Query 025700
Match_columns 249
No_of_seqs 435 out of 2295
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 08:36:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025700.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025700hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1995 Conserved Zn-finger pr 99.9 1.4E-25 3E-30 196.5 11.9 172 3-177 64-246 (351)
2 PLN03134 glycine-rich RNA-bind 99.8 5.1E-20 1.1E-24 146.9 15.1 84 4-95 33-116 (144)
3 TIGR01659 sex-lethal sex-letha 99.7 7.3E-17 1.6E-21 145.8 14.7 85 4-96 192-278 (346)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 2.1E-16 4.5E-21 142.8 12.3 82 6-95 270-351 (352)
5 TIGR01659 sex-lethal sex-letha 99.7 3E-16 6.5E-21 141.8 10.7 82 4-93 106-187 (346)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 4E-16 8.7E-21 140.9 11.4 83 4-94 2-84 (352)
7 KOG0122 Translation initiation 99.7 3.4E-16 7.5E-21 131.1 9.4 82 4-93 188-269 (270)
8 PF00076 RRM_1: RNA recognitio 99.7 1.1E-15 2.4E-20 105.7 9.9 70 8-86 1-70 (70)
9 KOG0107 Alternative splicing f 99.6 7.2E-15 1.6E-19 117.7 11.7 78 5-95 10-87 (195)
10 PF14259 RRM_6: RNA recognitio 99.6 1.5E-14 3.2E-19 100.7 9.2 70 8-86 1-70 (70)
11 KOG0113 U1 small nuclear ribon 99.6 2.6E-14 5.5E-19 123.0 11.0 84 5-96 101-184 (335)
12 KOG4207 Predicted splicing fac 99.6 1.5E-14 3.2E-19 118.7 8.8 80 6-93 14-93 (256)
13 TIGR01648 hnRNP-R-Q heterogene 99.5 9.4E-14 2E-18 132.3 14.8 77 4-96 232-310 (578)
14 KOG4198 RNA-binding Ran Zn-fin 99.5 7.7E-15 1.7E-19 126.9 6.5 101 140-243 56-168 (280)
15 KOG0105 Alternative splicing f 99.5 4.3E-14 9.4E-19 114.2 10.0 79 3-92 4-82 (241)
16 KOG0149 Predicted RNA-binding 99.5 2E-14 4.4E-19 120.1 7.4 78 6-92 13-90 (247)
17 KOG0111 Cyclophilin-type pepti 99.5 9.4E-15 2E-19 121.0 4.8 88 1-96 6-93 (298)
18 TIGR01645 half-pint poly-U bin 99.5 8.4E-14 1.8E-18 133.0 11.4 83 5-95 204-286 (612)
19 PLN03120 nucleic acid binding 99.5 1.4E-13 3E-18 118.2 10.8 77 4-92 3-79 (260)
20 KOG0130 RNA-binding protein RB 99.5 4.9E-14 1.1E-18 108.5 7.1 83 5-95 72-154 (170)
21 TIGR01645 half-pint poly-U bin 99.5 1E-13 2.2E-18 132.4 10.8 80 4-91 106-185 (612)
22 TIGR01642 U2AF_lg U2 snRNP aux 99.5 2.1E-13 4.6E-18 129.1 12.2 81 5-93 295-375 (509)
23 PLN03213 repressor of silencin 99.5 1E-13 2.2E-18 126.3 9.5 76 5-92 10-87 (759)
24 TIGR01622 SF-CC1 splicing fact 99.5 1.8E-13 3.9E-18 128.0 11.5 80 5-92 186-265 (457)
25 smart00362 RRM_2 RNA recogniti 99.5 3.2E-13 6.9E-18 92.4 9.5 72 7-88 1-72 (72)
26 TIGR01628 PABP-1234 polyadenyl 99.5 1.7E-13 3.8E-18 131.5 11.1 79 6-92 1-79 (562)
27 KOG0125 Ataxin 2-binding prote 99.5 1.1E-13 2.5E-18 120.4 8.3 79 5-93 96-174 (376)
28 TIGR01622 SF-CC1 splicing fact 99.5 2.5E-13 5.4E-18 127.1 11.1 81 4-93 88-168 (457)
29 KOG0121 Nuclear cap-binding pr 99.5 1.2E-13 2.7E-18 105.4 7.1 81 3-91 34-114 (153)
30 KOG0145 RNA-binding protein EL 99.5 1.8E-13 3.9E-18 115.9 8.6 82 6-95 42-123 (360)
31 KOG0126 Predicted RNA-binding 99.5 7.5E-15 1.6E-19 118.3 0.2 81 3-91 33-113 (219)
32 PLN03121 nucleic acid binding 99.5 4.1E-13 8.9E-18 113.7 10.7 79 1-91 1-79 (243)
33 TIGR01628 PABP-1234 polyadenyl 99.5 3.7E-13 8.1E-18 129.2 11.0 82 4-94 284-365 (562)
34 smart00360 RRM RNA recognition 99.5 6.1E-13 1.3E-17 90.6 9.0 71 10-88 1-71 (71)
35 TIGR01648 hnRNP-R-Q heterogene 99.4 5.1E-13 1.1E-17 127.3 10.2 76 5-89 58-134 (578)
36 COG0724 RNA-binding proteins ( 99.4 8.4E-13 1.8E-17 112.4 10.4 80 5-92 115-194 (306)
37 KOG0108 mRNA cleavage and poly 99.4 5.9E-13 1.3E-17 122.7 8.4 82 6-95 19-100 (435)
38 cd00590 RRM RRM (RNA recogniti 99.4 3.2E-12 7E-17 87.8 10.2 74 7-89 1-74 (74)
39 KOG0117 Heterogeneous nuclear 99.4 1.8E-12 4E-17 116.8 10.8 80 4-99 258-337 (506)
40 KOG0117 Heterogeneous nuclear 99.4 1.3E-12 2.8E-17 117.8 9.5 79 5-91 83-162 (506)
41 KOG1548 Transcription elongati 99.4 1.6E-12 3.5E-17 114.0 9.0 93 4-97 133-225 (382)
42 KOG0148 Apoptosis-promoting RN 99.4 6.4E-12 1.4E-16 107.1 12.0 80 2-95 161-240 (321)
43 KOG0131 Splicing factor 3b, su 99.4 8.8E-13 1.9E-17 106.4 6.2 80 4-91 8-87 (203)
44 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 4.3E-12 9.4E-17 119.8 11.4 79 3-94 273-352 (481)
45 KOG0114 Predicted RNA-binding 99.3 5.8E-12 1.3E-16 92.9 8.4 78 5-93 18-95 (124)
46 KOG0148 Apoptosis-promoting RN 99.3 4.3E-12 9.2E-17 108.1 7.3 81 6-94 63-143 (321)
47 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.3 1.1E-11 2.5E-16 117.0 10.8 77 4-94 1-79 (481)
48 KOG0144 RNA-binding protein CU 99.3 6.6E-12 1.4E-16 112.9 7.3 84 5-96 34-120 (510)
49 KOG0144 RNA-binding protein CU 99.3 4.2E-12 9.1E-17 114.1 6.1 86 4-98 123-211 (510)
50 KOG4212 RNA-binding protein hn 99.3 4.2E-11 9.1E-16 108.0 11.3 81 4-93 43-124 (608)
51 smart00361 RRM_1 RNA recogniti 99.3 2.8E-11 6E-16 84.6 8.1 61 19-87 2-69 (70)
52 KOG0127 Nucleolar protein fibr 99.3 1.9E-11 4.1E-16 112.7 9.2 82 5-94 292-379 (678)
53 KOG0146 RNA-binding protein ET 99.3 6.2E-12 1.3E-16 107.1 5.4 86 3-96 283-368 (371)
