Query 041602
Match_columns 223
No_of_seqs 258 out of 2536
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 08:52:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041602.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041602hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0107 Alternative splicing f 99.9 2.1E-22 4.6E-27 162.1 16.4 109 1-110 10-122 (195)
2 PLN03134 glycine-rich RNA-bind 99.7 4.3E-16 9.4E-21 124.2 13.6 73 2-74 35-114 (144)
3 KOG4207 Predicted splicing fac 99.6 2.6E-15 5.7E-20 124.2 12.6 70 1-70 13-91 (256)
4 KOG0113 U1 small nuclear ribon 99.6 9.6E-14 2.1E-18 120.2 15.7 74 2-75 102-182 (335)
5 KOG0109 RNA-binding protein LA 99.5 8E-15 1.7E-19 126.6 6.8 100 2-110 79-182 (346)
6 PF00076 RRM_1: RNA recognitio 99.5 6.1E-14 1.3E-18 96.3 8.0 59 4-62 1-63 (70)
7 TIGR01659 sex-lethal sex-letha 99.5 5.1E-13 1.1E-17 120.5 15.7 73 2-74 194-275 (346)
8 KOG0105 Alternative splicing f 99.5 1.4E-13 3.1E-18 112.3 9.3 70 2-71 7-80 (241)
9 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 2.9E-13 6.3E-18 121.1 11.1 72 3-74 271-349 (352)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 2.3E-13 4.9E-18 121.7 9.9 71 2-72 4-81 (352)
11 TIGR01659 sex-lethal sex-letha 99.5 2.3E-13 5.1E-18 122.7 10.0 70 2-71 108-184 (346)
12 KOG0121 Nuclear cap-binding pr 99.5 2E-13 4.2E-18 105.5 7.5 75 2-76 37-120 (153)
13 TIGR01648 hnRNP-R-Q heterogene 99.4 2.6E-12 5.7E-17 122.3 15.5 70 2-74 234-307 (578)
14 PLN03120 nucleic acid binding 99.4 1.1E-12 2.4E-17 113.1 10.4 72 1-73 4-79 (260)
15 KOG0125 Ataxin 2-binding prote 99.4 5.1E-13 1.1E-17 117.0 7.5 72 2-73 97-173 (376)
16 KOG0149 Predicted RNA-binding 99.4 6E-13 1.3E-17 112.0 6.9 72 1-72 12-89 (247)
17 PF14259 RRM_6: RNA recognitio 99.4 3.5E-12 7.6E-17 88.3 8.0 63 4-66 1-69 (70)
18 smart00362 RRM_2 RNA recogniti 99.3 1.2E-11 2.6E-16 83.6 9.2 66 3-68 1-71 (72)
19 KOG0148 Apoptosis-promoting RN 99.3 5E-12 1.1E-16 108.5 8.7 72 2-74 165-238 (321)
20 PLN03213 repressor of silencin 99.3 6.9E-12 1.5E-16 115.1 9.3 71 2-72 11-86 (759)
21 KOG0122 Translation initiation 99.3 8.2E-12 1.8E-16 105.7 8.8 71 1-71 189-268 (270)
22 TIGR01645 half-pint poly-U bin 99.3 8.5E-12 1.8E-16 119.3 9.4 71 1-71 107-184 (612)
23 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.3 1.4E-11 3.1E-16 115.6 10.7 72 2-73 276-350 (481)
24 TIGR01628 PABP-1234 polyadenyl 99.3 1.9E-11 4.1E-16 116.4 10.3 71 2-72 1-78 (562)
25 PLN03121 nucleic acid binding 99.3 2.8E-11 6E-16 103.1 9.7 69 2-71 6-78 (243)
26 TIGR01648 hnRNP-R-Q heterogene 99.3 1.6E-11 3.5E-16 116.9 9.0 61 2-62 59-123 (578)
27 TIGR01645 half-pint poly-U bin 99.3 2.7E-11 5.8E-16 115.9 10.1 72 2-73 205-283 (612)
28 KOG0109 RNA-binding protein LA 99.2 1.1E-11 2.3E-16 107.3 6.3 70 1-73 2-73 (346)
29 TIGR01642 U2AF_lg U2 snRNP aux 99.2 4.5E-11 9.7E-16 112.1 10.6 72 2-73 296-374 (509)
30 TIGR01622 SF-CC1 splicing fact 99.2 4.2E-11 9.1E-16 111.0 9.9 71 2-72 187-264 (457)
31 KOG0117 Heterogeneous nuclear 99.2 2.4E-11 5.2E-16 110.2 7.6 69 1-72 259-329 (506)
32 cd00590 RRM RRM (RNA recogniti 99.2 1.3E-10 2.8E-15 78.9 9.6 67 3-69 1-73 (74)
33 KOG0130 RNA-binding protein RB 99.2 3.1E-11 6.7E-16 94.2 7.2 73 3-75 74-153 (170)
34 TIGR01628 PABP-1234 polyadenyl 99.2 6.6E-11 1.4E-15 112.7 10.3 72 2-73 286-363 (562)
35 KOG0114 Predicted RNA-binding 99.2 1.7E-10 3.7E-15 86.2 8.4 60 3-62 20-81 (124)
36 TIGR01622 SF-CC1 splicing fact 99.2 1.5E-10 3.3E-15 107.3 10.0 68 2-70 90-164 (457)
37 smart00360 RRM RNA recognition 99.2 2.3E-10 5E-15 76.8 8.1 63 6-68 1-70 (71)
38 KOG0117 Heterogeneous nuclear 99.1 1.3E-10 2.8E-15 105.5 8.5 61 2-62 84-149 (506)
39 COG0724 RNA-binding proteins ( 99.1 2.4E-10 5.3E-15 95.3 9.6 71 2-72 116-193 (306)
40 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.1 2.4E-10 5.3E-15 107.3 10.6 71 2-72 97-172 (481)
41 KOG0144 RNA-binding protein CU 99.1 4.9E-11 1.1E-15 107.9 5.3 71 3-73 126-207 (510)
42 KOG0111 Cyclophilin-type pepti 99.1 8.8E-11 1.9E-15 98.4 4.4 73 2-74 11-90 (298)
43 KOG0131 Splicing factor 3b, su 99.1 1.9E-10 4E-15 93.8 5.9 71 2-72 10-87 (203)
44 PF13893 RRM_5: RNA recognitio 99.1 9.3E-10 2E-14 73.2 8.0 53 18-70 1-55 (56)
45 KOG0144 RNA-binding protein CU 99.0 4E-10 8.8E-15 102.0 7.2 61 2-62 35-100 (510)
46 TIGR01642 U2AF_lg U2 snRNP aux 99.0 9.8E-10 2.1E-14 103.1 8.1 68 2-71 176-257 (509)
47 KOG0124 Polypyrimidine tract-b 99.0 3.5E-10 7.5E-15 100.8 4.2 71 1-71 113-190 (544)
48 KOG0153 Predicted RNA-binding 99.0 1.8E-09 4E-14 95.5 7.8 72 1-73 228-302 (377)
49 KOG0148 Apoptosis-promoting RN 98.9 1.5E-09 3.2E-14 93.4 6.6 70 3-72 64-140 (321)
50 KOG0132 RNA polymerase II C-te 98.9 2.2E-09 4.8E-14 103.0 8.4 71 2-73 422-494 (894)
51 KOG0116 RasGAP SH3 binding pro 98.9 1E-08 2.2E-13 94.4 11.7 73 2-74 289-367 (419)
52 KOG0108 mRNA cleavage and poly 98.9 2.6E-09 5.6E-14 98.7 7.9 72 2-73 19-97 (435)
53 KOG0126 Predicted RNA-binding 98.9 1.3E-10 2.8E-15 94.8 -0.8 69 3-71 37-112 (219)
54 KOG0145 RNA-binding protein EL 98.9 1.8E-09 3.9E-14 92.6 5.6 72 2-73 128-210 (360)
55 smart00361 RRM_1 RNA recogniti 98.9 1.2E-08 2.6E-13 71.2 7.4 54 15-68 2-69 (70)
56 KOG0145 RNA-binding protein EL 98.9 8.6E-09 1.9E-13 88.5 7.8 73 2-74 42-121 (360)
57 KOG0127 Nucleolar protein fibr 98.8 9E-09 1.9E-13 95.7 8.3 74 2-75 118-197 (678)
58 KOG0106 Alternative splicing f 98.8 5.2E-09 1.1E-13 88.2 5.2 69 1-72 1-71 (216)
59 KOG0147 Transcriptional coacti 98.8 4.8E-09 1E-13 97.4 5.4 71 3-73 280-357 (549)
60 KOG0415 Predicted peptidyl pro 98.8 2E-08 4.3E-13 89.4 8.5 70 2-71 240-318 (479)
61 KOG4212 RNA-binding protein hn 98.8 5.4E-08 1.2E-12 88.7 11.4 71 3-73 46-123 (608)
62 KOG0123 Polyadenylate-binding 98.7 3.4E-08 7.3E-13 90.0 8.2 67 4-71 79-150 (369)
63 KOG0146 RNA-binding protein ET 98.7 1.4E-08 3.1E-13 87.4 5.4 72 2-73 20-102 (371)
64 KOG0127 Nucleolar protein fibr 98.7 3.1E-08 6.7E-13 92.2 6.9 72 2-73 6-84 (678)
65 KOG0146 RNA-binding protein ET 98.6 4.6E-08 9.9E-13 84.3 5.6 72 2-73 286-366 (371)
66 KOG4205 RNA-binding protein mu 98.6 3.2E-08 6.9E-13 88.0 4.2 73 2-74 7-85 (311)
67 KOG4206 Spliceosomal protein s 98.6 1.3E-07 2.8E-12 79.5 7.4 70 3-72 11-90 (221)
68 KOG0131 Splicing factor 3b, su 98.6 8.1E-08 1.8E-12 78.5 6.0 70 2-71 97-176 (203)
69 KOG0110 RNA-binding protein (R 98.6 1.3E-07 2.9E-12 90.2 7.5 71 2-72 516-596 (725)
70 KOG4661 Hsp27-ERE-TATA-binding 98.5 1.9E-07 4.1E-12 87.5 7.6 70 3-72 407-483 (940)
71 KOG0110 RNA-binding protein (R 98.5 6.7E-08 1.4E-12 92.2 4.7 72 1-72 613-691 (725)
72 KOG0123 Polyadenylate-binding 98.5 4.6E-07 9.9E-12 82.6 8.2 69 1-72 1-73 (369)
73 KOG1457 RNA binding protein (c 98.4 1.3E-06 2.8E-11 73.8 9.0 74 1-74 34-120 (284)
74 KOG4209 Splicing factor RNPS1, 98.4 1.4E-06 2.9E-11 74.8 8.9 69 2-71 102-177 (231)
75 KOG4205 RNA-binding protein mu 98.4 3.3E-07 7.2E-12 81.5 4.9 73 2-74 98-176 (311)
76 KOG0151 Predicted splicing reg 98.4 5.7E-07 1.2E-11 86.0 6.3 70 2-71 175-254 (877)
77 KOG4212 RNA-binding protein hn 98.4 8.9E-07 1.9E-11 80.9 7.0 69 2-70 537-607 (608)
78 KOG0124 Polypyrimidine tract-b 98.4 1E-06 2.2E-11 79.0 7.0 61 2-62 211-276 (544)
79 KOG4660 Protein Mei2, essentia 98.3 3.7E-07 7.9E-12 85.2 3.9 60 3-62 77-136 (549)
80 KOG0533 RRM motif-containing p 98.3 3.1E-06 6.7E-11 72.9 8.2 69 2-70 84-158 (243)
81 KOG4454 RNA binding protein (R 98.2 4.4E-07 9.6E-12 76.3 1.9 59 3-62 11-73 (267)
82 KOG4208 Nucleolar RNA-binding 98.2 4E-06 8.7E-11 69.8 7.3 60 3-62 51-116 (214)
83 KOG1457 RNA binding protein (c 98.2 1E-06 2.2E-11 74.4 3.6 61 2-62 211-272 (284)
84 PF11608 Limkain-b1: Limkain b 98.1 2.1E-05 4.6E-10 56.9 8.1 66 2-72 3-75 (90)
85 PF04059 RRM_2: RNA recognitio 98.1 2.7E-05 5.8E-10 58.1 8.8 73 2-74 2-87 (97)
86 KOG0106 Alternative splicing f 98.1 6E-06 1.3E-10 69.8 5.6 64 2-68 100-165 (216)
87 KOG1548 Transcription elongati 98.0 1.6E-05 3.5E-10 70.8 7.5 76 2-77 135-224 (382)
88 PF08777 RRM_3: RNA binding mo 97.9 4E-05 8.6E-10 57.9 6.8 59 2-61 2-60 (105)
89 KOG4211 Splicing factor hnRNP- 97.8 4.9E-05 1.1E-09 70.4 7.3 67 4-71 13-83 (510)
90 KOG1190 Polypyrimidine tract-b 97.8 8.8E-05 1.9E-09 67.5 8.4 71 2-72 298-371 (492)
91 KOG0105 Alternative splicing f 97.7 0.00063 1.4E-08 56.2 11.4 58 3-62 117-174 (241)
92 PF14605 Nup35_RRM_2: Nup53/35 97.6 0.0002 4.3E-09 47.4 5.7 52 2-55 2-53 (53)
93 KOG1995 Conserved Zn-finger pr 97.5 0.00025 5.4E-09 63.5 7.1 74 2-75 67-155 (351)
94 KOG4206 Spliceosomal protein s 97.5 0.00036 7.7E-09 59.0 7.5 60 3-62 148-207 (221)
95 KOG0226 RNA-binding proteins [ 97.3 0.00033 7.3E-09 60.3 5.0 60 3-62 192-256 (290)
96 KOG1456 Heterogeneous nuclear 97.3 0.0012 2.7E-08 59.7 8.7 73 2-74 288-363 (494)
97 KOG4211 Splicing factor hnRNP- 97.3 0.00057 1.2E-08 63.5 6.8 69 3-71 105-179 (510)
98 KOG1855 Predicted RNA-binding 97.1 0.00041 8.8E-09 63.6 3.1 60 2-61 232-309 (484)
99 KOG0120 Splicing factor U2AF, 97.0 0.00066 1.4E-08 63.9 3.8 71 2-72 290-367 (500)
100 KOG0129 Predicted RNA-binding 97.0 0.0027 5.8E-08 59.5 7.7 59 2-61 260-329 (520)
101 KOG0129 Predicted RNA-binding 96.8 0.0035 7.6E-08 58.7 6.9 69 2-70 371-450 (520)
102 KOG1456 Heterogeneous nuclear 96.8 0.029 6.2E-07 51.0 12.4 65 8-72 129-199 (494)
103 COG5175 MOT2 Transcriptional r 96.7 0.004 8.7E-08 55.8 6.5 69 3-71 116-200 (480)
104 KOG1190 Polypyrimidine tract-b 96.7 0.0034 7.3E-08 57.4 5.9 69 2-70 415-489 (492)
105 KOG4210 Nuclear localization s 96.6 0.0019 4.1E-08 57.1 3.7 68 3-71 186-261 (285)
106 PF10309 DUF2414: Protein of u 96.5 0.018 3.9E-07 39.4 6.9 54 2-58 6-62 (62)
107 KOG2314 Translation initiation 96.4 0.0068 1.5E-07 57.5 6.2 60 3-62 60-129 (698)
108 PF05172 Nup35_RRM: Nup53/35/4 96.4 0.023 4.9E-07 42.6 7.6 58 3-62 8-77 (100)
109 KOG2193 IGF-II mRNA-binding pr 96.3 0.0045 9.8E-08 56.9 4.3 69 1-72 1-74 (584)
110 KOG2202 U2 snRNP splicing fact 96.3 0.0054 1.2E-07 52.9 4.4 47 16-62 83-134 (260)
111 KOG0147 Transcriptional coacti 96.3 0.0086 1.9E-07 56.5 6.0 55 16-70 468-524 (549)
112 KOG4849 mRNA cleavage factor I 96.2 0.013 2.8E-07 52.8 6.5 60 3-62 82-148 (498)
113 KOG0120 Splicing factor U2AF, 96.1 0.017 3.6E-07 54.7 6.7 55 16-70 424-488 (500)
114 KOG1548 Transcription elongati 96.0 0.029 6.2E-07 50.4 7.7 56 16-71 291-349 (382)
115 PF15023 DUF4523: Protein of u 95.7 0.051 1.1E-06 43.3 7.1 68 1-70 86-158 (166)
116 KOG0128 RNA-binding protein SA 95.6 0.011 2.4E-07 58.3 3.5 70 2-71 737-814 (881)
117 KOG1365 RNA-binding protein Fu 95.0 0.025 5.5E-07 51.6 3.7 68 4-71 283-359 (508)
118 KOG4676 Splicing factor, argin 94.8 0.017 3.6E-07 52.8 1.9 58 3-61 153-211 (479)
119 KOG3152 TBP-binding protein, a 94.6 0.022 4.8E-07 49.3 2.3 60 3-62 76-152 (278)
120 KOG4307 RNA binding protein RB 94.6 0.1 2.2E-06 50.9 6.9 66 3-68 869-941 (944)
121 KOG1365 RNA-binding protein Fu 94.5 0.11 2.3E-06 47.6 6.4 59 4-62 164-230 (508)
122 KOG0115 RNA-binding protein p5 94.4 0.049 1.1E-06 47.2 3.9 58 2-59 32-93 (275)
123 KOG0112 Large RNA-binding prot 94.4 0.063 1.4E-06 53.5 5.0 68 2-70 456-529 (975)
124 PF08952 DUF1866: Domain of un 94.2 0.24 5.2E-06 39.6 7.2 53 17-73 52-106 (146)
125 PF08675 RNA_bind: RNA binding 94.1 0.42 9.2E-06 34.7 7.6 56 8-66 15-70 (87)
126 KOG2416 Acinus (induces apopto 93.4 0.071 1.5E-06 51.1 3.4 60 2-62 445-505 (718)
127 KOG0128 RNA-binding protein SA 93.4 0.0063 1.4E-07 60.0 -3.7 61 2-62 668-733 (881)
128 PRK11634 ATP-dependent RNA hel 92.7 2.2 4.8E-05 41.8 12.6 65 2-71 487-560 (629)
129 KOG4676 Splicing factor, argin 92.5 0.14 3E-06 46.9 3.7 58 3-61 9-74 (479)
130 KOG1996 mRNA splicing factor [ 92.0 0.47 1E-05 42.1 6.3 53 15-67 300-360 (378)
131 KOG0112 Large RNA-binding prot 92.0 0.032 6.9E-07 55.5 -1.0 60 3-62 374-437 (975)
132 KOG4307 RNA binding protein RB 90.4 0.52 1.1E-05 46.2 5.4 67 4-70 5-73 (944)
133 KOG0107 Alternative splicing f 89.8 1.6 3.5E-05 36.0 7.0 9 48-56 24-32 (195)
134 PF03467 Smg4_UPF3: Smg-4/UPF3 88.1 0.82 1.8E-05 37.5 4.4 61 2-62 8-79 (176)
135 PF07576 BRAP2: BRCA1-associat 87.4 5.6 0.00012 30.2 8.2 56 7-62 19-78 (110)
136 KOG4660 Protein Mei2, essentia 87.2 1.1 2.4E-05 42.8 5.1 39 36-74 429-473 (549)
137 KOG4285 Mitotic phosphoprotein 86.7 3 6.6E-05 37.2 7.3 54 6-62 202-255 (350)
138 KOG4574 RNA-binding protein (c 86.3 0.44 9.6E-06 47.6 2.1 67 4-71 301-371 (1007)
139 KOG4410 5-formyltetrahydrofola 85.6 2 4.4E-05 38.0 5.6 46 2-48 331-377 (396)
140 PF03880 DbpA: DbpA RNA bindin 84.8 7.2 0.00016 27.1 7.2 64 2-69 1-72 (74)
141 KOG2591 c-Mpl binding protein, 84.7 2.9 6.3E-05 40.2 6.6 56 2-59 176-233 (684)
142 KOG2068 MOT2 transcription fac 82.3 0.97 2.1E-05 40.6 2.3 59 4-62 80-149 (327)
143 KOG4210 Nuclear localization s 80.9 0.8 1.7E-05 40.5 1.3 59 1-59 88-151 (285)
144 PF04847 Calcipressin: Calcipr 80.9 5.6 0.00012 33.0 6.2 57 14-71 8-68 (184)
145 PF00098 zf-CCHC: Zinc knuckle 75.9 2.5 5.5E-05 21.5 1.8 17 90-106 2-18 (18)
146 KOG2253 U1 snRNP complex, subu 74.1 1.9 4.1E-05 42.1 1.8 55 2-60 41-95 (668)
147 KOG4207 Predicted splicing fac 72.2 29 0.00062 29.6 8.1 13 44-56 64-76 (256)
148 PRK14548 50S ribosomal protein 70.3 27 0.00058 25.2 6.7 54 4-57 23-80 (84)
149 PRK02624 psbH photosystem II r 68.8 3.3 7.1E-05 28.2 1.5 23 191-214 35-57 (64)
150 KOG2135 Proteins containing th 67.6 3.3 7E-05 39.1 1.8 63 9-73 380-445 (526)
151 PLN00055 photosystem II reacti 66.9 3.8 8.2E-05 28.8 1.6 23 191-214 47-69 (73)
152 PF11767 SET_assoc: Histone ly 65.7 41 0.00089 23.1 7.4 47 12-62 11-57 (66)
153 KOG0804 Cytoplasmic Zn-finger 65.3 23 0.00049 33.4 6.7 61 2-62 75-139 (493)
154 CHL00066 psbH photosystem II p 64.9 4.2 9.1E-05 28.5 1.5 22 192-214 48-69 (73)
155 TIGR03636 L23_arch archaeal ri 64.7 43 0.00094 23.7 6.7 54 3-56 15-72 (77)
156 KOG2318 Uncharacterized conser 64.5 33 0.00071 33.4 7.7 70 3-72 176-306 (650)
157 PF02714 DUF221: Domain of unk 61.3 10 0.00022 33.5 3.7 31 41-71 1-33 (325)
158 PF03439 Spt5-NGN: Early trans 58.7 16 0.00036 26.0 3.7 36 27-62 33-68 (84)
159 PF03468 XS: XS domain; Inter 58.0 19 0.00042 27.5 4.2 54 3-56 10-75 (116)
160 PF15513 DUF4651: Domain of un 53.1 30 0.00066 23.6 4.0 19 16-34 9-27 (62)
161 PF00737 PsbH: Photosystem II 52.1 11 0.00024 24.7 1.7 20 192-212 33-52 (52)
162 KOG0132 RNA polymerase II C-te 51.5 21 0.00046 35.9 4.2 17 170-186 393-409 (894)
163 PF15440 THRAP3_BCLAF1: THRAP3 47.8 24 0.00053 34.9 4.1 6 118-123 3-8 (646)
164 COG5487 Small integral membran 47.0 22 0.00047 23.3 2.5 22 188-209 29-50 (54)
165 KOG2891 Surface glycoprotein [ 46.7 11 0.00024 33.4 1.5 33 2-34 150-194 (445)
166 PRK08559 nusG transcription an 45.6 67 0.0015 25.5 5.7 36 27-62 35-70 (153)
167 PF05399 EVI2A: Ectropic viral 45.1 22 0.00047 30.2 2.9 17 197-213 139-155 (227)
168 PTZ00191 60S ribosomal protein 40.6 1.3E+02 0.0029 23.9 6.6 52 3-54 83-138 (145)
169 CHL00123 rps6 ribosomal protei 39.0 84 0.0018 23.0 5.0 49 9-57 14-81 (97)
170 KOG3580 Tight junction protein 38.5 1.3E+02 0.0028 29.9 7.2 8 47-54 70-77 (1027)
171 PF00403 HMA: Heavy-metal-asso 38.0 1.1E+02 0.0024 19.6 6.5 54 3-57 1-58 (62)
172 PHA01815 hypothetical protein 37.7 52 0.0011 21.1 3.1 23 192-214 33-55 (55)
173 PF05216 UNC-50: UNC-50 family 37.0 34 0.00074 29.4 2.9 21 193-213 140-160 (231)
174 PF10567 Nab6_mRNP_bdg: RNA-re 36.5 58 0.0012 29.1 4.3 51 4-54 18-80 (309)
175 PF14893 PNMA: PNMA 36.2 67 0.0014 29.2 4.8 69 3-71 20-96 (331)
176 KOG4483 Uncharacterized conser 36.0 73 0.0016 29.8 5.0 52 4-57 394-446 (528)
177 PF08544 GHMP_kinases_C: GHMP 34.9 1.4E+02 0.0031 20.1 6.1 43 16-59 37-80 (85)
178 PF07069 PRRSV_2b: Porcine rep 32.4 45 0.00098 22.7 2.3 18 196-213 43-60 (73)
179 PF13172 PepSY_TM_1: PepSY-ass 29.3 36 0.00078 19.9 1.3 16 189-204 11-26 (34)
180 KOG2295 C2H2 Zn-finger protein 29.2 9.5 0.00021 36.8 -1.9 61 2-62 232-297 (648)
181 PF08206 OB_RNB: Ribonuclease 28.5 38 0.00083 22.2 1.5 27 36-62 6-33 (58)
182 COG2322 Predicted membrane pro 28.4 41 0.00088 27.6 1.9 20 189-208 81-100 (177)
183 COG3952 Predicted membrane pro 27.7 27 0.00058 26.4 0.7 20 185-204 58-77 (113)
184 PF11411 DNA_ligase_IV: DNA li 26.9 51 0.0011 20.0 1.7 17 11-27 19-35 (36)
