22.2 2.1 31 108-138 29-59 (103)
204 KOG2135 Proteins containing th 47.9 8.9 0.00019 30.2 0.9 34 103-136 374-408 (526)
205 smart00650 rADc Ribosomal RNA 46.9 27 0.00059 23.1 3.1 32 103-134 79-110 (169)
206 cd00027 BRCT Breast Cancer Sup 46.6 37 0.00081 17.8 3.2 27 102-128 2-28 (72)
207 PHA01632 hypothetical protein 46.3 23 0.00049 19.3 2.0 19 106-124 21-39 (64)
208 PF10281 Ish1: Putative stress 45.7 22 0.00047 17.5 1.8 19 112-130 3-21 (38)
209 KOG2416 Acinus (induces apopto 44.5 31 0.00067 28.2 3.4 35 10-44 480-519 (718)
210 PRK01178 rps24e 30S ribosomal 44.0 24 0.00051 21.7 2.2 18 7-25 62-79 (99)
211 TIGR00755 ksgA dimethyladenosi 42.8 35 0.00076 24.3 3.3 26 103-128 96-121 (253)
212 KOG2068 MOT2 transcription fac 42.2 15 0.00032 27.6 1.3 37 101-137 77-116 (327)
213 COG5638 Uncharacterized conser 42.0 51 0.0011 25.8 4.1 38 98-135 143-185 (622)
214 PF00054 Laminin_G_1: Laminin 38.6 7.3 0.00016 24.8 -0.7 34 101-134 92-126 (131)
215 PF03439 Spt5-NGN: Early trans 37.4 56 0.0012 19.1 3.1 22 9-30 42-63 (84)
216 COG1337 CRISPR system related 36.1 26 0.00056 25.4 1.7 14 8-21 199-212 (249)
217 KOG2253 U1 snRNP complex, subu 35.8 29 0.00064 28.5 2.1 37 98-134 37-73 (668)
218 PTZ00071 40S ribosomal protein 32.6 44 0.00095 21.7 2.2 18 7-25 68-85 (132)
219 KOG3424 40S ribosomal protein 32.1 45 0.00097 21.3 2.1 19 6-25 65-83 (132)
220 PF12631 GTPase_Cys_C: Catalyt 31.4 44 0.00096 19.0 1.9 14 112-125 59-72 (73)
221 KOG4410 5-formyltetrahydrofola 30.9 1.5E+02 0.0032 22.2 4.8 28 99-126 328-355 (396)
222 PF03468 XS: XS domain; Inter 30.1 46 0.00099 21.0 1.9 34 102-136 9-51 (116)
223 PF00276 Ribosomal_L23: Riboso 29.0 1.1E+02 0.0023 18.3 3.3 32 103-134 21-54 (91)
224 smart00357 CSP Cold shock prot 28.3 41 0.00088 17.8 1.4 12 10-21 8-19 (64)
225 KOG1996 mRNA splicing factor [ 28.3 69 0.0015 24.0 2.8 23 115-137 300-322 (378)
226 KOG0862 Synaptobrevin/VAMP-lik 28.1 40 0.00088 23.8 1.5 16 6-21 104-119 (216)
227 KOG0291 WD40-repeat-containing 27.8 34 0.00075 28.8 1.3 20 10-29 380-399 (893)
228 KOG4285 Mitotic phosphoprotein 27.3 1E+02 0.0022 23.1 3.5 43 5-47 226-270 (350)
229 PF01282 Ribosomal_S24e: Ribos 27.2 59 0.0013 19.2 2.0 19 7-26 44-62 (84)
230 PF14893 PNMA: PNMA 27.0 58 0.0012 24.7 2.3 24 100-123 17-40 (331)
231 KOG1134 Uncharacterized conser 26.2 1E+02 0.0022 26.1 3.7 36 9-44 303-338 (728)
232 smart00457 MACPF membrane-atta 26.0 34 0.00074 23.3 0.9 22 106-127 30-51 (194)
233 KOG4574 RNA-binding protein (c 25.8 33 0.00072 29.3 0.9 37 102-138 299-335 (1007)
234 PF04847 Calcipressin: Calcipr 25.6 94 0.002 21.4 3.0 32 14-45 34-69 (184)
235 PF06014 DUF910: Bacterial pro 25.6 49 0.0011 18.5 1.3 16 116-131 5-20 (62)
236 PRK05738 rplW 50S ribosomal pr 25.3 1.6E+02 0.0035 17.6 3.7 33 102-134 20-54 (92)
237 PF09702 Cas_Csa5: CRISPR-asso 25.0 95 0.0021 19.3 2.6 22 99-123 62-83 (105)
238 KOG2314 Translation initiation 24.0 57 0.0012 26.7 1.8 39 100-138 57-101 (698)
239 COG5594 Uncharacterized integr 23.6 58 0.0013 27.7 1.9 38 98-135 205-245 (827)
240 PHA02508 putative minor coat p 23.3 77 0.0017 19.3 1.9 19 11-29 24-42 (93)
241 PF12385 Peptidase_C70: Papain 23.0 81 0.0018 21.3 2.2 23 109-131 90-114 (166)
242 smart00540 LEM in nuclear memb 22.8 69 0.0015 16.5 1.4 16 112-127 5-20 (44)
243 PF09707 Cas_Cas2CT1978: CRISP 22.7 1E+02 0.0022 18.4 2.4 23 101-123 25-47 (86)
244 COG3411 Ferredoxin [Energy pro 22.7 64 0.0014 18.2 1.4 21 20-41 33-53 (64)
245 TIGR02542 B_forsyth_147 Bacter 22.5 51 0.0011 21.0 1.1 16 109-124 82-97 (145)
246 cd04870 ACT_PSP_1 CT domains f 22.4 87 0.0019 17.5 2.0 30 104-133 42-71 (75)
247 PF11823 DUF3343: Protein of u 22.3 1.2E+02 0.0027 17.0 2.7 18 12-29 2-19 (73)
248 PRK14896 ksgA 16S ribosomal RN 22.1 99 0.0021 22.1 2.7 21 103-123 93-113 (258)
249 COG2004 RPS24A Ribosomal prote 22.0 1E+02 0.0023 19.2 2.4 18 7-25 63-80 (107)
250 PF02210 Laminin_G_2: Laminin 21.8 38 0.00083 20.5 0.5 33 100-133 92-125 (128)
251 PRK12448 dihydroxy-acid dehydr 21.2 2E+02 0.0043 23.9 4.4 39 9-48 446-484 (615)
252 PF09585 Lin0512_fam: Conserve 21.2 1.1E+02 0.0024 19.4 2.4 25 108-134 58-82 (113)
253 TIGR00110 ilvD dihydroxy-acid 21.1 2E+02 0.0044 23.4 4.4 39 9-48 381-419 (535)
254 PF01823 MACPF: MAC/Perforin d 20.9 60 0.0013 22.0 1.3 28 106-133 53-83 (212)
255 PF13319 DUF4090: Protein of u 20.8 60 0.0013 19.0 1.1 20 21-40 2-21 (84)
256 PF13300 DUF4078: Domain of un 20.5 47 0.001 20.0 0.6 18 9-26 29-46 (88)
257 TIGR02058 lin0512_fam conserve 20.5 1.1E+02 0.0024 19.4 2.3 22 111-134 63-84 (116)
258 PRK08559 nusG transcription an 20.5 1.3E+02 0.0028 19.8 2.8 21 10-30 45-65 (153)
259 COG5594 Uncharacterized integr 20.3 82 0.0018 26.9 2.1 20 11-30 357-376 (827)
260 cd06257 DnaJ DnaJ domain or J- 20.3 1.1E+02 0.0025 15.5 2.1 18 107-124 6-23 (55)
261 PF15063 TC1: Thyroid cancer p 20.2 67 0.0015 18.7 1.2 28 101-128 25-52 (79)
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=99.89 E-value=9.8e-23 Score=150.74 Aligned_cols=91 Identities=18% Similarity=0.351 Sum_probs=79.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|++|+.|+++||||||+|.++++|++||+. ...|.+++|.|.++.+...
T Consensus 139 i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~----------------------------- 189 (346)
T TIGR01659 139 IMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGE----------------------------- 189 (346)
T ss_pred EEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeeccccccc-----------------------------
Confidence 568999999999999999999999999984 6889999999998764321
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
....++|||+|||+.+||++|+++|++||.|+.|+|++|+.|
T Consensus 190 -------------------~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~t 231 (346)
T TIGR01659 190 -------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLT 231 (346)
T ss_pred -------------------ccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCC
Confidence 122468999999999999999999999999999999998743
No 2
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.88 E-value=5.6e-23 Score=143.38 Aligned_cols=105 Identities=25% Similarity=0.409 Sum_probs=83.3
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|+||.+|++|||||||.|.+.++|++||.. +..|.+|.|+..|+..|........ . .+ .
T Consensus 94 virD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~------l-tf----d-------- 154 (321)
T KOG0148|consen 94 VIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKP------L-TF----D-------- 154 (321)
T ss_pred EeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccccCCCC------c-cH----H--------
Confidence 689999999999999999999999999996 5899999999999987642111000 0 00 0
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
.. -......+++|||||++..+||++||+.|++||+|.+|+|.+|+
T Consensus 155 ---eV----------~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q 200 (321)
T KOG0148|consen 155 ---EV----------YNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ 200 (321)
T ss_pred ---HH----------hccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc
Confidence 00 00113457899999999999999999999999999999999987
No 3
>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=99.84 E-value=1.1e-20 Score=147.15 Aligned_cols=102 Identities=17% Similarity=0.365 Sum_probs=79.0
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|++|+.||+|||||||+|.+.++|++||+. +..|+||.|.|++...........
T Consensus 139 I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~------------------------ 194 (612)
T TIGR01645 139 MSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPII------------------------ 194 (612)
T ss_pred EeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccccccccccccc------------------------
Confidence 568999999999999999999999999984 688999999998543221100000
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
..........++|||+|||+++++++|+++|+.||.|++|+|++|+.+
T Consensus 195 -------------~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~t 242 (612)
T TIGR01645 195 -------------DMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTG 242 (612)
T ss_pred -------------ccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCC
Confidence 000000223579999999999999999999999999999999998753
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.83 E-value=2.6e-20 Score=138.39 Aligned_cols=90 Identities=24% Similarity=0.444 Sum_probs=79.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|++|+.+|+|||||||+|.+.++|++||+. +..|.|++|.|+++.++..
T Consensus 35 i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~----------------------------- 85 (352)
T TIGR01661 35 LVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSD----------------------------- 85 (352)
T ss_pred EEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeeccccc-----------------------------
Confidence 578999999999999999999999999984 6889999999998865432
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
.....+|||+|||..+++++|+++|++||.|..+.|+.|+.
T Consensus 86 -------------------~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~ 126 (352)
T TIGR01661 86 -------------------SIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNV 126 (352)
T ss_pred -------------------ccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCC
Confidence 12246899999999999999999999999999999998763
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.82 E-value=6.2e-19 Score=130.99 Aligned_cols=41 Identities=24% Similarity=0.337 Sum_probs=37.2
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
..+.+|||+|||+++++++|+++|++||.|++|+|++|+.|
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t 307 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTT 307 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCC
Confidence 34568999999999999999999999999999999999754
No 6
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.81 E-value=3.6e-19 Score=124.15 Aligned_cols=139 Identities=22% Similarity=0.236 Sum_probs=87.0
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCC--cEEEEeecCCCCCCC--CCC---ccCCCCCCCCCCCccch
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGG--STVVVDRATPKEDDF--RPV---GRMSHGGYGAYNAYISA 71 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~g--r~i~v~~~~~~~~~~--~~~---~~~~~~~~~~~~~~~~~ 71 (139)
|..|+.||.|||.|||.|...++|++||.. +++..| .+|.||++....... .+. -..+..++++...+...
T Consensus 159 iL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~ 238 (360)
T KOG0145|consen 159 ILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQ 238 (360)
T ss_pred hhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhHHhhcCccccCCCcccchhh
Confidence 457899999999999999999999999983 555555 789999985432111 110 01122333333222222
Q ss_pred hhhcccCC---------CCCcCCCCCCCCC-CCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 72 ATRYAALG---------APTLYDHPGSFYG-RGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 72 ~~~~~~~g---------~~~~~~~~~~~~~-~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
..+....- +|...+......+ .-+.....+|+|||.||.++++|.-||++|++||.|..|+|++|.+|
T Consensus 239 r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~tt 316 (360)
T KOG0145|consen 239 RFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTT 316 (360)
T ss_pred hhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCc
Confidence 22111000 1111111000000 00111344899999999999999999999999999999999999875
No 7
>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=99.81 E-value=2.7e-19 Score=137.12 Aligned_cols=103 Identities=23% Similarity=0.394 Sum_probs=79.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (139)
|++|+.||++||||||+|.+.++|++||. .+..+.|++|.|+.+.............
T Consensus 121 i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~~~~~~~~~~~~~~---------------------- 178 (457)
T TIGR01622 121 CIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSSQAEKNRAAKAATH---------------------- 178 (457)
T ss_pred EeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeecchhhhhhhhcccc----------------------
Confidence 46889999999999999999999999999 4788999999998654321110000000
Q ss_pred CCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
.+ . .....++|||+|||+.+++++|+++|++||.|..|.|++|+.+
T Consensus 179 ~~-------------~-~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~ 224 (457)
T TIGR01622 179 QP-------------G-DIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPET 224 (457)
T ss_pred cC-------------C-CCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCC
Confidence 00 0 0112579999999999999999999999999999999988753
No 8
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.81 E-value=3.8e-20 Score=134.18 Aligned_cols=97 Identities=36% Similarity=0.644 Sum_probs=86.8
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (139)
||+|+.|+++|||+||+|++++.+.++|.. .|.|+||.|.++.+.++++......
T Consensus 38 vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~~~~------------------------ 93 (311)
T KOG4205|consen 38 VMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSREDQTKVGR------------------------ 93 (311)
T ss_pred EeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCccccccccc------------------------
Confidence 689999999999999999999999999996 7999999999999999877654321
Q ss_pred CCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
.....+|||++||.++++++|+++|++||.|..+.++.|+++
T Consensus 94 ------------------~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~ 135 (311)
T KOG4205|consen 94 ------------------HLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTT 135 (311)
T ss_pred ------------------ccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccc
Confidence 123679999999999999999999999999999999999864
No 9
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.80 E-value=6.6e-20 Score=121.48 Aligned_cols=92 Identities=25% Similarity=0.500 Sum_probs=79.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
||+|+.|..++|||||+|.++|+|+.|++ .+.+|.||+|+|+.+......
T Consensus 41 iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~~~n---------------------------- 92 (203)
T KOG0131|consen 41 IPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAHQKN---------------------------- 92 (203)
T ss_pred cchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEeccccccc----------------------------
Confidence 68999999999999999999999999999 578999999999987622110
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEE-EEeccCCC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKVRQH 139 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~-~i~~d~~~ 139 (139)
...+.+|||+||.+.++|..|.++|+.||.+... +|++|.+|
T Consensus 93 -------------------l~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~t 135 (203)
T KOG0131|consen 93 -------------------LDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDT 135 (203)
T ss_pred -------------------ccccccccccccCcchhHHHHHHHHHhccccccCCcccccccC
Confidence 2335799999999999999999999999999886 88888764
No 10
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.79 E-value=6.7e-20 Score=134.98 Aligned_cols=91 Identities=26% Similarity=0.481 Sum_probs=77.7
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc---CcccCC--cEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhc
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD---THELGG--STVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRY 75 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~---~~~i~g--r~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (139)
|+||+.||.|||||||+|.+.++|++|+.+ ...|.| .+|.||++....+.
T Consensus 66 l~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er------------------------- 120 (510)
T KOG0144|consen 66 LIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERER------------------------- 120 (510)
T ss_pred eecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhc-------------------------
Confidence 689999999999999999999999999995 455655 78888887644221
Q ss_pred ccCCCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 76 AALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 76 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
....+||||+-|+..+||.+++++|++||.|++|.|++|.+
T Consensus 121 ----------------------~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~ 161 (510)
T KOG0144|consen 121 ----------------------IVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPD 161 (510)
T ss_pred ----------------------cccchhhhhhhccccccHHHHHHHHHhhCccchhhheeccc
Confidence 12257999999999999999999999999999999999864
No 11
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.78 E-value=7e-19 Score=130.06 Aligned_cols=136 Identities=21% Similarity=0.320 Sum_probs=84.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--Cccc-CCcEEEEeecCC----------CCCCC----------------
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THEL-GGSTVVVDRATP----------KEDDF---------------- 51 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i-~gr~i~v~~~~~----------~~~~~---------------- 51 (139)
||+|+.+|.+||||||+|.+.++|++||+. .++| .||.|.|..+.. |....
T Consensus 115 LMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kVteGVvd 194 (506)
T KOG0117|consen 115 LMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVD 194 (506)
T ss_pred EeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhhCCCeeE
Confidence 689999999999999999999999999994 5655 788888886532 21100
Q ss_pred -----CCCccCCCCCCCCCC--Ccc-chhh-hcccCCCCCcCCC------CCCCCCCCCCCCCCCceeEEeCCCCCCCHH
Q 032483 52 -----RPVGRMSHGGYGAYN--AYI-SAAT-RYAALGAPTLYDH------PGSFYGRGESSQRIGKKIFVGRLPQEATAE 116 (139)
Q Consensus 52 -----~~~~~~~~~~~~~~~--~~~-~~~~-~~~~~g~~~~~~~------~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~ 116 (139)
.+..+.-.+++.-.. .+. .+.. +.-..+.-...++ ..+....++..+...+.|||+||+.++|++
T Consensus 195 Vivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE 274 (506)
T KOG0117|consen 195 VIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEE 274 (506)
T ss_pred EEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHH
Confidence 011111111111000 000 0000 0000010000110 011122333357788999999999999999
Q ss_pred HHHHHHhcCcceeEEEEecc
Q 032483 117 DLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 117 ~L~~~F~~fG~v~~~~i~~d 136 (139)
.|+++|+.||.|++|+.++|
T Consensus 275 ~lk~~F~~~G~veRVkk~rD 294 (506)
T KOG0117|consen 275 TLKKLFNEFGKVERVKKPRD 294 (506)
T ss_pred HHHHHHHhccceEEeecccc
Confidence 99999999999999999987
No 12
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.77 E-value=3.9e-19 Score=123.95 Aligned_cols=91 Identities=24% Similarity=0.431 Sum_probs=81.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
++||+.||.|-|||||.|.++++|++||. ++..+..+.|+|.++.|..+.
T Consensus 73 LvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~---------------------------- 124 (360)
T KOG0145|consen 73 LVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDS---------------------------- 124 (360)
T ss_pred eeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhh----------------------------
Confidence 57999999999999999999999999999 478999999999999876542
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
....+|||.+||.+.|..+|.++|++||.|..-+|..|+-|
T Consensus 125 --------------------Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvt 165 (360)
T KOG0145|consen 125 --------------------IKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVT 165 (360)
T ss_pred --------------------hcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhccc
Confidence 33578999999999999999999999999999999888654
No 13
>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=99.76 E-value=2.6e-18 Score=134.83 Aligned_cols=91 Identities=22% Similarity=0.335 Sum_probs=76.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|++|..|++|+|||||+|.+.++|++||+. ...|.|++|+|.++.......
T Consensus 32 v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~~~--------------------------- 84 (562)
T TIGR01628 32 VCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPSLR--------------------------- 84 (562)
T ss_pred EEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccccccc---------------------------
Confidence 468999999999999999999999999985 467999999998864321100
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
.....+|||+|||.++++++|+++|+.||.|.+|+|+.|.
T Consensus 85 -------------------~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~ 124 (562)
T TIGR01628 85 -------------------RSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDE 124 (562)
T ss_pred -------------------ccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecC
Confidence 1113579999999999999999999999999999999875
No 14
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.74 E-value=2.8e-17 Score=124.29 Aligned_cols=138 Identities=22% Similarity=0.321 Sum_probs=82.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCCCCCCCCCc-------cC----------CCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVG-------RM----------SHGG 61 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~~~~~~~~~-------~~----------~~~~ 61 (139)
||+.+.++. .|||||.|.+..+|.+||+ ++++|+||+|.|.||.++........ .. ...+
T Consensus 149 IP~k~dgkl-cGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~ 227 (678)
T KOG0127|consen 149 IPRKKDGKL-CGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDTAHEEKQSLKKAVKEEEDKEADEDDG 227 (678)
T ss_pred cccCCCCCc-cceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccccchhhhhhhhhccchhhhcccccccc
Confidence 566554444 4999999999999999999 47999999999999988754322110 00 0000
Q ss_pred CCCCCCccchhh---h--cc-----cCC-CC----CcCCCCCCCCC--C------C--CCCCCCCceeEEeCCCCCCCHH
Q 032483 62 YGAYNAYISAAT---R--YA-----ALG-AP----TLYDHPGSFYG--R------G--ESSQRIGKKIFVGRLPQEATAE 116 (139)
Q Consensus 62 ~~~~~~~~~~~~---~--~~-----~~g-~~----~~~~~~~~~~~--~------~--~~~~~~~~~lfV~nL~~~~t~~ 116 (139)
.-.+.-...... . .+ ..+ .. ..-+....+.. . . ......+.+|||+|||+++|++
T Consensus 228 ~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~fD~tEE 307 (678)
T KOG0127|consen 228 KDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTRENITEGKTVFVRNLPFDTTEE 307 (678)
T ss_pred cccchhcccccccccccccccchhhhccccccccccccccccccccCcccchhccccccccccccceEEEecCCccccHH
Confidence 000000000000 0 00 000 00 00000000000 0 0 0112335899999999999999
Q ss_pred HHHHHHhcCcceeEEEEeccCCC
Q 032483 117 DLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 117 ~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
+|.++|++||+|.++.|+.|+.|
T Consensus 308 el~~~fskFG~v~ya~iV~~k~T 330 (678)
T KOG0127|consen 308 ELKEHFSKFGEVKYAIIVKDKDT 330 (678)
T ss_pred HHHHHHHhhccceeEEEEeccCC
Confidence 99999999999999999999876
No 15
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.71 E-value=9.7e-17 Score=124.50 Aligned_cols=115 Identities=11% Similarity=0.168 Sum_probs=74.4
Q ss_pred CCCCCccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCc
Q 032483 5 QGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTL 83 (139)
Q Consensus 5 ~~tg~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 83 (139)
...++++|||||+|.+.++|..||+ ++..+.|+.|.|.+................. . . .......+.