54 KOG0116 RasGAP SH3 binding pro 99.2 1.7E-10 3.7E-15 105.9 12.1 81 6-95 289-369 (419)
55 KOG0415 Predicted peptidyl pro 99.2 4.4E-11 9.5E-16 105.3 7.1 87 1-95 235-321 (479)
56 PF13893 RRM_5: RNA recognitio 99.2 1.6E-10 3.4E-15 77.0 8.1 56 22-90 1-56 (56)
57 KOG4208 Nucleolar RNA-binding 99.1 1.3E-10 2.9E-15 95.6 7.8 82 4-93 48-130 (214)
58 KOG0145 RNA-binding protein EL 99.1 2.2E-10 4.8E-15 97.3 9.1 80 6-93 279-358 (360)
59 KOG0131 Splicing factor 3b, su 99.1 1.3E-10 2.8E-15 94.0 7.0 86 5-97 96-181 (203)
60 KOG0147 Transcriptional coacti 99.1 6.9E-11 1.5E-15 109.2 6.2 81 7-95 280-360 (549)
61 KOG0109 RNA-binding protein LA 99.1 1.1E-10 2.4E-15 100.5 6.5 74 6-95 3-76 (346)
62 KOG4206 Spliceosomal protein s 99.1 2.2E-10 4.7E-15 95.6 8.0 83 2-95 6-92 (221)
63 KOG0127 Nucleolar protein fibr 99.1 2.3E-10 4.9E-15 105.7 8.8 82 5-95 117-198 (678)
64 KOG0124 Polypyrimidine tract-b 99.1 5.5E-11 1.2E-15 105.1 4.2 76 6-89 114-189 (544)
65 TIGR01642 U2AF_lg U2 snRNP aux 99.1 1.4E-10 3E-15 109.9 7.1 84 2-90 172-257 (509)
66 KOG1995 Conserved Zn-finger pr 99.1 1.2E-10 2.5E-15 103.0 5.1 95 145-242 145-246 (351)
67 KOG4198 RNA-binding Ran Zn-fin 99.0 3.5E-10 7.6E-15 98.1 5.2 100 143-244 135-272 (280)
68 KOG4205 RNA-binding protein mu 99.0 9.3E-10 2E-14 97.6 6.9 86 5-99 97-182 (311)
69 KOG0123 Polyadenylate-binding 99.0 2.1E-09 4.6E-14 98.0 8.7 80 5-95 76-155 (369)
70 KOG4205 RNA-binding protein mu 98.9 1.5E-09 3.3E-14 96.3 4.9 84 4-96 5-88 (311)
71 KOG0533 RRM motif-containing p 98.9 7.2E-09 1.6E-13 88.8 8.7 82 5-95 83-164 (243)
72 KOG4212 RNA-binding protein hn 98.9 4E-09 8.7E-14 95.4 7.3 76 2-90 533-608 (608)
73 KOG0109 RNA-binding protein LA 98.9 4.4E-09 9.6E-14 90.7 6.2 78 4-97 77-154 (346)
74 KOG0146 RNA-binding protein ET 98.8 4.6E-09 9.9E-14 89.7 5.3 84 4-96 18-104 (371)
75 KOG0110 RNA-binding protein (R 98.8 2.7E-09 5.9E-14 101.3 4.3 81 6-94 614-694 (725)
76 KOG0110 RNA-binding protein (R 98.8 1.3E-08 2.9E-13 96.7 8.8 77 7-91 517-596 (725)
77 KOG0132 RNA polymerase II C-te 98.8 1E-08 2.2E-13 98.2 7.9 78 5-96 421-498 (894)
78 PF04059 RRM_2: RNA recognitio 98.8 3.9E-08 8.3E-13 72.9 8.9 83 6-94 2-88 (97)
79 KOG1457 RNA binding protein (c 98.8 5.3E-08 1.2E-12 81.3 9.7 86 5-97 34-122 (284)
80 KOG0123 Polyadenylate-binding 98.8 2.4E-08 5.2E-13 91.2 8.2 75 6-94 2-76 (369)
81 KOG0153 Predicted RNA-binding 98.7 3E-08 6.6E-13 87.4 7.9 74 5-92 228-302 (377)
82 KOG4661 Hsp27-ERE-TATA-binding 98.7 3.6E-08 7.8E-13 91.8 7.8 82 5-94 405-486 (940)
83 KOG0124 Polypyrimidine tract-b 98.7 4E-08 8.6E-13 87.3 7.4 80 6-93 211-290 (544)
84 KOG4454 RNA binding protein (R 98.7 7.4E-09 1.6E-13 86.1 1.8 78 3-90 7-84 (267)
85 PF00641 zf-RanBP: Zn-finger i 98.6 1.7E-08 3.7E-13 58.7 1.8 30 212-241 1-30 (30)
86 KOG4209 Splicing factor RNPS1, 98.6 7.3E-08 1.6E-12 82.5 5.6 82 3-93 99-180 (231)
87 KOG4211 Splicing factor hnRNP- 98.6 2.5E-07 5.5E-12 85.0 8.9 81 4-96 9-89 (510)
88 KOG0226 RNA-binding proteins [ 98.4 2.3E-07 4.9E-12 78.9 4.8 81 4-92 189-269 (290)
89 KOG0106 Alternative splicing f 98.4 2.4E-07 5.3E-12 77.9 4.5 72 6-93 2-73 (216)
90 KOG4211 Splicing factor hnRNP- 98.4 1.2E-06 2.6E-11 80.6 8.4 80 4-92 102-181 (510)
91 KOG4660 Protein Mei2, essentia 98.3 4.8E-07 1E-11 84.2 4.0 70 4-86 74-143 (549)
92 KOG0151 Predicted splicing reg 98.3 1.8E-06 4E-11 82.4 6.7 84 3-94 172-258 (877)
93 KOG0120 Splicing factor U2AF, 98.2 9E-07 1.9E-11 82.8 4.2 82 5-94 289-370 (500)
94 smart00547 ZnF_RBZ Zinc finger 98.2 4.7E-07 1E-11 50.7 1.4 26 214-239 1-26 (26)
95 PF00641 zf-RanBP: Zn-finger i 98.2 3.4E-07 7.4E-12 53.1 0.4 29 145-175 1-29 (30)
96 KOG4849 mRNA cleavage factor I 98.2 2E-06 4.3E-11 76.2 5.1 78 6-89 81-158 (498)
97 KOG1190 Polypyrimidine tract-b 98.2 1.7E-05 3.6E-10 71.8 10.4 78 5-95 297-375 (492)
98 KOG4206 Spliceosomal protein s 98.1 9E-06 1.9E-10 68.2 7.8 78 1-91 142-220 (221)
99 KOG0147 Transcriptional coacti 98.1 1.7E-06 3.7E-11 80.5 2.1 80 5-93 179-258 (549)
100 PF11608 Limkain-b1: Limkain b 98.1 2.3E-05 5.1E-10 56.0 7.2 71 6-93 3-77 (90)
101 KOG4210 Nuclear localization s 98.0 6.2E-06 1.3E-10 72.9 4.3 84 4-96 183-267 (285)
102 KOG1457 RNA binding protein (c 98.0 8.2E-06 1.8E-10 68.4 4.4 64 5-80 210-273 (284)
103 smart00547 ZnF_RBZ Zinc finger 97.9 4.4E-06 9.5E-11 46.7 1.6 25 147-173 1-25 (26)
104 KOG4307 RNA binding protein RB 97.9 3.5E-05 7.6E-10 73.8 7.9 76 6-89 868-943 (944)
105 KOG0106 Alternative splicing f 97.8 1.7E-05 3.6E-10 66.9 3.0 70 4-89 98-167 (216)
106 PF08777 RRM_3: RNA binding mo 97.8 4.3E-05 9.3E-10 57.6 4.9 70 6-89 2-76 (105)
107 COG5175 MOT2 Transcriptional r 97.7 7.9E-05 1.7E-09 66.0 6.0 78 5-92 114-202 (480)
108 KOG1365 RNA-binding protein Fu 97.7 7.5E-05 1.6E-09 67.1 5.5 85 4-94 279-363 (508)
109 KOG1190 Polypyrimidine tract-b 97.7 0.00011 2.3E-09 66.6 6.5 79 2-92 411-490 (492)
110 PF08952 DUF1866: Domain of un 97.6 0.0005 1.1E-08 54.4 8.4 76 1-93 23-107 (146)