185 PF14787 zf-CCHC_5: GAG-polypr 26.4 65 0.0014 19.5 2.0 21 89-109 3-23 (36)
186 KOG4019 Calcineurin-mediated s 26.4 73 0.0016 26.5 3.0 73 2-75 11-91 (193)
187 PF00276 Ribosomal_L23: Riboso 25.7 1.7E+02 0.0036 21.1 4.6 48 3-50 21-85 (91)
188 PF13696 zf-CCHC_2: Zinc knuck 25.4 46 0.001 19.6 1.2 21 87-107 7-27 (32)
189 PF13917 zf-CCHC_3: Zinc knuck 25.1 50 0.0011 20.7 1.4 19 88-106 4-22 (42)
190 PF13677 MotB_plug: Membrane M 24.9 62 0.0013 21.4 2.0 15 190-204 25-39 (58)
191 PF09707 Cas_Cas2CT1978: CRISP 23.8 1.5E+02 0.0033 21.4 4.0 44 2-45 26-71 (86)
192 PF08135 EPV_E5: Major transfo 23.4 10 0.00022 23.7 -1.9 22 181-202 7-28 (44)
193 COG5521 Predicted integral mem 23.0 62 0.0013 28.2 2.1 31 184-214 163-197 (275)
194 PRK10629 EnvZ/OmpR regulon mod 22.9 3.6E+02 0.0078 20.8 7.3 56 4-62 38-97 (127)
195 TIGR00405 L26e_arch ribosomal 22.9 2.7E+02 0.0059 21.5 5.7 36 27-62 27-62 (145)
196 PHA02909 hypothetical protein; 22.9 52 0.0011 22.1 1.3 30 181-210 32-62 (72)
197 PF08734 GYD: GYD domain; Int 22.7 3E+02 0.0064 19.7 6.1 45 15-59 22-68 (91)
198 KOG3012 Uncharacterized conser 22.2 86 0.0019 27.0 2.8 18 194-211 166-183 (259)
199 COG2608 CopZ Copper chaperone 21.5 2.7E+02 0.0058 18.8 5.5 45 2-47 4-48 (71)
200 PF07292 NID: Nmi/IFP 35 domai 21.5 42 0.00092 24.4 0.7 21 2-22 53-73 (88)
201 COG0724 RNA-binding proteins ( 21.4 1E+02 0.0022 24.8 3.1 33 2-34 226-258 (306)
202 PRK04989 psbM photosystem II r 21.1 48 0.001 19.9 0.8 24 186-209 6-29 (35)
203 COG0030 KsgA Dimethyladenosine 20.4 1.3E+02 0.0029 26.3 3.7 30 3-32 97-126 (259)
204 PHA02657 hypothetical protein; 20.0 1.4E+02 0.0031 21.7 3.1 22 187-208 23-44 (95)
No 1
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.90 E-value=2.1e-22 Score=162.12 Aligned_cols=109 Identities=53% Similarity=0.944 Sum_probs=89.1
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--c--EEEEEeeccCCCC
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--G--WRVELSHNSKGGG 76 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g--~~V~v~~~~~~~r 76 (223)
.++||||||+..+++.||+.+|.+||+|..|.|...+.|||||+|+++.||++|+..|+|+. + ++||++...+...
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r~~ 89 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPRGS 89 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCcccc
Confidence 47999999999999999999999999999999988999999999999999999999999998 5 7788777766533
Q ss_pred CCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCC
Q 041602 77 GRGGRGRGGGEDLKCYECGEPGHFARECRLRIGS 110 (223)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~g~~G~~~r~~~~~~~r 110 (223)
..++.. ...+..-|+.||..||+.++|.+...+
T Consensus 90 r~gg~~-~~~g~~~~~r~G~rg~~~r~~~~sy~r 122 (195)
T KOG0107|consen 90 RRGGSR-PPRGRGFCYRCGERGHIGRNCKDSYSR 122 (195)
T ss_pred ccCCCC-CcccccccccCCCcccccccccccccc
Confidence 322222 223333488999999999888774333
No 2
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.70 E-value=4.3e-16 Score=124.17 Aligned_cols=73 Identities=29% Similarity=0.563 Sum_probs=64.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
++|||+|||+++||++|+++|++||+|+.|.|+. +++|||||+|.+.++|++|++.||+.+ +..|+|.++.++
T Consensus 35 ~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~ 114 (144)
T PLN03134 35 TKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDR 114 (144)
T ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcC
Confidence 6899999999999999999999999999999974 458999999999999999999999887 666777666543
No 3
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.64 E-value=2.6e-15 Score=124.17 Aligned_cols=70 Identities=41% Similarity=0.731 Sum_probs=63.2
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--c--EEEEEee
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--G--WRVELSH 70 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g--~~V~v~~ 70 (223)
|++|-|-||.+.|+.++|+.+|++||.|-+|.|+. +++|||||.|.+..||++|+++|+|.. + +.|++++
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar 91 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR 91 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence 78999999999999999999999999999999974 679999999999999999999999998 4 4555554
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.57 E-value=9.6e-14 Score=120.20 Aligned_cols=74 Identities=28% Similarity=0.568 Sum_probs=65.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
+||||+-|+.+|+|..|+..|++||+|+.|.|+. +++|||||+|+++.++++|.+..+|.. +..|-|......
T Consensus 102 ~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgR 181 (335)
T KOG0113|consen 102 KTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGR 181 (335)
T ss_pred ceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEecccc
Confidence 6999999999999999999999999999999874 689999999999999999999999887 666666655444
Q ss_pred C
Q 041602 75 G 75 (223)
Q Consensus 75 ~ 75 (223)
+
T Consensus 182 T 182 (335)
T KOG0113|consen 182 T 182 (335)
T ss_pred c
Confidence 3
No 5
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.55 E-value=8e-15 Score=126.56 Aligned_cols=100 Identities=34% Similarity=0.689 Sum_probs=86.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeeccCCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHNSKGGGG 77 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~~~~~r~ 77 (223)
+||+||||.+.++.++|++.|++||+|.+|+|+ ++|+||+|+..++|..|++.||+.+ .++|+++.++-....
T Consensus 79 tkl~vgNis~tctn~ElRa~fe~ygpviecdiv---kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrtap 155 (346)
T KOG0109|consen 79 TKLHVGNISPTCTNQELRAKFEKYGPVIECDIV---KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTAP 155 (346)
T ss_pred cccccCCCCccccCHHHhhhhcccCCceeeeee---cceeEEEEeeccchHHHHhcccccccccceeeeeeeccccccCC
Confidence 689999999999999999999999999999999 7899999999999999999999998 456666665444333
Q ss_pred CCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCC
Q 041602 78 RGGRGRGGGEDLKCYECGEPGHFARECRLRIGS 110 (223)
Q Consensus 78 ~~~~~~~~~~~~~~~~~g~~G~~~r~~~~~~~r 110 (223)
+.++...|++||+.|||..+||.....
T Consensus 156 ------gmgDq~~cyrcGkeghwskEcP~~~~~ 182 (346)
T KOG0109|consen 156 ------GMGDQSGCYRCGKEGHWSKECPVDRTG 182 (346)
T ss_pred ------CCCCHHHheeccccccccccCCccCCC
Confidence 356788999999999999999976543
No 6
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.52 E-value=6.1e-14 Score=96.26 Aligned_cols=59 Identities=49% Similarity=0.852 Sum_probs=55.1
Q ss_pred EEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC----CCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR----PPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~----~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
|||+|||.++|+++|+++|++||+|..+.+..+ .+++|||+|++.++|++|++.|++..
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~ 63 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKK 63 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCE
Confidence 799999999999999999999999999988753 57899999999999999999999876
No 7
>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=99.51 E-value=5.1e-13 Score=120.52 Aligned_cols=73 Identities=27% Similarity=0.474 Sum_probs=63.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~~ 72 (223)
++|||+|||..+||++|+++|++||+|+.|.|+. +++|||||+|++.++|++||++||+.. .+.|+|..+.
T Consensus 194 ~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~ 273 (346)
T TIGR01659 194 TNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAE 273 (346)
T ss_pred ceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECC
Confidence 5799999999999999999999999999999874 347999999999999999999999985 3566666655
Q ss_pred CC
Q 041602 73 KG 74 (223)
Q Consensus 73 ~~ 74 (223)
..
T Consensus 274 ~~ 275 (346)
T TIGR01659 274 EH 275 (346)
T ss_pred cc
Confidence 43
No 8
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=1.4e-13 Score=112.29 Aligned_cols=70 Identities=43% Similarity=0.774 Sum_probs=60.2
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee--CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR--RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~--~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
++|||||||.++.|.+|+++|.+||.|..|.+.. .+..||||+|+++-+|+.||..-+|.. +.++.|..+
T Consensus 7 ~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 7 RRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred ceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence 5899999999999999999999999999998853 346799999999999999999888887 544444444
No 9
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.47 E-value=2.9e-13 Score=121.05 Aligned_cols=72 Identities=29% Similarity=0.447 Sum_probs=65.1
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC-----CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR-----PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~-----~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
+|||+|||+++++++|.++|++||+|..|+|+.+ ++|||||+|.+.++|.+||+.|||.. +..|+|.+...+
T Consensus 271 ~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~ 349 (352)
T TIGR01661 271 CIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNK 349 (352)
T ss_pred EEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCC
Confidence 5999999999999999999999999999999753 59999999999999999999999998 777777776543
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.47 E-value=2.3e-13 Score=121.72 Aligned_cols=71 Identities=23% Similarity=0.422 Sum_probs=63.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
++|||+|||.++||++|+++|++||+|..|+|+. +++|||||+|.+.++|++||+.||+.. +..|.+.++.
T Consensus 4 ~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~ 81 (352)
T TIGR01661 4 TNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR 81 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence 6899999999999999999999999999999974 357999999999999999999999987 6666665554
No 11
>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=99.47 E-value=2.3e-13 Score=122.74 Aligned_cols=70 Identities=30% Similarity=0.518 Sum_probs=61.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
++|||+|||+++||++|+++|++||+|++|+|+. +++|||||+|.++++|++||+.||+.. +..|++.++
T Consensus 108 ~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a 184 (346)
T TIGR01659 108 TNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA 184 (346)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence 6899999999999999999999999999999975 357999999999999999999999987 555555543
No 12
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=2e-13 Score=105.46 Aligned_cols=75 Identities=32% Similarity=0.553 Sum_probs=64.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~~ 72 (223)
+|||||||+..|+|+.|.++|+++|+|..|.|- +.+.|||||+|.+.++|+.|++-++++. .+.|.+....
T Consensus 37 ~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF 116 (153)
T KOG0121|consen 37 CTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGF 116 (153)
T ss_pred ceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccc
Confidence 799999999999999999999999999999772 3568999999999999999999999986 5666666554
Q ss_pred CCCC
Q 041602 73 KGGG 76 (223)
Q Consensus 73 ~~~r 76 (223)
..++
T Consensus 117 ~eGR 120 (153)
T KOG0121|consen 117 VEGR 120 (153)
T ss_pred hhhh
Confidence 4443
No 13
>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=99.44 E-value=2.6e-12 Score=122.31 Aligned_cols=70 Identities=37% Similarity=0.568 Sum_probs=63.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcC--CCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMF--GVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~--G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
++|||+||+.++||++|+++|++| |+|+.|.++ ++||||+|++.++|++|++.||+.+ +..|+|.++.+.
T Consensus 234 k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~---rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~ 307 (578)
T TIGR01648 234 KILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI---RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPV 307 (578)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee---cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCC
Confidence 579999999999999999999999 999999876 7899999999999999999999998 777777766554
No 14
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.42 E-value=1.1e-12 Score=113.08 Aligned_cols=72 Identities=25% Similarity=0.380 Sum_probs=64.0
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC--CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR--PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~--~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
+.+|||+|||+.+||++|+++|+.||+|.+|.|+.+ ++|||||+|.++++|+.||. |+|.. +..|.|..+..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence 368999999999999999999999999999999764 57999999999999999995 99887 77777777643
No 15
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.41 E-value=5.1e-13 Score=117.02 Aligned_cols=72 Identities=28% Similarity=0.452 Sum_probs=66.5
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee---CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR---RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~---~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
++|+|+|||+...|.||+.+|++||+|.+|.|+- .+||||||+|++.+||++|-++|||.. |++|||..+..
T Consensus 97 kRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 97 KRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA 173 (376)
T ss_pred ceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence 5799999999999999999999999999999974 579999999999999999999999997 89999887643
No 16
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.39 E-value=6e-13 Score=112.01 Aligned_cols=72 Identities=26% Similarity=0.429 Sum_probs=61.5
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEeecc
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSHNS 72 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~~~ 72 (223)
.||||||||+++|+.++|+++|++||+|.+..|+ +++||||||+|.+.+.|..|++..|-.. |++..+..+.
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS 89 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence 4799999999999999999999999999998876 3679999999999999999998777665 6555544443
No 17
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.36 E-value=3.5e-12 Score=88.30 Aligned_cols=63 Identities=40% Similarity=0.738 Sum_probs=54.4
Q ss_pred EEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC----CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEE
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR----PPGYAFVEFDDRRDAVDAIRALDGKN--GWRV 66 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~----~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V 66 (223)
|||+|||+++++++|.++|+.+|.|..+.+..+ .+++|||+|.++++|++|++.+++.. +..|
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l 69 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKL 69 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEc
Confidence 799999999999999999999999999999865 36899999999999999999888655 5554
No 18
>smart00362 RRM_2 RNA recognition motif.
Probab=99.33 E-value=1.2e-11 Score=83.62 Aligned_cols=66 Identities=42% Similarity=0.776 Sum_probs=58.2
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC---CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEE
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR---PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVEL 68 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~---~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v 68 (223)
+|||+|||..+++++|+++|.+||+|..+.+..+ ++++|||+|.+.++|++|++.+++.. +..|.+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v 71 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV 71 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence 5899999999999999999999999999988754 36999999999999999999999765 555543
No 19
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.33 E-value=5e-12 Score=108.47 Aligned_cols=72 Identities=33% Similarity=0.593 Sum_probs=67.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
|+|||||++..+||++|++.|+.||+|.+|++-++ +|||||.|++.|.|..||..||+++ +..|+..+.+..