T Consensus 217 ~~~~~~kg~afVeF~~~e~A~~Al~l~g~~~~g~~l~v~r~~~~~~~~~~~~~~~~~---~-----~-~~~~~~~~~--- 284 (509)
T TIGR01642 217 VNINKEKNFAFLEFRTVEEATFAMALDSIIYSNVFLKIRRPHDYIPVPQITPEVSQK---N-----P-DDNAKNVEK--- 284 (509)
T ss_pred EEECCCCCEEEEEeCCHHHHhhhhcCCCeEeeCceeEecCccccCCccccCCCCCCC---C-----C-ccccccccc---
Confidence 3456889999999999999999997 4688999999997653221100000000000 0 0 000000000
Q ss_pred CCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 84 YDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
...........++|||+|||+.+++++|+++|+.||.|..+.|++|+.
T Consensus 285 -------~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~ 332 (509)
T TIGR01642 285 -------LVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIA 332 (509)
T ss_pred -------ccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCC
Confidence 000001123467999999999999999999999999999999999864
No 16
>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=99.71 E-value=6.5e-17 Score=125.93 Aligned_cols=90 Identities=24% Similarity=0.329 Sum_probs=74.0
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHHc----CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCC
Q 032483 4 DQGSKAHRGIGFITFASADSVENLMVD----THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (139)
Q Consensus 4 d~~tg~srG~gFV~F~~~~~a~~Ai~~----~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (139)
+..++++||||||+|.+.++|.+|+.. ...+.|+.|.|.++.++.+...
T Consensus 175 ~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~d~--------------------------- 227 (578)
T TIGR01648 175 AADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEVDE--------------------------- 227 (578)
T ss_pred ccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccccccc---------------------------
Confidence 345678999999999999999999984 2568999999999877643211
Q ss_pred CCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcC--cceeEEEEecc
Q 032483 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRF--GRILDVYVPKV 136 (139)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~f--G~v~~~~i~~d 136 (139)
......++|||+||++.+++++|+++|++| |.|++|.+++|
T Consensus 228 ----------------~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rg 270 (578)
T TIGR01648 228 ----------------DVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRD 270 (578)
T ss_pred ----------------cccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecC
Confidence 002335789999999999999999999999 99999998876
No 17
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.67 E-value=4.7e-16 Score=122.15 Aligned_cols=93 Identities=24% Similarity=0.363 Sum_probs=75.3
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCC
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (139)
++| .+|++||||||+|.+.++|++||+. +..++|+.|.|....++.+...
T Consensus 121 ~~~-~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~~~~~~--------------------------- 172 (562)
T TIGR01628 121 ATD-ENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIKKHEREA--------------------------- 172 (562)
T ss_pred eec-CCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEecccccccccc---------------------------
Confidence 344 5789999999999999999999984 6889999999976554432110
Q ss_pred CCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
......++|||+|||+++|+++|+++|+.||.|.++.|++|..
T Consensus 173 ----------------~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~ 215 (562)
T TIGR01628 173 ----------------APLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGS 215 (562)
T ss_pred ----------------ccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCC
Confidence 0023357899999999999999999999999999999998753
No 18
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.66 E-value=3.5e-16 Score=118.42 Aligned_cols=112 Identities=23% Similarity=0.486 Sum_probs=81.4
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCC-CCccCCCCCCCCCCCccchhhhcccC
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFR-PVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
+.++.++.+||||||+|+-.|++++|++. ...+.||.|.|.++.++..... ..... .+... ..
T Consensus 38 Vt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e~~~~~e~------------~~veK--~~ 103 (678)
T KOG0127|consen 38 VTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSEEVEKGEN------------KAVEK--PI 103 (678)
T ss_pred ecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccchhcccccc------------hhhhc--cc
Confidence 46788899999999999999999999995 5779999999999877644331 00000 00000 00
Q ss_pred CCCCcCCCCCCCCCCCCC--CCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 79 GAPTLYDHPGSFYGRGES--SQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~--~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
+.+ ++.. ...+.++|+|+||||.+.+++|+.+|+.||.|..|.|++.++
T Consensus 104 ~q~-----------~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d 154 (678)
T KOG0127|consen 104 EQK-----------RPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD 154 (678)
T ss_pred ccC-----------CcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC
Confidence 000 0000 123379999999999999999999999999999999998664
No 19
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.64 E-value=2.7e-15 Score=115.91 Aligned_cols=94 Identities=13% Similarity=0.152 Sum_probs=71.4
Q ss_pred CccceEEEEECCHHHHHHHHHc----CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcC
Q 032483 9 AHRGIGFITFASADSVENLMVD----THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLY 84 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~----~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 84 (139)
++||||||+|.+.++|++||+. ...|.|++|.|.++..++..... . ..
T Consensus 36 ~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~~~~-~--~~------------------------- 87 (481)
T TIGR01649 36 PGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRDG-N--SD------------------------- 87 (481)
T ss_pred CCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccccCC-C--Cc-------------------------
Confidence 3679999999999999999983 47899999999998654321100 0 00
Q ss_pred CCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 85 DHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
..........+|||+||++.+|+++|+++|++||.|.+|.|+++..
T Consensus 88 --------~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~ 133 (481)
T TIGR01649 88 --------FDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNN 133 (481)
T ss_pred --------ccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCC
Confidence 0000012245899999999999999999999999999999988764
No 20
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.62 E-value=9.8e-16 Score=111.53 Aligned_cols=101 Identities=18% Similarity=0.377 Sum_probs=78.3
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|..|+.|+++|||+||+|+-+|.|+-|++. +..+.||.|+|.+...-...+. .-.
T Consensus 145 MSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmpQAQp----------------iID------- 201 (544)
T KOG0124|consen 145 MSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQP----------------IID------- 201 (544)
T ss_pred cccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCcccch----------------HHH-------
Confidence 457999999999999999999999999996 5789999999975432111000 000
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
.-........+|||..+.++.+|+||+.+|+.||+|.+|.+.+++.
T Consensus 202 --------------~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt 247 (544)
T KOG0124|consen 202 --------------MVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPT 247 (544)
T ss_pred --------------HHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCC
Confidence 0000123457999999999999999999999999999999998875
No 21
>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=99.59 E-value=2.9e-14 Score=110.28 Aligned_cols=116 Identities=18% Similarity=0.271 Sum_probs=71.0
Q ss_pred ccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCcc-chhhhcccCCCCCcCCC
Q 032483 10 HRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYI-SAATRYAALGAPTLYDH 86 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~g~~~~~~~ 86 (139)
++|||||+|.+.++|++||.. +..|.|++|.|.++..+........ ....+........ +...+.. .
T Consensus 312 ~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~-~~~~~~~~~~d~~~~~~~r~~---------~ 381 (481)
T TIGR01649 312 KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREG-QLDDGLTSYKDYSSSRNHRFK---------K 381 (481)
T ss_pred CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccccccCCCCC-cCcCCCcccccccCCccccCC---------C
Confidence 479999999999999999984 6889999999998754322111000 0000000000000 0000000 0
Q ss_pred CCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcc--eeEEEEeccC
Q 032483 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGR--ILDVYVPKVR 137 (139)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~--v~~~~i~~d~ 137 (139)
+.. ........++.+|||+|||+.++|++|+++|+.||. |..+++..+.
T Consensus 382 ~~~--~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~ 432 (481)
T TIGR01649 382 PGS--ANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKD 432 (481)
T ss_pred ccc--ccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCC
Confidence 000 000001235689999999999999999999999998 8888886543
No 22
>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=99.56 E-value=8.7e-15 Score=114.18 Aligned_cols=78 Identities=26% Similarity=0.411 Sum_probs=62.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--Cccc-CCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhccc
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THEL-GGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAA 77 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i-~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (139)
||+| .+|+|||||||+|.+.++|++||+. .++| .|+.|.|..+.
T Consensus 90 l~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~-------------------------------- 136 (578)
T TIGR01648 90 LMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV-------------------------------- 136 (578)
T ss_pred EEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc--------------------------------
Confidence 5788 8999999999999999999999995 3455 46766664321
Q ss_pred CCCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcc-eeEEEE
Q 032483 78 LGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGR-ILDVYV 133 (139)
Q Consensus 78 ~g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~-v~~~~i 133 (139)
..++|||+|||+++++++|.++|++++. |+++.+
T Consensus 137 ----------------------~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv 171 (578)
T TIGR01648 137 ----------------------DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIV 171 (578)
T ss_pred ----------------------cCceeEeecCCcchhhHHHHHHhhcccCCceEEEE
Confidence 1468999999999999999999999964 444433
No 23
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.54 E-value=3e-14 Score=106.38 Aligned_cols=81 Identities=20% Similarity=0.347 Sum_probs=71.4
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHcC--cccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCC
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVDT--HELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~~--~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (139)
-||. | |-|||||.|.++++|++||.++ ..+.|++|++-|+....
T Consensus 31 c~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~------------------------------- 76 (369)
T KOG0123|consen 31 CRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP------------------------------- 76 (369)
T ss_pred eecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC-------------------------------
Confidence 4777 6 9999999999999999999963 67999999998865331
Q ss_pred CCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
..|||.||+.+++...|.++|+.||+|++|+|..|.+
T Consensus 77 ----------------------~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~ 113 (369)
T KOG0123|consen 77 ----------------------SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN 113 (369)
T ss_pred ----------------------ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC
Confidence 1299999999999999999999999999999999864
No 24
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.53 E-value=3.2e-14 Score=110.48 Aligned_cols=89 Identities=29% Similarity=0.525 Sum_probs=71.3
Q ss_pred CccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCC
Q 032483 9 AHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDH 86 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 86 (139)
.|.|||||+|.++++|+.|+.+ ++.|+|+.|.|+++..+.....
T Consensus 558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~---------------------------------- 603 (725)
T KOG0110|consen 558 LSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTV---------------------------------- 603 (725)
T ss_pred cccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCcccccc----------------------------------
Confidence 4679999999999999999996 5899999999999872211100
Q ss_pred CCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
+..-+.....++|.|+|||+..+-.+++++|++||+|.+|+|+.-
T Consensus 604 -----gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK 648 (725)
T KOG0110|consen 604 -----GKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKK 648 (725)
T ss_pred -----ccccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchh
Confidence 001111334689999999999999999999999999999999864
No 25
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.52 E-value=1.4e-13 Score=106.92 Aligned_cols=116 Identities=16% Similarity=0.253 Sum_probs=74.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|++|+.||+++|||||+|.+.++|+.||.. +..|.|+.|.|+++............. + ....... . .
T Consensus 327 ~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~~~~~~~--~-~~~~~~~-~-------~ 395 (509)
T TIGR01642 327 LIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSN--G-MAPVTLL-A-------K 395 (509)
T ss_pred EEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCCCccccc--c-ccccccc-c-------c
Confidence 467889999999999999999999999984 688999999999986432211110000 0 0000000 0 0
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCC----------CHHHHHHHHhcCcceeEEEEecc
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEA----------TAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~----------t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
+.. .. .......+..+|+|.||.... ..++|+++|++||.|+.|.|+++
T Consensus 396 ~~~------~~---~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~ 454 (509)
T TIGR01642 396 ALS------QS---ILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRP 454 (509)
T ss_pred cch------hh---hccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeecc
Confidence 000 00 000012346789999997421 12679999999999999999875
No 26
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.49 E-value=3e-14 Score=100.90 Aligned_cols=76 Identities=21% Similarity=0.474 Sum_probs=68.6
Q ss_pred cceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCCCC
Q 032483 11 RGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPG 88 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 88 (139)
|-||||..++...++.||.+ ..+|+|..|.|+-+..|.
T Consensus 36 KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKs---------------------------------------- 75 (346)
T KOG0109|consen 36 KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKS---------------------------------------- 75 (346)
T ss_pred cccceEEeecccccHHHHhhcccceecceEEEEEeccccC----------------------------------------
Confidence 56999999999999999995 689999999999776652
Q ss_pred CCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 89 SFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 89 ~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
...+||+|+||.+.++..+|+..|++||+|.+|.|++|
T Consensus 76 ----------k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd 113 (346)
T KOG0109|consen 76 ----------KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD 113 (346)
T ss_pred ----------CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc
Confidence 23579999999999999999999999999999999987
No 27
>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=99.37 E-value=9.1e-12 Score=95.71 Aligned_cols=45 Identities=27% Similarity=0.486 Sum_probs=41.0
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~ 45 (139)
|++|+.+|+++|||||+|.+.++|.+|+.. +..|.|++|.|.++.
T Consensus 218 ~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 218 LHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred EEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 467889999999999999999999999984 688999999999975
No 28
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.35 E-value=5e-13 Score=101.43 Aligned_cols=105 Identities=24% Similarity=0.398 Sum_probs=78.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (139)
||.|+.+++|||.|||+|.+.+++..||. .+..+.|.+|.|..........+ +........+
T Consensus 211 iI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sEaeknr~a-----------------~~s~a~~~k~ 273 (549)
T KOG0147|consen 211 IIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSEAEKNRAA-----------------NASPALQGKG 273 (549)
T ss_pred eeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEecccHHHHHHHH-----------------hccccccccc
Confidence 57899999999999999999999999999 47889999999986432211000 0000000000
Q ss_pred CCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
. ..+..+|||+||.++.++++|+.+|++||.|+.|.+++|.+|
T Consensus 274 ~-----------------~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~t 316 (549)
T KOG0147|consen 274 F-----------------TGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSET 316 (549)
T ss_pred c-----------------ccchhhhhhcccccCchHHHHhhhccCcccceeeeecccccc
Confidence 0 112344999999999999999999999999999999999643
No 29
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.33 E-value=2.9e-11 Score=81.00 Aligned_cols=107 Identities=20% Similarity=0.279 Sum_probs=75.2
Q ss_pred CccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCC
Q 032483 9 AHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDH 86 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 86 (139)
..-.||||+|+++.+|+.||. ++..++|..|.|+++..-....... + .++ +.. .+.
T Consensus 43 g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~s~~~~-----G---~y~------------ggg--rgG 100 (241)
T KOG0105|consen 43 GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRSSSDRR-----G---SYS------------GGG--RGG 100 (241)
T ss_pred CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCcccccc-----c---ccC------------CCC--CCC
Confidence 345799999999999999999 4799999999999875321100000 0 000 000 001
Q ss_pred CCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
.+....+.++...+..++.|.+||...+|++|+++..+-|.|..+.+.+|-
T Consensus 101 gg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg 151 (241)
T KOG0105|consen 101 GGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDG 151 (241)
T ss_pred CCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeeccc
Confidence 111222334556778899999999999999999999999999999988873
No 30
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.29 E-value=1.5e-12 Score=89.86 Aligned_cols=45 Identities=22% Similarity=0.411 Sum_probs=41.8
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRAT 45 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~ 45 (139)
|+.|+.||||||||||+|.|.++|.+|+++ ...||||+..|+.|.
T Consensus 44 vitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 44 VITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS 89 (247)
T ss_pred EEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence 578999999999999999999999999997 589999999999874
No 31
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.27 E-value=1.9e-11 Score=80.44 Aligned_cols=49 Identities=22% Similarity=0.458 Sum_probs=43.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKED 49 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~ 49 (139)
|++|+.|+++||||||+|++.++|++||+. .+.|+|++|.|+++.++..
T Consensus 66 i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~ 116 (144)
T PLN03134 66 VIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRPS 116 (144)
T ss_pred EEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCCC
Confidence 468899999999999999999999999984 6899999999999876544
No 32
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.20 E-value=5.2e-11 Score=89.17 Aligned_cols=88 Identities=26% Similarity=0.437 Sum_probs=74.6
Q ss_pred ccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCCC
Q 032483 10 HRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHP 87 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 87 (139)
|||| ||.|+++++|++||.. +..+.+++|.|.....+++...+...
T Consensus 115 ~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~------------------------------- 162 (369)
T KOG0123|consen 115 SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGE------------------------------- 162 (369)
T ss_pred ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccc-------------------------------
Confidence 9999 9999999999999994 67899999999988877664443210
Q ss_pred CCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 88 GSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 88 ~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
.....+.+||.|++.+.+++.|..+|+.||.|.++.++.|..
T Consensus 163 ---------~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~ 204 (369)
T KOG0123|consen 163 ---------YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSI 204 (369)
T ss_pred ---------hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCC
Confidence 133457899999999999999999999999999999998864
No 33
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.16 E-value=1.4e-10 Score=76.38 Aligned_cols=42 Identities=29% Similarity=0.507 Sum_probs=38.3
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
....++|||+|||++++|++|+++|++||.|.+|.|++|+.|
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~t 72 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRET 72 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCC
Confidence 345789999999999999999999999999999999998754
No 34
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.14 E-value=4.1e-10 Score=84.16 Aligned_cols=133 Identities=17% Similarity=0.223 Sum_probs=77.4
Q ss_pred CCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCC-CccCCCCC----------C---------C
Q 032483 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRP-VGRMSHGG----------Y---------G 63 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~-~~~~~~~~----------~---------~ 63 (139)
..|++||||.|+|+++|.+++|++. .++++||+|.||.....+..+.. ..+..... + +
T Consensus 81 ~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~gg 160 (608)
T KOG4212|consen 81 ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGG 160 (608)
T ss_pred cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchhhhhhhheeeccCcccccCcceecccccccccCCCC
Confidence 6899999999999999999999994 69999999999965432211110 00110000 0 0
Q ss_pred CCCCccch-hhhcccCC-C-CCcCCCC----C--CC--------CCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCc
Q 032483 64 AYNAYISA-ATRYAALG-A-PTLYDHP----G--SF--------YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFG 126 (139)
Q Consensus 64 ~~~~~~~~-~~~~~~~g-~-~~~~~~~----~--~~--------~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG 126 (139)
+....... ........ . ....++. . .. .+...-..+--.++||.||.+.+....|++.|.-.|
T Consensus 161 G~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfgmAG 240 (608)
T KOG4212|consen 161 GDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFGMAG 240 (608)
T ss_pred ccccCCCCcccccccccccCccccccccccchhhhcccchhhhhhhccCCCCCccceeeeeccccccchHHHHHHhccce
Confidence 00000000 00000000 0 0000000 0 00 000111123346899999999999999999999999
Q ss_pred ceeEEEEeccCC
Q 032483 127 RILDVYVPKVRQ 138 (139)
Q Consensus 127 ~v~~~~i~~d~~ 138 (139)
.|+.+.+-.|++
T Consensus 241 kv~~vdf~idKe 252 (608)
T KOG4212|consen 241 KVQSVDFSIDKE 252 (608)
T ss_pred eeeeeceeeccc
Confidence 999998888764
No 35
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.14 E-value=4.8e-11 Score=82.51 Aligned_cols=42 Identities=40% Similarity=0.631 Sum_probs=39.0
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
...-+|||||||+|++..+.|+++|++||+|+++.|+.|++|
T Consensus 9 DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t 50 (247)
T KOG0149|consen 9 DTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNT 50 (247)
T ss_pred CceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCC
Confidence 344689999999999999999999999999999999999976
No 36
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.08 E-value=1.4e-10 Score=80.60 Aligned_cols=47 Identities=19% Similarity=0.415 Sum_probs=42.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPK 47 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~ 47 (139)
|.+|+.||.+||||||+|.+.++|.+||+ +++-++.--|.|.|+.|+
T Consensus 221 lardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP~ 269 (270)
T KOG0122|consen 221 LARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKPS 269 (270)
T ss_pred EEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCCC
Confidence 35899999999999999999999999999 478888889999999876
No 37
>smart00361 RRM_1 RNA recognition motif.
Probab=99.06 E-value=2.9e-10 Score=65.86 Aligned_cols=40 Identities=28% Similarity=0.378 Sum_probs=35.1
Q ss_pred CCCCCC--CCccceEEEEECCHHHHHHHHHc--CcccCCcEEEE
Q 032483 2 PKDQGS--KAHRGIGFITFASADSVENLMVD--THELGGSTVVV 41 (139)
Q Consensus 2 ~~d~~t--g~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v 41 (139)
+.|+.+ +++||||||+|.+.++|.+|+.. +..++||.|.+
T Consensus 26 ~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 26 YIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred EeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 456666 99999999999999999999994 68899999876
No 38
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.04 E-value=3.7e-09 Score=74.75 Aligned_cols=42 Identities=31% Similarity=0.406 Sum_probs=39.3
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
...+++|||..||.+..+.+|-++|-+||.|++++|..|+.|
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRAT 323 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRAT 323 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhcc
Confidence 466899999999999999999999999999999999999865
No 39
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.04 E-value=1.8e-10 Score=78.43 Aligned_cols=44 Identities=25% Similarity=0.483 Sum_probs=41.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
||+|+.|+.+||||||.|.+..+|+.|+++ +.+|+|+.|.|..|
T Consensus 45 IPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a 90 (256)
T KOG4207|consen 45 IPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA 90 (256)
T ss_pred cccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence 799999999999999999999999999995 68999999999876
No 40
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=4.5e-10 Score=77.25 Aligned_cols=47 Identities=36% Similarity=0.624 Sum_probs=43.4
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHcC--cccCCcEEEEeecCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVDT--HELGGSTVVVDRATPK 47 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~~--~~i~gr~i~v~~~~~~ 47 (139)
||.|..++++||||||+|...|+|..||.+| .+|.||.|+|.++.|.