111 PF14605 Nup35_RRM_2: Nup53/35 97.4 0.00044 9.6E-09 45.5 5.1 53 5-72 1-53 (53)
112 KOG2314 Translation initiation 97.4 0.00048 1E-08 64.8 7.0 77 5-90 58-141 (698)
113 KOG0105 Alternative splicing f 97.2 0.0049 1.1E-07 50.6 10.0 62 5-81 115-176 (241)
114 KOG0129 Predicted RNA-binding 97.2 0.0014 3E-08 61.1 7.6 62 5-75 259-326 (520)
115 KOG1855 Predicted RNA-binding 97.1 0.00047 1E-08 62.9 4.3 66 4-77 230-308 (484)
116 KOG1456 Heterogeneous nuclear 97.1 0.0017 3.8E-08 58.4 7.7 79 3-94 118-200 (494)
117 PF05172 Nup35_RRM: Nup53/35/4 97.0 0.006 1.3E-07 45.5 8.2 80 4-92 5-91 (100)
118 PF10309 DUF2414: Protein of u 97.0 0.0049 1.1E-07 41.8 7.0 54 5-75 5-62 (62)
119 KOG1548 Transcription elongati 97.0 0.0038 8.2E-08 55.7 8.0 79 4-94 264-353 (382)
120 KOG0120 Splicing factor U2AF, 96.9 0.0025 5.4E-08 60.1 7.2 63 21-91 425-490 (500)
121 KOG0129 Predicted RNA-binding 96.9 0.0033 7.2E-08 58.7 7.8 64 3-74 368-432 (520)
122 KOG1365 RNA-binding protein Fu 96.9 0.003 6.6E-08 57.1 7.0 77 7-89 163-239 (508)
123 KOG3152 TBP-binding protein, a 96.9 0.001 2.2E-08 57.0 3.8 72 5-84 74-157 (278)
124 KOG1456 Heterogeneous nuclear 96.8 0.0065 1.4E-07 54.8 8.6 77 4-93 286-363 (494)
125 KOG0128 RNA-binding protein SA 96.7 0.0007 1.5E-08 66.4 1.5 81 5-94 736-816 (881)
126 KOG2416 Acinus (induces apopto 96.4 0.0038 8.3E-08 59.2 4.6 78 3-94 442-523 (718)
127 KOG0128 RNA-binding protein SA 96.3 0.00027 5.9E-09 69.1 -3.9 68 6-81 668-735 (881)
128 PF03467 Smg4_UPF3: Smg-4/UPF3 96.2 0.0095 2.1E-07 49.0 5.4 85 3-92 5-97 (176)
129 KOG4676 Splicing factor, argin 96.1 0.0093 2E-07 54.1 5.1 76 6-90 8-86 (479)
130 PF08675 RNA_bind: RNA binding 96.1 0.02 4.3E-07 41.1 5.6 56 6-77 9-64 (87)
131 KOG0112 Large RNA-binding prot 96.1 0.0089 1.9E-07 59.2 5.1 78 3-94 453-532 (975)
132 KOG4307 RNA binding protein RB 95.7 0.0065 1.4E-07 58.7 2.6 77 5-89 434-510 (944)
133 KOG2202 U2 snRNP splicing fact 95.7 0.0064 1.4E-07 52.2 2.3 63 20-91 83-146 (260)
134 KOG2193 IGF-II mRNA-binding pr 95.5 0.019 4.2E-07 52.6 4.5 75 6-94 2-77 (584)
135 PF07576 BRAP2: BRCA1-associat 95.3 0.13 2.8E-06 39.0 8.0 67 6-81 13-80 (110)
136 KOG0115 RNA-binding protein p5 95.1 0.028 6.1E-07 48.4 4.2 62 6-76 32-93 (275)
137 KOG2068 MOT2 transcription fac 95.0 0.0075 1.6E-07 53.7 0.5 81 6-94 78-164 (327)
138 KOG1996 mRNA splicing factor [ 95.0 0.094 2E-06 46.1 7.1 65 19-91 300-365 (378)
139 PF03880 DbpA: DbpA RNA bindin 94.5 0.27 5.8E-06 34.3 7.2 64 15-90 11-74 (74)
140 PRK11634 ATP-dependent RNA hel 94.4 0.61 1.3E-05 45.9 12.0 67 14-92 496-562 (629)
141 KOG4660 Protein Mei2, essentia 94.3 0.067 1.4E-06 50.6 4.8 53 43-95 419-475 (549)
142 PF11767 SET_assoc: Histone ly 94.0 0.35 7.6E-06 33.2 6.8 56 15-87 10-65 (66)
143 PF04847 Calcipressin: Calcipr 93.9 0.26 5.7E-06 40.8 7.2 63 18-94 8-72 (184)
144 KOG0804 Cytoplasmic Zn-finger 93.8 0.2 4.3E-06 46.5 6.8 70 4-82 73-142 (493)
145 KOG2135 Proteins containing th 93.6 0.046 1E-06 50.8 2.3 76 4-94 371-447 (526)
146 KOG0112 Large RNA-binding prot 93.5 0.02 4.2E-07 56.9 -0.3 78 4-90 371-448 (975)
147 PRK14559 putative protein seri 93.5 0.061 1.3E-06 52.8 3.1 50 150-240 3-52 (645)
148 PF12773 DZR: Double zinc ribb 93.2 0.09 2E-06 33.7 2.6 48 155-236 3-50 (50)
149 KOG4574 RNA-binding protein (c 93.1 0.098 2.1E-06 51.9 3.8 78 7-98 300-379 (1007)
150 PF15023 DUF4523: Protein of u 92.9 0.56 1.2E-05 37.2 7.1 72 2-89 83-158 (166)
151 PF13248 zf-ribbon_3: zinc-rib 92.0 0.079 1.7E-06 29.4 1.0 24 216-239 3-26 (26)
152 KOG2253 U1 snRNP complex, subu 91.3 0.13 2.8E-06 49.7 2.3 70 3-89 38-107 (668)
153 cd00729 rubredoxin_SM Rubredox 91.1 0.21 4.5E-06 29.6 2.2 26 215-240 2-29 (34)
154 KOG2591 c-Mpl binding protein, 91.0 0.31 6.8E-06 46.3 4.4 67 5-86 175-245 (684)
155 PF13240 zinc_ribbon_2: zinc-r 90.6 0.13 2.8E-06 27.7 1.0 23 217-239 1-23 (23)
156 cd00350 rubredoxin_like Rubred 90.6 0.22 4.8E-06 29.2 2.0 25 216-240 2-28 (33)
157 KOG4285 Mitotic phosphoprotein 89.4 1.6 3.5E-05 38.7 7.2 67 7-89 199-266 (350)
158 PRK14714 DNA polymerase II lar 88.3 0.42 9.2E-06 49.7 3.3 53 147-241 666-721 (1337)
159 KOG4210 Nuclear localization s 87.6 0.35 7.5E-06 42.9 2.0 80 5-92 88-167 (285)
160 KOG2193 IGF-II mRNA-binding pr 85.8 0.095 2.1E-06 48.2 -2.5 77 5-92 80-156 (584)
161 KOG4483 Uncharacterized conser 83.1 2.5 5.5E-05 38.9 5.3 55 6-74 392-446 (528)
162 COG1592 Rubrerythrin [Energy p 79.4 1.1 2.4E-05 36.4 1.6 26 215-240 134-160 (166)
163 KOG0921 Dosage compensation co 79.0 19 0.00041 37.0 10.0 9 143-151 1230-1238(1282)
164 PF03468 XS: XS domain; Inter 77.2 6.4 0.00014 30.0 5.1 56 7-73 10-75 (116)
165 KOG4410 5-formyltetrahydrofola 72.9 4.6 0.0001 35.6 3.7 48 6-66 331-378 (396)
166 PF10571 UPF0547: Uncharacteri 72.9 2.9 6.2E-05 23.2 1.6 24 217-240 2-25 (26)
167 smart00596 PRE_C2HC PRE_C2HC d 69.9 7.9 0.00017 26.7 3.6 63 20-92 2-64 (69)
168 PF00301 Rubredoxin: Rubredoxi 69.2 2.4 5.2E-05 27.0 0.9 13 212-224 31-43 (47)
169 PRK00415 rps27e 30S ribosomal 68.7 4.4 9.4E-05 27.1 2.1 26 215-240 11-41 (59)