T Consensus 165 tsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~-qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~ 238 (321)
T KOG0148|consen 165 TSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD-QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEG 238 (321)
T ss_pred ceEEeCCcCccccHHHHHHhcccCCcceEEEEecc-cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccC
Confidence 79999999999999999999999999999999765 8999999999999999999999998 888999987654
No 20
>PLN03213 repressor of silencing 3; Provisional
Probab=99.31 E-value=6.9e-12 Score=115.09 Aligned_cols=71 Identities=24% Similarity=0.413 Sum_probs=63.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-CCCCEEEEEEcCH--HHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-RPPGYAFVEFDDR--RDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-~~rGfaFV~F~~~--e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
.+||||||++.++++||+..|+.||.|..|.|++ ..+|||||+|.+. +++.+||..|||.+ |..|+|..++
T Consensus 11 MRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAK 86 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAK 86 (759)
T ss_pred eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeecc
Confidence 4799999999999999999999999999999985 3489999999987 78999999999998 7677776664
No 21
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.31 E-value=8.2e-12 Score=105.74 Aligned_cols=71 Identities=44% Similarity=0.634 Sum_probs=62.9
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeec
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHN 71 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~ 71 (223)
.++|-|.||+.+++|++|+++|.+||.|..|.|.. .++|||||+|.+.++|.+||+.|||.- .++|+++++
T Consensus 189 ~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP 268 (270)
T KOG0122|consen 189 EATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKP 268 (270)
T ss_pred cceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCC
Confidence 36899999999999999999999999999999864 469999999999999999999999885 556666554
No 22
>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=99.30 E-value=8.5e-12 Score=119.29 Aligned_cols=71 Identities=28% Similarity=0.570 Sum_probs=64.1
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
+++|||+||++++++++|+++|++||+|..|.|+. +++|||||+|.+.++|++|++.|||.. +..|++.++
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 47999999999999999999999999999999864 479999999999999999999999987 677777643
No 23
>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=99.30 E-value=1.4e-11 Score=115.59 Aligned_cols=72 Identities=22% Similarity=0.304 Sum_probs=65.3
Q ss_pred cEEEEecCCC-CCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDP-RVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~-~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
++|||+||++ .+|+++|+++|++||.|..|+++.+.+|||||+|.+.++|++|++.||+.. +..|.|..+..
T Consensus 276 ~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~ 350 (481)
T TIGR01649 276 SVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQ 350 (481)
T ss_pred CEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccc
Confidence 4899999998 699999999999999999999988778999999999999999999999987 77777766543
No 24
>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=99.27 E-value=1.9e-11 Score=116.43 Aligned_cols=71 Identities=38% Similarity=0.653 Sum_probs=63.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
++|||+|||.++||++|+++|++||+|..|+|+. +++|||||+|.+.++|++|++.+|+.. +..|.+.++.
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~ 78 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ 78 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence 4899999999999999999999999999999974 457999999999999999999999885 6666666653
No 25
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.26 E-value=2.8e-11 Score=103.11 Aligned_cols=69 Identities=29% Similarity=0.385 Sum_probs=61.5
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee--CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR--RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~--~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
.+|||+||++.+||++|+++|+.||+|.+|.|+. +.++||||+|.++++|+.|+ .|+|.. +..|.|...
T Consensus 6 ~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~ 78 (243)
T PLN03121 6 YTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRW 78 (243)
T ss_pred eEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeC
Confidence 4799999999999999999999999999999985 34689999999999999999 599887 667777665
No 26
>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=99.26 E-value=1.6e-11 Score=116.95 Aligned_cols=61 Identities=26% Similarity=0.475 Sum_probs=57.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
++|||+|||.+++|++|+++|++||+|.+|+|+. +++|||||+|.+.++|++||+.||+.+
T Consensus 59 ~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~ 123 (578)
T TIGR01648 59 CEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYE 123 (578)
T ss_pred CEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCe
Confidence 7899999999999999999999999999999874 578999999999999999999999765
No 27
>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=99.25 E-value=2.7e-11 Score=115.87 Aligned_cols=72 Identities=26% Similarity=0.549 Sum_probs=64.5
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
++|||+||+.++++++|+++|++||+|+.+.|.. +++|||||+|.+.++|.+|++.||+.+ |..|.|.++..
T Consensus 205 ~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~ 283 (612)
T TIGR01645 205 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT 283 (612)
T ss_pred ceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence 5899999999999999999999999999999974 368999999999999999999999997 66777766543
No 28
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.24 E-value=1.1e-11 Score=107.34 Aligned_cols=70 Identities=27% Similarity=0.542 Sum_probs=62.0
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
+.+|||||||.++++.+|+.+|++||+|.+|+|+ |.||||+.++...|+.||..|++.. +..|+|..++.
T Consensus 2 ~~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv---KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSks 73 (346)
T KOG0109|consen 2 PVKLFIGNLPREATEQELRSLFEQYGKVLECDIV---KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKS 73 (346)
T ss_pred ccchhccCCCcccchHHHHHHHHhhCceEeeeee---cccceEEeecccccHHHHhhcccceecceEEEEEeccc
Confidence 4589999999999999999999999999999999 7799999999999999999999987 65555554433
No 29
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.24 E-value=4.5e-11 Score=112.11 Aligned_cols=72 Identities=29% Similarity=0.526 Sum_probs=63.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
.+|||+|||..+|+++|+++|++||+|..+.|+. .++|||||+|.+.++|+.|++.|||.. +..|.|.++..
T Consensus 296 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~ 374 (509)
T TIGR01642 296 DRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACV 374 (509)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECcc
Confidence 4899999999999999999999999999998864 368999999999999999999999998 66666666543
No 30
>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=99.23 E-value=4.2e-11 Score=110.97 Aligned_cols=71 Identities=30% Similarity=0.636 Sum_probs=63.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
++|||+|||..+|+++|+++|++||+|..|.++. +++|||||+|.+.++|++|++.|||.. +..|.|.++.
T Consensus 187 ~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 187 LKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 5899999999999999999999999999999874 457999999999999999999999987 6667776654
No 31
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.22 E-value=2.4e-11 Score=110.25 Aligned_cols=69 Identities=35% Similarity=0.566 Sum_probs=61.3
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
|+.|||.||+.+|||+.|+++|++||.|+.|+.+ +.||||+|.+.++|.+|++.||+++ |-.|++..++
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~---rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAK 329 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP---RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAK 329 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeecc---cceeEEeecchHHHHHHHHHhcCceecCceEEEEecC
Confidence 4679999999999999999999999999999876 6699999999999999999999998 6555555544
No 32
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.22 E-value=1.3e-10 Score=78.89 Aligned_cols=67 Identities=45% Similarity=0.801 Sum_probs=59.2
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCC----CCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEe
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRP----PGYAFVEFDDRRDAVDAIRALDGKN--GWRVELS 69 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~----rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~ 69 (223)
+|+|+|||..+++++|+++|+.+|+|..+.+.... +++|||+|.+.++|+.|++.+++.. +.++.+.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~ 73 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE 73 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence 58999999999999999999999999999987643 7899999999999999999999885 5555543
No 33
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.22 E-value=3.1e-11 Score=94.17 Aligned_cols=73 Identities=27% Similarity=0.525 Sum_probs=64.3
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKGG 75 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~~ 75 (223)
-|||.++..++||++|.+.|..||+|+.+.+.. -.+|||+|+|++.++|++|+.+|||.+ +.+|+|.++.-.+
T Consensus 74 Ii~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~g 153 (170)
T KOG0130|consen 74 IIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKG 153 (170)
T ss_pred EEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecC
Confidence 489999999999999999999999999998853 358999999999999999999999998 7777777765543
No 34
>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=99.21 E-value=6.6e-11 Score=112.69 Aligned_cols=72 Identities=26% Similarity=0.444 Sum_probs=63.5
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
++|||+||+..+|+++|+++|++||+|++|+++. .++|||||+|.+.++|++|++.||+.. +..|.|..+..
T Consensus 286 ~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~ 363 (562)
T TIGR01628 286 VNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQR 363 (562)
T ss_pred CEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccC
Confidence 5799999999999999999999999999999974 458999999999999999999999987 66666665543
No 35
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.16 E-value=1.7e-10 Score=86.24 Aligned_cols=60 Identities=30% Similarity=0.545 Sum_probs=55.9
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe--eCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA--RRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~--~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
-|||.|||..+|.++..++|.+||.|..|+|- ...+|.|||.|++..+|++|+++|.|..
T Consensus 20 iLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n 81 (124)
T KOG0114|consen 20 ILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYN 81 (124)
T ss_pred eEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccc
Confidence 48999999999999999999999999999983 4569999999999999999999999987
No 36
>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=99.16 E-value=1.5e-10 Score=107.27 Aligned_cols=68 Identities=32% Similarity=0.499 Sum_probs=59.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~ 70 (223)
.+|||+|||..+++++|+++|++||+|..|.|+. .++|||||+|.+.++|++||. |+|.. +..|.+..
T Consensus 90 ~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~ 164 (457)
T TIGR01622 90 RTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQS 164 (457)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEee
Confidence 4899999999999999999999999999999974 468999999999999999996 88876 55555544
No 37
>smart00360 RRM RNA recognition motif.
Probab=99.15 E-value=2.3e-10 Score=76.84 Aligned_cols=63 Identities=44% Similarity=0.791 Sum_probs=54.2
Q ss_pred EecCCCCCCHHHHHHHHHcCCCeEEEEEeeC-----CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEE
Q 041602 6 VGNLDPRVSERDLEDEFRMFGVLRSVWVARR-----PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVEL 68 (223)
Q Consensus 6 VgnLp~~~te~~L~~~F~~~G~I~~v~i~~~-----~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v 68 (223)
|+|||..+++++|+++|++||+|..+.+..+ ++|+|||+|.+.++|++|++.+++.. +..|.+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v 70 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV 70 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence 5799999999999999999999999988653 36899999999999999999998665 444443
No 38
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=1.3e-10 Score=105.55 Aligned_cols=61 Identities=30% Similarity=0.500 Sum_probs=57.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
|-||||.||.++.|++|.-+|++.|+|-+++|+. +++|||||+|.+.++|++||+.||+.+
T Consensus 84 ~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~E 149 (506)
T KOG0117|consen 84 CEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYE 149 (506)
T ss_pred ceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCcc
Confidence 5799999999999999999999999999999975 579999999999999999999999996
No 39
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.14 E-value=2.4e-10 Score=95.35 Aligned_cols=71 Identities=37% Similarity=0.692 Sum_probs=62.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
.+|||+|||..+|+++|.++|.+||.|..+.+.. ..+|||||+|.+.++|..|++.+++.. +..+.+....
T Consensus 116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 6899999999999999999999999999988853 568999999999999999999999887 6666666643
No 40
>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=99.14 E-value=2.4e-10 Score=107.26 Aligned_cols=71 Identities=23% Similarity=0.212 Sum_probs=61.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCC-CCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRP-PGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~-rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~~ 72 (223)
.+|||+||++.+|+++|+++|+.||+|..|.|..+. .++|||+|++.++|++|++.|||.+ ...+++.++.
T Consensus 97 ~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk 172 (481)
T TIGR01649 97 LRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNVFQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAK 172 (481)
T ss_pred EEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEec
Confidence 479999999999999999999999999999887643 4799999999999999999999997 2355555544
No 41
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.13 E-value=4.9e-11 Score=107.87 Aligned_cols=71 Identities=31% Similarity=0.599 Sum_probs=63.3
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC-------cEEEEEeec
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN-------GWRVELSHN 71 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~-------g~~V~v~~~ 71 (223)
+||||-|+..+||++++++|++||.|++|.|.+ .++|||||.|.+.|.|..||++||+.. .+.|+++..
T Consensus 126 KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADt 205 (510)
T KOG0144|consen 126 KLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADT 205 (510)
T ss_pred hhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEeccc
Confidence 789999999999999999999999999999975 479999999999999999999999986 456666655
Q ss_pred cC
Q 041602 72 SK 73 (223)
Q Consensus 72 ~~ 73 (223)
.+
T Consensus 206 qk 207 (510)
T KOG0144|consen 206 QK 207 (510)
T ss_pred CC
Confidence 43
No 42
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=8.8e-11 Score=98.40 Aligned_cols=73 Identities=27% Similarity=0.550 Sum_probs=64.6
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
.+||||+|..++||.-|...|-.||.|++|.++. +++|||||+|+..|||.+||..||+.+ |..|.|..+.+.
T Consensus 11 rtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~ 90 (298)
T KOG0111|consen 11 RTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPE 90 (298)
T ss_pred eeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCc
Confidence 4899999999999999999999999999999963 679999999999999999999999998 666665555443
No 43
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.08 E-value=1.9e-10 Score=93.82 Aligned_cols=71 Identities=34% Similarity=0.539 Sum_probs=64.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
.|||||||+..++++.|.++|-+.|+|..+.+++ ..+|||||+|.++|+|+-|++-||... +..|.+.++.
T Consensus 10 ~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 10 ATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred ceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 5899999999999999999999999999999875 468999999999999999999999665 7777777775
No 44
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.07 E-value=9.3e-10 Score=73.23 Aligned_cols=53 Identities=34% Similarity=0.607 Sum_probs=45.7
Q ss_pred HHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEee
Q 041602 18 LEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSH 70 (223)
Q Consensus 18 L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~ 70 (223)
|.++|++||+|..+.+..+.+++|||+|.+.++|++|++.||+.. +..|++.+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~ 55 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY 55 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence 678999999999999986656999999999999999999999997 66666654
No 45
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=4e-10 Score=102.03 Aligned_cols=61 Identities=28% Similarity=0.586 Sum_probs=57.0
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.++|||-+|..++|+||+++|++||.|.+|.|++ .++|||||.|.+.++|.+|+.+|++..
T Consensus 35 vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 35 VKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred hhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhccc
Confidence 4799999999999999999999999999999976 358999999999999999999999876
No 46
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.00 E-value=9.8e-10 Score=103.08 Aligned_cols=68 Identities=28% Similarity=0.426 Sum_probs=55.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcC------------CCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEE
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMF------------GVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVE 67 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~------------G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~ 67 (223)
.+|||||||+.+|+++|+++|.++ +.|..+.+. +.+|||||+|.+.++|++|| +|||.. +..|+
T Consensus 176 r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~-~~kg~afVeF~~~e~A~~Al-~l~g~~~~g~~l~ 253 (509)
T TIGR01642 176 RRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN-KEKNFAFLEFRTVEEATFAM-ALDSIIYSNVFLK 253 (509)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC-CCCCEEEEEeCCHHHHhhhh-cCCCeEeeCceeE
Confidence 479999999999999999999975 244444443 55899999999999999999 599887 66676
Q ss_pred Eeec
Q 041602 68 LSHN 71 (223)
Q Consensus 68 v~~~ 71 (223)
+..+
T Consensus 254 v~r~ 257 (509)
T TIGR01642 254 IRRP 257 (509)
T ss_pred ecCc
Confidence 6543
No 47
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=3.5e-10 Score=100.79 Aligned_cols=71 Identities=28% Similarity=0.572 Sum_probs=65.5
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
||+||||.+.+++.|+.|+..|..||+|++|.+. .+++|||||+|+-+|.|+-|++.|||.. |++|++..+
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 7899999999999999999999999999999984 4679999999999999999999999998 778877654
No 48
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.96 E-value=1.8e-09 Score=95.48 Aligned_cols=72 Identities=32% Similarity=0.577 Sum_probs=64.0
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC---cEEEEEeeccC
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN---GWRVELSHNSK 73 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~---g~~V~v~~~~~ 73 (223)
|++|||+||...++|.+|+++|.+||+|..+.+... +++|||+|.+.++|+.|.++.-.+. |.+|++.|..+
T Consensus 228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~-~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR-KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred eeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc-cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 589999999999999999999999999999988754 6799999999999999988765554 88888888766
No 49
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.95 E-value=1.5e-09 Score=93.38 Aligned_cols=70 Identities=30% Similarity=0.633 Sum_probs=61.3
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
.+||+.|..+++.++|++.|.+||+|.+++|++ ++||||||.|.+.++|++||+.|||.= ++.|.-.++.
T Consensus 64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWAT 140 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWAT 140 (321)
T ss_pred eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccc
Confidence 489999999999999999999999999999985 679999999999999999999999885 4445444443
No 50
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.95 E-value=2.2e-09 Score=102.95 Aligned_cols=71 Identities=27% Similarity=0.514 Sum_probs=63.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
+|||||+|+.+++|.||..+|+.||+|.+|.++ .+++||||.+....+|++|+.+|++.. ...|+++|+..
T Consensus 422 rTLwvG~i~k~v~e~dL~~~feefGeiqSi~li-~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 422 RTLWVGGIPKNVTEQDLANLFEEFGEIQSIILI-PPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeccccchhhHHHHHHHHHhcccceeEeec-cCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 699999999999999999999999999999887 459999999999999999999998766 67777777643
No 51
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.93 E-value=1e-08 Score=94.38 Aligned_cols=73 Identities=26% Similarity=0.509 Sum_probs=57.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~~~~~ 74 (223)
.+|||.|||.++++++|+++|++||+|+...|.. +..+||||+|.+.++++.||++-.-.. ++++.|......
T Consensus 289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~~ 367 (419)
T KOG0116|consen 289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRPG 367 (419)
T ss_pred cceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecccc
Confidence 4599999999999999999999999999887742 223899999999999999998663222 556665555443
No 52
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.93 E-value=2.6e-09 Score=98.74 Aligned_cols=72 Identities=35% Similarity=0.548 Sum_probs=65.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
..|||||+|++++|++|.++|+..|.|..++++ ++++||||++|.+.++|+.|++.||+.+ +.++++.++..
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN 97 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence 579999999999999999999999999999997 3679999999999999999999999998 77777776643
No 53
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.92 E-value=1.3e-10 Score=94.79 Aligned_cols=69 Identities=26% Similarity=0.578 Sum_probs=62.9
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
-|||||||++.||.||-..|++||+|.+|.+++ +++||||+.|++.-...-|+..|||.. ++.|.|.+.
T Consensus 37 ~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 37 YIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred EEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 589999999999999999999999999999974 679999999999999999999999998 777777664
No 54
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.91 E-value=1.8e-09 Score=92.60 Aligned_cols=72 Identities=28% Similarity=0.549 Sum_probs=62.6
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC------cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN------GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~------g~~V~v~~ 70 (223)
+.|||.+||..+|..+|+++|++||.|..-+|. +-++|.+||.|+..++|++||+.|||.. .+.|+++.
T Consensus 128 aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFan 207 (360)
T KOG0145|consen 128 ANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFAN 207 (360)
T ss_pred cceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecC
Confidence 479999999999999999999999987655443 3569999999999999999999999987 58888887
Q ss_pred ccC
Q 041602 71 NSK 73 (223)
Q Consensus 71 ~~~ 73 (223)
...
T Consensus 208 nPs 210 (360)
T KOG0145|consen 208 NPS 210 (360)
T ss_pred Ccc
Confidence 654
No 55
>smart00361 RRM_1 RNA recognition motif.
Probab=98.85 E-value=1.2e-08 Score=71.18 Aligned_cols=54 Identities=30% Similarity=0.569 Sum_probs=45.4
Q ss_pred HHHHHHHHH----cCCCeEEEE-Ee-------eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEE
Q 041602 15 ERDLEDEFR----MFGVLRSVW-VA-------RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVEL 68 (223)
Q Consensus 15 e~~L~~~F~----~~G~I~~v~-i~-------~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v 68 (223)
+++|+++|. +||+|..|. ++ ++++|||||+|.+.++|++|++.|||.. +..|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 678999998 999999985 32 3458999999999999999999999987 666553
No 56
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.85 E-value=8.6e-09 Score=88.45 Aligned_cols=73 Identities=25% Similarity=0.423 Sum_probs=63.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
+.|.|--||.++|+++++.+|...|+|++|++++ ++.||+||.|-+++||++|+..|||-. ...|+|+.+++.
T Consensus 42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPS 121 (360)
T KOG0145|consen 42 TNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPS 121 (360)
T ss_pred ceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCC
Confidence 5688888999999999999999999999999975 568999999999999999999999886 456666666543
No 57
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.84 E-value=9e-09 Score=95.74 Aligned_cols=74 Identities=27% Similarity=0.514 Sum_probs=66.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKGG 75 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~~ 75 (223)
.+|.|.|||+.+.+.+|+.+|++||.|..|.|+. +..|||||+|.+..+|.+|++.+|+.+ |+.|-+.|+-++.
T Consensus 118 ~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd 197 (678)
T KOG0127|consen 118 WRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD 197 (678)
T ss_pred ceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence 4789999999999999999999999999999985 346999999999999999999999998 8888888876553
No 58
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.81 E-value=5.2e-09 Score=88.22 Aligned_cols=69 Identities=45% Similarity=0.755 Sum_probs=61.0
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
|..+|||+||+.+.+.+|+.+|..||+|.++.+. .||+||+|++.-+|+.|+..+|+.+ +.++.+.++.