T Consensus 42 iPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~ 90 (298)
T KOG0111|consen 42 IPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPE 90 (298)
T ss_pred cccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCc
Confidence 5789999999999999999999999999975 7899999999999873
No 41
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.01 E-value=3.5e-09 Score=74.94 Aligned_cols=112 Identities=24% Similarity=0.381 Sum_probs=76.3
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (139)
|++|+.+|++||||||+|.+.++|..|+.. +..+.|++|.|.+..+. ...+...... .........
T Consensus 147 ~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~-~~~~~~~~~~--------~~~~~~~~~--- 214 (306)
T COG0724 147 LVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPA-SQPRSELSNN--------LDASFAKKL--- 214 (306)
T ss_pred eeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccc-cccccccccc--------cchhhhccc---
Confidence 457889999999999999999999999995 58899999999986530 0000000000 000000000
Q ss_pred CCCCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
.............+++.+++..++..++...|..+|.+..+.+...
T Consensus 215 ------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (306)
T COG0724 215 ------------SRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPS 260 (306)
T ss_pred ------------cccccccccccceeeccccccccchhHHHHhccccccceeeeccCC
Confidence 0000111345679999999999999999999999999977766544
No 42
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=98.95 E-value=2.1e-09 Score=80.06 Aligned_cols=42 Identities=24% Similarity=0.383 Sum_probs=38.8
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
....++|||+|||+++||++|+++|+.||+|++|+|++|+.|
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~t 145 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKT 145 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC
Confidence 556889999999999999999999999999999999999753
No 43
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.93 E-value=2.2e-08 Score=69.03 Aligned_cols=127 Identities=14% Similarity=0.209 Sum_probs=77.1
Q ss_pred CCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCC-ccc-hhhhcccCCC
Q 032483 5 QGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNA-YIS-AATRYAALGA 80 (139)
Q Consensus 5 ~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~g~ 80 (139)
-.|.+.||-|||.|.+.+.|..|+.+ +..+.|++++|.+|..+.+.......-.......... ... .......-|.
T Consensus 46 ~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~ 125 (221)
T KOG4206|consen 46 FKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGH 125 (221)
T ss_pred cCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCceeccccCccccccccccCCccccccc
Confidence 35889999999999999999999995 6889999999999876544322100000000000000 000 0000000000
Q ss_pred ----CCcCCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEec
Q 032483 81 ----PTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK 135 (139)
Q Consensus 81 ----~~~~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~ 135 (139)
+... .+.+. . .....+...||+.|||..++.+.|..+|++|.....++++.
T Consensus 126 ~~~~~~~~-~p~p~--~-~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~ 180 (221)
T KOG4206|consen 126 FYNMNRMN-LPPPF--L-AQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIP 180 (221)
T ss_pred cccccccc-CCCCc--c-ccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEecc
Confidence 0000 00000 0 12245678999999999999999999999999888888765
No 44
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=98.88 E-value=3.2e-09 Score=60.79 Aligned_cols=33 Identities=42% Similarity=0.867 Sum_probs=31.8
Q ss_pred eEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 104 lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
|||+|||+++|+++|+++|++||.|..+.++.+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~ 33 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN 33 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc
Confidence 799999999999999999999999999999886
No 45
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.83 E-value=4.9e-10 Score=74.92 Aligned_cols=39 Identities=31% Similarity=0.595 Sum_probs=36.9
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
+.-|||||||++.||.+|-.+|++||+|++|.+++|+.|
T Consensus 35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~T 73 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKT 73 (219)
T ss_pred ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCC
Confidence 457999999999999999999999999999999999976
No 46
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=98.77 E-value=1.3e-08 Score=80.27 Aligned_cols=47 Identities=21% Similarity=0.510 Sum_probs=42.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
|++|+.||++||||||+|.+.++|.+||+. +..|+|+.|+|.++.+.
T Consensus 236 l~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~p 284 (612)
T TIGR01645 236 LARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP 284 (612)
T ss_pred EEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCC
Confidence 467899999999999999999999999995 68899999999998753
No 47
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.72 E-value=1.1e-08 Score=74.05 Aligned_cols=40 Identities=20% Similarity=0.482 Sum_probs=36.1
Q ss_pred CCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 8 KAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
.-|||||||+|++.++|++|-++ +..|.||+|+|+.+.++
T Consensus 133 RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 133 RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATAR 174 (376)
T ss_pred CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchh
Confidence 35999999999999999999985 67899999999998765
No 48
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.71 E-value=1.7e-08 Score=68.78 Aligned_cols=45 Identities=13% Similarity=0.211 Sum_probs=39.2
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHcC--cccCCcEEEEeecCC
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVDT--HELGGSTVVVDRATP 46 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~~--~~i~gr~i~v~~~~~ 46 (139)
-|++.||.|||||||+|++++.|.-|-+.| +.+.++-|.|.+--|
T Consensus 83 sRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmpp 129 (214)
T KOG4208|consen 83 SRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPP 129 (214)
T ss_pred ecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCc
Confidence 489999999999999999999999988854 778999999987544
No 49
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.70 E-value=2.1e-08 Score=71.71 Aligned_cols=44 Identities=18% Similarity=0.407 Sum_probs=40.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
|++|+.||+|||||||+|+++.+...|-++ +..|+|+.|.|.+-
T Consensus 133 lV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 133 LVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred EeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 578999999999999999999999999984 78999999999864
No 50
>PLN03213 repressor of silencing 3; Provisional
Probab=98.68 E-value=3.3e-08 Score=75.28 Aligned_cols=38 Identities=26% Similarity=0.392 Sum_probs=35.2
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
..+.+||||||++.+++++|+.+|++||.|.+|.|+++
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE 45 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT 45 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc
Confidence 44679999999999999999999999999999999954
No 51
>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=98.68 E-value=4.3e-08 Score=56.37 Aligned_cols=35 Identities=40% Similarity=0.780 Sum_probs=31.0
Q ss_pred eEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 104 lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
|||+|||+.+++++|+++|+.||.|..+.+..+++
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~ 35 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD 35 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec
Confidence 79999999999999999999999999999998753
No 52
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.67 E-value=2e-08 Score=63.72 Aligned_cols=42 Identities=26% Similarity=0.353 Sum_probs=38.1
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
...+++|||+||++.++|++|.++|+..|+|..|.+-.|+.+
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~k 74 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFK 74 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCC
Confidence 455789999999999999999999999999999998888754
No 53
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.65 E-value=3.6e-08 Score=73.74 Aligned_cols=42 Identities=29% Similarity=0.664 Sum_probs=39.0
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
....-|+||+-+|.+|+|.+|+++|++||.|.+|.|++|+.|
T Consensus 31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t 72 (510)
T KOG0144|consen 31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKST 72 (510)
T ss_pred CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeeccccc
Confidence 455679999999999999999999999999999999999865
No 54
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.62 E-value=6.7e-08 Score=59.21 Aligned_cols=42 Identities=17% Similarity=0.529 Sum_probs=38.0
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
+..++-|||+|||+.+|.+++-++|..||.|..++|-.+++|
T Consensus 15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~T 56 (124)
T KOG0114|consen 15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKET 56 (124)
T ss_pred hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCc
Confidence 455788999999999999999999999999999999877765
No 55
>smart00360 RRM RNA recognition motif.
Probab=98.59 E-value=1.2e-07 Score=53.51 Aligned_cols=41 Identities=24% Similarity=0.503 Sum_probs=34.7
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEe
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVD 42 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~ 42 (139)
++++.+++++|||||+|.+.++|.+|++. +..++|+.|.|.
T Consensus 29 ~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 29 VRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred EeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 45566899999999999999999999985 477899988763
No 56
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.54 E-value=6.3e-07 Score=68.09 Aligned_cols=96 Identities=21% Similarity=0.316 Sum_probs=67.3
Q ss_pred CCCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCc
Q 032483 5 QGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTL 83 (139)
Q Consensus 5 ~~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 83 (139)
+.+||..|=|||+|.+.|++++|++. ...+..|-|+|-.+.+.+..-.... .+ +
T Consensus 43 r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~e~d~~~~~-~g----------------------~-- 97 (510)
T KOG4211|consen 43 RRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGAEADWVMRP-GG----------------------P-- 97 (510)
T ss_pred ccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCccccccccC-CC----------------------C--
Confidence 56799999999999999999999995 5678889999987765533111000 00 0
Q ss_pred CCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeE-EEEeccC
Q 032483 84 YDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD-VYVPKVR 137 (139)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~-~~i~~d~ 137 (139)
........|-.++||+.||+++|.++|+.-=.|.. +.++.|+
T Consensus 98 ------------~s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~ 140 (510)
T KOG4211|consen 98 ------------NSSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ 140 (510)
T ss_pred ------------CCCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC
Confidence 00112356778999999999999999998744444 3344443
No 57
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.53 E-value=1.3e-07 Score=72.00 Aligned_cols=47 Identities=21% Similarity=0.452 Sum_probs=42.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
++-|+.||++|||||++|.+.+++..|++. +.++.||+|+|.++...
T Consensus 50 ~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 50 LVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred ecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 356999999999999999999999999994 69999999999998654
No 58
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=98.53 E-value=8.6e-08 Score=54.71 Aligned_cols=35 Identities=20% Similarity=0.485 Sum_probs=31.6
Q ss_pred CCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEE
Q 032483 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVV 40 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~ 40 (139)
.+++++|||||+|.+.++|++|++. +..++|++|+
T Consensus 34 ~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 34 SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 6789999999999999999999994 6889998874
No 59
>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=98.53 E-value=1.1e-07 Score=54.64 Aligned_cols=38 Identities=21% Similarity=0.429 Sum_probs=32.5
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEE
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVV 40 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~ 40 (139)
++++. |+++|+|||+|.+.++|.+|++. ++.++|+.|+
T Consensus 31 ~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 31 IKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred Eeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 34555 89999999999999999999994 4889999874
No 60
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.52 E-value=4.5e-08 Score=71.62 Aligned_cols=52 Identities=38% Similarity=0.606 Sum_probs=47.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCCCCCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFR 52 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~~~~~~ 52 (139)
+|.|..+.++||||||+|.+++.+++++.. .|.|+|+.++|+.|.|++....
T Consensus 129 ~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~pk~~~~~ 181 (311)
T KOG4205|consen 129 IMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIPKEVMQS 181 (311)
T ss_pred EeecccccccccceeeEeccccccceecccceeeecCceeeEeeccchhhccc
Confidence 578999999999999999999999999986 6999999999999999876543
No 61
>smart00362 RRM_2 RNA recognition motif.
Probab=98.50 E-value=2.4e-07 Score=52.47 Aligned_cols=35 Identities=49% Similarity=0.863 Sum_probs=32.9
Q ss_pred eeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
+|||+|||..+++++|+++|++||+|..+.+..++
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~ 35 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT 35 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC
Confidence 58999999999999999999999999999998765
No 62
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.49 E-value=1.5e-07 Score=67.43 Aligned_cols=41 Identities=27% Similarity=0.462 Sum_probs=38.2
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
.+-++|||+-|+++++|.+|+..|+.||+|+.+.|++|+.|
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vT 139 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVT 139 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeeccc
Confidence 44689999999999999999999999999999999999765
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=98.47 E-value=4.7e-07 Score=49.85 Aligned_cols=34 Identities=26% Similarity=0.556 Sum_probs=31.2
Q ss_pred cceEEEEECCHHHHHHHHH--cCcccCCcEEEEeec
Q 032483 11 RGIGFITFASADSVENLMV--DTHELGGSTVVVDRA 44 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~ 44 (139)
+|+|||+|.+.++|++|++ ++..++|++|.|.++
T Consensus 21 ~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 21 RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 6999999999999999999 478899999999875
No 64
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.47 E-value=1.9e-07 Score=64.74 Aligned_cols=95 Identities=23% Similarity=0.314 Sum_probs=61.7
Q ss_pred cceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCCCC
Q 032483 11 RGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPG 88 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 88 (139)
.|||||+|.+..+|+.|+.. ..+|.|..+.|.++....... ..+.+++.. +
T Consensus 35 ~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~-------g~~~~g~r~--------------------~ 87 (216)
T KOG0106|consen 35 NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGR-------GRPRGGDRR--------------------S 87 (216)
T ss_pred cccceeccCchhhhhcccchhcCceecceeeeeeccccccccc-------CCCCCCCcc--------------------c
Confidence 48999999999999999973 466666666666654332111 000000000 0
Q ss_pred CCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEE
Q 032483 89 SFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 89 ~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i 133 (139)
....-.....+.+.|+|.+|+..+.|.+|.++|+++|++.+..+
T Consensus 88 -~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~ 131 (216)
T KOG0106|consen 88 -DSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA 131 (216)
T ss_pred -hhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh
Confidence 00001111456789999999999999999999999999965543
No 65
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.45 E-value=3.8e-07 Score=66.24 Aligned_cols=36 Identities=33% Similarity=0.577 Sum_probs=34.2
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
-++|+|.|||+...|.||+.+|++||.|.+|+|+.+
T Consensus 96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN 131 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN 131 (376)
T ss_pred CceeEeecCCccccCccHHHHHHhhCceeeEEEEec
Confidence 479999999999999999999999999999999974
No 66
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.45 E-value=1e-07 Score=67.02 Aligned_cols=45 Identities=16% Similarity=0.402 Sum_probs=39.0
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~ 45 (139)
++||+.||+|+|||||.|.+.+++.+||.+ +..++.|+|..+...
T Consensus 222 viRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~ 268 (290)
T KOG0226|consen 222 VIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSE 268 (290)
T ss_pred ccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhh
Confidence 579999999999999999999999999996 467888888776443
No 67
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.44 E-value=3.8e-08 Score=66.02 Aligned_cols=44 Identities=18% Similarity=0.337 Sum_probs=39.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
|+||+.||+|+||||+.|++..+---|+.+ +..|.||.|+|...
T Consensus 67 LiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 67 LIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred EEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 589999999999999999999998888885 68999999999864
No 68
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.43 E-value=7.2e-06 Score=56.95 Aligned_cols=32 Identities=19% Similarity=0.450 Sum_probs=27.9
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEE
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i 133 (139)
.+|||.||..+|||++|+.+|+.|--....+|
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~ 242 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKI 242 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEE
Confidence 58999999999999999999999966655554
No 69
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.42 E-value=4e-07 Score=64.35 Aligned_cols=38 Identities=39% Similarity=0.746 Sum_probs=36.1
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
..+|||+|||+.+++++|+++|..||.|..+.|..|+.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~ 152 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRE 152 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccc
Confidence 59999999999999999999999999999999999863
No 70
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=98.36 E-value=1.1e-06 Score=61.46 Aligned_cols=41 Identities=24% Similarity=0.453 Sum_probs=38.2
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
.-..+|-|.||+.+++|++|+++|.+||.|.+|.|.+|++|
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~T 227 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKET 227 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccceeEEEEcccc
Confidence 34678999999999999999999999999999999999986
No 71
>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=98.36 E-value=9.9e-07 Score=50.12 Aligned_cols=36 Identities=42% Similarity=0.829 Sum_probs=33.5
Q ss_pred eeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
+|+|+|||+.+++++|+++|+.||.|..+.+..++.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~ 36 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD 36 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC
Confidence 489999999999999999999999999999998764
No 72
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.35 E-value=5e-07 Score=69.37 Aligned_cols=45 Identities=29% Similarity=0.525 Sum_probs=40.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~ 45 (139)
+++|..||++||||||+|.+.++|.+|+.. +.+|-||.|.|..-.
T Consensus 310 l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~ 356 (549)
T KOG0147|consen 310 LTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT 356 (549)
T ss_pred eccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence 478889999999999999999999999884 699999999987643
No 73
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=98.31 E-value=9e-07 Score=59.11 Aligned_cols=37 Identities=35% Similarity=0.670 Sum_probs=34.0
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
.++|||+||+..+++.+|...|..||+|.+|-|.+.+
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP 46 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP 46 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC
Confidence 6899999999999999999999999999999886643
No 74
>smart00362 RRM_2 RNA recognition motif.
Probab=98.31 E-value=1.5e-06 Score=49.10 Aligned_cols=35 Identities=26% Similarity=0.552 Sum_probs=30.8
Q ss_pred CCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEe
Q 032483 8 KAHRGIGFITFASADSVENLMVD--THELGGSTVVVD 42 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~ 42 (139)
+.++|+|||+|.+.++|++|++. +..++|++|.|+
T Consensus 36 ~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 36 GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 77899999999999999999984 578899988763
No 75
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.27 E-value=1.6e-06 Score=58.33 Aligned_cols=49 Identities=22% Similarity=0.384 Sum_probs=44.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKED 49 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~ 49 (139)
||+|..||.++|||||.|++.|.+++||.. +..+.+|+|.|.++..+..
T Consensus 129 i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~ 179 (203)
T KOG0131|consen 129 IMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDT 179 (203)
T ss_pred ccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecCC
Confidence 689999999999999999999999999995 5789999999999876543
No 76
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.27 E-value=1.8e-06 Score=61.51 Aligned_cols=37 Identities=16% Similarity=0.343 Sum_probs=33.4
Q ss_pred ccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCC
Q 032483 10 HRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATP 46 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~ 46 (139)
++|||||+|.++++|+.||. .+..|.||.|.|.++..
T Consensus 42 ~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 42 RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAED 79 (260)
T ss_pred CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccC
Confidence 67999999999999999998 47899999999998753
No 77
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.25 E-value=1.5e-06 Score=59.57 Aligned_cols=42 Identities=33% Similarity=0.583 Sum_probs=38.7
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
..-...|-|-||.+.++.++|+.+|++||.|-+|.|++|+.|
T Consensus 10 v~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~T 51 (256)
T KOG4207|consen 10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYT 51 (256)
T ss_pred cccceeEEecceeccCCHHHHHHHHHHhCcccceeccccccc
Confidence 445679999999999999999999999999999999999865
No 78
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.19 E-value=8.9e-07 Score=62.90 Aligned_cols=48 Identities=19% Similarity=0.383 Sum_probs=41.7
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCC
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKED 49 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~ 49 (139)
..|+.|+.||.||||.|.++.+|+.||.+ ++.|.-+.|+|..-.||+.
T Consensus 318 FvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPkda 367 (371)
T KOG0146|consen 318 FVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPKDA 367 (371)
T ss_pred eehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCcccc
Confidence 46999999999999999999999999996 5778888888887777654
No 79
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.17 E-value=1.4e-05 Score=60.46 Aligned_cols=40 Identities=23% Similarity=0.517 Sum_probs=37.8
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
..++.||||.||.++.|++|..+|++.|+|-+++||.|+.
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~ 120 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPF 120 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeeccc
Confidence 5578999999999999999999999999999999999964
No 80
>smart00360 RRM RNA recognition motif.
Probab=98.14 E-value=3.2e-06 Score=47.49 Aligned_cols=33 Identities=42% Similarity=0.781 Sum_probs=30.4
Q ss_pred EeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 106 VGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 106 V~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
|+|||..+++++|+++|++||.|..+.+..++.
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~ 33 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKD 33 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCC
Confidence 579999999999999999999999999988753
No 81
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.13 E-value=4.3e-06 Score=53.73 Aligned_cols=42 Identities=31% Similarity=0.443 Sum_probs=39.0
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
...+|-|||.++...++|+++.+.|..||+|..+.+-.|+.|
T Consensus 69 SVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRt 110 (170)
T KOG0130|consen 69 SVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRT 110 (170)
T ss_pred ceeeEEEEEeccCcchhHHHHHHHHhhcccccceeecccccc
Confidence 455899999999999999999999999999999999999865
No 82
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.09 E-value=1.1e-05 Score=58.80 Aligned_cols=98 Identities=26% Similarity=0.307 Sum_probs=69.1
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCC
Q 032483 4 DQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAP 81 (139)
Q Consensus 4 d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 81 (139)
......++||+.|.|+..+.+..|+.. .+.+.++.+.......+.. ++......
T Consensus 123 ~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~~--~~~n~~~~---------------------- 178 (285)
T KOG4210|consen 123 LEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRGL--RPKNKLSR---------------------- 178 (285)
T ss_pred hccccccccceeeccccHHHHHHHHHhhhccccccccccCcccccccc--cccchhcc----------------------
Confidence 345678999999999999999999984 3566776665554433321 00000000
Q ss_pred CcCCCCCCCCCCCCCCCCCCceeE-EeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 82 TLYDHPGSFYGRGESSQRIGKKIF-VGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~lf-V~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
.......++| |++|++.+++++|+.+|..+|.|..++++.++.+
T Consensus 179 --------------~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s 223 (285)
T KOG4210|consen 179 --------------LSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEES 223 (285)
T ss_pred --------------cccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCc
Confidence 0012234566 9999999999999999999999999999888754
No 83
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.09 E-value=3.2e-06 Score=54.31 Aligned_cols=45 Identities=20% Similarity=0.271 Sum_probs=40.8
Q ss_pred CCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 3 KDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 3 ~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
-|+.||-.|||+.|+|++.++|++||.+ +..|.|.+|.|.|+.-+
T Consensus 106 LDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~ 152 (170)
T KOG0130|consen 106 LDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVK 152 (170)
T ss_pred cccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEec
Confidence 3789999999999999999999999995 58899999999998654
No 84
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=3.4e-06 Score=62.07 Aligned_cols=42 Identities=36% Similarity=0.508 Sum_probs=39.0
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
.++.+.|||.-|.+-+|+++|.-+|+.||.|.+|.|++|+.|
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~kt 277 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKT 277 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccc
Confidence 455789999999999999999999999999999999999865
No 85
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.06 E-value=3e-06 Score=60.26 Aligned_cols=38 Identities=34% Similarity=0.518 Sum_probs=36.2
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
.-+||+.|..+++.++||+-|.+||+|.+++|++|.+|
T Consensus 63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T 100 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNT 100 (321)
T ss_pred eeEEehhcchhcchHHHHHHhccccccccceEeecccC
Confidence 47999999999999999999999999999999999876
No 86
>PLN03213 repressor of silencing 3; Provisional
Probab=98.05 E-value=5.2e-06 Score=63.64 Aligned_cols=40 Identities=18% Similarity=0.384 Sum_probs=35.4
Q ss_pred CCCCCccceEEEEECCH--HHHHHHHHc--CcccCCcEEEEeecCC
Q 032483 5 QGSKAHRGIGFITFASA--DSVENLMVD--THELGGSTVVVDRATP 46 (139)
Q Consensus 5 ~~tg~srG~gFV~F~~~--~~a~~Ai~~--~~~i~gr~i~v~~~~~ 46 (139)
+.|| ||||||+|.+. +++.+||+. +.++.||.|+|..|.+
T Consensus 44 RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 44 RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 5677 99999999987 789999994 7899999999998865
No 87
>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=98.02 E-value=1.5e-05 Score=45.06 Aligned_cols=34 Identities=26% Similarity=0.598 Sum_probs=30.0
Q ss_pred CccceEEEEECCHHHHHHHHHc--CcccCCcEEEEe
Q 032483 9 AHRGIGFITFASADSVENLMVD--THELGGSTVVVD 42 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~ 42 (139)
.++|+|||+|.+.++|..|+.. ...++|+.+.|.