170 PF07530 PRE_C2HC: Associated 66.8 12 0.00025 25.8 4.0 64 20-93 2-65 (68)
171 PF12172 DUF35_N: Rubredoxin-l 63.2 4.3 9.4E-05 24.1 1.2 22 217-238 13-34 (37)
172 KOG2318 Uncharacterized conser 61.7 37 0.0008 33.0 7.5 78 3-88 172-301 (650)
173 COG1545 Predicted nucleic-acid 61.6 5.5 0.00012 31.4 1.8 24 216-239 30-53 (140)
174 cd00730 rubredoxin Rubredoxin; 61.4 4.3 9.3E-05 26.2 1.0 13 212-224 31-43 (50)
175 COG3478 Predicted nucleic-acid 61.0 3.7 7.9E-05 27.9 0.6 13 214-226 3-15 (68)
176 PRK13130 H/ACA RNA-protein com 60.8 9.8 0.00021 25.2 2.6 26 217-244 7-32 (56)
177 KOG4019 Calcineurin-mediated s 60.2 9.1 0.0002 31.6 2.9 74 6-93 11-90 (193)
178 PTZ00146 fibrillarin; Provisio 60.0 23 0.00049 31.6 5.6 7 167-173 78-84 (293)
179 PRK11788 tetratricopeptide rep 59.9 5.1 0.00011 36.0 1.5 29 214-242 353-381 (389)
180 PF15513 DUF4651: Domain of un 57.1 25 0.00054 23.8 4.1 15 20-34 9-23 (62)
181 PF02714 DUF221: Domain of unk 56.9 12 0.00025 33.3 3.4 36 58-95 1-36 (325)
182 TIGR03636 L23_arch archaeal ri 56.5 37 0.00081 23.9 5.1 58 7-73 15-72 (77)
183 KOG4477 RING1 interactor RYBP 56.0 7.1 0.00015 32.2 1.6 32 144-177 20-51 (228)
184 KOG4676 Splicing factor, argin 55.7 2.1 4.5E-05 39.3 -1.7 63 6-81 152-214 (479)
185 PRK04023 DNA polymerase II lar 55.6 14 0.0003 38.2 3.8 55 144-242 622-676 (1121)
186 PRK04136 rpl40e 50S ribosomal 55.4 6 0.00013 25.2 0.9 24 214-237 13-36 (48)
187 KOG4008 rRNA processing protei 54.9 11 0.00024 32.4 2.6 34 1-34 36-69 (261)
188 PRK14548 50S ribosomal protein 54.9 36 0.00077 24.4 4.9 59 7-74 22-80 (84)
189 KOG1295 Nonsense-mediated deca 53.1 18 0.00038 33.2 3.8 67 6-81 8-78 (376)
190 COG0724 RNA-binding proteins ( 50.6 19 0.00041 29.7 3.5 32 3-34 223-254 (306)
191 COG1773 Rubredoxin [Energy pro 49.5 8.5 0.00018 25.4 0.9 13 211-223 32-44 (55)
192 PHA00626 hypothetical protein 48.9 12 0.00025 24.8 1.4 23 217-239 2-33 (59)
193 PF07292 NID: Nmi/IFP 35 domai 48.8 7.6 0.00016 28.2 0.6 25 3-27 50-74 (88)
194 PF01667 Ribosomal_S27e: Ribos 47.0 13 0.00028 24.5 1.5 25 215-239 7-36 (55)
195 PF03833 PolC_DP2: DNA polymer 46.4 6.6 0.00014 39.7 0.0 51 145-239 652-702 (900)
196 COG2051 RPS27A Ribosomal prote 46.2 12 0.00027 25.5 1.3 26 215-240 19-49 (67)
197 PF09538 FYDLN_acid: Protein o 45.4 13 0.00029 28.0 1.5 27 216-242 10-39 (108)
198 PLN00209 ribosomal protein S27 45.4 15 0.00033 26.4 1.7 26 215-240 36-66 (86)
199 smart00661 RPOL9 RNA polymeras 42.6 13 0.00029 23.4 1.0 13 215-227 20-32 (52)
200 PRK03824 hypA hydrogenase nick 41.8 21 0.00045 28.0 2.2 29 212-241 67-119 (135)
201 PRK00398 rpoP DNA-directed RNA 41.7 19 0.00042 22.4 1.6 24 216-239 4-31 (46)
202 KOG0712 Molecular chaperone (D 41.3 53 0.0012 29.9 4.9 21 10-30 9-29 (337)
203 PTZ00083 40S ribosomal protein 41.2 19 0.00041 25.9 1.6 26 215-240 35-65 (85)
204 KOG3424 40S ribosomal protein 40.6 71 0.0015 24.6 4.7 50 15-71 33-85 (132)
205 PRK00420 hypothetical protein; 40.5 16 0.00035 27.7 1.3 24 217-240 25-51 (112)
206 PF01599 Ribosomal_S27: Riboso 39.5 15 0.00032 23.5 0.8 25 148-172 18-46 (47)
207 KOG4454 RNA binding protein (R 38.0 7 0.00015 33.3 -1.1 58 13-79 92-149 (267)
208 KOG2891 Surface glycoprotein [ 37.8 31 0.00067 30.5 2.8 72 5-79 149-246 (445)
209 PF10083 DUF2321: Uncharacteri 36.8 8.5 0.00018 30.9 -0.7 27 214-240 51-79 (158)
210 PF14446 Prok-RING_1: Prokaryo 35.6 18 0.0004 23.7 0.8 9 216-224 22-30 (54)
211 TIGR02098 MJ0042_CXXC MJ0042 f 35.5 27 0.00058 20.6 1.5 23 217-239 4-35 (38)
212 COG3254 Uncharacterized conser 35.4 1.4E+02 0.0031 22.3 5.5 43 20-73 27-69 (105)
213 PF11682 DUF3279: Protein of u 35.1 26 0.00056 27.3 1.7 28 211-239 93-120 (128)
214 PHA01632 hypothetical protein 34.3 43 0.00093 22.1 2.4 21 8-28 19-39 (64)
215 PRK10629 EnvZ/OmpR regulon mod 34.1 2.2E+02 0.0048 22.0 8.0 74 3-91 33-109 (127)
216 PTZ00191 60S ribosomal protein 33.8 1.1E+02 0.0024 24.3 5.1 57 7-72 83-139 (145)
217 PF12523 DUF3725: Protein of u 33.0 21 0.00046 24.5 0.8 17 211-227 55-71 (74)
218 PF05191 ADK_lid: Adenylate ki 32.8 27 0.00059 20.8 1.2 22 216-237 2-29 (36)
219 PF10567 Nab6_mRNP_bdg: RNA-re 32.3 1E+02 0.0023 27.4 5.2 79 5-91 15-106 (309)
220 COG4260 Membrane protease subu 31.9 30 0.00066 30.7 1.8 19 213-236 304-322 (345)
221 TIGR02300 FYDLN_acid conserved 31.7 32 0.00069 26.7 1.7 28 215-242 9-39 (129)
222 COG1379 PHP family phosphoeste 29.9 18 0.00038 32.8 0.0 12 213-224 263-274 (403)
223 PRK11901 hypothetical protein; 29.5 1.2E+02 0.0027 27.4 5.3 60 6-78 246-307 (327)
224 PF11411 DNA_ligase_IV: DNA li 29.1 42 0.00091 20.1 1.5 16 15-30 19-34 (36)
225 COG4907 Predicted membrane pro 28.6 1.1E+02 0.0024 29.2 4.9 15 20-34 489-503 (595)
226 PRK03681 hypA hydrogenase nick 28.4 48 0.001 25.1 2.2 29 212-241 67-99 (114)
227 PF02150 RNA_POL_M_15KD: RNA p 28.0 33 0.00072 20.2 1.0 23 218-240 4-31 (35)
228 PF14319 Zn_Tnp_IS91: Transpos 27.7 48 0.001 24.9 2.1 26 214-239 41-70 (111)