T Consensus 1 m~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk---~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r 71 (216)
T KOG0106|consen 1 MPRVYIGRLPYRARERDVERFFKGYGKIPDADMK---NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR 71 (216)
T ss_pred CCceeecccCCccchhHHHHHHhhccccccceee---cccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence 6789999999999999999999999999999886 7899999999999999999999998 4444444444
No 59
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.81 E-value=4.8e-09 Score=97.42 Aligned_cols=71 Identities=32% Similarity=0.609 Sum_probs=62.8
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
.||||||..+++|+.|+.+|+.||+|..|.++. .++|||||+|.+.++|.+|++.|||.+ |..|+|+....
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~ 357 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTE 357 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeee
Confidence 389999999999999999999999999998865 468999999999999999999999977 76666665433
No 60
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=2e-08 Score=89.39 Aligned_cols=70 Identities=30% Similarity=0.479 Sum_probs=61.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~ 71 (223)
+.|||..|.+.||.+||+-+|+.||+|..|.|+. ++..||||+|++.+++++|..+|++.. .++|.++.+
T Consensus 240 NVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQS 318 (479)
T KOG0415|consen 240 NVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQS 318 (479)
T ss_pred ceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhh
Confidence 4699999999999999999999999999999985 346699999999999999999999886 566665554
No 61
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.80 E-value=5.4e-08 Score=88.67 Aligned_cols=71 Identities=24% Similarity=0.366 Sum_probs=61.9
Q ss_pred EEEEecCCCCCCHHHHHHHHH-cCCCeEEEEEe----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 3 RVYVGNLDPRVSERDLEDEFR-MFGVLRSVWVA----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~-~~G~I~~v~i~----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
.+||.|+|+++.+.+|+++|. +-|+|+.|.+. ++++|||.|+|+++|.+++|++.||..+ ++.+.+.....
T Consensus 46 ~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 46 SVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred eEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 489999999999999999995 78999999885 4789999999999999999999999887 66666655443
No 62
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.73 E-value=3.4e-08 Score=90.03 Aligned_cols=67 Identities=34% Similarity=0.567 Sum_probs=59.6
Q ss_pred EEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC---CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR---PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~---~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
|||.||++.++.++|.++|+.||+|.+|++..+ ++|| ||+|+++++|++|++.|||.. +..|.+...
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~ 150 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLF 150 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeec
Confidence 799999999999999999999999999999753 5889 999999999999999999997 555555544
No 63
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.73 E-value=1.4e-08 Score=87.38 Aligned_cols=72 Identities=33% Similarity=0.551 Sum_probs=64.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC-------cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN-------GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~-------g~~V~v~~ 70 (223)
.+||||.|...-.|||++.+|..||+|++|.+.+ .+||||||.|.+..+|++||..|+|.. .+.|+++.
T Consensus 20 rklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~AD 99 (371)
T KOG0146|consen 20 RKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFAD 99 (371)
T ss_pred hhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEecc
Confidence 4799999999999999999999999999999874 579999999999999999999999876 46777776
Q ss_pred ccC
Q 041602 71 NSK 73 (223)
Q Consensus 71 ~~~ 73 (223)
.++
T Consensus 100 Tdk 102 (371)
T KOG0146|consen 100 TDK 102 (371)
T ss_pred chH
Confidence 544
No 64
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.70 E-value=3.1e-08 Score=92.23 Aligned_cols=72 Identities=21% Similarity=0.374 Sum_probs=62.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
.||||++||+.++.++|.++|+..|+|..+.++. .++|||||+|.-.+|++.|++..++.. |+.+.+..+..
T Consensus 6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~ 84 (678)
T KOG0127|consen 6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK 84 (678)
T ss_pred ceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence 5899999999999999999999999999998874 468999999999999999999998855 65555555443
No 65
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.63 E-value=4.6e-08 Score=84.34 Aligned_cols=72 Identities=25% Similarity=0.420 Sum_probs=62.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~~ 72 (223)
|+|||=.||.+..+.+|..+|..||.|.+.++. ..+|+|+||.|+++..+++||.+|||.. .++|.+.+++
T Consensus 286 CNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPk 365 (371)
T KOG0146|consen 286 CNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPK 365 (371)
T ss_pred ceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCcc
Confidence 789999999999999999999999999888773 3579999999999999999999999987 3555555554
Q ss_pred C
Q 041602 73 K 73 (223)
Q Consensus 73 ~ 73 (223)
.
T Consensus 366 d 366 (371)
T KOG0146|consen 366 D 366 (371)
T ss_pred c
Confidence 3
No 66
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.61 E-value=3.2e-08 Score=88.01 Aligned_cols=73 Identities=26% Similarity=0.434 Sum_probs=62.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~~~~~ 74 (223)
++||||+|+++++++.|++.|.+||+|.+|.+++ .++||+||+|++++.+.+++..-..+. +..|+...+.+.
T Consensus 7 ~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r 85 (311)
T KOG4205|consen 7 GKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSR 85 (311)
T ss_pred cceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCc
Confidence 6899999999999999999999999999999975 468999999999999999987655544 777777766543
No 67
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.61 E-value=1.3e-07 Score=79.55 Aligned_cols=70 Identities=29% Similarity=0.559 Sum_probs=60.8
Q ss_pred EEEEecCCCCCCHHHHHH----HHHcCCCeEEEEEee--CCCCEEEEEEcCHHHHHHHHHHhCCCC--c--EEEEEeecc
Q 041602 3 RVYVGNLDPRVSERDLED----EFRMFGVLRSVWVAR--RPPGYAFVEFDDRRDAVDAIRALDGKN--G--WRVELSHNS 72 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~----~F~~~G~I~~v~i~~--~~rGfaFV~F~~~e~A~~Al~~lng~~--g--~~V~v~~~~ 72 (223)
||||-||+..+..++|+. +|++||+|.+|...+ +.+|-|||.|.+.+.|..|+.+|+|.. + ++|++++.+
T Consensus 11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~ 90 (221)
T KOG4206|consen 11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSD 90 (221)
T ss_pred eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCc
Confidence 899999999999998887 999999999998864 568999999999999999999999997 4 555555543
No 68
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.60 E-value=8.1e-08 Score=78.52 Aligned_cols=70 Identities=33% Similarity=0.593 Sum_probs=58.0
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEE-EEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSV-WVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v-~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~ 71 (223)
.+|||+||.++++|..|.+.|+.||.+... +++ ++++|||||.|++.+.+.+|++.||+.. .+.|.++..
T Consensus 97 anlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k 176 (203)
T KOG0131|consen 97 ANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFK 176 (203)
T ss_pred ccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEe
Confidence 479999999999999999999999987652 332 4678999999999999999999999987 444555443
No 69
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.57 E-value=1.3e-07 Score=90.22 Aligned_cols=71 Identities=34% Similarity=0.601 Sum_probs=61.5
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC--C------CCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR--P------PGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~--~------rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
++|||.||++.+|.++|+.+|.+.|.|..+.|..+ + .|||||+|.+.++|++|++.|+|+. |..|++..+
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 45999999999999999999999999999988642 2 3999999999999999999999887 666666655
Q ss_pred c
Q 041602 72 S 72 (223)
Q Consensus 72 ~ 72 (223)
.
T Consensus 596 ~ 596 (725)
T KOG0110|consen 596 E 596 (725)
T ss_pred c
Confidence 4
No 70
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.55 E-value=1.9e-07 Score=87.53 Aligned_cols=70 Identities=20% Similarity=0.383 Sum_probs=60.6
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC-----CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR-----PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~-----~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
+|||.+|+..|...||+.+|++||+|...+|+.+ .++|+||++.+.++|.+||+.|+.++ |..|.|.++.
T Consensus 407 NlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 407 NLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred ceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 6999999999999999999999999999988742 36799999999999999999999887 6555555543
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.55 E-value=6.7e-08 Score=92.22 Aligned_cols=72 Identities=29% Similarity=0.533 Sum_probs=64.0
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC-----CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR-----PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~-----~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
+++|+|.|||+..+-.+++.+|..||.|..|.|+.+ ++|||||+|-++.+|.+|+++|..+. |+++.+.|+.
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~ 691 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAK 691 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhc
Confidence 579999999999999999999999999999999753 58999999999999999999999665 7666666654
No 72
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.48 E-value=4.6e-07 Score=82.65 Aligned_cols=69 Identities=33% Similarity=0.527 Sum_probs=59.5
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC--CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR--PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~--~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
+..|||| +++||..|.++|+.+|+|..++++.+ +.|||||.|.++++|++||++||... +..|.+.++.
T Consensus 1 ~~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~ 73 (369)
T KOG0123|consen 1 MASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQ 73 (369)
T ss_pred CCceecC---CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhc
Confidence 4689999 89999999999999999999988643 67899999999999999999999876 5556655553
No 73
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.44 E-value=1.3e-06 Score=73.78 Aligned_cols=74 Identities=23% Similarity=0.359 Sum_probs=58.9
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEE--EEeeCC----CCEEEEEEcCHHHHHHHHHHhCCCC-------cEEEE
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSV--WVARRP----PGYAFVEFDDRRDAVDAIRALDGKN-------GWRVE 67 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v--~i~~~~----rGfaFV~F~~~e~A~~Al~~lng~~-------g~~V~ 67 (223)
|.||||.+||.++...+|..+|..|---+.. ++..+. +-+|||+|.+..+|++|+.+|||.. .++|+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE 113 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE 113 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence 5699999999999999999999887533443 333222 3599999999999999999999985 47788
Q ss_pred EeeccCC
Q 041602 68 LSHNSKG 74 (223)
Q Consensus 68 v~~~~~~ 74 (223)
++++..+
T Consensus 114 lAKSNtK 120 (284)
T KOG1457|consen 114 LAKSNTK 120 (284)
T ss_pred ehhcCcc
Confidence 8776544
No 74
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.41 E-value=1.4e-06 Score=74.75 Aligned_cols=69 Identities=33% Similarity=0.528 Sum_probs=58.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
+.+||+|+...+|.++++.+|+.||.|..+.|+ ++++|||||+|.+.+.+++|++ ||+.. +..+++...
T Consensus 102 ~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~ 177 (231)
T KOG4209|consen 102 PSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLK 177 (231)
T ss_pred ceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeee
Confidence 579999999999988899999999999887775 2579999999999999999998 99887 444444443
No 75
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.40 E-value=3.3e-07 Score=81.54 Aligned_cols=73 Identities=30% Similarity=0.552 Sum_probs=60.2
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHh-CCCCcEEEEEeeccCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRAL-DGKNGWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~l-ng~~g~~V~v~~~~~~ 74 (223)
.+|||++||.+++++++++.|++||.|..+.++. +++||+||.|.+++.+++++..- +...+..|++..+.++
T Consensus 98 kkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~pk 176 (311)
T KOG4205|consen 98 KKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIPK 176 (311)
T ss_pred eEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeeccch
Confidence 4899999999999999999999999998888763 56899999999999999997522 2222777888777654
No 76
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.38 E-value=5.7e-07 Score=86.04 Aligned_cols=70 Identities=37% Similarity=0.570 Sum_probs=61.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee--------CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR--------RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~--------~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
|+|||+||++.++|+.|-..|..||+|..|+|+- ..+.||||.|-+..||++|++.|+|.. ...+++.|+
T Consensus 175 TNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWg 254 (877)
T KOG0151|consen 175 TNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWG 254 (877)
T ss_pred cceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccc
Confidence 6899999999999999999999999999999862 346799999999999999999999997 555555554
No 77
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.37 E-value=8.9e-07 Score=80.86 Aligned_cols=69 Identities=20% Similarity=0.274 Sum_probs=59.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~ 70 (223)
|+|||.|||.+.|++-|++.|..||.|+.++|+...+.-+.|.|.++++|+.|+..|++.. +..|+|..
T Consensus 537 ~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y 607 (608)
T KOG4212|consen 537 CQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRNIKVTY 607 (608)
T ss_pred cEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence 7899999999999999999999999999999954333344999999999999999999987 77776653
No 78
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.36 E-value=1e-06 Score=79.01 Aligned_cols=61 Identities=30% Similarity=0.624 Sum_probs=56.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.+|||..+.++.+|+||+..|+.||+|..|.+.. .++||+|++|++.....+|+..||-..
T Consensus 211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFD 276 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFD 276 (544)
T ss_pred heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhh
Confidence 5799999999999999999999999999999963 569999999999999999999998665
No 79
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.34 E-value=3.7e-07 Score=85.25 Aligned_cols=60 Identities=35% Similarity=0.476 Sum_probs=56.9
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
+|+|-|||..+++++|..+|+.||+|+.|......+|..||+|-|.-+|+.|+++|++.+
T Consensus 77 ~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~ 136 (549)
T KOG4660|consen 77 TLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRRE 136 (549)
T ss_pred eEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHH
Confidence 799999999999999999999999999988877779999999999999999999999876
No 80
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.29 E-value=3.1e-06 Score=72.86 Aligned_cols=69 Identities=35% Similarity=0.484 Sum_probs=59.0
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~ 70 (223)
++|+|.|||..++++||+++|+.||+++.+.|. +.+.|.|-|.|...+||+.|++.+|+.. +..+++..
T Consensus 84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~ 158 (243)
T KOG0533|consen 84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEI 158 (243)
T ss_pred ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEE
Confidence 579999999999999999999999988888774 3567999999999999999999999975 44444443
No 81
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.24 E-value=4.4e-07 Score=76.26 Aligned_cols=59 Identities=24% Similarity=0.276 Sum_probs=54.4
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
||||+|+...++|+-|.++|-+.|+|.+|.|.. +.+ ||||.|.++..+.-|++.|||..
T Consensus 11 tl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~ 73 (267)
T KOG4454|consen 11 TLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDD 73 (267)
T ss_pred HHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccch
Confidence 789999999999999999999999999999974 334 99999999999999999999886
No 82
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.23 E-value=4e-06 Score=69.84 Aligned_cols=60 Identities=28% Similarity=0.455 Sum_probs=53.5
Q ss_pred EEEEecCCCCCCHHHHHHHHHcC-CCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMF-GVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~-G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
-++|..+|..+.+.++..+|.++ |.|..+++. ++++|||||+|++++.|+-|-+.||+..
T Consensus 51 ~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYL 116 (214)
T KOG4208|consen 51 VVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYL 116 (214)
T ss_pred ceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhh
Confidence 36889999999999999999988 688888773 4789999999999999999999999987
No 83
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.22 E-value=1e-06 Score=74.36 Aligned_cols=61 Identities=23% Similarity=0.422 Sum_probs=51.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.||||.||..++||++|+.+|+.|-....++|.. ..-..||++|++.+.|..|+..|+|..
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~ 272 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNL 272 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhcce
Confidence 5899999999999999999999997766666642 223489999999999999999998764
No 84
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.11 E-value=2.1e-05 Score=56.89 Aligned_cols=66 Identities=26% Similarity=0.354 Sum_probs=45.6
Q ss_pred cEEEEecCCCCCCHHH----HHHHHHcCC-CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERD----LEDEFRMFG-VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~----L~~~F~~~G-~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
+.|+|.|||.+.+... |++++..|| +|..|. .+.|+|.|.+++.|..|.+.|+|.. |.+|.+....
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-----~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~ 75 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-----GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP 75 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-----CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence 5799999999988764 567777886 776662 6799999999999999999999887 7777777763
No 85
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.10 E-value=2.7e-05 Score=58.08 Aligned_cols=73 Identities=22% Similarity=0.295 Sum_probs=58.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHc--CCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC------cEEEEE
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRM--FGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN------GWRVEL 68 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~--~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~------g~~V~v 68 (223)
|||.|.|+|...|.++|.+++.. .|....+.++- -+.|||||.|.++++|.+-.+.++|.. ...+++
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 79999999999999999999865 36667777753 357999999999999999999999886 345566
Q ss_pred eeccCC
Q 041602 69 SHNSKG 74 (223)
Q Consensus 69 ~~~~~~ 74 (223)
..|.-+
T Consensus 82 ~yAriQ 87 (97)
T PF04059_consen 82 SYARIQ 87 (97)
T ss_pred ehhHhh
Confidence 665433
No 86
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.08 E-value=6e-06 Score=69.82 Aligned_cols=64 Identities=44% Similarity=0.627 Sum_probs=56.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEE
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVEL 68 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v 68 (223)
+.+.|.|++..+.+.+|.++|.++|++....+ ..+++||+|.+.++|..|+..+++.+ +..|.+
T Consensus 100 ~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~---~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 100 FRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA---RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred ceeeeccchhhhhHHHHhhhhcccCCCchhhh---hccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 46788999999999999999999999966555 37899999999999999999999987 666666
No 87
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.03 E-value=1.6e-05 Score=70.76 Aligned_cols=76 Identities=20% Similarity=0.291 Sum_probs=63.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEE--------EEEe----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEE
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRS--------VWVA----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVE 67 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~--------v~i~----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~ 67 (223)
+.|||.|||.++|.+++.++|++||-|.. |++- ++.+|-|.+.|-..++++-|++.|++.. |..|.
T Consensus 135 t~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~r 214 (382)
T KOG1548|consen 135 TSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLR 214 (382)
T ss_pred ceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEE
Confidence 46999999999999999999999998764 3332 3568999999999999999999999998 77777
Q ss_pred EeeccCCCCC
Q 041602 68 LSHNSKGGGG 77 (223)
Q Consensus 68 v~~~~~~~r~ 77 (223)
|..+.-+.++
T Consensus 215 VerAkfq~Kg 224 (382)
T KOG1548|consen 215 VERAKFQMKG 224 (382)
T ss_pred Eehhhhhhcc
Confidence 7777555443
No 88
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=97.91 E-value=4e-05 Score=57.95 Aligned_cols=59 Identities=22% Similarity=0.322 Sum_probs=38.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGK 61 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~ 61 (223)
+-|.|.|++..++.++|++.|++||+|..|++... ..-|+|-|.++++|++|++++...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G-~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG-DTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT--SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC-CCEEEEEECCcchHHHHHHHHHhc
Confidence 35788899999999999999999999999998732 338999999999999999876544
No 89
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.83 E-value=4.9e-05 Score=70.43 Aligned_cols=67 Identities=22% Similarity=0.301 Sum_probs=52.3
Q ss_pred EEEecCCCCCCHHHHHHHHHcCCCeEEEEEe---eCCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEeec
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFGVLRSVWVA---RRPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSHN 71 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G~I~~v~i~---~~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~~ 71 (223)
|-+.+||+++|++||.++|+.+ .|+.+.++ +++.|-|||+|.+++++++|+++-...+ ...|+|-.+
T Consensus 13 vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 13 VRLRGLPWSATEKEILDFFSNC-GIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTA 83 (510)
T ss_pred EEecCCCccccHHHHHHHHhcC-ceeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEcc
Confidence 4457999999999999999999 56777665 3678999999999999999998433333 345555544
No 90
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.81 E-value=8.8e-05 Score=67.49 Aligned_cols=71 Identities=21% Similarity=0.340 Sum_probs=62.9
Q ss_pred cEEEEecCCCC-CCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeecc
Q 041602 2 SRVYVGNLDPR-VSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~-~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~ 72 (223)
+.|.|.||..+ +|++.|..+|.-||+|..|+|..+++.-|.|+|.+...|+-|+++|+|.. +..+.+..++
T Consensus 298 ~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 298 VVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred eEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 46789999875 89999999999999999999988778899999999999999999999998 6666666653
No 91
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.73 E-value=0.00063 Score=56.23 Aligned_cols=58 Identities=36% Similarity=0.432 Sum_probs=52.8
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.|.|.+||+..+++||+++..+.|+|....+.+ .|++.|+|...|+.+-|+..|+...
T Consensus 117 RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~r--Dg~GvV~~~r~eDMkYAvr~ld~~~ 174 (241)
T KOG0105|consen 117 RVVVSGLPPSGSWQDLKDHMREAGDVCFADVQR--DGVGVVEYLRKEDMKYAVRKLDDQK 174 (241)
T ss_pred eEEEecCCCCCchHHHHHHHHhhCCeeeeeeec--ccceeeeeeehhhHHHHHHhhcccc
Confidence 578999999999999999999999998888865 4699999999999999999998765
No 92
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.61 E-value=0.0002 Score=47.43 Aligned_cols=52 Identities=21% Similarity=0.586 Sum_probs=42.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHH
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAI 55 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al 55 (223)
+.|-|.|.++...+ ++..+|.+||+|..+.+. ....+.+|.|.+..+|++|+
T Consensus 2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~-~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVP-ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcC-CCCcEEEEEECCHHHHHhhC
Confidence 46778898876654 455699999999999886 33569999999999999985
No 93
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.54 E-value=0.00025 Score=63.54 Aligned_cols=74 Identities=27% Similarity=0.369 Sum_probs=61.5
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEE--------E-----eeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEE
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVW--------V-----ARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRV 66 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~--------i-----~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V 66 (223)
.+|||-+||..+++++|.++|.++|.|+.-+ | ...+|+-|.|.|+++..|++|++.++++. +..|
T Consensus 67 ~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~i 146 (351)
T KOG1995|consen 67 ETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTI 146 (351)
T ss_pred ccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCc
Confidence 5899999999999999999999999886522 1 12568999999999999999999999887 6677
Q ss_pred EEeeccCCC
Q 041602 67 ELSHNSKGG 75 (223)
Q Consensus 67 ~v~~~~~~~ 75 (223)
+|+.+....