T Consensus 38 ~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~ 73 (74)
T cd00590 38 KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE 73 (74)
T ss_pred CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence 6799999999999999999994 466899999875
No 88
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.01 E-value=6e-06 Score=63.13 Aligned_cols=38 Identities=32% Similarity=0.538 Sum_probs=36.9
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
..|||||+|+++++++|..+|+..|.|.+++++.|++|
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~t 56 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRET 56 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccC
Confidence 79999999999999999999999999999999999976
No 89
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.97 E-value=1.8e-05 Score=61.25 Aligned_cols=107 Identities=21% Similarity=0.270 Sum_probs=72.2
Q ss_pred CCccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCC
Q 032483 8 KAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDH 86 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 86 (139)
...+.|+|++|.+.++|..|+. ....+.|+++.+...........-.....+ .+. .
T Consensus 220 n~~~nfa~ie~~s~~~at~~~~~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~------------------~~~---~-- 276 (500)
T KOG0120|consen 220 NLEKNFAFIEFRSISEATEAMALDGIIFEGRPLKIRRPHDYQPVPGITLSPSQ------------------LGK---V-- 276 (500)
T ss_pred cccccceeEEecCCCchhhhhcccchhhCCCCceecccccccCCccchhhhcc------------------ccc---c--
Confidence 4678999999999999999998 467889999888754432211100000000 000 0
Q ss_pred CCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
..............+|||+|||...++.+++++...||.+...+++.|..+
T Consensus 277 --~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~ 327 (500)
T KOG0120|consen 277 --GLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSAT 327 (500)
T ss_pred --CCcccccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeeccccc
Confidence 000000111344689999999999999999999999999999999988753
No 90
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.95 E-value=1e-05 Score=61.14 Aligned_cols=37 Identities=27% Similarity=0.362 Sum_probs=34.2
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
....++|||+|||+++||..|++-|..||.|.++.|+
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim 569 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM 569 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhh
Confidence 4567899999999999999999999999999999884
No 91
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=97.94 E-value=1.7e-05 Score=50.65 Aligned_cols=43 Identities=21% Similarity=0.323 Sum_probs=38.8
Q ss_pred CCCCCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecC
Q 032483 3 KDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRAT 45 (139)
Q Consensus 3 ~d~~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~ 45 (139)
-|+.+...=|||||+|.+.++|+.||. .+..++.|+|.+.+..
T Consensus 70 Ldr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~ 114 (153)
T KOG0121|consen 70 LDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA 114 (153)
T ss_pred cccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence 478888999999999999999999999 5789999999998754
No 92
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.90 E-value=2.2e-05 Score=55.30 Aligned_cols=42 Identities=14% Similarity=0.226 Sum_probs=35.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRAT 45 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~ 45 (139)
|++| ++++|||||+|.+++.|+.||. .+..|.+++|.|..+.
T Consensus 37 I~~D---~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 37 IIRS---GEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWG 79 (243)
T ss_pred EecC---CCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCc
Confidence 3455 4667899999999999999998 5899999999998754
No 93
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.89 E-value=9.7e-05 Score=56.83 Aligned_cols=41 Identities=32% Similarity=0.455 Sum_probs=36.9
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHh-cCcceeEEEEeccCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFS-RFGRILDVYVPKVRQ 138 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~-~fG~v~~~~i~~d~~ 138 (139)
-.+.++||||+||--++.++|-.+|+ -||.|.+|-|=.|++
T Consensus 367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k 408 (520)
T KOG0129|consen 367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPK 408 (520)
T ss_pred cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcc
Confidence 45578999999999999999999999 699999999988853
No 94
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=97.87 E-value=1.6e-05 Score=53.26 Aligned_cols=39 Identities=23% Similarity=0.463 Sum_probs=33.7
Q ss_pred CccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCC
Q 032483 9 AHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPK 47 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~ 47 (139)
...|||||+|+++.+|+.|+. ++..|.|..|.|+.+.-+
T Consensus 45 nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 45 NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGR 85 (195)
T ss_pred cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCC
Confidence 467999999999999999998 478899999999987543
No 95
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.85 E-value=2.3e-05 Score=57.55 Aligned_cols=42 Identities=21% Similarity=0.445 Sum_probs=37.5
Q ss_pred CCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 96 SSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 96 ~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
+....-++|||++|...++|.+|+++|.+||+|+++.+...+
T Consensus 223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~ 264 (377)
T KOG0153|consen 223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK 264 (377)
T ss_pred CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc
Confidence 446677899999999999999999999999999999987653
No 96
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.84 E-value=2.3e-06 Score=64.28 Aligned_cols=73 Identities=19% Similarity=0.355 Sum_probs=63.6
Q ss_pred cceEEEEECCHHHHHHHHHc---CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCCC
Q 032483 11 RGIGFITFASADSVENLMVD---THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHP 87 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~~---~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 87 (139)
-||+||.+.+...|.+|++. ..++.|+.+.+....++.
T Consensus 37 ~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kk--------------------------------------- 77 (584)
T KOG2193|consen 37 SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKK--------------------------------------- 77 (584)
T ss_pred cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHH---------------------------------------
Confidence 48999999999999999994 478999999998776652
Q ss_pred CCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEE
Q 032483 88 GSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 88 ~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i 133 (139)
..+++|-++|+|+...|+.|..+..+||.|+.|..
T Consensus 78 -----------qrsrk~Qirnippql~wevld~Ll~qyg~ve~~eq 112 (584)
T KOG2193|consen 78 -----------QRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQ 112 (584)
T ss_pred -----------HHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhh
Confidence 22567899999999999999999999999999964
No 97
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.82 E-value=2.4e-05 Score=55.53 Aligned_cols=39 Identities=31% Similarity=0.440 Sum_probs=36.0
Q ss_pred CCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
...+|+|.|||+.|++++|+++|..||.+..+-|.+|+.
T Consensus 82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~ 120 (243)
T KOG0533|consen 82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA 120 (243)
T ss_pred CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC
Confidence 347899999999999999999999999999999998874
No 98
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=97.74 E-value=2.7e-05 Score=62.38 Aligned_cols=39 Identities=28% Similarity=0.594 Sum_probs=34.9
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
.-+++||||+|+..+++.+|..+|+.||+|++|.++-.+
T Consensus 419 V~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R 457 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR 457 (894)
T ss_pred EeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC
Confidence 336799999999999999999999999999999987543
No 99
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.70 E-value=0.00098 Score=50.27 Aligned_cols=110 Identities=15% Similarity=0.193 Sum_probs=65.9
Q ss_pred ceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCCCCC
Q 032483 12 GIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPGS 89 (139)
Q Consensus 12 G~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 89 (139)
--|.|.|.|...|+-|++ +++.|.|++|+|.++.-..- +-+.....+.++..+. ..+..++.-.-|+-.
T Consensus 336 d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~v-qlp~egq~d~glT~dy-~~spLhrfkkpgsKN------- 406 (492)
T KOG1190|consen 336 DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNV-QLPREGQEDQGLTKDY-GNSPLHRFKKPGSKN------- 406 (492)
T ss_pred cceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccc-cCCCCCCccccccccC-CCCchhhccCccccc-------
Confidence 459999999999999999 48999999999987642211 1111111111111110 001111111111000
Q ss_pred CCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 90 FYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 90 ~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
...--.+..+|...|+|..++|++|+.+|..-|-.......
T Consensus 407 ----~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkf 447 (492)
T KOG1190|consen 407 ----YQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKF 447 (492)
T ss_pred ----ccccCCchhheeeccCCcccchhHHHHhhhcCCceEEeeee
Confidence 00012346789999999999999999999998888776543
No 100
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.63 E-value=3e-05 Score=62.66 Aligned_cols=69 Identities=19% Similarity=0.311 Sum_probs=56.5
Q ss_pred CCCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCc
Q 032483 5 QGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTL 83 (139)
Q Consensus 5 ~~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 83 (139)
..+++-||+|||.|..++++.+||.- ...+-|
T Consensus 703 ~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g----------------------------------------------- 735 (881)
T KOG0128|consen 703 KNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG----------------------------------------------- 735 (881)
T ss_pred hhccccccceeeEeecCCchhhhhhhhhhhhhh-----------------------------------------------
Confidence 45788999999999999999999862 111222
Q ss_pred CCCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 84 YDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
..++||.|+|+..|.+.|+.+|+.+|.+.+.+++..+
T Consensus 736 -----------------K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r 772 (881)
T KOG0128|consen 736 -----------------KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR 772 (881)
T ss_pred -----------------hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh
Confidence 2469999999999999999999999999999776544
No 101
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=1.9e-05 Score=54.77 Aligned_cols=41 Identities=29% Similarity=0.485 Sum_probs=37.5
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
...++||||+|..+++|.-|..-|=+||.|.++.++.|.++
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyes 48 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYES 48 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhc
Confidence 34689999999999999999999999999999999998654
No 102
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.55 E-value=0.00014 Score=57.87 Aligned_cols=41 Identities=20% Similarity=0.344 Sum_probs=37.0
Q ss_pred CCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCC
Q 032483 6 GSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATP 46 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~ 46 (139)
..|++|+||||-|.+.++|++||. +...|+-..|.|..|.+
T Consensus 4 ~dGk~R~F~FiGf~~eeeA~~Ai~~fn~s~i~ts~i~Ve~~~~ 46 (725)
T KOG0110|consen 4 KDGKFRRFGFIGFKSEEEAQKAIKYFNKSFINTSRITVEFCKS 46 (725)
T ss_pred CCCceeeeeEeeeccHHHHHHHHHHhhccccccceEEEEehhh
Confidence 458999999999999999999999 57889999999998854
No 103
>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=97.54 E-value=0.00018 Score=44.04 Aligned_cols=45 Identities=18% Similarity=0.305 Sum_probs=34.3
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--Cccc----CCcEEEEeecC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THEL----GGSTVVVDRAT 45 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i----~gr~i~v~~~~ 45 (139)
||.|-.++.+.|||||.|.+++.|.+-.+. +..+ ..+.+.|.+|.
T Consensus 35 LPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAr 85 (97)
T PF04059_consen 35 LPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYAR 85 (97)
T ss_pred eeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhH
Confidence 578889999999999999999999998774 3333 23555666553
No 104
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.52 E-value=3.5e-05 Score=53.45 Aligned_cols=37 Identities=11% Similarity=0.196 Sum_probs=29.6
Q ss_pred CCCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEe
Q 032483 5 QGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVD 42 (139)
Q Consensus 5 ~~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~ 42 (139)
-..+..| |+||.|.++-.+.-|++ ++..+.++++.++
T Consensus 44 ~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~ 82 (267)
T KOG4454|consen 44 GQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRT 82 (267)
T ss_pred CccCCCc-eeeeecccccchhhhhhhcccchhccchhhcc
Confidence 3455666 99999999999999998 3677888777665
No 105
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.50 E-value=0.0038 Score=46.75 Aligned_cols=40 Identities=20% Similarity=0.249 Sum_probs=34.6
Q ss_pred CCCCceeEEeCCCCC-CCHHHHHHHHhcCcceeEEEEeccC
Q 032483 98 QRIGKKIFVGRLPQE-ATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~-~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
...+..+.|.+|... .+-+.|..+|..||.|++|+.++-+
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk 324 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK 324 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc
Confidence 456789999999975 6678899999999999999998754
No 106
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.46 E-value=0.00021 Score=49.66 Aligned_cols=35 Identities=31% Similarity=0.697 Sum_probs=31.7
Q ss_pred CceeEEeCCCCCCCHHHHHH----HHhcCcceeEEEEec
Q 032483 101 GKKIFVGRLPQEATAEDLRR----YFSRFGRILDVYVPK 135 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~----~F~~fG~v~~~~i~~ 135 (139)
..+|||.||+..+..++|+. +|++||.|.+|...+
T Consensus 9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k 47 (221)
T KOG4206|consen 9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK 47 (221)
T ss_pred CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC
Confidence 44999999999999999998 999999999998764
No 107
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=8.8e-05 Score=54.86 Aligned_cols=46 Identities=17% Similarity=0.262 Sum_probs=41.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATP 46 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~ 46 (139)
|+||..||-|--||||+|.+.+++++|.=. ...|+.|.|.|.++.+
T Consensus 271 VIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQS 318 (479)
T KOG0415|consen 271 VIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQS 318 (479)
T ss_pred EEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhh
Confidence 589999999999999999999999999775 4679999999998754
No 108
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=97.46 E-value=0.00024 Score=56.70 Aligned_cols=40 Identities=28% Similarity=0.406 Sum_probs=36.5
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
....++|||+||++.++++.|-..|+.||+|..++|+.-+
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpR 210 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPR 210 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeeccc
Confidence 4557899999999999999999999999999999998754
No 109
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.42 E-value=0.00013 Score=55.77 Aligned_cols=35 Identities=37% Similarity=0.596 Sum_probs=31.7
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEec
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK 135 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~ 135 (139)
...|||+|||.+++.++|++.|..||+|+...|..
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~v 322 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQV 322 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEE
Confidence 34599999999999999999999999999987764
No 110
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.39 E-value=7.3e-05 Score=51.89 Aligned_cols=41 Identities=17% Similarity=0.331 Sum_probs=37.6
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
.+...+|||+|+...++|+.|.++|-+-|+|..|.|..+++
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d 46 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD 46 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc
Confidence 45568999999999999999999999999999999998875
No 111
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=97.36 E-value=8.2e-05 Score=55.24 Aligned_cols=40 Identities=25% Similarity=0.430 Sum_probs=37.0
Q ss_pred CCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
-.++||||.+.++..|+.||.-|.+||+|.++.+-.|+-|
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T 151 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPAT 151 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcceeeccccccc
Confidence 3589999999999999999999999999999999988754
No 112
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.36 E-value=0.00026 Score=50.09 Aligned_cols=44 Identities=27% Similarity=0.459 Sum_probs=39.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeec
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRA 44 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~ 44 (139)
|+.|+.+|.+|||+||+|.+.+.++.|+. +...|.|+.+.|...
T Consensus 133 i~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~ 177 (231)
T KOG4209|consen 133 VPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLK 177 (231)
T ss_pred eeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeee
Confidence 56789999999999999999999999999 678899999988754
No 113
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.35 E-value=0.00042 Score=53.83 Aligned_cols=47 Identities=21% Similarity=0.428 Sum_probs=41.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
+.+|..+|.|+||+|-+|.++-..+.|++. +..+.+++|.|..+..-
T Consensus 321 lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g 369 (500)
T KOG0120|consen 321 LVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVG 369 (500)
T ss_pred eecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhcc
Confidence 357889999999999999999999999994 67888999999888654
No 114
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=97.28 E-value=0.00084 Score=52.73 Aligned_cols=40 Identities=25% Similarity=0.577 Sum_probs=36.1
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
...+++|||.+|+..+...+|+.+|++||.|+-++|+..-
T Consensus 402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNa 441 (940)
T KOG4661|consen 402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNA 441 (940)
T ss_pred cccccceeeeccccchhhhHHHHHHHHhcceeceeeeecC
Confidence 3457899999999999999999999999999999998763
No 115
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.00 E-value=0.00084 Score=49.54 Aligned_cols=37 Identities=19% Similarity=0.438 Sum_probs=33.4
Q ss_pred ccceEEEEECCHHHHHHHHHc---CcccCCcEEEEeecCC
Q 032483 10 HRGIGFITFASADSVENLMVD---THELGGSTVVVDRATP 46 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~---~~~i~gr~i~v~~~~~ 46 (139)
.+|||||+|.+.+.|+.|... ...|+|+.|.|+|..+
T Consensus 263 ~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 263 RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 468999999999999999985 4789999999999887
No 116
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=96.96 E-value=0.0015 Score=46.44 Aligned_cols=41 Identities=24% Similarity=0.355 Sum_probs=37.3
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCCC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQH 139 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~~ 139 (139)
....+||++.|..+++++.|-..|.+|-....+++++|+.|
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRT 228 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRT 228 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccc
Confidence 33579999999999999999999999999999999999865
No 117
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=96.87 E-value=0.0014 Score=51.50 Aligned_cols=44 Identities=23% Similarity=0.397 Sum_probs=36.9
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecC
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~ 45 (139)
+.+-.+---|.||||+|.+.++|.+||+. ..+|.||-|.|..+.
T Consensus 438 VTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 438 VTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred eecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 34445556789999999999999999996 578999999999874
No 118
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.86 E-value=0.0081 Score=48.37 Aligned_cols=120 Identities=10% Similarity=0.008 Sum_probs=66.6
Q ss_pred CCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCC
Q 032483 8 KAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDH 86 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 86 (139)
+-.-|-++|.|....++++|++. ....-.|.+.+..+...+-...+............+.+. ...+.++.- .
T Consensus 349 ~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g~~~~~~a~~~~~~~~~~~~~~~hg------~p~~~pr~~-~ 421 (944)
T KOG4307|consen 349 PPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPGNLGRNGAPPFQAGVPPPVIQNNHG------RPIAPPRAM-V 421 (944)
T ss_pred CCcCCceEEEecCcchHHHHHhcCchhhhhcceeecCCCccccccCccccccCCCCcccccCC------CCCCCcccc-c
Confidence 33378999999999999999995 344556788776554332211111110000000000000 000000000 0
Q ss_pred CCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcceeE-EEEecc
Q 032483 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD-VYVPKV 136 (139)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~-~~i~~d 136 (139)
+ .+..-......+..|||..||..+++.++.++|+.--.|++ |.|.+-
T Consensus 422 ~--~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~ 470 (944)
T KOG4307|consen 422 R--PGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRL 470 (944)
T ss_pred C--CCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccC
Confidence 0 00001112455789999999999999999999998878887 665543
No 119
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.82 E-value=0.0015 Score=49.24 Aligned_cols=40 Identities=25% Similarity=0.360 Sum_probs=36.0
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
.+++.|.++|||++++|++|-+++.+||.|+.+...+.++
T Consensus 26 ~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGkn 65 (492)
T KOG1190|consen 26 EPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGKN 65 (492)
T ss_pred CCcceeEeccCCccccHHHHHHhcccccceeeeeeeccch
Confidence 4578999999999999999999999999999998877653
No 120
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.75 E-value=0.0017 Score=50.15 Aligned_cols=32 Identities=34% Similarity=0.701 Sum_probs=28.9
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCccee
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRIL 129 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~ 129 (139)
..-.++||||+||++++|+.|...|..||.+.
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~ 287 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSVK 287 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccceE
Confidence 34568999999999999999999999999875
No 121
>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=96.73 E-value=0.0024 Score=39.77 Aligned_cols=35 Identities=23% Similarity=0.339 Sum_probs=22.7
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
.-|.|.|++..++.++|+++|++||.|.+|.+.+.
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G 36 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG 36 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC
Confidence 46889999999999999999999999999987664
No 122
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.71 E-value=0.0013 Score=51.24 Aligned_cols=36 Identities=22% Similarity=0.387 Sum_probs=32.4
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEE
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i 133 (139)
..+..+|+|-|||..+++++|+.+|+.||+|..++-
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~ 107 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE 107 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc
Confidence 455789999999999999999999999999998653
No 123
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.64 E-value=0.016 Score=44.83 Aligned_cols=39 Identities=23% Similarity=0.309 Sum_probs=34.0
Q ss_pred CCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeec
Q 032483 6 GSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRA 44 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~ 44 (139)
.-+++-|=|||.|++.+.|++||.. +..|.-|-|+|-.+
T Consensus 140 ~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 140 QRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRS 179 (510)
T ss_pred CCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehh
Confidence 3467899999999999999999994 78888899999876
No 124
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=96.63 E-value=0.012 Score=45.21 Aligned_cols=39 Identities=28% Similarity=0.550 Sum_probs=33.7
Q ss_pred CCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCC
Q 032483 8 KAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATP 46 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~ 46 (139)
+++.+||||+|.+.++++.||.+ ...|++++|.|+.-.+
T Consensus 327 ~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 327 GKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP 366 (419)
T ss_pred CCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence 45559999999999999999996 6889999999986544
No 125
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.61 E-value=0.00072 Score=50.65 Aligned_cols=105 Identities=22% Similarity=0.278 Sum_probs=60.6
Q ss_pred CCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcC
Q 032483 6 GSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLY 84 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 84 (139)
-.||.-|=|||.|..+++|+.||.. ...|.-|.|++-++...+-++ .-.+...++..+ ..++|...