229 PF14205 Cys_rich_KTR: Cystein 27.3 45 0.00097 21.9 1.6 24 215-238 3-37 (55)
230 COG3357 Predicted transcriptio 26.6 39 0.00084 24.7 1.3 26 217-242 60-89 (97)
231 PRK12380 hydrogenase nickel in 26.5 57 0.0012 24.6 2.3 30 212-241 67-98 (113)
232 PF09855 DUF2082: Nucleic-acid 26.4 32 0.00069 23.4 0.8 11 216-226 1-11 (64)
233 PF14893 PNMA: PNMA 26.2 52 0.0011 29.9 2.4 26 3-28 16-41 (331)
234 PRK14714 DNA polymerase II lar 25.7 38 0.00083 36.0 1.5 24 214-239 666-689 (1337)
235 PF09567 RE_MamI: MamI restric 25.4 37 0.0008 29.6 1.2 23 217-239 84-106 (314)
236 PF14952 zf-tcix: Putative tre 25.1 36 0.00078 21.3 0.8 19 215-233 11-29 (44)
237 KOG2295 C2H2 Zn-finger protein 25.0 12 0.00025 36.1 -2.1 67 5-79 231-297 (648)
238 PF14657 Integrase_AP2: AP2-li 24.8 1.4E+02 0.0029 18.4 3.5 33 43-75 4-37 (46)
239 COG0225 MsrA Peptide methionin 24.7 1.6E+02 0.0034 24.2 4.6 24 7-30 59-82 (174)
240 TIGR00100 hypA hydrogenase nic 24.7 59 0.0013 24.6 2.1 29 212-241 67-98 (115)
241 PF10281 Ish1: Putative stress 24.6 76 0.0016 18.8 2.2 19 16-34 3-21 (38)
242 PF05189 RTC_insert: RNA 3'-te 24.6 1.2E+02 0.0026 22.2 3.7 49 7-62 12-64 (103)
243 PRK15321 putative type III sec 24.4 28 0.0006 25.8 0.2 42 11-68 27-68 (120)
244 PRK11230 glycolate oxidase sub 24.3 2.1E+02 0.0045 27.5 6.2 50 18-76 202-255 (499)
245 PRK11788 tetratricopeptide rep 24.2 45 0.00097 29.8 1.6 29 145-175 351-379 (389)
246 PF11023 DUF2614: Protein of u 24.2 50 0.0011 25.0 1.6 28 215-242 69-98 (114)
247 COG5257 GCD11 Translation init 24.0 52 0.0011 30.1 1.9 27 213-239 55-82 (415)
248 TIGR00595 priA primosomal prot 23.7 55 0.0012 31.4 2.2 26 215-241 240-265 (505)
249 PRK00432 30S ribosomal protein 23.7 44 0.00096 21.4 1.1 22 150-173 22-46 (50)
250 PTZ00071 40S ribosomal protein 23.4 2.4E+02 0.0053 22.0 5.3 47 16-70 35-86 (132)
251 PF02132 RecR: RecR protein; 22.6 28 0.0006 21.2 -0.1 21 217-239 19-39 (41)
252 PRK00564 hypA hydrogenase nick 22.4 48 0.001 25.2 1.2 29 212-241 68-100 (117)
253 COG1998 RPS31 Ribosomal protei 22.1 46 0.00099 21.4 0.9 23 149-173 20-46 (51)
254 COG1545 Predicted nucleic-acid 22.0 40 0.00087 26.5 0.7 23 150-174 31-53 (140)
255 PRK15103 paraquat-inducible me 21.9 54 0.0012 30.8 1.7 28 215-242 220-248 (419)
256 PRK14873 primosome assembly pr 21.8 57 0.0012 32.5 1.9 26 215-242 410-435 (665)
257 PRK12496 hypothetical protein; 21.8 57 0.0012 26.4 1.6 27 213-239 125-153 (164)
258 PRK10905 cell division protein 21.7 2E+02 0.0044 26.0 5.1 55 15-78 254-309 (328)
259 PRK01178 rps24e 30S ribosomal 21.7 3.2E+02 0.007 20.2 5.4 49 15-71 29-81 (99)
260 PF10058 DUF2296: Predicted in 21.7 47 0.001 21.7 0.9 14 212-225 41-54 (54)
261 COG5193 LHP1 La protein, small 21.5 39 0.00084 31.4 0.6 61 7-73 176-244 (438)
262 PRK05738 rplW 50S ribosomal pr 21.4 2.3E+02 0.005 20.5 4.6 28 7-34 21-48 (92)
263 KOG4365 Uncharacterized conser 21.3 14 0.00031 34.6 -2.2 79 5-92 3-81 (572)
264 cd04718 BAH_plant_2 BAH, or Br 20.9 62 0.0013 25.8 1.6 14 213-226 16-29 (148)
265 PF12385 Peptidase_C70: Papain 20.9 1.8E+02 0.0038 23.6 4.1 19 16-34 95-113 (166)
266 PRK14892 putative transcriptio 20.9 70 0.0015 23.7 1.8 30 213-242 19-55 (99)
267 PRK05452 anaerobic nitric oxid 20.5 47 0.001 31.6 1.0 13 212-224 455-467 (479)
268 PF11823 DUF3343: Protein of u 20.2 1.2E+02 0.0027 20.5 2.9 24 57-80 3-26 (73)
269 TIGR02605 CxxC_CxxC_SSSS putat 20.1 97 0.0021 19.4 2.2 24 215-238 5-35 (52)
270 PF08206 OB_RNB: Ribonuclease 20.1 45 0.00098 21.8 0.6 37 54-91 7-44 (58)
No 1
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=99.93 E-value=1.4e-25 Score=196.53 Aligned_cols=172 Identities=41% Similarity=0.711 Sum_probs=134.5
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
+.+.+|||.+||..+++++|.++|.+++.|+..+.|++|+|+|+++++|+++|+-|.|+|++...|++||+++++..|.+
T Consensus 64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g 143 (351)
T KOG1995|consen 64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG 143 (351)
T ss_pred cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEecccCCCCCccCCCC-CCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCC-------CCCCCcccCCCCCcc
Q 025700 83 NLIGVFIAESRGKDDHAYNSA-AAAGDPTVA---GDVSGLDENSRDVNGFAGRGRGRG-------DAVGKTWQQDGDWMC 151 (249)
Q Consensus 83 ~~i~V~~a~~~~~~~~~~~~~-~~~g~~~~~---gg~GG~~~~~~~~~~~ggrg~grg-------g~~~~~~~r~Gdw~C 151 (249)
.+|+|.+|+.+.......... ...+.+.++ .++++..+..+.+.. .++ +.+| .+......+++||.|
T Consensus 144 n~ikvs~a~~r~~ve~~rg~~~~~~g~g~fg~~~~grg~~~G~gg~~~~-~~~-~~rGg~~~~g~~g~~~~~~~d~Dw~c 221 (351)
T KOG1995|consen 144 NTIKVSLAERRTGVESVRGGYPNDGGAGEFGRLRGGRGGPGGPGGGDGE-AGK-GDRGGVPDGGESGGGNVQDEDGDWDC 221 (351)
T ss_pred CCchhhhhhhccCcccccccccCcCCCCCccccccCCCCCCCCCCcccc-ccc-cccCCcCCCcccCCcccccccccccc
Confidence 999999998877544332221 011222222 333333333333332 111 1111 133455678899999
Q ss_pred CCCcCCCCCcccccccccccccCCCC
Q 025700 152 PNTSCSNVNFAFRGVCNRCGTARPVG 177 (249)
Q Consensus 152 ~~~~c~~~nf~~r~~C~~C~~~~~~~ 177 (249)
+ |.|.|.||+||..|++|+++||+.