T Consensus 147 kvs~a~~r~ 155 (351)
T KOG1995|consen 147 KVSLAERRT 155 (351)
T ss_pred hhhhhhhcc
Confidence 777765543
No 94
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.53 E-value=0.00036 Score=58.98 Aligned_cols=60 Identities=28% Similarity=0.412 Sum_probs=55.1
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.+|+.|||.+++.+.|..+|.+|.-.+.|.++....+.|||+|.+...|..|..++++..
T Consensus 148 ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~ 207 (221)
T KOG4206|consen 148 ILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFK 207 (221)
T ss_pred EEEEecCCcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhhhHHHhhhhccce
Confidence 689999999999999999999999989999886668899999999999999999998775
No 95
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=97.32 E-value=0.00033 Score=60.28 Aligned_cols=60 Identities=33% Similarity=0.633 Sum_probs=52.6
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
+||-|.|..+++.+.|-..|.+|-.....+++ ++++||+||.|.+++++..|+.+|||+.
T Consensus 192 RIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gky 256 (290)
T KOG0226|consen 192 RIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKY 256 (290)
T ss_pred eeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccc
Confidence 68889999999999999999999765555554 3679999999999999999999999986
No 96
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.32 E-value=0.0012 Score=59.68 Aligned_cols=73 Identities=22% Similarity=0.314 Sum_probs=64.2
Q ss_pred cEEEEecCCCC-CCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccCC
Q 041602 2 SRVYVGNLDPR-VSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSKG 74 (223)
Q Consensus 2 ttLfVgnLp~~-~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~~ 74 (223)
+.+.|-+|... ++-+-|..+|-.||.|+.|++++...|.|.|++.+..+++.|+..||+.. |.++++..+...
T Consensus 288 ~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~ 363 (494)
T KOG1456|consen 288 CVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN 363 (494)
T ss_pred cEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc
Confidence 35678899875 67788999999999999999999889999999999999999999999987 888888877543
No 97
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.32 E-value=0.00057 Score=63.51 Aligned_cols=69 Identities=22% Similarity=0.303 Sum_probs=52.4
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEE-EEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEeec
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRS-VWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSHN 71 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~-v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~~ 71 (223)
.|-+.+||+.+|++||.++|+-.-.|.. +.++. .+.|-|||.|++.++|++|+....... ...|+|-++
T Consensus 105 vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 105 VVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRS 179 (510)
T ss_pred eEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehh
Confidence 3556899999999999999997644433 33432 457899999999999999998665555 456676655
No 98
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.06 E-value=0.00041 Score=63.55 Aligned_cols=60 Identities=22% Similarity=0.320 Sum_probs=51.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeC------------------CCCEEEEEEcCHHHHHHHHHHhCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARR------------------PPGYAFVEFDDRRDAVDAIRALDGK 61 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~------------------~rGfaFV~F~~~e~A~~Al~~lng~ 61 (223)
.+|.+-|||.+-.-+.|.++|..+|.|+.|+|++- .+-+|+|+|++.+.|.+|.+.|+..
T Consensus 232 rtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e 309 (484)
T KOG1855|consen 232 RTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPE 309 (484)
T ss_pred ceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchh
Confidence 37888999999888999999999999999999631 2568999999999999999988544
No 99
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.99 E-value=0.00066 Score=63.94 Aligned_cols=71 Identities=24% Similarity=0.496 Sum_probs=60.5
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC-c-EEEEEeecc
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN-G-WRVELSHNS 72 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~-g-~~V~v~~~~ 72 (223)
.++||+|||...++..+.++...||+++...++. .++||||.+|.++.....|+..|||.. + ..+.+..+.
T Consensus 290 ~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~ 367 (500)
T KOG0120|consen 290 NKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAI 367 (500)
T ss_pred chhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhh
Confidence 5789999999999999999999999998887764 568999999999999999999999998 3 444444443
No 100
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.99 E-value=0.0027 Score=59.47 Aligned_cols=59 Identities=29% Similarity=0.528 Sum_probs=47.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee--------CCCC---EEEEEEcCHHHHHHHHHHhCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR--------RPPG---YAFVEFDDRRDAVDAIRALDGK 61 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~--------~~rG---faFV~F~~~e~A~~Al~~lng~ 61 (223)
.+||||+||++++|+.|.+.|..||.+ .|+.++ .++| |+|+.|+++..+.+-+.+....
T Consensus 260 ~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~ 329 (520)
T KOG0129|consen 260 RKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEG 329 (520)
T ss_pred cceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhc
Confidence 479999999999999999999999986 344441 2467 9999999999988877765433
No 101
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.80 E-value=0.0035 Score=58.68 Aligned_cols=69 Identities=29% Similarity=0.458 Sum_probs=55.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHH-cCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHH----hCCCC-cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFR-MFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRA----LDGKN-GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~-~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~----lng~~-g~~V~v~~ 70 (223)
.|||||+||.-++.++|-.+|+ -||.|..+-|- +-++|-|=|+|.+..+-.+||.+ ++..+ ..+|||..
T Consensus 371 rTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~d~~KRVEIkP 450 (520)
T KOG0129|consen 371 RTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQLDHTDIDKRVEIKP 450 (520)
T ss_pred ceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhheEEEeccccceeeeecc
Confidence 5899999999999999999998 69999988773 34799999999999999999873 33333 44566553
No 102
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.79 E-value=0.029 Score=51.04 Aligned_cols=65 Identities=22% Similarity=0.209 Sum_probs=54.3
Q ss_pred cCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC------cEEEEEeecc
Q 041602 8 NLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN------GWRVELSHNS 72 (223)
Q Consensus 8 nLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~------g~~V~v~~~~ 72 (223)
|--+.+|.+-|..+-...|+|..|.|.+++---|.|+|++.+.|++|..+|||.. .++|+++++.
T Consensus 129 Np~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~ 199 (494)
T KOG1456|consen 129 NPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPT 199 (494)
T ss_pred cCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcc
Confidence 3334689999999999999999999987765689999999999999999999998 3566666543
No 103
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.75 E-value=0.004 Score=55.78 Aligned_cols=69 Identities=20% Similarity=0.483 Sum_probs=54.3
Q ss_pred EEEEecCCCCCCHHH------HHHHHHcCCCeEEEEEeeCC------CCE--EEEEEcCHHHHHHHHHHhCCCC--cEEE
Q 041602 3 RVYVGNLDPRVSERD------LEDEFRMFGVLRSVWVARRP------PGY--AFVEFDDRRDAVDAIRALDGKN--GWRV 66 (223)
Q Consensus 3 tLfVgnLp~~~te~~------L~~~F~~~G~I~~v~i~~~~------rGf--aFV~F~~~e~A~~Al~~lng~~--g~~V 66 (223)
-+||-+|++.+..++ -.++|.+||+|..|.|.++. .+. .||+|.+.|||..||.+.+|.. |..+
T Consensus 116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~l 195 (480)
T COG5175 116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVL 195 (480)
T ss_pred eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceE
Confidence 378999998865554 24789999999999886531 222 3999999999999999999987 7777
Q ss_pred EEeec
Q 041602 67 ELSHN 71 (223)
Q Consensus 67 ~v~~~ 71 (223)
+.+..
T Consensus 196 katYG 200 (480)
T COG5175 196 KATYG 200 (480)
T ss_pred eeecC
Confidence 76664
No 104
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.70 E-value=0.0034 Score=57.42 Aligned_cols=69 Identities=23% Similarity=0.381 Sum_probs=54.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCC-CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC-----cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFG-VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN-----GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G-~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~-----g~~V~v~~ 70 (223)
++|...|+|..++|++|+++|..-| .|+..+.-.+.+-+|++.+++.|+|..|+..++... -++|.+++
T Consensus 415 atlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSk 489 (492)
T KOG1190|consen 415 ATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSK 489 (492)
T ss_pred hheeeccCCcccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhHhhhhccccccccCCCCceEEEEeec
Confidence 4789999999999999999999887 445555544456699999999999999998887665 34555543
No 105
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.62 E-value=0.0019 Score=57.10 Aligned_cols=68 Identities=25% Similarity=0.498 Sum_probs=54.6
Q ss_pred EEE-EecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 3 RVY-VGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 3 tLf-VgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
++| |+||+..+++++|+.+|..+|.|..+.+.. ..+|||+|+|.+...+..|+.. +... ++.+.+...
T Consensus 186 ~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 261 (285)
T KOG4210|consen 186 TIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEED 261 (285)
T ss_pred cceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccC
Confidence 345 999999999999999999999999998863 4689999999999999999865 4443 444444444
No 106
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.47 E-value=0.018 Score=39.36 Aligned_cols=54 Identities=22% Similarity=0.226 Sum_probs=43.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcC---CCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHh
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMF---GVLRSVWVARRPPGYAFVEFDDRRDAVDAIRAL 58 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~---G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~l 58 (223)
.+|+|.|+. +.+.++|+.+|..| .....|.++.+. -|-|.|.+.+.|.+||.+|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt--ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT--SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC--cEEEEECCHHHHHHHHHcC
Confidence 579999996 68889999999988 134567776543 5889999999999999865
No 107
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.44 E-value=0.0068 Score=57.49 Aligned_cols=60 Identities=28% Similarity=0.436 Sum_probs=48.8
Q ss_pred EEEEecCCCCCC------HHHHHHHHHcCCCeEEEEEe----eCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVS------ERDLEDEFRMFGVLRSVWVA----RRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~t------e~~L~~~F~~~G~I~~v~i~----~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
-|+|.|+|---. ..-|..+|+++|+|..+.++ +..+||.|++|.+..+|+.|++.+||..
T Consensus 60 vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ 129 (698)
T KOG2314|consen 60 VVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKR 129 (698)
T ss_pred EEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccce
Confidence 467788874322 12466889999999999886 3568999999999999999999999986
No 108
>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=96.37 E-value=0.023 Score=42.60 Aligned_cols=58 Identities=17% Similarity=0.292 Sum_probs=41.2
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEE------------EeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVW------------VARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~------------i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
-|.|-|.|+. ....|.+.|++||+|.+.. -.........|.|+++.+|++||. -||..
T Consensus 8 wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i 77 (100)
T PF05172_consen 8 WVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTI 77 (100)
T ss_dssp EEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEE
T ss_pred EEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeE
Confidence 4677888877 5567788999999998774 111235699999999999999996 66665
No 109
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.33 E-value=0.0045 Score=56.92 Aligned_cols=69 Identities=39% Similarity=0.596 Sum_probs=54.3
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcC--CCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC---cEEEEEeecc
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMF--GVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN---GWRVELSHNS 72 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~--G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~---g~~V~v~~~~ 72 (223)
|+++|++||.+.++..||+.+|... +--..+ ++ ..||+||++.+..-|.+|++.++++. |.+.++...-
T Consensus 1 mnklyignL~p~~~psdl~svfg~ak~~~~g~f-l~--k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv 74 (584)
T KOG2193|consen 1 MNKLYIGNLSPQVTPSDLESVFGDAKIPGSGQF-LV--KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CCcccccccCCCCChHHHHHHhccccCCCCcce-ee--ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 6799999999999999999999754 211122 22 26899999999999999999999886 6666666543
No 110
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.31 E-value=0.0054 Score=52.91 Aligned_cols=47 Identities=23% Similarity=0.413 Sum_probs=38.5
Q ss_pred HHHHHHHH-cCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 16 RDLEDEFR-MFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 16 ~~L~~~F~-~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
++|...|+ +||+|+.++|.. +..|-++|.|...++|++|++.||+.-
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw 134 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRW 134 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCcc
Confidence 45555565 899999987753 347899999999999999999999875
No 111
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.30 E-value=0.0086 Score=56.48 Aligned_cols=55 Identities=22% Similarity=0.373 Sum_probs=45.7
Q ss_pred HHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEee
Q 041602 16 RDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSH 70 (223)
Q Consensus 16 ~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~ 70 (223)
+|+.+...+||+|..|.|.+.+.|+.||.|.+.++|..|+.+|||.= +..|..+.
T Consensus 468 edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~ 524 (549)
T KOG0147|consen 468 EDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKY 524 (549)
T ss_pred HHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEE
Confidence 45666669999999999987777999999999999999999999875 55555443
No 112
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=96.23 E-value=0.013 Score=52.83 Aligned_cols=60 Identities=22% Similarity=0.323 Sum_probs=48.0
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCC--CeEEEEE-----eeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFG--VLRSVWV-----ARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G--~I~~v~i-----~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
-+|||||-+.||++||.+....-| .+.++++ .+.+||||+|...+.+.+++-++.|..++
T Consensus 82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~ 148 (498)
T KOG4849|consen 82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKT 148 (498)
T ss_pred EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccce
Confidence 489999999999999998887766 4444444 35789999999999999999888665443
No 113
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.05 E-value=0.017 Score=54.66 Aligned_cols=55 Identities=36% Similarity=0.533 Sum_probs=43.7
Q ss_pred HHHHHHHHcCCCeEEEEEeeC--------CCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEee
Q 041602 16 RDLEDEFRMFGVLRSVWVARR--------PPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSH 70 (223)
Q Consensus 16 ~~L~~~F~~~G~I~~v~i~~~--------~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~ 70 (223)
++++..+++||.|..|.++.. ..|..||+|.+.+++++|+++|+|.+ +..|..+.
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsY 488 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASY 488 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEe
Confidence 355666788999999998642 25688999999999999999999998 55555443
No 114
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.03 E-value=0.029 Score=50.44 Aligned_cols=56 Identities=34% Similarity=0.532 Sum_probs=46.7
Q ss_pred HHHHHHHHcCCCeEEEEEe-eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 16 RDLEDEFRMFGVLRSVWVA-RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 16 ~~L~~~F~~~G~I~~v~i~-~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
++|.+.-++||+|..|.|- .++.|.+-|.|.+.++|+.||+.|+|.- ++.|.....
T Consensus 291 edl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~ 349 (382)
T KOG1548|consen 291 EDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIW 349 (382)
T ss_pred HHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEe
Confidence 4566778899999999886 4789999999999999999999999986 666655443
No 115
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.71 E-value=0.051 Score=43.32 Aligned_cols=68 Identities=26% Similarity=0.350 Sum_probs=51.2
Q ss_pred CcEEEEecCCCCCC-HHH---HHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEee
Q 041602 1 MSRVYVGNLDPRVS-ERD---LEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSH 70 (223)
Q Consensus 1 ~ttLfVgnLp~~~t-e~~---L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~ 70 (223)
|.||.|.=|..++. .+| +....+.||+|..|.+.+ +.-|.|.|.+..+|=+|+.+++... +-.+..++
T Consensus 86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG--rqsavVvF~d~~SAC~Av~Af~s~~pgtm~qCsW 158 (166)
T PF15023_consen 86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG--RQSAVVVFKDITSACKAVSAFQSRAPGTMFQCSW 158 (166)
T ss_pred ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC--CceEEEEehhhHHHHHHHHhhcCCCCCceEEeec
Confidence 57888877766643 244 445567899999999976 4589999999999999999988665 55555544
No 116
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=95.55 E-value=0.011 Score=58.35 Aligned_cols=70 Identities=19% Similarity=0.246 Sum_probs=57.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe----eCCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeec
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA----RRPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~----~~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~ 71 (223)
.+++|.|+|+..|.++|+.++.++|.++++.++ ++++|-|+|.|.++.++..++..++... ...|.+..+
T Consensus 737 ~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 737 ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 368999999999999999999999999998775 4789999999999999999977665443 344555433
No 117
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=94.99 E-value=0.025 Score=51.55 Aligned_cols=68 Identities=24% Similarity=0.266 Sum_probs=53.0
Q ss_pred EEEecCCCCCCHHHHHHHHHcCC-CeEE--EEEe----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFG-VLRS--VWVA----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G-~I~~--v~i~----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
|-+.+||++.+.+||-++|..|. .|.. |.|+ +.+-|-|||+|.+.++|.+|..+.+.+. .+.|++-..
T Consensus 283 vRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~ 359 (508)
T KOG1365|consen 283 VRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPC 359 (508)
T ss_pred eEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeec
Confidence 45689999999999999998886 3333 4443 3567899999999999999988776554 566776654
No 118
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=94.75 E-value=0.017 Score=52.76 Aligned_cols=58 Identities=16% Similarity=0.140 Sum_probs=47.5
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-CCCCEEEEEEcCHHHHHHHHHHhCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-RPPGYAFVEFDDRRDAVDAIRALDGK 61 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-~~rGfaFV~F~~~e~A~~Al~~lng~ 61 (223)
+++|++|+..+..+++-+.|..+|+|....+.. ...-+|-|+|........|+. ++|.
T Consensus 153 t~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr-~~gr 211 (479)
T KOG4676|consen 153 TREVQSLISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALR-SHGR 211 (479)
T ss_pred hhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHH-hcch
Confidence 688999999999999999999999998877643 234477899999999999987 4444
No 119
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=94.62 E-value=0.022 Score=49.27 Aligned_cols=60 Identities=22% Similarity=0.346 Sum_probs=51.3
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-------------CCC----CEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-------------RPP----GYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-------------~~r----GfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.||+++||+.++..-|+++|++||+|-.|.+.. .+. --|.|+|.+...|+.+.+.||+..
T Consensus 76 VvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 76 VVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred EEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 589999999999999999999999999998842 011 146899999999999999999876
No 120
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=94.59 E-value=0.1 Score=50.93 Aligned_cols=66 Identities=24% Similarity=0.330 Sum_probs=52.4
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCe-EEEEEe----eCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEE
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVL-RSVWVA----RRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVEL 68 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I-~~v~i~----~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v 68 (223)
.|-+-|+|++++-+||.++|.-|-.+ .+|.+. +.+.|-|.|.|++.++|..|...++++. ..+|.+
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l 941 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSL 941 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEE
Confidence 46678999999999999999999543 234332 2567899999999999999999999887 344444
No 121
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=94.49 E-value=0.11 Score=47.55 Aligned_cols=59 Identities=29% Similarity=0.260 Sum_probs=44.8
Q ss_pred EEEecCCCCCCHHHHHHHHHcC----CCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 4 VYVGNLDPRVSERDLEDEFRMF----GVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~----G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
|-+.+||+++++.|+.++|..- |..+.|.++. ++.|-|||.|.++++|+.|+.+-.+..
T Consensus 164 vRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~i 230 (508)
T KOG1365|consen 164 VRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNI 230 (508)
T ss_pred EEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHH
Confidence 4457999999999999999632 2444555543 457899999999999999997554433
No 122
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=94.42 E-value=0.049 Score=47.17 Aligned_cols=58 Identities=31% Similarity=0.429 Sum_probs=49.8
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe----eCCCCEEEEEEcCHHHHHHHHHHhC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA----RRPPGYAFVEFDDRRDAVDAIRALD 59 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~----~~~rGfaFV~F~~~e~A~~Al~~ln 59 (223)
+.|||.||+..++.+.|...|..||+|....+. .++.+-++|.|...-.|.+|+..+.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhc
Confidence 468999999999999999999999998775543 3556789999999999999998774
No 123
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.37 E-value=0.063 Score=53.52 Aligned_cols=68 Identities=26% Similarity=0.463 Sum_probs=57.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC------cEEEEEee
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN------GWRVELSH 70 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~------g~~V~v~~ 70 (223)
+.+||++|..++....|...|..||.|..|.+-. ..-||+|.|++...+++|+..|.+.. .+.|.++.