T Consensus 201 pdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFRSTaaEvqq-vlnr~~s~pLi~------------~~~sp~~p 267 (508)
T KOG1365|consen 201 PDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFRSTAAEVQQ-VLNREVSEPLIP------------GLTSPLLP 267 (508)
T ss_pred CCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHHHhHHHHHH-HHHhhccccccC------------CCCCCCCC
Confidence 4688899999999999999999995 455666767665543221111 000000000000 00000000
Q ss_pred CCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcc
Q 032483 85 DHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGR 127 (139)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~ 127 (139)
..+. +--+...+..+|-.++||+..+-++|-++|..|-.
T Consensus 268 ~~p~----~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~ 306 (508)
T KOG1365|consen 268 GGPA----RLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFAT 306 (508)
T ss_pred CCcc----ccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhh
Confidence 0000 00111333668899999999999999999998854
No 126
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.59 E-value=0.025 Score=41.99 Aligned_cols=39 Identities=28% Similarity=0.369 Sum_probs=34.7
Q ss_pred CCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCC
Q 032483 8 KAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATP 46 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~ 46 (139)
|+-||=|.+.|...++++-|+. +...+.|++|.|..|.-
T Consensus 180 G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkf 220 (382)
T KOG1548|consen 180 GKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKF 220 (382)
T ss_pred CCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhh
Confidence 6778999999999999999999 46788999999998854
No 127
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.46 E-value=0.014 Score=44.02 Aligned_cols=42 Identities=17% Similarity=0.313 Sum_probs=35.4
Q ss_pred CCCCccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCC
Q 032483 6 GSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPK 47 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~ 47 (139)
.-|+.-|.+.|.|.+.|.-+-|++. .|.+.+|.|.|-.+...
T Consensus 97 ~qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryievYka~ge 139 (508)
T KOG1365|consen 97 AQGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYKATGE 139 (508)
T ss_pred hhhccccceEEEecCchhhhhhhHhhhhhccCCceeeeccCch
Confidence 3477789999999999999999994 78899999999766543
No 128
>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=96.46 E-value=0.0063 Score=36.59 Aligned_cols=70 Identities=17% Similarity=0.179 Sum_probs=46.2
Q ss_pred EEEEECCHHHHHHHHHcC---cccCCcEEEEeecCC-CCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCCCCC
Q 032483 14 GFITFASADSVENLMVDT---HELGGSTVVVDRATP-KEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPGS 89 (139)
Q Consensus 14 gFV~F~~~~~a~~Ai~~~---~~i~gr~i~v~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 89 (139)
|.|+|.++..|++.++.+ ..+++..+.|+..-- .....+.+-
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~~~~k~qv---------------------------------- 46 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSPVTLGHLQKFQV---------------------------------- 46 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEeEecCCceEEEE----------------------------------
Confidence 689999999999999953 356777766653211 000000000
Q ss_pred CCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHh
Q 032483 90 FYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFS 123 (139)
Q Consensus 90 ~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~ 123 (139)
....+.++|-|.|||...++++|++..+
T Consensus 47 ------~~~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 47 ------FSGVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred ------EEcccCCEEEEeCCCCCCChhhheeeEE
Confidence 0034468999999999999999998654
No 129
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.42 E-value=0.0039 Score=46.12 Aligned_cols=33 Identities=21% Similarity=0.548 Sum_probs=29.0
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeE
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD 130 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~ 130 (139)
...++.|||.|||.++|-+++.++|+.+|-|..
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~ 163 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMR 163 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEec
Confidence 445678999999999999999999999998754
No 130
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.41 E-value=0.0082 Score=42.76 Aligned_cols=35 Identities=29% Similarity=0.359 Sum_probs=32.3
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
..|||.||+.-++.+.|.+-|+.||+|+...+..|
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD 66 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVD 66 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeec
Confidence 46999999999999999999999999999887766
No 131
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.32 E-value=0.009 Score=36.99 Aligned_cols=42 Identities=17% Similarity=0.252 Sum_probs=36.4
Q ss_pred CCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
.+..-||-|||.|++..+|.+|+.. +..++++.+.|-+..+.
T Consensus 52 ~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~ 95 (124)
T KOG0114|consen 52 NTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE 95 (124)
T ss_pred CccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence 4566799999999999999999995 68899999999887654
No 132
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=96.15 E-value=0.0087 Score=48.64 Aligned_cols=39 Identities=21% Similarity=0.341 Sum_probs=35.2
Q ss_pred CccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 9 AHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
-+||||||++....+|.+|+.+ .+.+..+.|+|.|+..+
T Consensus 455 ~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~ 495 (894)
T KOG0132|consen 455 PPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK 495 (894)
T ss_pred cCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence 4799999999999999999996 58899999999999754
No 133
>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=96.09 E-value=0.0075 Score=32.73 Aligned_cols=20 Identities=30% Similarity=0.614 Sum_probs=17.0
Q ss_pred HHHHHhcCcceeEEEEeccC
Q 032483 118 LRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 118 L~~~F~~fG~v~~~~i~~d~ 137 (139)
|+++|++||+|.++.+..+.
T Consensus 1 L~~~f~~fG~V~~i~~~~~~ 20 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK 20 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS
T ss_pred ChHHhCCcccEEEEEEEeCC
Confidence 78999999999999998765
No 134
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=96.04 E-value=0.016 Score=34.43 Aligned_cols=35 Identities=14% Similarity=0.256 Sum_probs=26.3
Q ss_pred ccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 10 HRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
+.|-|+|.|.+.+.|++|.+. +..+.|.+|.|.+.
T Consensus 38 ~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~ 74 (90)
T PF11608_consen 38 SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS 74 (90)
T ss_dssp -TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence 468899999999999999995 56789999999976
No 135
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=95.90 E-value=0.011 Score=44.98 Aligned_cols=39 Identities=23% Similarity=0.389 Sum_probs=35.4
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
...+++|.+.|||.+-..+.|.++|+.+|.|..|+|..-
T Consensus 228 el~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckP 266 (484)
T KOG1855|consen 228 ELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKP 266 (484)
T ss_pred ccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCC
Confidence 456899999999999888999999999999999999764
No 136
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=95.89 E-value=0.013 Score=42.65 Aligned_cols=40 Identities=20% Similarity=0.353 Sum_probs=35.2
Q ss_pred ccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCCCC
Q 032483 10 HRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKED 49 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~~~ 49 (139)
-|+|+||.|.-.++|..||. ++.+++|+++.|..+.++-.
T Consensus 111 vkdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlr 152 (346)
T KOG0109|consen 111 VKDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLR 152 (346)
T ss_pred ecceeEEEEeeccchHHHHhcccccccccceeeeeeeccccc
Confidence 47899999999999999998 47999999999998876543
No 137
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.68 E-value=0.14 Score=38.63 Aligned_cols=111 Identities=18% Similarity=0.180 Sum_probs=62.2
Q ss_pred ccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCCCCCCCCCcc--CCCCCCCCCCC-ccchhhhcccCCCCCcC
Q 032483 10 HRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGR--MSHGGYGAYNA-YISAATRYAALGAPTLY 84 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~~~~~~g~~~~~ 84 (139)
--|-|.|++.|..++++|+. +...+-|.+|.|+.+... -..+..- ..++. ..+-. ..+...++. +|.
T Consensus 324 k~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~--~v~~~~pflLpDgS-pSfKdys~SkNnRFs---sp~-- 395 (494)
T KOG1456|consen 324 KPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN--FVSPVQPFLLPDGS-PSFKDYSGSKNNRFS---SPE-- 395 (494)
T ss_pred ccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc--ccccCCceecCCCC-cchhhcccccccccC---Chh--
Confidence 35789999999999999999 467778999999876421 1111100 00000 00000 000000100 000
Q ss_pred CCCCCCCCCCCCCCCCCceeEEeCCCCCCCHHHHHHHHhcCcc-eeEEEEe
Q 032483 85 DHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGR-ILDVYVP 134 (139)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~-v~~~~i~ 134 (139)
......-+.+++.|..-|.|..+||+.|-.+|..-+. -.+++|.
T Consensus 396 ------qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvF 440 (494)
T KOG1456|consen 396 ------QASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVF 440 (494)
T ss_pred ------HhhcccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEee
Confidence 0001112455789999999999999999999976542 2344443
No 138
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=95.62 E-value=0.014 Score=41.57 Aligned_cols=37 Identities=19% Similarity=0.402 Sum_probs=33.6
Q ss_pred CCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
..-.||+.+||+..+-..|+++|+.||.|-+|.+...
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE 109 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPE 109 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecch
Confidence 3458999999999999999999999999999998764
No 139
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=95.49 E-value=0.0094 Score=42.29 Aligned_cols=41 Identities=24% Similarity=0.283 Sum_probs=37.0
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
......+||+|+.+.+|.+++..+|+.+|.|..+.|+.|+.
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~ 138 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKF 138 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeecccc
Confidence 34467999999999999999999999999999999999875
No 140
>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=95.32 E-value=0.024 Score=33.65 Aligned_cols=29 Identities=28% Similarity=0.516 Sum_probs=20.4
Q ss_pred CCceeEEeCCCCCCCHHHHHHHHhcCccee
Q 032483 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRIL 129 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~ 129 (139)
.....+|. .|.+|-..||.++|++||.|.
T Consensus 8 RdHVFhlt-FPkeWK~~DI~qlFspfG~I~ 36 (87)
T PF08675_consen 8 RDHVFHLT-FPKEWKTSDIYQLFSPFGQIY 36 (87)
T ss_dssp GCCEEEEE---TT--HHHHHHHCCCCCCEE
T ss_pred cceEEEEe-CchHhhhhhHHHHhccCCcEE
Confidence 34555665 999999999999999999985
No 141
>smart00361 RRM_1 RNA recognition motif.
Probab=95.30 E-value=0.021 Score=32.54 Aligned_cols=24 Identities=29% Similarity=0.397 Sum_probs=20.1
Q ss_pred HHHHHHHHh----cCcceeEEE-EeccCC
Q 032483 115 AEDLRRYFS----RFGRILDVY-VPKVRQ 138 (139)
Q Consensus 115 ~~~L~~~F~----~fG~v~~~~-i~~d~~ 138 (139)
+++|+++|+ .||.|.++. |+.|+.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~ 30 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNV 30 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCC
Confidence 678999999 999999995 777664
No 142
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=95.14 E-value=0.015 Score=43.81 Aligned_cols=35 Identities=20% Similarity=0.131 Sum_probs=31.1
Q ss_pred CCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
...+|+|++|+..|...++-++|..+|+|.++.+.
T Consensus 150 irRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a 184 (479)
T KOG4676|consen 150 IRRTREVQSLISAAILPESGESFERKGEVSYAHTA 184 (479)
T ss_pred HHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh
Confidence 34789999999999999999999999999887653
No 143
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=95.06 E-value=0.041 Score=29.81 Aligned_cols=32 Identities=38% Similarity=0.706 Sum_probs=25.2
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
+.|-|.|.+....+. +..+|.+||+|+.+.+.
T Consensus 2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~ 33 (53)
T PF14605_consen 2 TWISVSGFPPDLAEE-VLEHFASFGEIVDIYVP 33 (53)
T ss_pred cEEEEEeECchHHHH-HHHHHHhcCCEEEEEcC
Confidence 457788888776655 55589999999999886
No 144
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=94.83 E-value=0.035 Score=43.84 Aligned_cols=40 Identities=23% Similarity=0.365 Sum_probs=29.4
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHHc--Cccc-CCcEEEEe
Q 032483 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THEL-GGSTVVVD 42 (139)
Q Consensus 2 ~~d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i-~gr~i~v~ 42 (139)
|-|..+| ++||.|++|++..+|+.|++. ++.| .++...|.
T Consensus 97 P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~ 139 (698)
T KOG2314|consen 97 PIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVR 139 (698)
T ss_pred ccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceEEee
Confidence 4565555 999999999999999999984 4433 33455554
No 145
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=94.16 E-value=0.046 Score=40.03 Aligned_cols=49 Identities=20% Similarity=0.548 Sum_probs=41.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCCCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKED 49 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~~~~ 49 (139)
++.++.++.++|||||.|.+......++. ..+.+.++++.+.+..++..
T Consensus 217 ~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 266 (285)
T KOG4210|consen 217 LPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEEDEPRPK 266 (285)
T ss_pred cCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccCCCCcc
Confidence 35678899999999999999999999998 46789999999988766533
No 146
>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=94.10 E-value=0.13 Score=31.48 Aligned_cols=38 Identities=18% Similarity=0.301 Sum_probs=32.4
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhc--CcceeEEEEeccCCC
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSR--FGRILDVYVPKVRQH 139 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~--fG~v~~~~i~~d~~~ 139 (139)
++|-|+|||...|.++|.+++.. .|...-+.++.|..|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~ 41 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKN 41 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccC
Confidence 58999999999999999999875 388888888888653
No 147
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=93.95 E-value=0.046 Score=40.70 Aligned_cols=47 Identities=15% Similarity=0.299 Sum_probs=39.7
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHH--cCcccCCcEEEEeecCCC
Q 032483 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPK 47 (139)
Q Consensus 1 i~~d~~tg~srG~gFV~F~~~~~a~~Ai~--~~~~i~gr~i~v~~~~~~ 47 (139)
|-+|+.|+++||=|-|+|.+...|+.||. +...+.|-+|.|-.+..+
T Consensus 106 ~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r 154 (351)
T KOG1995|consen 106 IYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERR 154 (351)
T ss_pred ccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhc
Confidence 34789999999999999999999999999 467778888888776544
No 148
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.36 E-value=0.07 Score=44.26 Aligned_cols=35 Identities=26% Similarity=0.299 Sum_probs=31.5
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEE
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i 133 (139)
...+.++|++|+.-+.-..|...|..||.|..+.+
T Consensus 453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy 487 (975)
T KOG0112|consen 453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDY 487 (975)
T ss_pred ccceeeccCCCCCCChHHHHHHHhhccCcceeeec
Confidence 34689999999999999999999999999998765
No 149
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=93.23 E-value=0.21 Score=35.76 Aligned_cols=42 Identities=14% Similarity=0.226 Sum_probs=36.8
Q ss_pred CCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeecCCC
Q 032483 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~~~ 47 (139)
..|+|.|.|=|.|...++|.+||+. +.-++|+.+.+....+.
T Consensus 119 ~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~ 162 (243)
T KOG0533|consen 119 RAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP 162 (243)
T ss_pred CCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence 6799999999999999999999994 78899999988876543
No 150
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=92.95 E-value=0.069 Score=37.45 Aligned_cols=35 Identities=17% Similarity=0.498 Sum_probs=30.8
Q ss_pred ccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 10 HRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
.++++||.|++.++|.+||.. ...+.++.|.+...
T Consensus 132 ~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~ 168 (216)
T KOG0106|consen 132 RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKN 168 (216)
T ss_pred hccccceeehhhhhhhhcchhccchhhcCceeeeccc
Confidence 589999999999999999995 67899999998443
No 151
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=92.60 E-value=0.046 Score=35.81 Aligned_cols=83 Identities=16% Similarity=0.185 Sum_probs=58.2
Q ss_pred ccceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecCCCCCCCCCCccCCCCCCCCCCCccchhhhcccCCCCCcCCCCC
Q 032483 10 HRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPG 88 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 88 (139)
..++..+.|.+.+++++++.. ...+++..+.++.-.|.........
T Consensus 54 ~~~~fl~~F~~~~d~~~vl~~~p~~~~~~~~~l~~W~~~~~~~~~~~--------------------------------- 100 (153)
T PF14111_consen 54 GDNLFLFQFESEEDRQRVLKGGPWNFNGHFLILQRWSPDFNPSEVKF--------------------------------- 100 (153)
T ss_pred CCCeEEEEEEeccceeEEEecccccccccchhhhhhcccccccccce---------------------------------
Confidence 468889999999999999885 4667787777776554322111000
Q ss_pred CCCCCCCCCCCCCceeEEeCCCCC-CCHHHHHHHHhcCcceeEEEEe
Q 032483 89 SFYGRGESSQRIGKKIFVGRLPQE-ATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 89 ~~~~~~~~~~~~~~~lfV~nL~~~-~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
.....=|-|.|||.. ++++-|+.+-+.+|.+..+...
T Consensus 101 ---------~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~ 138 (153)
T PF14111_consen 101 ---------EHIPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDEN 138 (153)
T ss_pred ---------eccchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcC
Confidence 011123456799987 8889999999999999998754
No 152
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=92.55 E-value=0.2 Score=39.43 Aligned_cols=37 Identities=22% Similarity=0.402 Sum_probs=31.9
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEE
Q 032483 4 DQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVV 40 (139)
Q Consensus 4 d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~ 40 (139)
++.|-..+|-.||+|.|..+|++|+++ ..++.|+.|.
T Consensus 105 ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 105 IRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred hhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 356778899999999999999999995 5778888776
No 153
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=92.13 E-value=0.21 Score=35.23 Aligned_cols=35 Identities=20% Similarity=0.417 Sum_probs=29.4
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEE
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i 133 (139)
...++|||.+||.++-..+|.-+|..|---+.+.|
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslL 66 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLL 66 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceee
Confidence 44789999999999999999999999865555544
No 154
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=91.72 E-value=0.061 Score=44.58 Aligned_cols=38 Identities=24% Similarity=0.487 Sum_probs=34.7
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEec
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK 135 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~ 135 (139)
...+.+||++||+..+++.+|+..|..||.|.+|.|-.
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKt 406 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKT 406 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhcccccccccc
Confidence 56678999999999999999999999999999998754
No 155
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=91.26 E-value=0.43 Score=33.16 Aligned_cols=42 Identities=19% Similarity=0.489 Sum_probs=36.4
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcC-cceeEEEEeccCCC
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRF-GRILDVYVPKVRQH 139 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~f-G~v~~~~i~~d~~~ 139 (139)
.....-+||..+|.-+.+.+|..+|.+| |.|..+++.+.+.|
T Consensus 46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrT 88 (214)
T KOG4208|consen 46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRT 88 (214)
T ss_pred cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeeccccc
Confidence 4556789999999999999999999998 88888888887765
No 156
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=90.74 E-value=0.51 Score=31.09 Aligned_cols=36 Identities=22% Similarity=0.357 Sum_probs=28.9
Q ss_pred ceEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCCC
Q 032483 12 GIGFITFASADSVENLMV-DTHELGGSTVVVDRATPK 47 (139)
Q Consensus 12 G~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~~ 47 (139)
+--.|+|.+-++|-+|++ ++..+.|+.|.|+.-.|.
T Consensus 71 ~~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 71 DTMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp TCEEEEESSCHHHHHHHHGCCSEETTEEEEEEE----
T ss_pred CeEEEEECccHHHHHHHccCCcEECCEEEEEEeCCcc
Confidence 346899999999999999 589999999999987654
No 157
>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=90.23 E-value=0.7 Score=34.19 Aligned_cols=31 Identities=23% Similarity=0.164 Sum_probs=22.9
Q ss_pred EEEEECCHHHHHHHHHcCcccCCcEEEEeec
Q 032483 14 GFITFASADSVENLMVDTHELGGSTVVVDRA 44 (139)
Q Consensus 14 gFV~F~~~~~a~~Ai~~~~~i~gr~i~v~~~ 44 (139)
|||+|.+..+|..|++..+..+.+.+.+..|
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~A 31 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPA 31 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeC
Confidence 7999999999999998544444455556544
No 158
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=88.44 E-value=0.014 Score=47.92 Aligned_cols=34 Identities=38% Similarity=0.412 Sum_probs=30.9
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
..++||.||++.+.+++|...|.++|.+..++|.
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~ 700 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIV 700 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHH
Confidence 4689999999999999999999999999887765
No 159
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=87.10 E-value=0.57 Score=35.08 Aligned_cols=35 Identities=26% Similarity=0.589 Sum_probs=28.3
Q ss_pred CceeEEeCCCCCCCHHH------HHHHHhcCcceeEEEEec
Q 032483 101 GKKIFVGRLPQEATAED------LRRYFSRFGRILDVYVPK 135 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~------L~~~F~~fG~v~~~~i~~ 135 (139)
..-+||-+||+.+..++ -.++|++||.|..+.|-+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNk 154 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNK 154 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecc
Confidence 45789999999877766 357999999999887754
No 160
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=85.93 E-value=1.1 Score=33.60 Aligned_cols=31 Identities=13% Similarity=0.306 Sum_probs=27.6
Q ss_pred EEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 14 GFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 14 gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
-||+|.+.|+|.+||++ +..++||.|++.+-
T Consensus 168 vYITy~~kedAarcIa~vDgs~~DGr~lkatYG 200 (480)
T COG5175 168 VYITYSTKEDAARCIAEVDGSLLDGRVLKATYG 200 (480)
T ss_pred EEEEecchHHHHHHHHHhccccccCceEeeecC
Confidence 39999999999999995 78899999988764
No 161
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=85.74 E-value=0.68 Score=34.72 Aligned_cols=33 Identities=24% Similarity=0.345 Sum_probs=28.8
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeE
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD 130 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~ 130 (139)
....-+|||-+||..+++.+|.++|.++|.|..
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikr 95 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKR 95 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceecc
Confidence 344679999999999999999999999988754
No 162
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=84.73 E-value=0.73 Score=33.06 Aligned_cols=37 Identities=16% Similarity=0.278 Sum_probs=31.9
Q ss_pred CCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 8 KAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
-.-+|=.+|.|...++|++|++. ...+.|++|.+.+.