T Consensus 222 ~-~~c~N~nfa~r~~cnrck~~Kp~~ 246 (351)
T KOG1995|consen 222 P-PSCGNRNFAWREECNRCKAPKPER 246 (351)
T ss_pred c-ccccccccccccccccccCCCccc
Confidence 9 999999999999999999999866
No 2
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.84 E-value=5.1e-20 Score=146.85 Aligned_cols=84 Identities=26% Similarity=0.378 Sum_probs=79.3
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
.+++|||+|||+++||++|+++|.+||.|.. |+|++|+.|+++++||||+|+++++|++||+.|++..|.++
T Consensus 33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~--------v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr 104 (144)
T PLN03134 33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVD--------AKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGR 104 (144)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEE--------EEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence 4678999999999999999999999999998 88999999999999999999999999999999999999999
Q ss_pred EEEEEecccCCC
Q 025700 84 LIGVFIAESRGK 95 (249)
Q Consensus 84 ~i~V~~a~~~~~ 95 (249)
.|+|+++.++..
T Consensus 105 ~l~V~~a~~~~~ 116 (144)
T PLN03134 105 HIRVNPANDRPS 116 (144)
T ss_pred EEEEEeCCcCCC
Confidence 999999876544
No 3
>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=99.73 E-value=7.3e-17 Score=145.77 Aligned_cols=85 Identities=32% Similarity=0.441 Sum_probs=77.6
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC-
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG- 82 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g- 82 (249)
.+.+|||.|||.++||++|+++|++||.|.. |+|++++.|+++++||||+|+++++|++||+.|++..|.+
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~--------v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~ 263 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQ--------KNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGG 263 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEE--------EEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence 3578999999999999999999999999988 7899999999999999999999999999999999998876
Q ss_pred -eEEEEEecccCCCC
Q 025700 83 -NLIGVFIAESRGKD 96 (249)
Q Consensus 83 -~~i~V~~a~~~~~~ 96 (249)
+.|+|.+++.+.+.
T Consensus 264 ~~~l~V~~a~~~~~~ 278 (346)
T TIGR01659 264 SQPLTVRLAEEHGKA 278 (346)
T ss_pred ceeEEEEECCccccc
Confidence 68899988866443
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.69 E-value=2.1e-16 Score=142.82 Aligned_cols=82 Identities=28% Similarity=0.383 Sum_probs=78.2
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.+|||.|||+++++++|+++|++||.|.. |+|++|+.|+.++|||||+|.+.++|.+||+.||+..|.|+.|
T Consensus 270 ~~lfV~NL~~~~~e~~L~~~F~~fG~v~~--------v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i 341 (352)
T TIGR01661 270 YCIFVYNLSPDTDETVLWQLFGPFGAVQN--------VKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVL 341 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhCCCeEE--------EEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEE
Confidence 47999999999999999999999999998 8899999999999999999999999999999999999999999
Q ss_pred EEEecccCCC
Q 025700 86 GVFIAESRGK 95 (249)
Q Consensus 86 ~V~~a~~~~~ 95 (249)
+|.++..+..
T Consensus 342 ~V~~~~~~~~ 351 (352)
T TIGR01661 342 QVSFKTNKAY 351 (352)
T ss_pred EEEEccCCCC
Confidence 9999887654
No 5
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.67 E-value=3e-16 Score=141.80 Aligned_cols=82 Identities=22% Similarity=0.251 Sum_probs=77.9
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
..++|||++||+++||++|+++|++||.|+. |+|++|+.|++++|||||+|.++++|++||+.|++..|.++
T Consensus 106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~--------v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr 177 (346)
T TIGR01659 106 SGTNLIVNYLPQDMTDRELYALFRTIGPINT--------CRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNK 177 (346)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCc
Confidence 5679999999999999999999999999998 88999999999999999999999999999999999999999
Q ss_pred EEEEEecccC
Q 025700 84 LIGVFIAESR 93 (249)
Q Consensus 84 ~i~V~~a~~~ 93 (249)
+|+|.++++.
T Consensus 178 ~i~V~~a~p~ 187 (346)
T TIGR01659 178 RLKVSYARPG 187 (346)
T ss_pred eeeeeccccc
Confidence 9999998754
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.67 E-value=4e-16 Score=140.92 Aligned_cols=83 Identities=27% Similarity=0.346 Sum_probs=78.9
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
+..+|||+|||.++||++|+++|.+||.|.. |+|++++.|++++|||||+|.++++|++||+.|++..|.++
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~--------v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~ 73 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIES--------CKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNK 73 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEE--------EEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCe
Confidence 5689999999999999999999999999998 88999999999999999999999999999999999999999
Q ss_pred EEEEEecccCC
Q 025700 84 LIGVFIAESRG 94 (249)
Q Consensus 84 ~i~V~~a~~~~ 94 (249)
.|+|+++++..
T Consensus 74 ~i~v~~a~~~~ 84 (352)
T TIGR01661 74 TIKVSYARPSS 84 (352)
T ss_pred eEEEEeecccc
Confidence 99999987654
No 7
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.66 E-value=3.4e-16 Score=131.15 Aligned_cols=82 Identities=32% Similarity=0.397 Sum_probs=78.7
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
++.+|-|.||+.+++|++|+++|..||.|.. |.|.+|++||.+||||||+|.+.++|.+||+.|||+-++.-
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~r--------vylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~L 259 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITR--------VYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNL 259 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccce--------eEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceE
Confidence 5678999999999999999999999999988 88999999999999999999999999999999999999999
Q ss_pred EEEEEecccC
Q 025700 84 LIGVFIAESR 93 (249)
Q Consensus 84 ~i~V~~a~~~ 93 (249)
.|+|++++|+
T Consensus 260 ILrvEwskP~ 269 (270)
T KOG0122|consen 260 ILRVEWSKPS 269 (270)
T ss_pred EEEEEecCCC
Confidence 9999999886
No 8
>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=99.65 E-value=1.1e-15 Score=105.67 Aligned_cols=70 Identities=31% Similarity=0.528 Sum_probs=66.0
Q ss_pred EEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEE
Q 025700 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG 86 (249)
Q Consensus 8 I~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~ 86 (249)
|||+|||+++|+++|+++|.+||.|.. |+++.+ .++.++++|||+|++.++|++|++.|++..+.++.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~--------~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIES--------IKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEE--------EEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccc--------cccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999987 778887 5789999999999999999999999999999999885
No 9
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.61 E-value=7.2e-15 Score=117.70 Aligned_cols=78 Identities=36% Similarity=0.543 Sum_probs=71.9
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
+++|||+||+..+++.||+.+|..||.|.. |||-++ +.|||||||+++.+|+.|+..|++..|.|..
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrs--------vWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r 76 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRS--------VWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSR 76 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCccee--------EEEeec-----CCCceEEeccCcccHHHHHhhcCCccccCce
Confidence 679999999999999999999999999988 888765 4689999999999999999999999999999
Q ss_pred EEEEecccCCC
Q 025700 85 IGVFIAESRGK 95 (249)
Q Consensus 85 i~V~~a~~~~~ 95 (249)
|+|+++.-+..