T Consensus 456 tr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h-gq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~ 529 (975)
T KOG0112|consen 456 TRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH-GQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLAS 529 (975)
T ss_pred eeeccCCCCCCChHHHHHHHhhccCcceeeeccc-CCcceeeecccCccchhhHHHHhcCcCCCCCccccccccc
Confidence 5789999999999999999999999999988752 24599999999999999999998775 34555554
No 124
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=94.24 E-value=0.24 Score=39.55 Aligned_cols=53 Identities=25% Similarity=0.436 Sum_probs=41.2
Q ss_pred HHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 17 DLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 17 ~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
+|-+.|.+||++.-++++ .+.-.|+|.+-..|.+|+. |+|.+ +..+++....+
T Consensus 52 ~ll~~~~~~GevvLvRfv---~~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtp 106 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFV---GDTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTP 106 (146)
T ss_dssp HHHHHHHCCS-ECEEEEE---TTCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE---
T ss_pred HHHHHHHhCCceEEEEEe---CCeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCc
Confidence 677889999999888887 4578999999999999996 88887 66666665443
No 125
>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=94.09 E-value=0.42 Score=34.68 Aligned_cols=56 Identities=20% Similarity=0.296 Sum_probs=40.5
Q ss_pred cCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCCcEEE
Q 041602 8 NLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKNGWRV 66 (223)
Q Consensus 8 nLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~g~~V 66 (223)
.+|.++...||.++|+.||.|.- ..+. ..-|||...+.+.|..|+..+.-....+|
T Consensus 15 tFPkeWK~~DI~qlFspfG~I~V-sWi~--dTSAfV~l~~r~~~~~v~~~~~~~~~y~i 70 (87)
T PF08675_consen 15 TFPKEWKTSDIYQLFSPFGQIYV-SWIN--DTSAFVALHNRDQAKVVMNTLKKNSSYRI 70 (87)
T ss_dssp E--TT--HHHHHHHCCCCCCEEE-EEEC--TTEEEEEECCCHHHHHHHHHHTT-SSSEE
T ss_pred eCchHhhhhhHHHHhccCCcEEE-EEEc--CCcEEEEeecHHHHHHHHHHhccCCceEE
Confidence 48999999999999999999743 3332 45899999999999999988864433333
No 126
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=93.42 E-value=0.071 Score=51.07 Aligned_cols=60 Identities=13% Similarity=0.153 Sum_probs=51.3
Q ss_pred cEEEEecCCCCCCHHHHHHHHHc-CCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRM-FGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~-~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
..|+|.||-.-.|.-+|+.++.+ .|.|... +|.+-+-.|||.|.+.++|.+.+.+|||..
T Consensus 445 nvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-WmDkIKShCyV~yss~eEA~atr~AlhnV~ 505 (718)
T KOG2416|consen 445 NVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-WMDKIKSHCYVSYSSVEEAAATREALHNVQ 505 (718)
T ss_pred ceEeeecccccchHHHHHHHHhhccCchHHH-HHHHhhcceeEecccHHHHHHHHHHHhccc
Confidence 36899999999999999999984 6677666 444447789999999999999999999986
No 127
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=93.42 E-value=0.0063 Score=60.02 Aligned_cols=61 Identities=33% Similarity=0.488 Sum_probs=52.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
+++||.||+..+.+.+|...|..+|.+..+.+. ++.+|.|||+|..++++.+|+...+...
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~ 733 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCF 733 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhh
Confidence 578999999999999999999999987776553 3668999999999999999998655444
No 128
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=92.69 E-value=2.2 Score=41.81 Aligned_cols=65 Identities=6% Similarity=0.058 Sum_probs=40.7
Q ss_pred cEEEEecCC--CCCCHHHHHHHHHcCCCeE-----EEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 2 SRVYVGNLD--PRVSERDLEDEFRMFGVLR-----SVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 2 ttLfVgnLp--~~~te~~L~~~F~~~G~I~-----~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
+++|| |+. ..++..+|-.+...-+.|. .|+|. ..|.||+-.. +.|.+.++.|++.. +..|.+..+
T Consensus 487 ~~~~~-~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~---~~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 560 (629)
T PRK11634 487 QLYRI-EVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLF---ASHSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLL 560 (629)
T ss_pred EEEEE-ecccccCCCHHHHHHHHHhhcCCChhhCCcEEEe---CCceEEEcCh-hhHHHHHHHhccccccCCceEEEEC
Confidence 34555 333 4578888888887655443 34444 5689999875 45777777887654 555555544
No 129
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=92.46 E-value=0.14 Score=46.90 Aligned_cols=58 Identities=17% Similarity=0.299 Sum_probs=47.8
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee---C-----CCCEEEEEEcCHHHHHHHHHHhCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR---R-----PPGYAFVEFDDRRDAVDAIRALDGK 61 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~---~-----~rGfaFV~F~~~e~A~~Al~~lng~ 61 (223)
.|.|.||.+++|.++++.+|...|+|..+.|.. + ..-.|||.|.+...+..|.. |.++
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltnt 74 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNT 74 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccc
Confidence 578999999999999999999999999998843 1 13489999999988888864 4433
No 130
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=92.05 E-value=0.47 Score=42.11 Aligned_cols=53 Identities=26% Similarity=0.446 Sum_probs=41.3
Q ss_pred HHHHHHHHHcCCCeEEEEEee------CCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEE
Q 041602 15 ERDLEDEFRMFGVLRSVWVAR------RPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVE 67 (223)
Q Consensus 15 e~~L~~~F~~~G~I~~v~i~~------~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~ 67 (223)
|+++.+..++||+|..|.|.- +-.---||+|+..++|.+|+..|||.. |..|.
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~ 360 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVS 360 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeee
Confidence 356778889999999987742 112357999999999999999999987 55444
No 131
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=91.98 E-value=0.032 Score=55.54 Aligned_cols=60 Identities=23% Similarity=0.375 Sum_probs=51.8
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
|||+|||+..+++.+|+..|..+|.|..|.|.. ..--||||.|.+.+.+-.|+..+.+..
T Consensus 374 TLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~ 437 (975)
T KOG0112|consen 374 TLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPL 437 (975)
T ss_pred hhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCc
Confidence 789999999999999999999999999998842 223499999999999999988777654
No 132
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=90.39 E-value=0.52 Score=46.21 Aligned_cols=67 Identities=22% Similarity=0.169 Sum_probs=49.7
Q ss_pred EEEecCCCCCCHHHHHHHHHcCC-CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEee
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFG-VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSH 70 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G-~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~ 70 (223)
|-+-|||..+...||+.+|+-.- +--.|.|++.-.|-|||.|.+-|||.-|+-+-.++. +..|.+-.
T Consensus 5 IRLqnLP~tAga~DIR~FFSGL~IPdGgVHIIGGe~GeaFI~FsTDeDARlaM~kdr~~i~g~~VrLlL 73 (944)
T KOG4307|consen 5 IRLQNLPMTAGASDIRTFFSGLKIPDGGVHIIGGEEGEAFIGFSTDEDARLAMTKDRLMIHGAEVRLLL 73 (944)
T ss_pred EEecCCcccccchHHHHhhcccccCCCceEEecccccceEEEecccchhhhhhhhcccceecceEEEEe
Confidence 44579999999999999998652 112367777668999999999999999985444443 55555443
No 133
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=89.77 E-value=1.6 Score=36.00 Aligned_cols=9 Identities=22% Similarity=0.368 Sum_probs=4.2
Q ss_pred HHHHHHHHH
Q 041602 48 RRDAVDAIR 56 (223)
Q Consensus 48 ~e~A~~Al~ 56 (223)
..+.+.+..
T Consensus 24 k~eLE~~F~ 32 (195)
T KOG0107|consen 24 KRELERAFS 32 (195)
T ss_pred hHHHHHHHH
Confidence 444455544
No 134
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=88.06 E-value=0.82 Score=37.54 Aligned_cols=61 Identities=15% Similarity=0.278 Sum_probs=41.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHc-CCCe---EEEE--Eee-----CCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRM-FGVL---RSVW--VAR-----RPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~-~G~I---~~v~--i~~-----~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
++|.|.+||+++||+++.+.++. +++- ..+. ... ..-.-|||.|.+.+++..-...++|..
T Consensus 8 ~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~ 79 (176)
T PF03467_consen 8 TKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHV 79 (176)
T ss_dssp -EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEE
T ss_pred ceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcE
Confidence 57999999999999998886665 5544 2332 111 113479999999999999999998864
No 135
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=87.36 E-value=5.6 Score=30.19 Aligned_cols=56 Identities=14% Similarity=0.070 Sum_probs=41.9
Q ss_pred ecCCCCCCHHHHHHHHHcCC-CeEEEEEeeCC---CCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 7 GNLDPRVSERDLEDEFRMFG-VLRSVWVARRP---PGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 7 gnLp~~~te~~L~~~F~~~G-~I~~v~i~~~~---rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
...|..++.++|..+.+.+- .|..++|+++. +--+.+.|.+.++|++-.+.+||+.
T Consensus 19 ~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~ 78 (110)
T PF07576_consen 19 AVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKP 78 (110)
T ss_pred EeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCc
Confidence 34444566677766656654 67788887653 3478999999999999999999986
No 136
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=87.16 E-value=1.1 Score=42.76 Aligned_cols=39 Identities=18% Similarity=0.302 Sum_probs=31.3
Q ss_pred CCCCEEEEEEcCHHHHHHHHHHhCCCC------cEEEEEeeccCC
Q 041602 36 RPPGYAFVEFDDRRDAVDAIRALDGKN------GWRVELSHNSKG 74 (223)
Q Consensus 36 ~~rGfaFV~F~~~e~A~~Al~~lng~~------g~~V~v~~~~~~ 74 (223)
.+.|||||.|.+++++..+.++.||+. ....+++++.-+
T Consensus 429 cNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQ 473 (549)
T KOG4660|consen 429 CNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQ 473 (549)
T ss_pred cccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhh
Confidence 357999999999999999999999997 445566666443
No 137
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=86.70 E-value=3 Score=37.18 Aligned_cols=54 Identities=15% Similarity=0.175 Sum_probs=40.4
Q ss_pred EecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 6 VGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 6 VgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
|-++++.. ..-|-.+|++||+|.+.... .+-.+-+|.|.+..+|++||. .||+.
T Consensus 202 VfGFppg~-~s~vL~~F~~cG~Vvkhv~~-~ngNwMhirYssr~~A~KALs-kng~i 255 (350)
T KOG4285|consen 202 VFGFPPGQ-VSIVLNLFSRCGEVVKHVTP-SNGNWMHIRYSSRTHAQKALS-KNGTI 255 (350)
T ss_pred EeccCccc-hhHHHHHHHhhCeeeeeecC-CCCceEEEEecchhHHHHhhh-hcCee
Confidence 34555443 34566899999999887655 445699999999999999996 56665
No 138
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=86.33 E-value=0.44 Score=47.55 Aligned_cols=67 Identities=25% Similarity=0.357 Sum_probs=53.6
Q ss_pred EEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeec
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHN 71 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~ 71 (223)
.++.|.+-..+-..|..+|.+||.|.+....++ ...|.|+|...+.|..|+++++|++ |..++|..+
T Consensus 301 ~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~-~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~a 371 (1007)
T KOG4574|consen 301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLRD-LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFA 371 (1007)
T ss_pred hhhhcccccchHHHHHHHHHhhcchhhheeccc-ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEec
Confidence 445566667788889999999999999887643 5689999999999999999999998 444444444
No 139
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=85.61 E-value=2 Score=38.03 Aligned_cols=46 Identities=24% Similarity=0.337 Sum_probs=36.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCC-CeEEEEEeeCCCCEEEEEEcCH
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFG-VLRSVWVARRPPGYAFVEFDDR 48 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G-~I~~v~i~~~~rGfaFV~F~~~ 48 (223)
+.|+|+||+.++.-.||+..+.+-+ ....+.+. .+.|-||++|.+.
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk-g~~~k~flh~~~~ 377 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK-GHFGKCFLHFGNR 377 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCceeEeee-cCCcceeEecCCc
Confidence 5689999999999999999998876 33455554 3478899999874
No 140
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=84.76 E-value=7.2 Score=27.05 Aligned_cols=64 Identities=20% Similarity=0.363 Sum_probs=36.3
Q ss_pred cEEEEe-cCCCCCCHHHHHHHHHcCC-----CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEe
Q 041602 2 SRVYVG-NLDPRVSERDLEDEFRMFG-----VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELS 69 (223)
Q Consensus 2 ttLfVg-nLp~~~te~~L~~~F~~~G-----~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~ 69 (223)
+++||. |=-..++..+|-.++..-+ .|-.|.|. ..|+||+-.. +.|+.+++.|++.. +.+|.+.
T Consensus 1 vrl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~---~~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 1 VRLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIF---DNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp -EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE----SS-EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred CEEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEe---eeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 356662 2234688999999997764 45566665 5699999886 47888899998776 5555554
No 141
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=84.72 E-value=2.9 Score=40.19 Aligned_cols=56 Identities=16% Similarity=0.161 Sum_probs=44.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHc--CCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRM--FGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALD 59 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~--~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~ln 59 (223)
|-|.+.-||..+-+|+++.+|+. +-++.+|.+..+ .-=||+|++.+||+.|.+.|.
T Consensus 176 cIvilREIpettp~e~Vk~lf~~encPk~iscefa~N--~nWyITfesd~DAQqAykylr 233 (684)
T KOG2591|consen 176 CIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN--DNWYITFESDTDAQQAYKYLR 233 (684)
T ss_pred eEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec--CceEEEeecchhHHHHHHHHH
Confidence 45677899999999999999975 778888876432 246999999999999976554
No 142
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=82.33 E-value=0.97 Score=40.61 Aligned_cols=59 Identities=25% Similarity=0.456 Sum_probs=45.0
Q ss_pred EEEecCCCCC-CHHHHH--HHHHcCCCeEEEEEeeCC--------CCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 4 VYVGNLDPRV-SERDLE--DEFRMFGVLRSVWVARRP--------PGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 4 LfVgnLp~~~-te~~L~--~~F~~~G~I~~v~i~~~~--------rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
+||-+|+... .|..|+ +.|.+||.|..|.+.+++ -.-++|+|+..++|..||...+|..
T Consensus 80 vyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~ 149 (327)
T KOG2068|consen 80 VYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFV 149 (327)
T ss_pred hhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHH
Confidence 5677888765 455554 468899999999876422 1247999999999999999888876
No 143
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=80.93 E-value=0.8 Score=40.54 Aligned_cols=59 Identities=17% Similarity=0.208 Sum_probs=48.8
Q ss_pred CcEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEee-----CCCCEEEEEEcCHHHHHHHHHHhC
Q 041602 1 MSRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVAR-----RPPGYAFVEFDDRRDAVDAIRALD 59 (223)
Q Consensus 1 ~ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-----~~rGfaFV~F~~~e~A~~Al~~ln 59 (223)
++++|++++...+.+.+...++..+|.+....+.. ..++++.|+|...+.+..|+....
T Consensus 88 ~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~ 151 (285)
T KOG4210|consen 88 SSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESG 151 (285)
T ss_pred cccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhh
Confidence 36889999999999998999999999766655431 458999999999999999997544
No 144
>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=80.88 E-value=5.6 Score=32.97 Aligned_cols=57 Identities=19% Similarity=0.202 Sum_probs=39.3
Q ss_pred CHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhC--CCC--cEEEEEeec
Q 041602 14 SERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALD--GKN--GWRVELSHN 71 (223)
Q Consensus 14 te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~ln--g~~--g~~V~v~~~ 71 (223)
..+.|+++|.+++++......+ +-+-..|.|.+.++|.+|...|+ +.. +..+.+..+
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~-sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~ 68 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLK-SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFG 68 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEET-TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE--
T ss_pred hHHHHHHHHHhcCCceEEEEcC-CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEc
Confidence 4578999999999887776553 35578999999999999999988 554 555555544
No 145
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=75.91 E-value=2.5 Score=21.50 Aligned_cols=17 Identities=65% Similarity=1.603 Sum_probs=14.8
Q ss_pred CCcCCCCCCCCCCCCCC
Q 041602 90 KCYECGEPGHFARECRL 106 (223)
Q Consensus 90 ~~~~~g~~G~~~r~~~~ 106 (223)
.|+.|+..||..++|+.
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 58899999999999874
No 146
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=74.14 E-value=1.9 Score=42.06 Aligned_cols=55 Identities=25% Similarity=0.304 Sum_probs=47.7
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDG 60 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng 60 (223)
.++||+|+...+..+-++.+...+|-|..+.... |||.+|.....+..|+..+..
T Consensus 41 ~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~----fgf~~f~~~~~~~ra~r~~t~ 95 (668)
T KOG2253|consen 41 DTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK----FGFCEFLKHIGDLRASRLLTE 95 (668)
T ss_pred ceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh----hcccchhhHHHHHHHHHHhcc
Confidence 4799999999999999999999999988776542 999999999999999876553
No 147
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=72.21 E-value=29 Score=29.64 Aligned_cols=13 Identities=38% Similarity=0.560 Sum_probs=8.8
Q ss_pred EEcCHHHHHHHHH
Q 041602 44 EFDDRRDAVDAIR 56 (223)
Q Consensus 44 ~F~~~e~A~~Al~ 56 (223)
.=.+.++|.+||+
T Consensus 64 ~k~daedA~damD 76 (256)
T KOG4207|consen 64 DKRDAEDALDAMD 76 (256)
T ss_pred ecchHHHHHHhhc
Confidence 3456778888775
No 148
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=70.31 E-value=27 Score=25.21 Aligned_cols=54 Identities=20% Similarity=0.281 Sum_probs=41.2
Q ss_pred EEEecCCCCCCHHHHHHHHHc-CC-CeEEEEEeeCCCC--EEEEEEcCHHHHHHHHHH
Q 041602 4 VYVGNLDPRVSERDLEDEFRM-FG-VLRSVWVARRPPG--YAFVEFDDRRDAVDAIRA 57 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~-~G-~I~~v~i~~~~rG--faFV~F~~~e~A~~Al~~ 57 (223)
-|+--++..++..+|++.+++ || +|..|.....+.+ =|||.+...++|.+....
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~A~~va~k 80 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYDAEEIASR 80 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCcHHHHHHh
Confidence 566678889999999999987 77 7888766543333 699999998888876543
No 149
>PRK02624 psbH photosystem II reaction center protein H; Provisional
Probab=68.76 E-value=3.3 Score=28.19 Aligned_cols=23 Identities=43% Similarity=0.794 Sum_probs=16.5
Q ss_pred hhhHHHHHHHHHHHHHHHhhhcCc
Q 041602 191 SNLFSIFLVLYCIQLYLSSILLGG 214 (223)
Q Consensus 191 ~~~~~~~~~~~~~~~~~~~~~~~~ 214 (223)
-.||.+||++ ..|+|-+|+||-|
T Consensus 35 m~Lf~vFl~i-iLeIYNsSvlLdg 57 (64)
T PRK02624 35 MVLFLVFLLI-ILQIYNQSLLLQG 57 (64)
T ss_pred HHHHHHHHHH-HHHHhCcceeecC
Confidence 3466666654 4699999999855
No 150
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=67.64 E-value=3.3 Score=39.06 Aligned_cols=63 Identities=22% Similarity=0.241 Sum_probs=42.9
Q ss_pred CCCCC-CHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--cEEEEEeeccC
Q 041602 9 LDPRV-SERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--GWRVELSHNSK 73 (223)
Q Consensus 9 Lp~~~-te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~~~ 73 (223)
.+... |-++|..+|.+||+|..|.+-.. ---|.|+|.+..+|-+|-. ..+.. +..|++.|-.+
T Consensus 380 ~~~glnt~a~ln~hfA~fG~i~n~qv~~~-~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 380 SPFGLNTIADLNPHFAQFGEIENIQVDYS-SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred cCCCCchHhhhhhhhhhcCccccccccCc-hhhheeeeeccccccchhc-cccceecCceeEEEEecC
Confidence 34443 56899999999999999987432 4579999999999966643 23332 44555555433
No 151
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=66.91 E-value=3.8 Score=28.75 Aligned_cols=23 Identities=43% Similarity=0.862 Sum_probs=16.3
Q ss_pred hhhHHHHHHHHHHHHHHHhhhcCc
Q 041602 191 SNLFSIFLVLYCIQLYLSSILLGG 214 (223)
Q Consensus 191 ~~~~~~~~~~~~~~~~~~~~~~~~ 214 (223)
-.||.+||++ ..|+|-+|+||-|
T Consensus 47 m~lf~vfl~i-ileiyNssvlld~ 69 (73)
T PLN00055 47 MALFAVFLSI-ILEIYNSSVLLDG 69 (73)
T ss_pred HHHHHHHHHH-HHHHhccceeecC
Confidence 3456666654 4689999999866
No 152
>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=65.68 E-value=41 Score=23.10 Aligned_cols=47 Identities=23% Similarity=0.420 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 12 RVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 12 ~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.++-+|++..+.+|+- ..|.. +..| =||.|.+..+|+++.+..++..