T Consensus 107 ~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 107 DHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred hhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 34578899999999999999994 68899999988875
No 163
>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=84.59 E-value=1.7 Score=26.99 Aligned_cols=30 Identities=13% Similarity=0.473 Sum_probs=18.8
Q ss_pred eEEEEECCHHHHHHHHHc-------CcccCCcEEEEe
Q 032483 13 IGFITFASADSVENLMVD-------THELGGSTVVVD 42 (139)
Q Consensus 13 ~gFV~F~~~~~a~~Ai~~-------~~~i~gr~i~v~ 42 (139)
-|||.|.+++.|++|+.. ...|.+..+.+.
T Consensus 39 ~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~ 75 (105)
T PF08777_consen 39 EGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE 75 (105)
T ss_dssp EEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred EEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence 699999999999999984 234555555544
No 164
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=84.58 E-value=0.94 Score=37.15 Aligned_cols=37 Identities=14% Similarity=0.249 Sum_probs=32.2
Q ss_pred CCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 8 KAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 8 g~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
.+-+-||||.|.+..+|++|++. +..+.++++.+.|.
T Consensus 216 ~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWg 254 (877)
T KOG0151|consen 216 RRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWG 254 (877)
T ss_pred ccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccc
Confidence 45678999999999999999994 67888888888886
No 165
>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=84.56 E-value=1.3 Score=27.31 Aligned_cols=31 Identities=29% Similarity=0.488 Sum_probs=21.6
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcceeEEE
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVY 132 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~ 132 (139)
.+-|.|-|.|.. ....+-++|++||.|.+..
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~ 36 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHF 36 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEE
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEee
Confidence 456899999988 5566788999999998875
No 166
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=83.11 E-value=1.9 Score=32.54 Aligned_cols=39 Identities=18% Similarity=0.285 Sum_probs=31.7
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHHc--CcccCCcEEEEe
Q 032483 4 DQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVD 42 (139)
Q Consensus 4 d~~tg~srG~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~ 42 (139)
++..|.|||||.|..-+...+.+.|+- ..+|.|..-.|-
T Consensus 117 NR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 117 NRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred cccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 577899999999999999999998883 567888655444
No 167
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=81.21 E-value=2.2 Score=23.85 Aligned_cols=18 Identities=39% Similarity=0.914 Sum_probs=15.6
Q ss_pred HHHHHHHhcCcceeEEEE
Q 032483 116 EDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 116 ~~L~~~F~~fG~v~~~~i 133 (139)
.+||++|++.|+|.-+.|
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 579999999999987765
No 168
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=80.77 E-value=1.7 Score=31.82 Aligned_cols=35 Identities=29% Similarity=0.578 Sum_probs=27.3
Q ss_pred CceeEEeCCCCC------------CCHHHHHHHHhcCcceeEEEEec
Q 032483 101 GKKIFVGRLPQE------------ATAEDLRRYFSRFGRILDVYVPK 135 (139)
Q Consensus 101 ~~~lfV~nL~~~------------~t~~~L~~~F~~fG~v~~~~i~~ 135 (139)
..+||..+||-. .+++.|+..|+.||.|..|.|+.
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence 356777777632 46788999999999999998864
No 169
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=79.51 E-value=4.9 Score=26.57 Aligned_cols=35 Identities=11% Similarity=0.129 Sum_probs=28.9
Q ss_pred cceEEEEECCHHHHHHHHHc-CcccCCcEEEEeecC
Q 032483 11 RGIGFITFASADSVENLMVD-THELGGSTVVVDRAT 45 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i~v~~~~ 45 (139)
|--|.|.|.|..+|++|+.+ .....|..+.|.+..
T Consensus 125 rqsavVvF~d~~SAC~Av~Af~s~~pgtm~qCsWqq 160 (166)
T PF15023_consen 125 RQSAVVVFKDITSACKAVSAFQSRAPGTMFQCSWQQ 160 (166)
T ss_pred CceEEEEehhhHHHHHHHHhhcCCCCCceEEeeccc
Confidence 45799999999999999997 456778888887754
No 170
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=78.91 E-value=2.7 Score=31.04 Aligned_cols=31 Identities=26% Similarity=0.321 Sum_probs=26.1
Q ss_pred EEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 14 GFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 14 gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
-||+|...++|.+|+-. +..+.||.+...+.
T Consensus 332 iFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy 364 (378)
T KOG1996|consen 332 IFVEFERVESAIKAVVDLNGRYFGGRVVSACFY 364 (378)
T ss_pred eeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence 59999999999999884 67889998876654
No 171
>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=78.19 E-value=4.1 Score=25.08 Aligned_cols=34 Identities=18% Similarity=0.139 Sum_probs=26.1
Q ss_pred cceEEEEECCHHHHHHHHHc-CcccCCcEE-EEeec
Q 032483 11 RGIGFITFASADSVENLMVD-THELGGSTV-VVDRA 44 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~~-~~~i~gr~i-~v~~~ 44 (139)
..+--|+|.++.+|.+||.. +..+.|.-+ -|+++
T Consensus 54 ~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mvGV~~~ 89 (100)
T PF05172_consen 54 GNWIHITYDNPLSAQRALQKNGTIFSGSLMVGVKPC 89 (100)
T ss_dssp TTEEEEEESSHHHHHHHHTTTTEEETTCEEEEEEE-
T ss_pred CCEEEEECCCHHHHHHHHHhCCeEEcCcEEEEEEEc
Confidence 45788999999999999995 677877544 46655
No 172
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=77.05 E-value=1.4 Score=33.19 Aligned_cols=28 Identities=25% Similarity=0.209 Sum_probs=22.0
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCc
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFG 126 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG 126 (139)
....++|||||-|-+|+++|-+-...-|
T Consensus 78 Grk~~~YvGNL~W~TTD~DL~~A~~S~G 105 (498)
T KOG4849|consen 78 GRKYCCYVGNLLWYTTDADLLKALQSTG 105 (498)
T ss_pred CceEEEEecceeEEeccHHHHHHHHhhh
Confidence 3456899999999999988877666544
No 173
>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=76.87 E-value=4.2 Score=23.29 Aligned_cols=32 Identities=22% Similarity=0.440 Sum_probs=16.0
Q ss_pred ceEEEEECCHHHHHHHHHc--CcccCCcEEEEeec
Q 032483 12 GIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (139)
Q Consensus 12 G~gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~ 44 (139)
-|.||+-... .|+.+++. ...+.|+++.|+.|
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 3788876654 66777774 57899999999864
No 174
>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=75.06 E-value=3.2 Score=30.58 Aligned_cols=39 Identities=15% Similarity=0.307 Sum_probs=34.2
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccC
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
-..+.|-..||...++--.+-..|-.||+|++|.++.+.
T Consensus 13 YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~ 51 (309)
T PF10567_consen 13 YRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSN 51 (309)
T ss_pred ceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCC
Confidence 345778889999999988899999999999999999876
No 175
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=73.90 E-value=3.7 Score=29.81 Aligned_cols=35 Identities=17% Similarity=0.067 Sum_probs=27.8
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
....|+||||.++..-|..++...-.+..+.+|..
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~Q 130 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLMVQ 130 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEEeH
Confidence 45679999999999999999988666666666543
No 176
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=73.76 E-value=2.1 Score=24.80 Aligned_cols=9 Identities=44% Similarity=0.973 Sum_probs=7.7
Q ss_pred CccceEEEE
Q 032483 9 AHRGIGFIT 17 (139)
Q Consensus 9 ~srG~gFV~ 17 (139)
..||||||+
T Consensus 11 ~~KGfGFI~ 19 (74)
T PRK09937 11 NAKGFGFIC 19 (74)
T ss_pred CCCCeEEEe
Confidence 569999996
No 177
>PRK14998 cold shock-like protein CspD; Provisional
Probab=73.11 E-value=2.1 Score=24.69 Aligned_cols=10 Identities=40% Similarity=0.750 Sum_probs=8.1
Q ss_pred CccceEEEEE
Q 032483 9 AHRGIGFITF 18 (139)
Q Consensus 9 ~srG~gFV~F 18 (139)
..||||||+=
T Consensus 11 ~~kGfGFI~~ 20 (73)
T PRK14998 11 NAKGFGFICP 20 (73)
T ss_pred CCCceEEEec
Confidence 5699999963
No 178
>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=72.06 E-value=3.2 Score=22.62 Aligned_cols=36 Identities=17% Similarity=0.373 Sum_probs=17.9
Q ss_pred CccceEEEEECCHHHHHHHHH--c-CcccCCcEEEEeecC
Q 032483 9 AHRGIGFITFASADSVENLMV--D-THELGGSTVVVDRAT 45 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~--~-~~~i~gr~i~v~~~~ 45 (139)
.++|||||.-.+ ..-+--|. + ..-++|-.+.|+...
T Consensus 6 ~~~GfGFv~~~~-~~~DifIp~~~l~~A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 6 HPKGFGFVIPDD-GGEDIFIPPRNLNGAMDGDKVLVRITP 44 (58)
T ss_dssp -SSS-EEEEECT--TEEEEE-HHHHTTS-TT-EEEEEEEE
T ss_pred EcCCCEEEEECC-CCCCEEECHHHHCCCCCCCEEEEEEec
Confidence 478999999887 11000111 1 244677777777654
No 179
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=71.75 E-value=10 Score=21.22 Aligned_cols=23 Identities=22% Similarity=0.657 Sum_probs=20.0
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcC
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRF 125 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~f 125 (139)
.+|+|+|+. +.+.++++.+|..|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y 28 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEY 28 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHh
Confidence 589999985 57888899999998
No 180
>PRK15464 cold shock-like protein CspH; Provisional
Probab=71.22 E-value=2.2 Score=24.41 Aligned_cols=11 Identities=36% Similarity=0.564 Sum_probs=8.4
Q ss_pred CccceEEEEEC
Q 032483 9 AHRGIGFITFA 19 (139)
Q Consensus 9 ~srG~gFV~F~ 19 (139)
..||||||+=.
T Consensus 14 ~~KGfGFI~~~ 24 (70)
T PRK15464 14 RKSGKGFIIPS 24 (70)
T ss_pred CCCCeEEEccC
Confidence 46999999633
No 181
>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=69.94 E-value=2.9 Score=23.66 Aligned_cols=12 Identities=33% Similarity=0.637 Sum_probs=9.1
Q ss_pred CccceEEEEECC
Q 032483 9 AHRGIGFITFAS 20 (139)
Q Consensus 9 ~srG~gFV~F~~ 20 (139)
..||||||+=.+
T Consensus 11 ~~kGfGFI~~~~ 22 (68)
T TIGR02381 11 NAKGFGFICPEG 22 (68)
T ss_pred CCCCeEEEecCC
Confidence 569999997444
No 182
>PRK15463 cold shock-like protein CspF; Provisional
Probab=69.86 E-value=2.6 Score=24.11 Aligned_cols=10 Identities=40% Similarity=0.557 Sum_probs=8.0
Q ss_pred CccceEEEEE
Q 032483 9 AHRGIGFITF 18 (139)
Q Consensus 9 ~srG~gFV~F 18 (139)
..||||||+=
T Consensus 14 ~~kGfGFI~~ 23 (70)
T PRK15463 14 GKSGKGLITP 23 (70)
T ss_pred CCCceEEEec
Confidence 4699999963
No 183
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=69.53 E-value=2.6 Score=23.97 Aligned_cols=9 Identities=56% Similarity=1.117 Sum_probs=7.6
Q ss_pred CccceEEEE
Q 032483 9 AHRGIGFIT 17 (139)
Q Consensus 9 ~srG~gFV~ 17 (139)
..||||||+
T Consensus 13 ~~kGyGFI~ 21 (69)
T PRK09507 13 ESKGFGFIT 21 (69)
T ss_pred CCCCcEEEe
Confidence 469999996
No 184
>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=69.07 E-value=4.4 Score=20.04 Aligned_cols=15 Identities=20% Similarity=0.565 Sum_probs=10.0
Q ss_pred CCCHHHHHHHHhcCc
Q 032483 112 EATAEDLRRYFSRFG 126 (139)
Q Consensus 112 ~~t~~~L~~~F~~fG 126 (139)
++++++|+++|...+
T Consensus 20 Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 20 DTDEDQLKEVFNRIK 34 (36)
T ss_dssp ---HHHHHHHHHCS-
T ss_pred cCCHHHHHHHHHHhc
Confidence 578999999998754
No 185
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=68.87 E-value=4.1 Score=33.66 Aligned_cols=36 Identities=22% Similarity=0.338 Sum_probs=27.9
Q ss_pred CccceEEEEECCHHHHHHHHH-cCcccCCcEEEEeec
Q 032483 9 AHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRA 44 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~ 44 (139)
---|=+||.|++.|+|.-||. +..+|.|-++++-.+
T Consensus 38 Ge~GeaFI~FsTDeDARlaM~kdr~~i~g~~VrLlLS 74 (944)
T KOG4307|consen 38 GEEGEAFIGFSTDEDARLAMTKDRLMIHGAEVRLLLS 74 (944)
T ss_pred ccccceEEEecccchhhhhhhhcccceecceEEEEec
Confidence 345789999999999999988 467788876665543
No 186
>PRK10943 cold shock-like protein CspC; Provisional
Probab=68.13 E-value=2.9 Score=23.82 Aligned_cols=9 Identities=56% Similarity=1.117 Sum_probs=7.7
Q ss_pred CccceEEEE
Q 032483 9 AHRGIGFIT 17 (139)
Q Consensus 9 ~srG~gFV~ 17 (139)
..||||||+
T Consensus 13 ~~kGfGFI~ 21 (69)
T PRK10943 13 ESKGFGFIT 21 (69)
T ss_pred CCCCcEEEe
Confidence 569999996
No 187
>PRK09890 cold shock protein CspG; Provisional
Probab=66.42 E-value=3.3 Score=23.63 Aligned_cols=9 Identities=67% Similarity=1.228 Sum_probs=7.5
Q ss_pred CccceEEEE
Q 032483 9 AHRGIGFIT 17 (139)
Q Consensus 9 ~srG~gFV~ 17 (139)
..||||||+
T Consensus 14 ~~kGfGFI~ 22 (70)
T PRK09890 14 ADKGFGFIT 22 (70)
T ss_pred CCCCcEEEe
Confidence 459999996
No 188
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=65.94 E-value=3.4 Score=23.53 Aligned_cols=9 Identities=67% Similarity=1.228 Sum_probs=7.5
Q ss_pred CccceEEEE
Q 032483 9 AHRGIGFIT 17 (139)
Q Consensus 9 ~srG~gFV~ 17 (139)
..||||||+
T Consensus 14 ~~kGfGFI~ 22 (70)
T PRK10354 14 ADKGFGFIT 22 (70)
T ss_pred CCCCcEEEe
Confidence 459999996
No 189
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.78 E-value=12 Score=30.21 Aligned_cols=38 Identities=29% Similarity=0.371 Sum_probs=32.3
Q ss_pred CCCCceeEEeCCCCC-CCHHHHHHHHhcC----cceeEEEEec
Q 032483 98 QRIGKKIFVGRLPQE-ATAEDLRRYFSRF----GRILDVYVPK 135 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~-~t~~~L~~~F~~f----G~v~~~~i~~ 135 (139)
...+++|=|-||.|+ +.-.+|..+|..| |.|.+|.|-.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYp 213 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYP 213 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEech
Confidence 456789999999996 8889999999977 6999998753
No 190
>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=63.77 E-value=14 Score=20.92 Aligned_cols=16 Identities=19% Similarity=0.416 Sum_probs=14.6
Q ss_pred EEEECCHHHHHHHHHc
Q 032483 15 FITFASADSVENLMVD 30 (139)
Q Consensus 15 FV~F~~~~~a~~Ai~~ 30 (139)
||.|.+.++|+++...
T Consensus 37 YIvF~~~~Ea~rC~~~ 52 (66)
T PF11767_consen 37 YIVFNDSKEAERCFRA 52 (66)
T ss_pred EEEECChHHHHHHHHh
Confidence 8999999999999883
No 191
>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=61.26 E-value=7.5 Score=21.49 Aligned_cols=12 Identities=42% Similarity=0.728 Sum_probs=9.2
Q ss_pred CccceEEEEECC
Q 032483 9 AHRGIGFITFAS 20 (139)
Q Consensus 9 ~srG~gFV~F~~ 20 (139)
..+|||||+-.+
T Consensus 10 ~~kgyGFI~~~~ 21 (66)
T PF00313_consen 10 DEKGYGFITSDD 21 (66)
T ss_dssp TTTTEEEEEETT
T ss_pred CCCCceEEEEcc
Confidence 368999998654
No 192
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=60.70 E-value=8.4 Score=27.57 Aligned_cols=34 Identities=24% Similarity=0.500 Sum_probs=29.3
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEE
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVY 132 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~ 132 (139)
....+||+-|+|..+|++-|....++.|-+..+.
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 4467999999999999999999999998766554
No 193
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=60.67 E-value=4.4 Score=32.53 Aligned_cols=28 Identities=18% Similarity=0.428 Sum_probs=23.0
Q ss_pred EEEECCHHHHHHHHH---c-CcccCCcEEEEe
Q 032483 15 FITFASADSVENLMV---D-THELGGSTVVVD 42 (139)
Q Consensus 15 FV~F~~~~~a~~Ai~---~-~~~i~gr~i~v~ 42 (139)
||+|.+..+|+.|.+ + ..+|.|++|..+
T Consensus 216 yITfesd~DAQqAykylreevk~fqgKpImAR 247 (684)
T KOG2591|consen 216 YITFESDTDAQQAYKYLREEVKTFQGKPIMAR 247 (684)
T ss_pred EEEeecchhHHHHHHHHHHHHHhhcCcchhhh
Confidence 899999999999977 2 467889888554
No 194
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=59.46 E-value=2.7 Score=31.37 Aligned_cols=32 Identities=16% Similarity=0.254 Sum_probs=26.5
Q ss_pred EEEEECCHHHHHHHHHc--CcccCCcEEEEeecC
Q 032483 14 GFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (139)
Q Consensus 14 gFV~F~~~~~a~~Ai~~--~~~i~gr~i~v~~~~ 45 (139)
++|+|...|+|..||.. +..++|+.++..+..
T Consensus 128 ~yITy~~~eda~rci~~v~g~~~dg~~lka~~gt 161 (327)
T KOG2068|consen 128 VYITYEEEEDADRCIDDVDGFVDDGRALKASLGT 161 (327)
T ss_pred ccccccchHhhhhHHHHhhhHHhhhhhhHHhhCC
Confidence 89999999999999994 678888886665543
No 195
>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=59.29 E-value=5.9 Score=21.85 Aligned_cols=11 Identities=45% Similarity=0.824 Sum_probs=8.3
Q ss_pred ccceEEEEECC
Q 032483 10 HRGIGFITFAS 20 (139)
Q Consensus 10 srG~gFV~F~~ 20 (139)
.||||||+=.+
T Consensus 11 ~kGfGFI~~~~ 21 (65)
T cd04458 11 EKGFGFITPDD 21 (65)
T ss_pred CCCeEEEecCC
Confidence 58999997443
No 196
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=58.53 E-value=9 Score=28.27 Aligned_cols=34 Identities=6% Similarity=0.011 Sum_probs=26.0
Q ss_pred eeEEeCCCCCCCHHHHHHHHhcCcceeEEEEecc
Q 032483 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
-+.|.||||.++...|..++.....+..+.++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~~~~~~vlm~Q 136 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRPLFRCAVLMFQ 136 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCCCCceeeeeeh
Confidence 4778999999999999998876555666655543
No 197
>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=57.30 E-value=12 Score=26.98 Aligned_cols=34 Identities=32% Similarity=0.545 Sum_probs=26.1
Q ss_pred CceeEEeCCCCCCCHHHHHHHHh--cCcceeEEEEe
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFS--RFGRILDVYVP 134 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~--~fG~v~~~~i~ 134 (139)
..-++|+|||+..+..-|.+++. .||.+.-+-++
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~~~~~l~v 132 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGRVRMVLMV 132 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCEEEEEEEE
T ss_pred CceEEEEEecccchHHHHHHHhhcccccccceEEEE
Confidence 45789999999999999999987 46655554443
No 198
>COG1278 CspC Cold shock proteins [Transcription]
Probab=56.59 E-value=5.1 Score=22.80 Aligned_cols=13 Identities=46% Similarity=0.769 Sum_probs=9.3
Q ss_pred CCccceEEEEECC
Q 032483 8 KAHRGIGFITFAS 20 (139)
Q Consensus 8 g~srG~gFV~F~~ 20 (139)
...||||||+=.+
T Consensus 10 n~~KGfGFI~p~~ 22 (67)
T COG1278 10 NATKGFGFITPED 22 (67)
T ss_pred eCCCcceEcCCCC
Confidence 3578999996443
No 199
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=56.33 E-value=16 Score=20.27 Aligned_cols=29 Identities=17% Similarity=0.237 Sum_probs=21.1
Q ss_pred EECCHHHHHHHHHcCcccCCcEEEEeecC
Q 032483 17 TFASADSVENLMVDTHELGGSTVVVDRAT 45 (139)
Q Consensus 17 ~F~~~~~a~~Ai~~~~~i~gr~i~v~~~~ 45 (139)
+|.+.++...||.......++.+.+....
T Consensus 9 ~F~~~~e~k~av~~yai~~~~~~~v~ksd 37 (67)
T PF03108_consen 9 TFPSKEEFKEAVREYAIKNGFEFKVKKSD 37 (67)
T ss_pred EECCHHHHHHHHHHHHHhcCcEEEEeccC
Confidence 68999999999996555556666665443
No 200
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=54.63 E-value=7.2 Score=30.68 Aligned_cols=35 Identities=11% Similarity=0.134 Sum_probs=29.3
Q ss_pred eEEEEECCHHHHHHHHH-cCcccCCcEEEEeecCCC
Q 032483 13 IGFITFASADSVENLMV-DTHELGGSTVVVDRATPK 47 (139)
Q Consensus 13 ~gFV~F~~~~~a~~Ai~-~~~~i~gr~i~v~~~~~~ 47 (139)
-|.|||.+..+|-+|-. ....|++|.|+|.|..+.