T Consensus 77 ~rVE~S~G~~r 87 (195)
T KOG0107|consen 77 IRVELSTGRPR 87 (195)
T ss_pred EEEEeecCCcc
Confidence 99999876544
No 10
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.58 E-value=1.5e-14 Score=100.70 Aligned_cols=70 Identities=33% Similarity=0.558 Sum_probs=64.1
Q ss_pred EEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEE
Q 025700 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG 86 (249)
Q Consensus 8 I~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~ 86 (249)
|||+|||+++++++|.++|..||.|.. |++..++. +.++++|||+|.++++|++|++.+++..|+|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~--------v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEK--------VRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEE--------EEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcce--------EEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 799999999999999999999999877 88999987 89999999999999999999999999999999874
No 11
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.56 E-value=2.6e-14 Score=122.97 Aligned_cols=84 Identities=29% Similarity=0.335 Sum_probs=79.0
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
=.||||.-|+.+++|.+|+..|+.||.|+. |+|++|+.|++++|||||+|+++.+...|.+..++..|+++.
T Consensus 101 y~TLFv~RLnydT~EskLrreF~~YG~Ikr--------irlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrr 172 (335)
T KOG0113|consen 101 YKTLFVARLNYDTSESKLRREFEKYGPIKR--------IRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRR 172 (335)
T ss_pred cceeeeeeccccccHHHHHHHHHhcCccee--------EEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcE
Confidence 469999999999999999999999999998 999999999999999999999999999999999999999999
Q ss_pred EEEEecccCCCC
Q 025700 85 IGVFIAESRGKD 96 (249)
Q Consensus 85 i~V~~a~~~~~~ 96 (249)
|.|.+...+...
T Consensus 173 i~VDvERgRTvk 184 (335)
T KOG0113|consen 173 ILVDVERGRTVK 184 (335)
T ss_pred EEEEeccccccc
Confidence 999997765543
No 12
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.56 E-value=1.5e-14 Score=118.72 Aligned_cols=80 Identities=28% Similarity=0.322 Sum_probs=76.5
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.+|.|-||.+.+|.++|+.+|++||.|-+ |.|.+|+.|.+++|||||.|.+..+|+.||+.|++.+|+|+.|
T Consensus 14 ~SLkVdNLTyRTspd~LrrvFekYG~vgD--------VyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRel 85 (256)
T KOG4207|consen 14 TSLKVDNLTYRTSPDDLRRVFEKYGRVGD--------VYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGREL 85 (256)
T ss_pred eeEEecceeccCCHHHHHHHHHHhCcccc--------eecccccccccccceeEEEeeecchHHHHHHhhcceeecccee
Confidence 57999999999999999999999999988 8899999999999999999999999999999999999999999
Q ss_pred EEEecccC
Q 025700 86 GVFIAESR 93 (249)
Q Consensus 86 ~V~~a~~~ 93 (249)
.|++|+--
T Consensus 86 rVq~aryg 93 (256)
T KOG4207|consen 86 RVQMARYG 93 (256)
T ss_pred eehhhhcC
Confidence 99998743
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=99.55 E-value=9.4e-14 Score=132.29 Aligned_cols=77 Identities=29% Similarity=0.402 Sum_probs=69.0
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhc--CCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTI--GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~--G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
+.++|||+|||.++|+++|+++|++| |.|+. |+++ ++||||+|++.++|++||+.||+.+|.
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~r--------V~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~ 295 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVER--------VKKI--------RDYAFVHFEDREDAVKAMDELNGKELE 295 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEE--------EEee--------cCeEEEEeCCHHHHHHHHHHhCCCEEC
Confidence 35789999999999999999999999 99987 5554 359999999999999999999999999
Q ss_pred CeEEEEEecccCCCC
Q 025700 82 GNLIGVFIAESRGKD 96 (249)
Q Consensus 82 g~~i~V~~a~~~~~~ 96 (249)
++.|+|.+++++...
T Consensus 296 Gr~I~V~~Akp~~~~ 310 (578)
T TIGR01648 296 GSEIEVTLAKPVDKK 310 (578)
T ss_pred CEEEEEEEccCCCcc
Confidence 999999999886543
No 14
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=99.54 E-value=7.7e-15 Score=126.85 Aligned_cols=101 Identities=26% Similarity=0.487 Sum_probs=70.5
Q ss_pred CCcccCCCCCccCCCcCCCCCcccccccccccccCCCCCCCCCCCCCCC-------CCCCCCC-----CCCCCCCCCCCC
Q 025700 140 GKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGR-------GRGRAGN-----ESGSQGRQIGAA 207 (249)
Q Consensus 140 ~~~~~r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~~~~~~~~~~~~~~-------~~~~~~~-----~~~~~~~~~~~~ 207 (249)
.....+++||.|+ .|++.||++|..|++|..++++-.........+. ....+.. .+.+..+.. .+
T Consensus 56 ~~~~~~pgdw~c~--~c~~~n~arr~~c~~c~~s~~~~~~~~~~~~~g~~~~~~~~r~~~~~~~~~~~~g~~~~~n~-~~ 132 (280)
T KOG4198|consen 56 SKDPPRPGDWNCP--LCGFHNSARRLLCFRCGFSKVPLDSALTAPNSGSRSLQTGPRYFKGDWLCPRCPGLGFSRNN-KP 132 (280)
T ss_pred cCCCCCCcccccC--ccchhhHHHhhhcceecccCCCccccccCCCCcccccccccccccCCCCCCCCCCCcccccc-cc
Confidence 4456689999999 6999999999999999999987665322211110 0000000 001111111 13
Q ss_pred CCCCCCCCeecCCCCCeeeeccccCccCCCCCCCCC
Q 025700 208 TGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN 243 (249)
Q Consensus 208 ~~~~~~~dw~c~~c~~~n~~~r~~c~~C~~~~~~~~ 243 (249)
..+++++||+|+.|.++||+++.+|++|+++++-..
T Consensus 133 ~r~~~~GDW~Cp~C~fhNfarn~~C~rC~~~r~~~a 168 (280)
T KOG4198|consen 133 KRPWRSGDWECPGCNFHNFARNSECFRCGAKRPLAA 168 (280)
T ss_pred cCCccccCcccCCCCceeccccchhhhcCCcCcccc
Confidence 457899999999999999999999999999999754
No 15
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=4.3e-14 Score=114.24 Aligned_cols=79 Identities=24% Similarity=0.298 Sum_probs=69.1
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
..+.+|||+|||.++.|.||+++|.+||.|.. |.|...+ .+..||||+|+++-+|+.||..-+++.+.+
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~--------ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg 72 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIRE--------IELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDG 72 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEE--------EEeccCC---CCCCeeEEEecCccchhhhhhcccccccCc
Confidence 45679999999999999999999999999987 5553322 356799999999999999999999999999
Q ss_pred eEEEEEeccc
Q 025700 83 NLIGVFIAES 92 (249)
Q Consensus 83 ~~i~V~~a~~ 92 (249)
..|+|+++..
T Consensus 73 ~rLRVEfprg 82 (241)
T KOG0105|consen 73 CRLRVEFPRG 82 (241)
T ss_pred ceEEEEeccC
Confidence 9999999764
No 16
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.53 E-value=2e-14 Score=120.06 Aligned_cols=78 Identities=27% Similarity=0.339 Sum_probs=71.6
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
++|||++|+++++.++|+++|++||+|.+ ..|+.|+.|+++|||+||+|.+.++|++|++. ....|+||+.
T Consensus 13 TKifVggL~w~T~~~~l~~yFeqfGeI~e--------avvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~a 83 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRYFEQFGEIVE--------AVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKA 83 (247)
T ss_pred EEEEEcCcccccchHHHHHHHHHhCceEE--------EEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCccccccc
Confidence 58999999999999999999999999998 56999999999999999999999999999984 4456999999
Q ss_pred EEEeccc
Q 025700 86 GVFIAES 92 (249)
Q Consensus 86 ~V~~a~~ 92 (249)
.+.+|..