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~~--d~tG-fYIvF~~~~Ea~rC~~~~~~~~ 57 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIRD--DRTG-FYIVFNDSKEAERCFRAEDGTL 57 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEEe--cCCE-EEEEECChHHHHHHHHhcCCCE
Confidence 4788999999999964 33332 3334 4899999999999999888876
No 153
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=65.34 E-value=23 Score=33.40 Aligned_cols=61 Identities=16% Similarity=0.257 Sum_probs=50.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcC-CCeEEEEEeeCC---CCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMF-GVLRSVWVARRP---PGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~-G~I~~v~i~~~~---rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
+.|.|=.+|-.+|-.||-.+...+ -.|..++++++. +-.+.|.|.+.++|..-.+.+||+.
T Consensus 75 ~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~ 139 (493)
T KOG0804|consen 75 TMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQ 139 (493)
T ss_pred cEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCc
Confidence 357777889999999998888765 478889888743 3367899999999999999999986
No 154
>CHL00066 psbH photosystem II protein H
Probab=64.92 E-value=4.2 Score=28.51 Aligned_cols=22 Identities=45% Similarity=0.922 Sum_probs=15.6
Q ss_pred hhHHHHHHHHHHHHHHHhhhcCc
Q 041602 192 NLFSIFLVLYCIQLYLSSILLGG 214 (223)
Q Consensus 192 ~~~~~~~~~~~~~~~~~~~~~~~ 214 (223)
.||.+||++ ..|+|-+|+||-|
T Consensus 48 ~lf~vfl~i-iLeiyNssvlld~ 69 (73)
T CHL00066 48 ALFAVFLSI-ILEIYNSSVLLDG 69 (73)
T ss_pred HHHHHHHHH-HHHHhCcceeecC
Confidence 455666554 4689999999865
No 155
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=64.67 E-value=43 Score=23.70 Aligned_cols=54 Identities=15% Similarity=0.197 Sum_probs=40.6
Q ss_pred EEEEecCCCCCCHHHHHHHHHc-CC-CeEEEEEeeCCC--CEEEEEEcCHHHHHHHHH
Q 041602 3 RVYVGNLDPRVSERDLEDEFRM-FG-VLRSVWVARRPP--GYAFVEFDDRRDAVDAIR 56 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~-~G-~I~~v~i~~~~r--GfaFV~F~~~e~A~~Al~ 56 (223)
+-|+-.++...|..+|+..+++ || +|..|.....+. -=|||.+...++|.+.-.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~a~~va~ 72 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYAAEEIAS 72 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCcHHHHHH
Confidence 4577788999999999999987 67 777776543222 269999988888777644
No 156
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.50 E-value=33 Score=33.39 Aligned_cols=70 Identities=31% Similarity=0.336 Sum_probs=55.2
Q ss_pred EEEEecCCCC-CCHHHHHHHHHcC----CCeEEEEEee--------------CC--------------------------
Q 041602 3 RVYVGNLDPR-VSERDLEDEFRMF----GVLRSVWVAR--------------RP-------------------------- 37 (223)
Q Consensus 3 tLfVgnLp~~-~te~~L~~~F~~~----G~I~~v~i~~--------------~~-------------------------- 37 (223)
+|-|-|+.+. +..+||..+|..| |.|..|.|-. .+
T Consensus 176 RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~~~~ 255 (650)
T KOG2318|consen 176 RLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEEDVDR 255 (650)
T ss_pred eeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhhHHH
Confidence 6788999986 7899999999876 5888888720 01
Q ss_pred ------------CCEEEEEEcCHHHHHHHHHHhCCCC----cEEEEEeecc
Q 041602 38 ------------PGYAFVEFDDRRDAVDAIRALDGKN----GWRVELSHNS 72 (223)
Q Consensus 38 ------------rGfaFV~F~~~e~A~~Al~~lng~~----g~~V~v~~~~ 72 (223)
--||.|+|.+.+.|.+..+.++|.+ +..+.+....
T Consensus 256 ~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFIP 306 (650)
T KOG2318|consen 256 EKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFIP 306 (650)
T ss_pred HHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeecC
Confidence 1289999999999999999999997 5666665543
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=61.27 E-value=10 Score=33.48 Aligned_cols=31 Identities=35% Similarity=0.593 Sum_probs=23.5
Q ss_pred EEEEEcCHHHHHHHHHHhCCCC--cEEEEEeec
Q 041602 41 AFVEFDDRRDAVDAIRALDGKN--GWRVELSHN 71 (223)
Q Consensus 41 aFV~F~~~e~A~~Al~~lng~~--g~~V~v~~~ 71 (223)
|||+|++..+|+.|++.+.... .+.++.+..
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeCCC
Confidence 7999999999999999776665 444444443
No 158
>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=58.66 E-value=16 Score=25.98 Aligned_cols=36 Identities=25% Similarity=0.440 Sum_probs=26.2
Q ss_pred CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 27 VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 27 ~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
+|.++....+-+||-||+=.+.+++.+|++.+.+..
T Consensus 33 ~I~Si~~~~~lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 33 NIYSIFAPDSLKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp ---EEEE-TTSTSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred ceEEEEEeCCCceEEEEEeCCHHHHHHHHhccccee
Confidence 567776666789999999999999999988766543
No 159
>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=57.98 E-value=19 Score=27.47 Aligned_cols=54 Identities=24% Similarity=0.334 Sum_probs=28.1
Q ss_pred EEEEecCCCC---------CCHHHHHHHHHcCCCeEEEEEee--CCCCEEEEEEcC-HHHHHHHHH
Q 041602 3 RVYVGNLDPR---------VSERDLEDEFRMFGVLRSVWVAR--RPPGYAFVEFDD-RRDAVDAIR 56 (223)
Q Consensus 3 tLfVgnLp~~---------~te~~L~~~F~~~G~I~~v~i~~--~~rGfaFV~F~~-~e~A~~Al~ 56 (223)
++.|-|++.. .+.+.|.+.|..|.+++-.-+-. .+.|++.|+|.. ..-..+|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHHH
Confidence 4556677554 34578999999998775433322 236899999994 555566654
No 160
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=53.09 E-value=30 Score=23.56 Aligned_cols=19 Identities=16% Similarity=0.440 Sum_probs=16.4
Q ss_pred HHHHHHHHcCCCeEEEEEe
Q 041602 16 RDLEDEFRMFGVLRSVWVA 34 (223)
Q Consensus 16 ~~L~~~F~~~G~I~~v~i~ 34 (223)
++|+++|+..|+|.-+.+.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 6899999999999887763
No 161
>PF00737 PsbH: Photosystem II 10 kDa phosphoprotein; InterPro: IPR001056 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight phosphoprotein PsbH found in PSII. The phosphorylation site of PsbH is located in the N terminus, where reversible phosphorylation is light-dependent and redox-controlled. PsbH is necessary for the photoprotection of PSII, being required for: (1) the rapid degradation of photodamaged D1 core protein to prevent further oxidative damage to the PSII core, and (2) the insertion of newly synthesised D1 protein into the thylakoid membrane []. PsbH may also regulate the transfer of electrons from D2 (Qa) to D1 (Qb) in the reaction core.; GO: 0042301 phosphate ion binding, 0015979 photosynthesis, 0050821 protein stabilization, 0009523 photosystem II, 0016020 membrane; PDB: 3PRR_H 2AXT_h 3BZ2_H 3BZ1_H 4FBY_W 3PRQ_H 3KZI_H 1S5L_h 3A0H_H 3ARC_H ....
Probab=52.12 E-value=11 Score=24.73 Aligned_cols=20 Identities=45% Similarity=0.949 Sum_probs=11.4
Q ss_pred hhHHHHHHHHHHHHHHHhhhc
Q 041602 192 NLFSIFLVLYCIQLYLSSILL 212 (223)
Q Consensus 192 ~~~~~~~~~~~~~~~~~~~~~ 212 (223)
.||.+||++ .+|+|=+|+||
T Consensus 33 ~lf~vfl~i-iL~IyNssvll 52 (52)
T PF00737_consen 33 ALFAVFLLI-ILEIYNSSVLL 52 (52)
T ss_dssp HHHHHHHHH-HHHHHTTSS-B
T ss_pred HHHHHHHHH-HHHHhcccccC
Confidence 344555443 46888888775
No 162
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=51.46 E-value=21 Score=35.85 Aligned_cols=17 Identities=24% Similarity=-0.033 Sum_probs=8.2
Q ss_pred hhhhccccceEEEEEEe
Q 041602 170 QLQRYGYQFREICVMSL 186 (223)
Q Consensus 170 ~~~~~~~~~~~~~~~~~ 186 (223)
+..+..++.+|=++++|
T Consensus 393 ~er~~re~ereRr~kgl 409 (894)
T KOG0132|consen 393 GERRDREHERERRKKGL 409 (894)
T ss_pred cCcccCccccccccccC
Confidence 33444555555555444
No 163
>PF15440 THRAP3_BCLAF1: THRAP3/BCLAF1 family
Probab=47.85 E-value=24 Score=34.85 Aligned_cols=6 Identities=67% Similarity=0.866 Sum_probs=2.4
Q ss_pred CCCCCC
Q 041602 118 RRSPSP 123 (223)
Q Consensus 118 ~Rsrs~ 123 (223)
+|+|+|
T Consensus 3 SRSRSP 8 (646)
T PF15440_consen 3 SRSRSP 8 (646)
T ss_pred ccCCCc
Confidence 344443
No 164
>COG5487 Small integral membrane protein [Function unknown]
Probab=46.97 E-value=22 Score=23.29 Aligned_cols=22 Identities=36% Similarity=0.537 Sum_probs=18.1
Q ss_pred eechhhHHHHHHHHHHHHHHHh
Q 041602 188 FYPSNLFSIFLVLYCIQLYLSS 209 (223)
Q Consensus 188 ~~~~~~~~~~~~~~~~~~~~~~ 209 (223)
|.+-.||-||+||+.+.|.+.-
T Consensus 29 giAkIlF~i~~vlf~vsL~~g~ 50 (54)
T COG5487 29 GIAKILFFIFLVLFLVSLFAGL 50 (54)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 5667899999999999887754
No 165
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=46.74 E-value=11 Score=33.40 Aligned_cols=33 Identities=24% Similarity=0.428 Sum_probs=25.6
Q ss_pred cEEEEecCCCC------------CCHHHHHHHHHcCCCeEEEEEe
Q 041602 2 SRVYVGNLDPR------------VSERDLEDEFRMFGVLRSVWVA 34 (223)
Q Consensus 2 ttLfVgnLp~~------------~te~~L~~~F~~~G~I~~v~i~ 34 (223)
.|||+.+||-. .+|+-|...|+.||.|..|+|+
T Consensus 150 dti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 150 DTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred CceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 36777777632 3577899999999999999884
No 166
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=45.63 E-value=67 Score=25.47 Aligned_cols=36 Identities=19% Similarity=0.347 Sum_probs=29.3
Q ss_pred CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 27 VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 27 ~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
.|.++.++..-+||.||+....+++..++..+.+..
T Consensus 35 ~i~~i~vp~~fpGYVfVe~~~~~~~~~~i~~v~~v~ 70 (153)
T PRK08559 35 PIYAILAPPELKGYVLVEAESKGAVEEAIRGIPHVR 70 (153)
T ss_pred cEEEEEccCCCCcEEEEEEEChHHHHHHHhcCCCEe
Confidence 377777777779999999998899999988776554
No 167
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=45.11 E-value=22 Score=30.23 Aligned_cols=17 Identities=41% Similarity=0.843 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHhhhcC
Q 041602 197 FLVLYCIQLYLSSILLG 213 (223)
Q Consensus 197 ~~~~~~~~~~~~~~~~~ 213 (223)
-|||.|.-|+||.+.|.
T Consensus 139 VLfLICT~LfLSTVVLA 155 (227)
T PF05399_consen 139 VLFLICTLLFLSTVVLA 155 (227)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 47888999999998875
No 168
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=40.65 E-value=1.3e+02 Score=23.94 Aligned_cols=52 Identities=19% Similarity=0.310 Sum_probs=37.7
Q ss_pred EEEEecCCCCCCHHHHHHHHHc-CC-CeEEEEEeeCCCC--EEEEEEcCHHHHHHH
Q 041602 3 RVYVGNLDPRVSERDLEDEFRM-FG-VLRSVWVARRPPG--YAFVEFDDRRDAVDA 54 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~-~G-~I~~v~i~~~~rG--faFV~F~~~e~A~~A 54 (223)
+.||.-++...+..+|++.+++ |+ +|..|.....+.| =|||.+....+|.+.
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~g~KKA~V~L~~~~~aidv 138 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPDGLKKAYIRLSPDVDALDV 138 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCCCceEEEEEECCCCcHHHH
Confidence 3567778889999999999987 66 6667655443334 689999876665543
No 169
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=39.01 E-value=84 Score=22.99 Aligned_cols=49 Identities=20% Similarity=0.257 Sum_probs=31.3
Q ss_pred CCCCCCHHHHHHH-------HHcC-CCeEEEEEee----------CCCC-EEEEEEcCHHHHHHHHHH
Q 041602 9 LDPRVSERDLEDE-------FRMF-GVLRSVWVAR----------RPPG-YAFVEFDDRRDAVDAIRA 57 (223)
Q Consensus 9 Lp~~~te~~L~~~-------F~~~-G~I~~v~i~~----------~~rG-faFV~F~~~e~A~~Al~~ 57 (223)
|.++++++++.++ +.+. |+|..+.-.+ ..+| |.++.|....++.+.++.
T Consensus 14 l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler 81 (97)
T CHL00123 14 LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEK 81 (97)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHH
Confidence 4466677665555 4444 4777776432 3355 788999987777777764
No 170
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=38.54 E-value=1.3e+02 Score=29.87 Aligned_cols=8 Identities=13% Similarity=0.256 Sum_probs=3.3
Q ss_pred CHHHHHHH
Q 041602 47 DRRDAVDA 54 (223)
Q Consensus 47 ~~e~A~~A 54 (223)
..+.+..|
T Consensus 70 sMenv~ha 77 (1027)
T KOG3580|consen 70 SMENVLHA 77 (1027)
T ss_pred chhhhHHH
Confidence 34444443
No 171
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=38.00 E-value=1.1e+02 Score=19.63 Aligned_cols=54 Identities=17% Similarity=0.192 Sum_probs=40.8
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCH----HHHHHHHHH
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDR----RDAVDAIRA 57 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~----e~A~~Al~~ 57 (223)
|+.|.|+.-.-....+++.+.+.-.|..+.+... .+-+-|+|... ++..++|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~-~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE-TKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT-TTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECC-CCEEEEEEecCCCCHHHHHHHHHH
Confidence 5778888877788899999999988888887543 46788888754 555666654
No 172
>PHA01815 hypothetical protein
Probab=37.67 E-value=52 Score=21.05 Aligned_cols=23 Identities=35% Similarity=0.667 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHHHHHHhhhcCc
Q 041602 192 NLFSIFLVLYCIQLYLSSILLGG 214 (223)
Q Consensus 192 ~~~~~~~~~~~~~~~~~~~~~~~ 214 (223)
.||.-|+++|.|-|..--.|.||
T Consensus 33 vlftt~iifyiifl~viyalygg 55 (55)
T PHA01815 33 VLFTTLIIFYIIFLMVIYALYGG 55 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCC
Confidence 35666666777766665556665
No 173
>PF05216 UNC-50: UNC-50 family; InterPro: IPR007881 This family contains several eukaryotic transmembrane proteins which are related to the Caenorhabditis elegans protein UNC-50 Q10045 from SWISSPROT. A mammalian homologue, UNCL is a novel inner nuclear membrane protein that associates with RNA and is involved in the cell-surface expression of neuronal nicotinic receptors. UNCL plays a broader role because UNCL homologues are present in two yeast and a plant species, none of which express nicotinic receptors and it is also found in tissues that lack nicotinic receptors.
Probab=37.02 E-value=34 Score=29.44 Aligned_cols=21 Identities=38% Similarity=0.939 Sum_probs=17.8
Q ss_pred hHHHHHHHHHHHHHHHhhhcC
Q 041602 193 LFSIFLVLYCIQLYLSSILLG 213 (223)
Q Consensus 193 ~~~~~~~~~~~~~~~~~~~~~ 213 (223)
.|-+|++||++|+.|.-+++.
T Consensus 140 Ffp~~~~Lyv~Q~~LlP~l~~ 160 (231)
T PF05216_consen 140 FFPLFVLLYVLQFFLLPLLLK 160 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 466889999999999988874
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=36.54 E-value=58 Score=29.11 Aligned_cols=51 Identities=16% Similarity=0.326 Sum_probs=39.6
Q ss_pred EEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCC------------CCEEEEEEcCHHHHHHH
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRP------------PGYAFVEFDDRRDAVDA 54 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~------------rGfaFV~F~~~e~A~~A 54 (223)
|...|+..+++-..+...|.+||+|+.|.++.+. .....+-|-+.+.+..-
T Consensus 18 LLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdF 80 (309)
T PF10567_consen 18 LLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDF 80 (309)
T ss_pred HHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHH
Confidence 3456888888888888889999999999997432 34678888888877654
No 175
>PF14893 PNMA: PNMA
Probab=36.21 E-value=67 Score=29.16 Aligned_cols=69 Identities=22% Similarity=0.311 Sum_probs=44.0
Q ss_pred EEEEecCCCCCCHHHHHHHHHc-CCCeEEEEEee------CCCCEEEEEEcCHHHHHHHHHHhCCCC-cEEEEEeec
Q 041602 3 RVYVGNLDPRVSERDLEDEFRM-FGVLRSVWVAR------RPPGYAFVEFDDRRDAVDAIRALDGKN-GWRVELSHN 71 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~-~G~I~~v~i~~------~~rGfaFV~F~~~e~A~~Al~~lng~~-g~~V~v~~~ 71 (223)
.|.|.+||.++++++|++.... .-+.-...|.+ .+.--|+|+|...-+-...-..+.|+. .++|-+...
T Consensus 20 ~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~~~aalve~~e~~n~~~iP~~i~g~gg~W~Vv~~p~ 96 (331)
T PF14893_consen 20 ALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRREENAKAALVEFAEDVNYSLIPREIPGKGGPWRVVFKPP 96 (331)
T ss_pred hheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhhcccceeeeecccccchhhCchhcCCCCCceEEEecCC
Confidence 4789999999999999988864 33333344432 233478888886555544444555554 466655543
No 176
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.05 E-value=73 Score=29.82 Aligned_cols=52 Identities=13% Similarity=0.132 Sum_probs=39.9
Q ss_pred EEEecCCCCCCHHHHHHHHHcCCC-eEEEEEeeCCCCEEEEEEcCHHHHHHHHHH
Q 041602 4 VYVGNLDPRVSERDLEDEFRMFGV-LRSVWVARRPPGYAFVEFDDRRDAVDAIRA 57 (223)
Q Consensus 4 LfVgnLp~~~te~~L~~~F~~~G~-I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~ 57 (223)
|=|-++|.....+||-..|+.|+. --+|.++. .-.||-.|.+...|.+||-.
T Consensus 394 lEIydfp~efkteDll~~f~~yq~kgfdIkWvD--dthalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 394 LEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVD--DTHALAVFSSVNRAAEALTL 446 (528)
T ss_pred eEeccCchhhccHHHHHHHHHhhcCCceeEEee--cceeEEeecchHHHHHHhhc
Confidence 556788888888889999999973 33444443 34789999999999999863
No 177
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=34.94 E-value=1.4e+02 Score=20.11 Aligned_cols=43 Identities=19% Similarity=0.141 Sum_probs=30.3
Q ss_pred HHHHHHHHcCCCeEEEEEeeCC-CCEEEEEEcCHHHHHHHHHHhC
Q 041602 16 RDLEDEFRMFGVLRSVWVARRP-PGYAFVEFDDRRDAVDAIRALD 59 (223)
Q Consensus 16 ~~L~~~F~~~G~I~~v~i~~~~-rGfaFV~F~~~e~A~~Al~~ln 59 (223)
.++.+...++| +....+.+.. -++.|+-+.+.++++++.+.+.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sGsG~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSGSGGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEETTSSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCCCCCCCeEEEEECCHHHHHHHHHHHH
Confidence 35666778888 5556665432 4588888889999888877663
No 178
>PF07069 PRRSV_2b: Porcine reproductive and respiratory syndrome virus 2b ; InterPro: IPR009775 This family consists of several Porcine reproductive and respiratory syndrome virus (PRRSV) ORF2b proteins. The function of this family is unknown however it is known that large amounts of 2b protein are present in the virion and it is thought that this protein may be an integral component of the virion [].