T Consensus 411 ~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnps 446 (526)
T KOG2135|consen 411 HAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNPS 446 (526)
T ss_pred hheeeeeccccccchhccccceecCceeEEEEecCC
Confidence 47999999999966544 678899999999998764
No 201
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=53.71 E-value=14 Score=26.78 Aligned_cols=33 Identities=24% Similarity=0.153 Sum_probs=24.1
Q ss_pred eeEEeCCCCCCCHHHHHHHHhcCcceeEEEEec
Q 032483 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK 135 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~ 135 (139)
-+.|+|||+..+..-|..+....-.+..+.++.
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~~~~~~~~~l~~ 139 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEERDPIRDMVVMV 139 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhcCCCCCeeEEEe
Confidence 578999999999999998886422355555544
No 202
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=51.93 E-value=6.4 Score=22.38 Aligned_cols=22 Identities=14% Similarity=0.430 Sum_probs=16.5
Q ss_pred CCCceeEEeCCCCCCCHHHHHH
Q 032483 99 RIGKKIFVGRLPQEATAEDLRR 120 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~ 120 (139)
..++++|||++|..|-.+.=+.
T Consensus 25 ~tSr~vflG~IP~~W~~~~~~~ 46 (67)
T PF15407_consen 25 LTSRRVFLGPIPEIWLQDHRKS 46 (67)
T ss_pred HcCceEEECCCChHHHHcCcch
Confidence 4578999999998876654333
No 203
>COG5584 Predicted small secreted protein [Function unknown]
Probab=49.51 E-value=17 Score=22.19 Aligned_cols=31 Identities=13% Similarity=0.263 Sum_probs=24.0
Q ss_pred CCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 108 RLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 108 nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
|++.+.--.-+++.|+++|+|+---|...++
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe 59 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPE 59 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEecc
Confidence 5665556677899999999999887776654
No 204
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=47.94 E-value=8.9 Score=30.21 Aligned_cols=34 Identities=26% Similarity=0.403 Sum_probs=24.6
Q ss_pred eeEEeCCCCC-CCHHHHHHHHhcCcceeEEEEecc
Q 032483 103 KIFVGRLPQE-ATAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 103 ~lfV~nL~~~-~t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
.|=+.-.|+. -+.++|..+|.+||.|..|.|-+.
T Consensus 374 ~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~ 408 (526)
T KOG2135|consen 374 PLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS 408 (526)
T ss_pred hhhhhccCCCCchHhhhhhhhhhcCccccccccCc
Confidence 3444444444 356899999999999999987543
No 205
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=46.92 E-value=27 Score=23.10 Aligned_cols=32 Identities=19% Similarity=0.168 Sum_probs=23.0
Q ss_pred eeEEeCCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
-+.|+|+|+..+.+.|..++...-......++
T Consensus 79 d~vi~n~Py~~~~~~i~~~l~~~~~~~~~~l~ 110 (169)
T smart00650 79 YKVVGNLPYNISTPILFKLLEEPPAFRDAVLM 110 (169)
T ss_pred CEEEECCCcccHHHHHHHHHhcCCCcceEEEE
Confidence 46789999999999999998754333444433
No 206
>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=46.59 E-value=37 Score=17.81 Aligned_cols=27 Identities=7% Similarity=0.187 Sum_probs=21.9
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcce
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRI 128 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v 128 (139)
.++|+.+.....+.++|.++...+|.-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 467887777688899999999998763
No 207
>PHA01632 hypothetical protein
Probab=46.29 E-value=23 Score=19.34 Aligned_cols=19 Identities=32% Similarity=0.730 Sum_probs=16.0
Q ss_pred EeCCCCCCCHHHHHHHHhc
Q 032483 106 VGRLPQEATAEDLRRYFSR 124 (139)
Q Consensus 106 V~nL~~~~t~~~L~~~F~~ 124 (139)
|-.+|..-|+++|+.++.+
T Consensus 21 ieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 21 IEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred hhhcCCCCCHHHHHHHHHH
Confidence 4689999999999987763
No 208
>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=45.65 E-value=22 Score=17.47 Aligned_cols=19 Identities=16% Similarity=0.309 Sum_probs=15.8
Q ss_pred CCCHHHHHHHHhcCcceeE
Q 032483 112 EATAEDLRRYFSRFGRILD 130 (139)
Q Consensus 112 ~~t~~~L~~~F~~fG~v~~ 130 (139)
++++++|+..+..+|-+..
T Consensus 3 tWs~~~L~~wL~~~gi~~~ 21 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIPVP 21 (38)
T ss_pred CCCHHHHHHHHHHcCCCCC
Confidence 5899999999999986543
No 209
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=44.52 E-value=31 Score=28.23 Aligned_cols=35 Identities=9% Similarity=0.240 Sum_probs=26.2
Q ss_pred ccceEEEEECCHHHHHHHHHcCccc-----CCcEEEEeec
Q 032483 10 HRGIGFITFASADSVENLMVDTHEL-----GGSTVVVDRA 44 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~~~~i-----~gr~i~v~~~ 44 (139)
=|--|||.|.+.++|-..+.++|-+ +.+-|.+.|.
T Consensus 480 IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 480 IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred hhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 3557999999999998877765432 5577877775
No 210
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=43.98 E-value=24 Score=21.72 Aligned_cols=18 Identities=6% Similarity=0.255 Sum_probs=12.6
Q ss_pred CCCccceEEEEECCHHHHH
Q 032483 7 SKAHRGIGFITFASADSVE 25 (139)
Q Consensus 7 tg~srG~gFV~F~~~~~a~ 25 (139)
.|+|.|||.| |.+.+.+.
T Consensus 62 ~g~s~G~a~I-Yds~e~~k 79 (99)
T PRK01178 62 MGKSKGYAKV-YDDKERAR 79 (99)
T ss_pred CceEEEEEEE-ECCHHHHH
Confidence 4788888888 56665554
No 211
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=42.85 E-value=35 Score=24.32 Aligned_cols=26 Identities=12% Similarity=0.064 Sum_probs=21.6
Q ss_pred eeEEeCCCCCCCHHHHHHHHhcCcce
Q 032483 103 KIFVGRLPQEATAEDLRRYFSRFGRI 128 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~~fG~v 128 (139)
-+.|+|||+.++...|.+++..+|..
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~~~ 121 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPKFR 121 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCCCc
Confidence 37789999999999999999765543
No 212
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=42.19 E-value=15 Score=27.60 Aligned_cols=37 Identities=24% Similarity=0.495 Sum_probs=28.5
Q ss_pred CceeEEeCCCCCCCHHHH-H--HHHhcCcceeEEEEeccC
Q 032483 101 GKKIFVGRLPQEATAEDL-R--RYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L-~--~~F~~fG~v~~~~i~~d~ 137 (139)
..-+||-+|+..+.++.+ + ++|.+||.|..+.+-.+.
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~ 116 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDP 116 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCc
Confidence 457888899987665543 3 489999999999887765
No 213
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=42.03 E-value=51 Score=25.82 Aligned_cols=38 Identities=26% Similarity=0.378 Sum_probs=30.8
Q ss_pred CCCCceeEEeCCCCC-CCHHHHHHHHhcC----cceeEEEEec
Q 032483 98 QRIGKKIFVGRLPQE-ATAEDLRRYFSRF----GRILDVYVPK 135 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~-~t~~~L~~~F~~f----G~v~~~~i~~ 135 (139)
.....+|-|-||.|+ +...+|...|+.| |.|..|.|-.
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iyp 185 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYP 185 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEech
Confidence 445789999999996 8889999999976 7888887743
No 214
>PF00054 Laminin_G_1: Laminin G domain; InterPro: IPR012679 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, which includes a large number of extracellular proteins. The C terminus of laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions has been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each has five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012680 from INTERPRO).; PDB: 1OKQ_A 1DYK_A 2C5D_A 1H30_A 1LHW_A 1KDK_A 1LHU_A 1KDM_A 1LHO_A 1D2S_A ....
Probab=38.59 E-value=7.3 Score=24.75 Aligned_cols=34 Identities=21% Similarity=0.359 Sum_probs=17.4
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcC-cceeEEEEe
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRF-GRILDVYVP 134 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~f-G~v~~~~i~ 134 (139)
...||||++|...........-..| |-|.++.|-
T Consensus 92 ~~~lyvGG~p~~~~~~~~~~~~~~f~GCi~~~~in 126 (131)
T PF00054_consen 92 DGPLYVGGLPSSSSRPRPLPISPGFKGCIRNLSIN 126 (131)
T ss_dssp CSEEEESSSSTTTGCGSSCSCCSB-EEEEEEEEET
T ss_pred ccCEEEccCCchhhcccccccCCCeeEEEEEeEEC
Confidence 4569999999322221111222233 666666653
No 215
>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=37.42 E-value=56 Score=19.15 Aligned_cols=22 Identities=9% Similarity=0.226 Sum_probs=20.2
Q ss_pred CccceEEEEECCHHHHHHHHHc
Q 032483 9 AHRGIGFITFASADSVENLMVD 30 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~ 30 (139)
.-+||=||+=.+.+++.+|++.
T Consensus 42 ~lkGyIyVEA~~~~~V~~ai~g 63 (84)
T PF03439_consen 42 SLKGYIYVEAERESDVKEAIRG 63 (84)
T ss_dssp TSTSEEEEEESSHHHHHHHHTT
T ss_pred CCceEEEEEeCCHHHHHHHHhc
Confidence 4799999999999999999985
No 216
>COG1337 CRISPR system related protein, RAMP superfamily [Defense mechanisms]
Probab=36.12 E-value=26 Score=25.37 Aligned_cols=14 Identities=29% Similarity=0.553 Sum_probs=12.0
Q ss_pred CCccceEEEEECCH
Q 032483 8 KAHRGIGFITFASA 21 (139)
Q Consensus 8 g~srG~gFV~F~~~ 21 (139)
..|||||.|.|...
T Consensus 199 sgSRGyG~Vkf~~~ 212 (249)
T COG1337 199 SGSRGYGKVKFEIG 212 (249)
T ss_pred CCCcceEEEEEEee
Confidence 57899999999875
No 217
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=35.84 E-value=29 Score=28.54 Aligned_cols=37 Identities=14% Similarity=0.142 Sum_probs=31.9
Q ss_pred CCCCceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
.....++||+|+.+.+..+-++.+....|-|.++..+
T Consensus 37 ~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~ 73 (668)
T KOG2253|consen 37 LPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD 73 (668)
T ss_pred CCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh
Confidence 3446799999999999999999999999999887543
No 218
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=32.59 E-value=44 Score=21.73 Aligned_cols=18 Identities=17% Similarity=0.499 Sum_probs=12.1
Q ss_pred CCCccceEEEEECCHHHHH
Q 032483 7 SKAHRGIGFITFASADSVE 25 (139)
Q Consensus 7 tg~srG~gFV~F~~~~~a~ 25 (139)
.|+|.|||.| |.+.+.+.
T Consensus 68 ~g~StG~a~I-Yds~e~~k 85 (132)
T PTZ00071 68 GGKTTGFGLI-YDNLAALK 85 (132)
T ss_pred CceEEEEEEE-ECCHHHHH
Confidence 5788888888 45555443
No 219
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=32.06 E-value=45 Score=21.29 Aligned_cols=19 Identities=21% Similarity=0.499 Sum_probs=13.8
Q ss_pred CCCCccceEEEEECCHHHHH
Q 032483 6 GSKAHRGIGFITFASADSVE 25 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~~~a~ 25 (139)
.+|+|.|||.| |.+.|.|.
T Consensus 65 GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 65 GGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCcccceeeee-eehHHHHH
Confidence 46899999998 55555544
No 220
>PF12631 GTPase_Cys_C: Catalytic cysteine-containing C-terminus of GTPase, MnmE; PDB: 1XZQ_A 1XZP_A 2GJ8_D 3GEH_A 3GEI_B 3GEE_A.
Probab=31.39 E-value=44 Score=18.96 Aligned_cols=14 Identities=36% Similarity=0.463 Sum_probs=10.4
Q ss_pred CCCHHHHHHHHhcC
Q 032483 112 EATAEDLRRYFSRF 125 (139)
Q Consensus 112 ~~t~~~L~~~F~~f 125 (139)
..+++-|..+|+.|
T Consensus 59 ~~~ediLd~IFs~F 72 (73)
T PF12631_consen 59 VVTEDILDNIFSNF 72 (73)
T ss_dssp S--HHHHHHHHCTS
T ss_pred CChHHHHHHHHHhh
Confidence 56888899999987
No 221
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=30.88 E-value=1.5e+02 Score=22.21 Aligned_cols=28 Identities=14% Similarity=0.208 Sum_probs=22.4
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHhcCc
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFSRFG 126 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~~fG 126 (139)
....-||++||+.++.-.+|+..+.+-|
T Consensus 328 ~~~~di~~~nl~rd~rv~dlk~~lr~~~ 355 (396)
T KOG4410|consen 328 GAKTDIKLTNLSRDIRVKDLKSELRKRE 355 (396)
T ss_pred ccccceeeccCccccchHHHHHHHHhcC
Confidence 3346699999999999999988776554
No 222
>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=30.06 E-value=46 Score=21.02 Aligned_cols=34 Identities=18% Similarity=0.146 Sum_probs=17.3
Q ss_pred ceeEEeCCCCCC---------CHHHHHHHHhcCcceeEEEEecc
Q 032483 102 KKIFVGRLPQEA---------TAEDLRRYFSRFGRILDVYVPKV 136 (139)
Q Consensus 102 ~~lfV~nL~~~~---------t~~~L~~~F~~fG~v~~~~i~~d 136 (139)
+.+.|-|++... +.+.|++.|+.|.++. ++.+.+
T Consensus 9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~ 51 (116)
T PF03468_consen 9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYG 51 (116)
T ss_dssp -EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEE
T ss_pred CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcC
Confidence 466777776543 5578999999998875 554444
No 223
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=29.02 E-value=1.1e+02 Score=18.34 Aligned_cols=32 Identities=13% Similarity=0.321 Sum_probs=24.8
Q ss_pred eeEEeCCCCCCCHHHHHHHHhc-Cc-ceeEEEEe
Q 032483 103 KIFVGRLPQEATAEDLRRYFSR-FG-RILDVYVP 134 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~~-fG-~v~~~~i~ 134 (139)
+-|+--++..+|..++++.++. || .|.+|+.+
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~ 54 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTM 54 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEe
Confidence 5677788999999999999987 55 56666544
No 224
>smart00357 CSP Cold shock protein domain. RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Probab=28.31 E-value=41 Score=17.78 Aligned_cols=12 Identities=33% Similarity=0.717 Sum_probs=9.0
Q ss_pred ccceEEEEECCH
Q 032483 10 HRGIGFITFASA 21 (139)
Q Consensus 10 srG~gFV~F~~~ 21 (139)
++|||||...+.
T Consensus 8 ~~g~gfv~~~~~ 19 (64)
T smart00357 8 NKGFGFIRPDDG 19 (64)
T ss_pred cCCeeEEecCCC
Confidence 379999987653
No 225
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=28.30 E-value=69 Score=23.95 Aligned_cols=23 Identities=9% Similarity=0.397 Sum_probs=18.7
Q ss_pred HHHHHHHHhcCcceeEEEEeccC
Q 032483 115 AEDLRRYFSRFGRILDVYVPKVR 137 (139)
Q Consensus 115 ~~~L~~~F~~fG~v~~~~i~~d~ 137 (139)
++++++..++||.|..|.|.-++
T Consensus 300 ede~keEceKyg~V~~viifeip 322 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIP 322 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecC
Confidence 35678889999999999887664
No 226
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.10 E-value=40 Score=23.79 Aligned_cols=16 Identities=31% Similarity=0.355 Sum_probs=12.9
Q ss_pred CCCCccceEEEEECCH
Q 032483 6 GSKAHRGIGFITFASA 21 (139)
Q Consensus 6 ~tg~srG~gFV~F~~~ 21 (139)
.+..+|-|+||+|.+-
T Consensus 104 ~~~~~RPY~FieFD~~ 119 (216)
T KOG0862|consen 104 IQPASRPYAFIEFDTF 119 (216)
T ss_pred CCccCCCeeEEehhHH
Confidence 3457899999999874
No 227
>KOG0291 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]
Probab=27.76 E-value=34 Score=28.80 Aligned_cols=20 Identities=25% Similarity=0.378 Sum_probs=17.5
Q ss_pred ccceEEEEECCHHHHHHHHH
Q 032483 10 HRGIGFITFASADSVENLMV 29 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~ 29 (139)
..|||||+|.++.++-.|+.
T Consensus 380 ~SgfC~vTFteHts~Vt~v~ 399 (893)
T KOG0291|consen 380 QSGFCFVTFTEHTSGVTAVQ 399 (893)
T ss_pred cCceEEEEeccCCCceEEEE
Confidence 46999999999999888776
No 228
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=27.26 E-value=1e+02 Score=23.14 Aligned_cols=43 Identities=14% Similarity=0.191 Sum_probs=30.9
Q ss_pred CCCCCccceEEEEECCHHHHHHHHHc-CcccCCcE-EEEeecCCC
Q 032483 5 QGSKAHRGIGFITFASADSVENLMVD-THELGGST-VVVDRATPK 47 (139)
Q Consensus 5 ~~tg~srG~gFV~F~~~~~a~~Ai~~-~~~i~gr~-i~v~~~~~~ 47 (139)
-.+++.--+=.|.|.+.-+|++||.. +..|+|-. |=|+.+..+
T Consensus 226 hv~~~ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtDk 270 (350)
T KOG4285|consen 226 HVTPSNGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTDK 270 (350)
T ss_pred eecCCCCceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCCH
Confidence 34554455899999999999999994 67777744 456665443
No 229
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=27.20 E-value=59 Score=19.21 Aligned_cols=19 Identities=21% Similarity=0.427 Sum_probs=12.7
Q ss_pred CCCccceEEEEECCHHHHHH
Q 032483 7 SKAHRGIGFITFASADSVEN 26 (139)
Q Consensus 7 tg~srG~gFV~F~~~~~a~~ 26 (139)
.++|.|||.| |.+.+.+.+
T Consensus 44 ~~~s~g~a~I-Yd~~e~~kk 62 (84)
T PF01282_consen 44 GGKSTGFAKI-YDSAEALKK 62 (84)
T ss_dssp SSEEEEEEEE-ESSHHHHHH
T ss_pred CceEEEEEEE-eCCHHHHHH
Confidence 4678888888 555555543
No 230
>PF14893 PNMA: PNMA
Probab=26.99 E-value=58 Score=24.67 Aligned_cols=24 Identities=8% Similarity=0.321 Sum_probs=20.1
Q ss_pred CCceeEEeCCCCCCCHHHHHHHHh
Q 032483 100 IGKKIFVGRLPQEATAEDLRRYFS 123 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~~~L~~~F~ 123 (139)
.-+.|.|.+||.+++++++.+...
T Consensus 17 ~~r~lLv~giP~dc~~~ei~e~l~ 40 (331)
T PF14893_consen 17 PQRALLVLGIPEDCEEAEIEEALQ 40 (331)
T ss_pred hhhhheeecCCCCCCHHHHHHHHH
Confidence 357899999999999988877654
No 231
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=26.18 E-value=1e+02 Score=26.08 Aligned_cols=36 Identities=17% Similarity=0.134 Sum_probs=25.8
Q ss_pred CccceEEEEECCHHHHHHHHHcCcccCCcEEEEeec
Q 032483 9 AHRGIGFITFASADSVENLMVDTHELGGSTVVVDRA 44 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~~~~i~gr~i~v~~~ 44 (139)
+-.+.|||+|.+...|+.|.+..+..+-..+.+.+|
T Consensus 303 ~~~~~aFVtf~sr~~A~~~aq~~~~~~~~~w~~~~A 338 (728)
T KOG1134|consen 303 KPLPAAFVTFKSRYGAAVAAQTQQSLNPTKWLTEFA 338 (728)
T ss_pred CCCceEEEEEEeeHHHHHHHHhhhcCCCCceEEEec
Confidence 456899999999999999988543333344455554
No 232
>smart00457 MACPF membrane-attack complex / perforin.
Probab=26.03 E-value=34 Score=23.34 Aligned_cols=22 Identities=18% Similarity=0.549 Sum_probs=19.5
Q ss_pred EeCCCCCCCHHHHHHHHhcCcc
Q 032483 106 VGRLPQEATAEDLRRYFSRFGR 127 (139)
Q Consensus 106 V~nL~~~~t~~~L~~~F~~fG~ 127 (139)
+..||...+..+...+|..||.
T Consensus 30 l~~Lp~~~~~~~~~~fi~~yGT 51 (194)
T smart00457 30 LRDLPDQYNRGAYARFIDKYGT 51 (194)
T ss_pred HHhCccccCHHHHHHHHHHhCC
Confidence 4689999999999999999995
No 233
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=25.76 E-value=33 Score=29.28 Aligned_cols=37 Identities=14% Similarity=0.159 Sum_probs=31.4
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhcCcceeEEEEeccCC
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
.+.++-|.+-..+...|..+|++||.|.++...+|.+
T Consensus 299 p~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N 335 (1007)
T KOG4574|consen 299 PKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLN 335 (1007)
T ss_pred chhhhhcccccchHHHHHHHHHhhcchhhheeccccc
Confidence 3566777888889999999999999999999887754
No 234
>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=25.64 E-value=94 Score=21.36 Aligned_cols=32 Identities=16% Similarity=0.095 Sum_probs=23.0
Q ss_pred EEEEECCHHHHHHHHHc----CcccCCcEEEEeecC
Q 032483 14 GFITFASADSVENLMVD----THELGGSTVVVDRAT 45 (139)
Q Consensus 14 gFV~F~~~~~a~~Ai~~----~~~i~gr~i~v~~~~ 45 (139)
..|.|.+.+.|.+|... ...+.|..+.|-++.