Probab=32.37 E-value=45 Score=22.71 Aligned_cols=18 Identities=44% Similarity=0.766 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHhhhcC
Q 041602 196 IFLVLYCIQLYLSSILLG 213 (223)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~ 213 (223)
-+||.+||.|-.|.||-.
T Consensus 43 gwlvvfcirlv~sailr~ 60 (73)
T PF07069_consen 43 GWLVVFCIRLVCSAILRA 60 (73)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 368999999999988743
No 179
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=29.33 E-value=36 Score=19.86 Aligned_cols=16 Identities=25% Similarity=0.519 Sum_probs=12.4
Q ss_pred echhhHHHHHHHHHHH
Q 041602 189 YPSNLFSIFLVLYCIQ 204 (223)
Q Consensus 189 ~~~~~~~~~~~~~~~~ 204 (223)
+.+.++.+++++.|+-
T Consensus 11 ~~g~~~~~~ll~~~lT 26 (34)
T PF13172_consen 11 WLGLIAAIFLLLLALT 26 (34)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5677888888888864
No 180
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=29.15 E-value=9.5 Score=36.76 Aligned_cols=61 Identities=18% Similarity=0.234 Sum_probs=44.4
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe-----eCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA-----RRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~-----~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
|++||.|++++++-++|+.+.+.+--+..+-+. +.-..++.|+|.---....|+.+||+..
T Consensus 232 ~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~ir 297 (648)
T KOG2295|consen 232 CSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIR 297 (648)
T ss_pred HHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcc
Confidence 567889999999999999988887655555442 1224578888887777777777777653
No 181
>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=28.51 E-value=38 Score=22.23 Aligned_cols=27 Identities=37% Similarity=0.556 Sum_probs=14.1
Q ss_pred CCCCEEEEEEcC-HHHHHHHHHHhCCCC
Q 041602 36 RPPGYAFVEFDD-RRDAVDAIRALDGKN 62 (223)
Q Consensus 36 ~~rGfaFV~F~~-~e~A~~Al~~lng~~ 62 (223)
.++|||||.-.+ .+|.--+-..|++..
T Consensus 6 ~~~GfGFv~~~~~~~DifIp~~~l~~A~ 33 (58)
T PF08206_consen 6 HPKGFGFVIPDDGGEDIFIPPRNLNGAM 33 (58)
T ss_dssp -SSS-EEEEECT-TEEEEE-HHHHTTS-
T ss_pred EcCCCEEEEECCCCCCEEECHHHHCCCC
Confidence 468999999987 333222334455554
No 182
>COG2322 Predicted membrane protein [Function unknown]
Probab=28.43 E-value=41 Score=27.59 Aligned_cols=20 Identities=35% Similarity=0.383 Sum_probs=15.7
Q ss_pred echhhHHHHHHHHHHHHHHH
Q 041602 189 YPSNLFSIFLVLYCIQLYLS 208 (223)
Q Consensus 189 ~~~~~~~~~~~~~~~~~~~~ 208 (223)
-++.|..+|||||...++++
T Consensus 81 tA~~l~l~FlvlYltr~~l~ 100 (177)
T COG2322 81 TAFTLALVFLVLYLTRHGLG 100 (177)
T ss_pred HHHHHHHHHHHHHHHHHhcc
Confidence 36778899999988877764
No 183
>COG3952 Predicted membrane protein [Function unknown]
Probab=27.65 E-value=27 Score=26.43 Aligned_cols=20 Identities=35% Similarity=0.517 Sum_probs=17.8
Q ss_pred EeeeechhhHHHHHHHHHHH
Q 041602 185 SLIFYPSNLFSIFLVLYCIQ 204 (223)
Q Consensus 185 ~~~~~~~~~~~~~~~~~~~~ 204 (223)
-+.||.|+|-+..+++|.|+
T Consensus 58 ~~FW~~sllGg~l~L~Yfi~ 77 (113)
T COG3952 58 VLFWYFSLLGGLLLLSYFIR 77 (113)
T ss_pred HHHHHHHHHhhHHHHHHHHH
Confidence 46899999999999999887
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=26.91 E-value=51 Score=19.99 Aligned_cols=17 Identities=18% Similarity=0.245 Sum_probs=10.5
Q ss_pred CCCCHHHHHHHHHcCCC
Q 041602 11 PRVSERDLEDEFRMFGV 27 (223)
Q Consensus 11 ~~~te~~L~~~F~~~G~ 27 (223)
.++++++|++.|.+..+
T Consensus 19 ~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp S---HHHHHHHHHCS--
T ss_pred ccCCHHHHHHHHHHhcc
Confidence 36889999999988754
No 185
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=26.38 E-value=65 Score=19.52 Aligned_cols=21 Identities=38% Similarity=0.738 Sum_probs=12.5
Q ss_pred CCCcCCCCCCCCCCCCCCCCC
Q 041602 89 LKCYECGEPGHFARECRLRIG 109 (223)
Q Consensus 89 ~~~~~~g~~G~~~r~~~~~~~ 109 (223)
.-|.+|++..||+.+|....+
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~d 23 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKTD 23 (36)
T ss_dssp -C-TTTSSSCS-TTT---TCC
T ss_pred ccCcccCCCcchhhhhhhhhc
Confidence 458899999999999976643
No 186
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=26.36 E-value=73 Score=26.52 Aligned_cols=73 Identities=18% Similarity=0.205 Sum_probs=46.5
Q ss_pred cEEEEecCCCCCC--H---HHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC--c-EEEEEeeccC
Q 041602 2 SRVYVGNLDPRVS--E---RDLEDEFRMFGVLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN--G-WRVELSHNSK 73 (223)
Q Consensus 2 ttLfVgnLp~~~t--e---~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~--g-~~V~v~~~~~ 73 (223)
+++.+.+++.++- . ..-+.+|-+|-+.....+. ++.++.-|.|.+++.|..|...++... + ..++...+++
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~l-rsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~ 89 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLL-RSFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQP 89 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHH-HhhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccC
Confidence 4577788877642 2 2334555555554333333 335677889999999999998888776 3 3666666655
Q ss_pred CC
Q 041602 74 GG 75 (223)
Q Consensus 74 ~~ 75 (223)
..
T Consensus 90 ~~ 91 (193)
T KOG4019|consen 90 GH 91 (193)
T ss_pred CC
Confidence 43
No 187
>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=25.73 E-value=1.7e+02 Score=21.15 Aligned_cols=48 Identities=17% Similarity=0.387 Sum_probs=33.2
Q ss_pred EEEEecCCCCCCHHHHHHHHHc-CC-CeEEEEEee-------CCC--------CEEEEEEcCHHH
Q 041602 3 RVYVGNLDPRVSERDLEDEFRM-FG-VLRSVWVAR-------RPP--------GYAFVEFDDRRD 50 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~-~G-~I~~v~i~~-------~~r--------GfaFV~F~~~e~ 50 (223)
..|+-.++..+|..+|++.+++ || +|..|..+. ... --|+|++...+.
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~kR~g~~~g~~~~~KKaiVtL~~~~~ 85 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKKRKGKFVGKTKDYKKAIVTLKEGDK 85 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEEESSSCEEEE-EEEEEEEEESTTSC
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCceEeCCccccCCCcEEEEEEeCCCCc
Confidence 3467778899999999999986 77 677775531 111 257888876643
No 188
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=25.36 E-value=46 Score=19.63 Aligned_cols=21 Identities=29% Similarity=0.888 Sum_probs=17.4
Q ss_pred CCCCCcCCCCCCCCCCCCCCC
Q 041602 87 EDLKCYECGEPGHFARECRLR 107 (223)
Q Consensus 87 ~~~~~~~~g~~G~~~r~~~~~ 107 (223)
..-.|..|+..|||-.+||..
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCEeecCCCCCccHhHCCCC
Confidence 345688999999999999874
No 189
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=25.14 E-value=50 Score=20.68 Aligned_cols=19 Identities=37% Similarity=1.062 Sum_probs=16.7
Q ss_pred CCCCcCCCCCCCCCCCCCC
Q 041602 88 DLKCYECGEPGHFARECRL 106 (223)
Q Consensus 88 ~~~~~~~g~~G~~~r~~~~ 106 (223)
...|..|+..|||..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4568999999999999986
No 190
>PF13677 MotB_plug: Membrane MotB of proton-channel complex MotA/MotB
Probab=24.89 E-value=62 Score=21.43 Aligned_cols=15 Identities=20% Similarity=0.593 Sum_probs=11.4
Q ss_pred chhhHHHHHHHHHHH
Q 041602 190 PSNLFSIFLVLYCIQ 204 (223)
Q Consensus 190 ~~~~~~~~~~~~~~~ 204 (223)
-.+|+.+|++||.+.
T Consensus 25 mTLLl~fFVlL~s~s 39 (58)
T PF13677_consen 25 MTLLLAFFVLLFSMS 39 (58)
T ss_pred HHHHHHHHHHHHHHH
Confidence 357888888888764
No 191
>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=23.76 E-value=1.5e+02 Score=21.40 Aligned_cols=44 Identities=34% Similarity=0.471 Sum_probs=29.6
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEE--eeCCCCEEEEEE
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWV--ARRPPGYAFVEF 45 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i--~~~~rGfaFV~F 45 (223)
+-+||||++..+.|.-.+.+.+..++-.-+-+ ..+..||+|-..
T Consensus 26 ~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~neqG~~~~t~ 71 (86)
T PF09707_consen 26 PGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDNNEQGFDFRTL 71 (86)
T ss_pred CCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccCCCCCEEEEEe
Confidence 35899999998888887777776544333322 224578888776
No 192
>PF08135 EPV_E5: Major transforming protein E5 family; InterPro: IPR012555 This family consists of the major transforming proteins (E5) of the bovine papilloma virus (BPV). The equine sarcoid is one of the most common dermatological lesion in equids. It is a benign, locally invasive dermal fibroblastic lesion and studies have shown an association of the lesions with BPV. E5 is a short hydrophobic membrane protein localising to the Golgi apparatus and other intracellular membranes. It binds to and constitutively activates the platelet-derived growth factor-beta in transformed cells. This stimulation activates a receptor signalling cascade which results in an intracellular growth stimulatory signal [].
Probab=23.38 E-value=10 Score=23.73 Aligned_cols=22 Identities=23% Similarity=0.513 Sum_probs=14.4
Q ss_pred EEEEEeeeechhhHHHHHHHHH
Q 041602 181 ICVMSLIFYPSNLFSIFLVLYC 202 (223)
Q Consensus 181 ~~~~~~~~~~~~~~~~~~~~~~ 202 (223)
+|+.+|+|+--++.-.|+.++.
T Consensus 7 llflgl~~~lQL~LL~FlL~fF 28 (44)
T PF08135_consen 7 LLFLGLTFALQLLLLVFLLFFF 28 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777776666665544
No 193
>COG5521 Predicted integral membrane protein [Function unknown]
Probab=23.04 E-value=62 Score=28.17 Aligned_cols=31 Identities=42% Similarity=0.584 Sum_probs=23.6
Q ss_pred EEeeeechhhHHHHHHHH----HHHHHHHhhhcCc
Q 041602 184 MSLIFYPSNLFSIFLVLY----CIQLYLSSILLGG 214 (223)
Q Consensus 184 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~ 214 (223)
|+--||++|=.+|++.|+ .||+-+.-|+.||
T Consensus 163 is~qWy~qnka~i~lflvl~~s~i~~l~tfivagg 197 (275)
T COG5521 163 ISTQWYAQNKAMIMLFLVLVVSMIQLLLTFIVAGG 197 (275)
T ss_pred HHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 566799988777776655 5788888888887
No 194
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=22.93 E-value=3.6e+02 Score=20.82 Aligned_cols=56 Identities=13% Similarity=0.141 Sum_probs=40.8
Q ss_pred EEEecCCCC---CCHHHHHHHHHcCC-CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 4 VYVGNLDPR---VSERDLEDEFRMFG-VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 4 LfVgnLp~~---~te~~L~~~F~~~G-~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
|.|...... .+...+++..++-| .++.+... .+-..|.|.+.++-.+|.+.+....
T Consensus 38 vQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~---~~~~~irf~~~~~Ql~Ak~vL~~~L 97 (127)
T PRK10629 38 LAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPE---NDSLLIRFDSPEQSAAAKEVLDRTL 97 (127)
T ss_pred EEEecCCCCCccchHHHHHHHHHHCCCCcceEEee---CCEEEEEECCHHHHHHHHHHHHHHc
Confidence 445544222 45678888888887 67777664 4578999999999999988776554
No 195
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=22.88 E-value=2.7e+02 Score=21.46 Aligned_cols=36 Identities=19% Similarity=0.266 Sum_probs=26.6
Q ss_pred CeEEEEEeeCCCCEEEEEEcCHHHHHHHHHHhCCCC
Q 041602 27 VLRSVWVARRPPGYAFVEFDDRRDAVDAIRALDGKN 62 (223)
Q Consensus 27 ~I~~v~i~~~~rGfaFV~F~~~e~A~~Al~~lng~~ 62 (223)
++..+.++..-+||-||+++..++...++..+.|..
T Consensus 27 ~~~~~~vp~~fpGYvFV~~~~~~~~~~~i~~~~gv~ 62 (145)
T TIGR00405 27 EVYSILAPESLKGYILVEAETKIDMRNPIIGVPHVR 62 (145)
T ss_pred cEEEEEccCCCCcEEEEEEECcHHHHHHHhCCCCEE
Confidence 344555555668999999998888888887666553
No 196
>PHA02909 hypothetical protein; Provisional
Probab=22.87 E-value=52 Score=22.06 Aligned_cols=30 Identities=30% Similarity=0.767 Sum_probs=21.0
Q ss_pred EEE-EEeeeechhhHHHHHHHHHHHHHHHhh
Q 041602 181 ICV-MSLIFYPSNLFSIFLVLYCIQLYLSSI 210 (223)
Q Consensus 181 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 210 (223)
.|+ .+.|.|.-...|.|.+|-|--.|+.-|
T Consensus 32 fcimvsfilfviiflsmftilacsyvyiaii 62 (72)
T PHA02909 32 FCIMVSFILFVIIFLSMFTILACSYVYIAII 62 (72)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 454 356667777778888888877776543
No 197
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=22.66 E-value=3e+02 Score=19.74 Aligned_cols=45 Identities=20% Similarity=0.169 Sum_probs=32.1
Q ss_pred HHHHHHHHHcCC-CeEEEEEe-eCCCCEEEEEEcCHHHHHHHHHHhC
Q 041602 15 ERDLEDEFRMFG-VLRSVWVA-RRPPGYAFVEFDDRRDAVDAIRALD 59 (223)
Q Consensus 15 e~~L~~~F~~~G-~I~~v~i~-~~~rGfaFV~F~~~e~A~~Al~~ln 59 (223)
.+.++++.++.| +++++.+. ++--....+++.+.+.|.++.-.+.
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t~G~yD~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWTLGEYDFVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEecCCCCEEEEEEcCCHHHHHHHHHHHH
Confidence 456778888876 88888775 3434477888998888887754443
No 198
>KOG3012 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.18 E-value=86 Score=27.04 Aligned_cols=18 Identities=39% Similarity=0.944 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 041602 194 FSIFLVLYCIQLYLSSIL 211 (223)
Q Consensus 194 ~~~~~~~~~~~~~~~~~~ 211 (223)
|-+|+.||.||++|.-++
T Consensus 166 fp~lvlLyvIq~fl~plI 183 (259)
T KOG3012|consen 166 FPMLVLLYVIQLFLLPLI 183 (259)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 446778999999987644
No 199
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=21.52 E-value=2.7e+02 Score=18.83 Aligned_cols=45 Identities=22% Similarity=0.206 Sum_probs=33.9
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEeeCCCCEEEEEEcC
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVARRPPGYAFVEFDD 47 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~~~rGfaFV~F~~ 47 (223)
.++.|-++.-.-....++...+.-..|..+.+.-. .+-+.|+|++
T Consensus 4 ~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~-~~~~~V~~d~ 48 (71)
T COG2608 4 TTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLE-KGTATVTFDS 48 (71)
T ss_pred EEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcc-cCeEEEEEcC
Confidence 45667777666667889999988877888777433 5569999998
No 200
>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=21.50 E-value=42 Score=24.43 Aligned_cols=21 Identities=24% Similarity=0.444 Sum_probs=17.8
Q ss_pred cEEEEecCCCCCCHHHHHHHH
Q 041602 2 SRVYVGNLDPRVSERDLEDEF 22 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F 22 (223)
.+|.|.|||....|++|++..
T Consensus 53 rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 53 RTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred CEEEEeCCCCCCChhhheeeE
Confidence 478899999999999998653
No 201
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=21.35 E-value=1e+02 Score=24.84 Aligned_cols=33 Identities=30% Similarity=0.505 Sum_probs=29.1
Q ss_pred cEEEEecCCCCCCHHHHHHHHHcCCCeEEEEEe
Q 041602 2 SRVYVGNLDPRVSERDLEDEFRMFGVLRSVWVA 34 (223)
Q Consensus 2 ttLfVgnLp~~~te~~L~~~F~~~G~I~~v~i~ 34 (223)
..+++.+++..+++.++...|..+|.+....+.
T Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 258 (306)
T COG0724 226 DNLYVGNLPLKTAEEELADLFKSRGDIVRASLP 258 (306)
T ss_pred ceeeccccccccchhHHHHhccccccceeeecc
Confidence 468899999999999999999999999776664
No 202
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=21.07 E-value=48 Score=19.93 Aligned_cols=24 Identities=33% Similarity=0.546 Sum_probs=18.3
Q ss_pred eeeechhhHHHHHHHHHHHHHHHh
Q 041602 186 LIFYPSNLFSIFLVLYCIQLYLSS 209 (223)
Q Consensus 186 ~~~~~~~~~~~~~~~~~~~~~~~~ 209 (223)
|-|.|++||-+.=..|.|-||+..
T Consensus 6 lgfiAt~Lfi~iPt~FLlilYvqT 29 (35)
T PRK04989 6 LGFVASLLFVLVPTVFLIILYIQT 29 (35)
T ss_pred HHHHHHHHHHHHHHHHHHHHheec
Confidence 457788898888788888888643
No 203
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=20.39 E-value=1.3e+02 Score=26.28 Aligned_cols=30 Identities=17% Similarity=0.014 Sum_probs=23.0
Q ss_pred EEEEecCCCCCCHHHHHHHHHcCCCeEEEE
Q 041602 3 RVYVGNLDPRVSERDLEDEFRMFGVLRSVW 32 (223)
Q Consensus 3 tLfVgnLp~~~te~~L~~~F~~~G~I~~v~ 32 (223)
...|+|||++++..-+..+++..-.+....
T Consensus 97 ~~vVaNlPY~Isspii~kll~~~~~~~~~v 126 (259)
T COG0030 97 YKVVANLPYNISSPILFKLLEEKFIIQDMV 126 (259)
T ss_pred CEEEEcCCCcccHHHHHHHHhccCccceEE
Confidence 346899999999999999988765553433
No 204
>PHA02657 hypothetical protein; Provisional
Probab=20.01 E-value=1.4e+02 Score=21.69 Aligned_cols=22 Identities=36% Similarity=0.733 Sum_probs=13.6
Q ss_pred eeechhhHHHHHHHHHHHHHHH
Q 041602 187 IFYPSNLFSIFLVLYCIQLYLS 208 (223)
Q Consensus 187 ~~~~~~~~~~~~~~~~~~~~~~ 208 (223)
-|=.-..++||++.-||-.||-
T Consensus 23 ~~~~imVitvfv~vI~il~flL 44 (95)
T PHA02657 23 NFESILVFTIFIFVVCILIYLL 44 (95)
T ss_pred cchhhhHHHHHHHHHHHHHHHH
Confidence 3444456777777777766653
Done!