T Consensus 34 i~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~ 69 (184)
T PF04847_consen 34 IRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ 69 (184)
T ss_dssp EEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred EEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence 57899999999999884 457899999998774
No 235
>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=25.59 E-value=49 Score=18.52 Aligned_cols=16 Identities=31% Similarity=0.629 Sum_probs=9.4
Q ss_pred HHHHHHHhcCcceeEE
Q 032483 116 EDLRRYFSRFGRILDV 131 (139)
Q Consensus 116 ~~L~~~F~~fG~v~~~ 131 (139)
=|+.+++.+||.+.++
T Consensus 5 yDVqQLLK~fG~~IY~ 20 (62)
T PF06014_consen 5 YDVQQLLKKFGIIIYV 20 (62)
T ss_dssp HHHHHHHHTTS-----
T ss_pred HHHHHHHHHCCEEEEe
Confidence 3788999999998775
No 236
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=25.27 E-value=1.6e+02 Score=17.64 Aligned_cols=33 Identities=18% Similarity=0.382 Sum_probs=25.3
Q ss_pred ceeEEeCCCCCCCHHHHHHHHhc-Cc-ceeEEEEe
Q 032483 102 KKIFVGRLPQEATAEDLRRYFSR-FG-RILDVYVP 134 (139)
Q Consensus 102 ~~lfV~nL~~~~t~~~L~~~F~~-fG-~v~~~~i~ 134 (139)
.+-|+--++..+|..++++.|+. || .|.+|+.+
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~ 54 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTL 54 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEE
Confidence 35677788899999999999987 65 56666544
No 237
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=25.03 E-value=95 Score=19.27 Aligned_cols=22 Identities=36% Similarity=0.729 Sum_probs=15.3
Q ss_pred CCCceeEEeCCCCCCCHHHHHHHHh
Q 032483 99 RIGKKIFVGRLPQEATAEDLRRYFS 123 (139)
Q Consensus 99 ~~~~~lfV~nL~~~~t~~~L~~~F~ 123 (139)
..++.++++.|| |++++.++..
T Consensus 62 keg~~i~~g~lP---t~~eVe~Fl~ 83 (105)
T PF09702_consen 62 KEGNYIIVGYLP---TDEEVEDFLD 83 (105)
T ss_pred CCCCEEecCCCC---ChHHHHHHHH
Confidence 446899999999 5555555443
No 238
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=24.00 E-value=57 Score=26.67 Aligned_cols=39 Identities=26% Similarity=0.469 Sum_probs=29.8
Q ss_pred CCceeEEeCCCCCCCH------HHHHHHHhcCcceeEEEEeccCC
Q 032483 100 IGKKIFVGRLPQEATA------EDLRRYFSRFGRILDVYVPKVRQ 138 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~------~~L~~~F~~fG~v~~~~i~~d~~ 138 (139)
-...|+|-|+|---.. .-|..+|+++|+|+...++.|..
T Consensus 57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ 101 (698)
T KOG2314|consen 57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE 101 (698)
T ss_pred cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc
Confidence 3568999999953221 34678999999999999988764
No 239
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=23.64 E-value=58 Score=27.73 Aligned_cols=38 Identities=21% Similarity=0.475 Sum_probs=28.2
Q ss_pred CCCCceeEEeCCCCC-CCHHHHHHHHhcC--cceeEEEEec
Q 032483 98 QRIGKKIFVGRLPQE-ATAEDLRRYFSRF--GRILDVYVPK 135 (139)
Q Consensus 98 ~~~~~~lfV~nL~~~-~t~~~L~~~F~~f--G~v~~~~i~~ 135 (139)
..++++++|..||.+ .++++|.++|.+- |+|.+-.|.+
T Consensus 205 ~~ssRTvlis~LP~~~~~~e~L~~~~~kl~~~~i~~~~l~~ 245 (827)
T COG5594 205 NLSSRTVLISGLPSELRSDEELKELFDKLKVGEIDSDVLCR 245 (827)
T ss_pred CCCCceEEeecCChhhcCchhHHHHHhhcCeeeeccchhhh
Confidence 457899999999987 5678899999975 4444444443
No 240
>PHA02508 putative minor coat protein; Provisional
Probab=23.33 E-value=77 Score=19.28 Aligned_cols=19 Identities=26% Similarity=0.527 Sum_probs=15.8
Q ss_pred cceEEEEECCHHHHHHHHH
Q 032483 11 RGIGFITFASADSVENLMV 29 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~ 29 (139)
-|++||+|.-.+.+...+.
T Consensus 24 LGigfVTY~Gl~~l~~~~~ 42 (93)
T PHA02508 24 LGIGIFTYVGLDAAVDAAL 42 (93)
T ss_pred hCccceeeecHHHHHHHHH
Confidence 4899999999888877655
No 241
>PF12385 Peptidase_C70: Papain-like cysteine protease AvrRpt2; InterPro: IPR022118 This is a family of cysteine proteases, found in actinobacteria, protobacteria and firmicutes. Papain-like cysteine proteases play a crucial role in plant-pathogen/pest interactions. On entering the host they act on non-self substrates, thereby manipulating the host to evade proteolysis []. AvrRpt2 from Pseudomonas syringae pv tomato DC3000 triggers resistance to P. syringae-2-dependent defence responses, including hypersensitive cell death, by cleaving the Arabidopsis RIN4 protein which is monitored by the cognate resistance protein RPS2 [].
Probab=23.04 E-value=81 Score=21.29 Aligned_cols=23 Identities=26% Similarity=0.395 Sum_probs=18.9
Q ss_pred CCC--CCCHHHHHHHHhcCcceeEE
Q 032483 109 LPQ--EATAEDLRRYFSRFGRILDV 131 (139)
Q Consensus 109 L~~--~~t~~~L~~~F~~fG~v~~~ 131 (139)
+|. ..+.+.|+.++..||+|--.
T Consensus 90 ~P~~~~~t~e~~~~LL~~yGPLwv~ 114 (166)
T PF12385_consen 90 EPANASYTAEGLANLLREYGPLWVA 114 (166)
T ss_pred CCcccccCHHHHHHHHHHcCCeEEE
Confidence 444 67899999999999998654
No 242
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=22.76 E-value=69 Score=16.53 Aligned_cols=16 Identities=19% Similarity=0.451 Sum_probs=13.1
Q ss_pred CCCHHHHHHHHhcCcc
Q 032483 112 EATAEDLRRYFSRFGR 127 (139)
Q Consensus 112 ~~t~~~L~~~F~~fG~ 127 (139)
..++++|+....+||.
T Consensus 5 ~LSd~eL~~~L~~~G~ 20 (44)
T smart00540 5 RLSDAELRAELKQYGL 20 (44)
T ss_pred HcCHHHHHHHHHHcCC
Confidence 4688999999998863
No 243
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=22.71 E-value=1e+02 Score=18.42 Aligned_cols=23 Identities=13% Similarity=0.231 Sum_probs=16.6
Q ss_pred CceeEEeCCCCCCCHHHHHHHHh
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFS 123 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~ 123 (139)
..-+||++++..+-|.-...+.+
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~ 47 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTE 47 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHh
Confidence 45699999998887765555544
No 244
>COG3411 Ferredoxin [Energy production and conversion]
Probab=22.70 E-value=64 Score=18.15 Aligned_cols=21 Identities=24% Similarity=0.463 Sum_probs=13.6
Q ss_pred CHHHHHHHHHcCcccCCcEEEE
Q 032483 20 SADSVENLMVDTHELGGSTVVV 41 (139)
Q Consensus 20 ~~~~a~~Ai~~~~~i~gr~i~v 41 (139)
++++|++.++ .|.+.|++++-
T Consensus 33 ~p~~a~rIv~-~hl~~Gr~Ve~ 53 (64)
T COG3411 33 DPEDARRIVQ-SHLLGGRPVEE 53 (64)
T ss_pred CHHHHHHHHH-HHHhCCCcchh
Confidence 5777776654 36677777643
No 245
>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=22.48 E-value=51 Score=21.02 Aligned_cols=16 Identities=31% Similarity=0.478 Sum_probs=14.1
Q ss_pred CCCCCCHHHHHHHHhc
Q 032483 109 LPQEATAEDLRRYFSR 124 (139)
Q Consensus 109 L~~~~t~~~L~~~F~~ 124 (139)
-|+++|..+|+++|+.
T Consensus 82 ~PYTlT~~e~r~iF~E 97 (145)
T TIGR02542 82 PPYTLTYNELRQIFRE 97 (145)
T ss_pred CceeeeHHHHHHHHhh
Confidence 4788999999999985
No 246
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.37 E-value=87 Score=17.54 Aligned_cols=30 Identities=20% Similarity=0.179 Sum_probs=21.8
Q ss_pred eEEeCCCCCCCHHHHHHHHhcCcceeEEEE
Q 032483 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYV 133 (139)
Q Consensus 104 lfV~nL~~~~t~~~L~~~F~~fG~v~~~~i 133 (139)
.+.-++|+.++-++|++.|..++.-..+.+
T Consensus 42 ~~~v~~p~~~~~~~l~~~l~~l~~~l~l~i 71 (75)
T cd04870 42 GILVQIPDSADSEALLKDLLFKAHELGLQV 71 (75)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHcCceE
Confidence 344578998899999999988775444443
No 247
>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=22.29 E-value=1.2e+02 Score=16.96 Aligned_cols=18 Identities=22% Similarity=0.145 Sum_probs=15.4
Q ss_pred ceEEEEECCHHHHHHHHH
Q 032483 12 GIGFITFASADSVENLMV 29 (139)
Q Consensus 12 G~gFV~F~~~~~a~~Ai~ 29 (139)
.+++|+|.+..+|-+|-+
T Consensus 2 ~~~~i~F~st~~a~~~ek 19 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEK 19 (73)
T ss_pred ceEEEEECCHHHHHHHHH
Confidence 478999999999988765
No 248
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=22.06 E-value=99 Score=22.14 Aligned_cols=21 Identities=14% Similarity=0.197 Sum_probs=17.4
Q ss_pred eeEEeCCCCCCCHHHHHHHHh
Q 032483 103 KIFVGRLPQEATAEDLRRYFS 123 (139)
Q Consensus 103 ~lfV~nL~~~~t~~~L~~~F~ 123 (139)
-+.|+|||+.++.+.+..++.
T Consensus 93 d~Vv~NlPy~i~s~~~~~l~~ 113 (258)
T PRK14896 93 NKVVSNLPYQISSPITFKLLK 113 (258)
T ss_pred eEEEEcCCcccCcHHHHHHHh
Confidence 478999999998777887765
No 249
>COG2004 RPS24A Ribosomal protein S24E [Translation, ribosomal structure and biogenesis]
Probab=22.00 E-value=1e+02 Score=19.24 Aligned_cols=18 Identities=17% Similarity=0.351 Sum_probs=12.7
Q ss_pred CCCccceEEEEECCHHHHH
Q 032483 7 SKAHRGIGFITFASADSVE 25 (139)
Q Consensus 7 tg~srG~gFV~F~~~~~a~ 25 (139)
.|+|+||+-| |.+.+.+.
T Consensus 63 ~~~s~g~akI-Y~s~e~~~ 80 (107)
T COG2004 63 KGRSKGYAKI-YDSVERAK 80 (107)
T ss_pred CcceeEEEEE-ECCHHHHH
Confidence 4788888888 56666554
No 250
>PF02210 Laminin_G_2: Laminin G domain; InterPro: IPR012680 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, including a large number of extracellular proteins. The C terminus of the laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions have been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each have five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012679 from INTERPRO).; PDB: 3POY_A 3QCW_B 3R05_B 3ASI_A 3MW4_B 3MW3_A 1QU0_D 1DYK_A 1OKQ_A 3SH4_A ....
Probab=21.82 E-value=38 Score=20.54 Aligned_cols=33 Identities=24% Similarity=0.415 Sum_probs=20.6
Q ss_pred CCceeEEeCCCCCCCHHHHHHHHhcC-cceeEEEE
Q 032483 100 IGKKIFVGRLPQEATAEDLRRYFSRF-GRILDVYV 133 (139)
Q Consensus 100 ~~~~lfV~nL~~~~t~~~L~~~F~~f-G~v~~~~i 133 (139)
....||||++|.......+.. ...| |.|..+.|
T Consensus 92 ~~~~l~iGg~~~~~~~~~~~~-~~~f~Gci~~l~v 125 (128)
T PF02210_consen 92 PDGSLYIGGLPESNQPSGSVD-TPGFVGCIRDLRV 125 (128)
T ss_dssp SEEEEEESSTTTTCTCTTSST-TSB-EEEEEEEEE
T ss_pred CCCCEEEecccCccccccccC-CCCcEEEcCeEEE
Confidence 356799999998755443333 3344 77777765
No 251
>PRK12448 dihydroxy-acid dehydratase; Provisional
Probab=21.21 E-value=2e+02 Score=23.90 Aligned_cols=39 Identities=23% Similarity=0.324 Sum_probs=31.2
Q ss_pred CccceEEEEECCHHHHHHHHHcCcccCCcEEEEeecCCCC
Q 032483 9 AHRGIGFITFASADSVENLMVDTHELGGSTVVVDRATPKE 48 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~~~~i~gr~i~v~~~~~~~ 48 (139)
+.+|=| +.|.++++|.+||.++..-.|-.|.|++.-|+.
T Consensus 446 ~~~GpA-~VFdsee~a~~ai~~g~I~~gdVvVIRyeGPkG 484 (615)
T PRK12448 446 KFTGPA-RVFESQDDAVEAILGGKVKAGDVVVIRYEGPKG 484 (615)
T ss_pred EEEEeE-EEECCHHHHHHHHhcCCCCCCeEEEEeCCCCCC
Confidence 345655 459999999999998776788888999888775
No 252
>PF09585 Lin0512_fam: Conserved hypothetical protein (Lin0512_fam); InterPro: IPR011719 This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N terminus.
Probab=21.16 E-value=1.1e+02 Score=19.36 Aligned_cols=25 Identities=24% Similarity=0.484 Sum_probs=18.5
Q ss_pred CCCCCCCHHHHHHHHhcCcceeEEEEe
Q 032483 108 RLPQEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 108 nL~~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
.-|..++.+.|++.| +||+ ..++++
T Consensus 58 p~pe~vD~e~v~~~~-PyG~-~~v~vv 82 (113)
T PF09585_consen 58 PRPEKVDIEAVKAVF-PYGQ-VTVEVV 82 (113)
T ss_pred CCccccCHHHHHHhC-CCCC-ceEEEE
Confidence 345678999999997 7888 555554
No 253
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=21.12 E-value=2e+02 Score=23.41 Aligned_cols=39 Identities=21% Similarity=0.304 Sum_probs=32.3
Q ss_pred CccceEEEEECCHHHHHHHHHcCcccCCcEEEEeecCCCC
Q 032483 9 AHRGIGFITFASADSVENLMVDTHELGGSTVVVDRATPKE 48 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~Ai~~~~~i~gr~i~v~~~~~~~ 48 (139)
+.+|-|.| |.++++|.+||.+...-.|-.|-|++.-|+.
T Consensus 381 ~~~G~A~V-F~see~a~~ai~~g~i~~gdVvViRyeGPkG 419 (535)
T TIGR00110 381 KFEGPAKV-FESEEEALEAILGGKIKEGDVVVIRYEGPKG 419 (535)
T ss_pred EEEEeEEE-ECCHHHHHHHHhcCCCCCCeEEEEeCCCCCC
Confidence 45676655 9999999999998777788889999888874
No 254
>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=20.93 E-value=60 Score=22.03 Aligned_cols=28 Identities=25% Similarity=0.560 Sum_probs=20.0
Q ss_pred EeCCCCCCCHHH---HHHHHhcCcceeEEEE
Q 032483 106 VGRLPQEATAED---LRRYFSRFGRILDVYV 133 (139)
Q Consensus 106 V~nL~~~~t~~~---L~~~F~~fG~v~~~~i 133 (139)
|..||...+..+ +.++|..||.-.-..+
T Consensus 53 l~~L~~~~~~~~~~~y~~f~~~yGTH~v~~~ 83 (212)
T PF01823_consen 53 LNALPAEYNSDNTDEYYRFFDKYGTHYVTSV 83 (212)
T ss_dssp HHTSHSS--HHHHHHHHHHHHHH-SEEEEEE
T ss_pred HHhhCcccCccchHHHHHHHHHhCcEEEEEE
Confidence 678999988888 7889999997665544
No 255
>PF13319 DUF4090: Protein of unknown function (DUF4090)
Probab=20.77 E-value=60 Score=18.99 Aligned_cols=20 Identities=25% Similarity=0.476 Sum_probs=16.2
Q ss_pred HHHHHHHHHcCcccCCcEEE
Q 032483 21 ADSVENLMVDTHELGGSTVV 40 (139)
Q Consensus 21 ~~~a~~Ai~~~~~i~gr~i~ 40 (139)
++..+.||+++..++|.+|-
T Consensus 2 ~daiD~AI~~GiDlDGspIP 21 (84)
T PF13319_consen 2 ADAIDAAIAAGIDLDGSPIP 21 (84)
T ss_pred ccHHHHHHHhCcCCCCCcCC
Confidence 35678899999999998873
No 256
>PF13300 DUF4078: Domain of unknown function (DUF4078)
Probab=20.54 E-value=47 Score=19.96 Aligned_cols=18 Identities=22% Similarity=0.610 Sum_probs=13.8
Q ss_pred CccceEEEEECCHHHHHH
Q 032483 9 AHRGIGFITFASADSVEN 26 (139)
Q Consensus 9 ~srG~gFV~F~~~~~a~~ 26 (139)
+.+|.||..|+..+...+
T Consensus 29 R~~Gvgfy~FS~Dee~R~ 46 (88)
T PF13300_consen 29 RTHGVGFYAFSKDEEERQ 46 (88)
T ss_pred HHHcceeeecCCCHHHHH
Confidence 568999999998665443
No 257
>TIGR02058 lin0512_fam conserved hypothetical protein. This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N-terminus.
Probab=20.52 E-value=1.1e+02 Score=19.43 Aligned_cols=22 Identities=14% Similarity=0.377 Sum_probs=17.1
Q ss_pred CCCCHHHHHHHHhcCcceeEEEEe
Q 032483 111 QEATAEDLRRYFSRFGRILDVYVP 134 (139)
Q Consensus 111 ~~~t~~~L~~~F~~fG~v~~~~i~ 134 (139)
..++.+.+++.| +||++. +.++
T Consensus 63 e~vD~e~v~~~~-PyG~~~-v~vv 84 (116)
T TIGR02058 63 DQLDEDKVKAII-PYGTVT-VEVE 84 (116)
T ss_pred HhcCHHHHHHhC-CCCeeE-EEEE
Confidence 458899999987 799984 6654
No 258
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=20.49 E-value=1.3e+02 Score=19.83 Aligned_cols=21 Identities=19% Similarity=0.262 Sum_probs=18.7
Q ss_pred ccceEEEEECCHHHHHHHHHc
Q 032483 10 HRGIGFITFASADSVENLMVD 30 (139)
Q Consensus 10 srG~gFV~F~~~~~a~~Ai~~ 30 (139)
-+||-||+....+++..+|..
T Consensus 45 fpGYVfVe~~~~~~~~~~i~~ 65 (153)
T PRK08559 45 LKGYVLVEAESKGAVEEAIRG 65 (153)
T ss_pred CCcEEEEEEEChHHHHHHHhc
Confidence 589999999988999999975
No 259
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=20.33 E-value=82 Score=26.88 Aligned_cols=20 Identities=35% Similarity=0.395 Sum_probs=17.3
Q ss_pred cceEEEEECCHHHHHHHHHc
Q 032483 11 RGIGFITFASADSVENLMVD 30 (139)
Q Consensus 11 rG~gFV~F~~~~~a~~Ai~~ 30 (139)
-+.|||+|++...|+.|-+.
T Consensus 357 ~~~~FItFkSq~~Aq~~aQ~ 376 (827)
T COG5594 357 TKSGFITFKSQASAQIAAQS 376 (827)
T ss_pred cccEEEEEehhHHHHHHHHh
Confidence 56899999999999988764
No 260
>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=20.33 E-value=1.1e+02 Score=15.52 Aligned_cols=18 Identities=17% Similarity=0.556 Sum_probs=14.1
Q ss_pred eCCCCCCCHHHHHHHHhc
Q 032483 107 GRLPQEATAEDLRRYFSR 124 (139)
Q Consensus 107 ~nL~~~~t~~~L~~~F~~ 124 (139)
-+|+..++.++|+.-|..
T Consensus 6 Lgl~~~~~~~~ik~~y~~ 23 (55)
T cd06257 6 LGVPPDASDEEIKKAYRK 23 (55)
T ss_pred cCCCCCCCHHHHHHHHHH
Confidence 467888999999887753
No 261
>PF15063 TC1: Thyroid cancer protein 1
Probab=20.16 E-value=67 Score=18.74 Aligned_cols=28 Identities=18% Similarity=0.332 Sum_probs=22.1
Q ss_pred CceeEEeCCCCCCCHHHHHHHHhcCcce
Q 032483 101 GKKIFVGRLPQEATAEDLRRYFSRFGRI 128 (139)
Q Consensus 101 ~~~lfV~nL~~~~t~~~L~~~F~~fG~v 128 (139)
.+|-=+.||=.+++...|..+|..-|..
T Consensus 25 ~RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 25 SRKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred HhhhhhhhhhhccCHHHHHHHHHHccch
Confidence 4455567777889999999999988753
Done!