T Consensus 84 NcnlA~l 90 (247)
T KOG0149|consen 84 NCNLASL 90 (247)
T ss_pred ccchhhh
Confidence 9998764
No 17
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.52 E-value=9.4e-15 Score=120.95 Aligned_cols=88 Identities=24% Similarity=0.346 Sum_probs=82.8
Q ss_pred CCCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 025700 1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 1 m~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
|....++|||++|..++||.-|...|-.||.|+. |.++.|.++.+.|+|+||+|+..++|.+||..||..+|
T Consensus 6 ~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~d--------IqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL 77 (298)
T KOG0111|consen 6 MANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKD--------IQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESEL 77 (298)
T ss_pred ccccceeEEeccchHHHHHHHHHhccccccchhh--------cccccchhcccccceeEEEeeccchhHHHhhcCchhhh
Confidence 4667889999999999999999999999999998 88999999999999999999999999999999999999
Q ss_pred cCeEEEEEecccCCCC
Q 025700 81 HGNLIGVFIAESRGKD 96 (249)
Q Consensus 81 ~g~~i~V~~a~~~~~~ 96 (249)
.|++|+|.+|+|..-.
T Consensus 78 ~GrtirVN~AkP~kik 93 (298)
T KOG0111|consen 78 FGRTIRVNLAKPEKIK 93 (298)
T ss_pred cceeEEEeecCCcccc
Confidence 9999999999986543
No 18
>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=99.51 E-value=8.4e-14 Score=132.99 Aligned_cols=83 Identities=20% Similarity=0.235 Sum_probs=78.2
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
..+|||+|||+++++++|+++|++||.|.. ++|++++.+++++|||||+|++.++|.+||+.||+..|.|+.
T Consensus 204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~s--------vrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~ 275 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIKSVFEAFGEIVK--------CQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQY 275 (612)
T ss_pred cceEEeecCCCCCCHHHHHHHHhhcCCeeE--------EEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence 468999999999999999999999999998 889999999999999999999999999999999999999999
Q ss_pred EEEEecccCCC
Q 025700 85 IGVFIAESRGK 95 (249)
Q Consensus 85 i~V~~a~~~~~ 95 (249)
|+|.++..++.
T Consensus 276 LrV~kAi~pP~ 286 (612)
T TIGR01645 276 LRVGKCVTPPD 286 (612)
T ss_pred EEEEecCCCcc
Confidence 99999886543
No 19
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.50 E-value=1.4e-13 Score=118.24 Aligned_cols=77 Identities=22% Similarity=0.255 Sum_probs=70.9
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
..++|||+|||+.+||++|+++|+.||.|.. |+|++++. +++||||+|+++++|+.||. |++..|.++
T Consensus 3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~--------V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr 70 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEY--------VEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQ 70 (260)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCc
Confidence 3679999999999999999999999999998 88888874 46899999999999999996 999999999
Q ss_pred EEEEEeccc
Q 025700 84 LIGVFIAES 92 (249)
Q Consensus 84 ~i~V~~a~~ 92 (249)
.|.|.++..
T Consensus 71 ~V~Vt~a~~ 79 (260)
T PLN03120 71 SVTITPAED 79 (260)
T ss_pred eEEEEeccC
Confidence 999999764
No 20
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.50 E-value=4.9e-14 Score=108.52 Aligned_cols=83 Identities=25% Similarity=0.347 Sum_probs=78.6
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
...|||.++.+.+||++|.+.|..||.|+. |.|-.|+.||..+|||+|+|++.++|++||+.+|+..|++..
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKN--------ihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~ 143 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKN--------IHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQN 143 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccc--------eeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCc
Confidence 457999999999999999999999999998 999999999999999999999999999999999999999999
Q ss_pred EEEEecccCCC
Q 025700 85 IGVFIAESRGK 95 (249)
Q Consensus 85 i~V~~a~~~~~ 95 (249)
|.|.++..+..
T Consensus 144 v~VDw~Fv~gp 154 (170)
T KOG0130|consen 144 VSVDWCFVKGP 154 (170)
T ss_pred eeEEEEEecCC
Confidence 99999876644
No 21
>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=99.50 E-value=1e-13 Score=132.45 Aligned_cols=80 Identities=31% Similarity=0.341 Sum_probs=75.5
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
...+|||+|||+++++++|+++|.+||.|.. |+|++|+.|++++|||||+|.++++|++||+.||+..|.|+
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~s--------V~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR 177 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKS--------INMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGR 177 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEE--------EEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecc
Confidence 3568999999999999999999999999998 88999999999999999999999999999999999999999
Q ss_pred EEEEEecc
Q 025700 84 LIGVFIAE 91 (249)
Q Consensus 84 ~i~V~~a~ 91 (249)
.|+|....
T Consensus 178 ~IkV~rp~ 185 (612)
T TIGR01645 178 NIKVGRPS 185 (612)
T ss_pred eeeecccc
Confidence 99998643
No 22
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.49 E-value=2.1e-13 Score=129.14 Aligned_cols=81 Identities=32% Similarity=0.362 Sum_probs=76.8
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
..+|||+|||..+|+++|+++|.+||.|.. |.|++++.|++++|||||+|.+.++|+.||+.|++..|.++.
T Consensus 295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~--------~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~ 366 (509)
T TIGR01642 295 KDRIYIGNLPLYLGEDQIKELLESFGDLKA--------FNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNK 366 (509)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence 468999999999999999999999999988 789999999999999999999999999999999999999999
Q ss_pred EEEEecccC
Q 025700 85 IGVFIAESR 93 (249)
Q Consensus 85 i~V~~a~~~ 93 (249)
|.|.++...
T Consensus 367 l~v~~a~~~ 375 (509)
T TIGR01642 367 LHVQRACVG 375 (509)
T ss_pred EEEEECccC
Confidence 999998654
No 23
>PLN03213 repressor of silencing 3; Provisional
Probab=99.49 E-value=1e-13 Score=126.25 Aligned_cols=76 Identities=16% Similarity=0.204 Sum_probs=70.4
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCH--HHHHHHHHHhCCceecC
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP--HAALAAVEWFNNKDFHG 82 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~--~~A~~Ai~~l~g~~~~g 82 (249)
..+|||+||++++|++||+.+|.+||.|.. |.|+ ++|| ||||||+|.+. +++.+||+.||+..++|
T Consensus 10 gMRIYVGNLSydVTEDDLravFSeFGsVkd--------VEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKG 77 (759)
T PLN03213 10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDA--------VEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKG 77 (759)
T ss_pred ceEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecC
Confidence 468999999999999999999999999998 7788 5567 89999999987 78999999999999999
Q ss_pred eEEEEEeccc
Q 025700 83 NLIGVFIAES 92 (249)
Q Consensus 83 ~~i~V~~a~~ 92 (249)
+.|+|+.|++
T Consensus 78 R~LKVNKAKP 87 (759)
T PLN03213 78 GRLRLEKAKE 87 (759)
T ss_pred ceeEEeeccH
Confidence 9999999886
No 24
>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=99.49 E-value=1.8e-13 Score=127.99 Aligned_cols=80 Identities=30% Similarity=0.347 Sum_probs=76.5
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
+.+|||+|||..+|+++|+++|.+||.|.. |.|++++.+++++|||||+|.+.++|++||+.|++..|.++.
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~--------v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~ 257 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIED--------VQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRP 257 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEE--------EEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEE
Confidence 579999999999999999999999999988 889999999999999999999999999999999999999999
Q ss_pred EEEEeccc
Q 025700 85 IGVFIAES 92 (249)
Q Consensus 85 i~V~~a~~ 92 (249)
|.|.++..
T Consensus 258 i~v~~a~~ 265 (457)
T TIGR01622 258 IKVGYAQD 265 (457)
T ss_pred EEEEEccC
Confidence 99999873
No 25
>smart00362 RRM_2 RNA recognition motif.
Probab=99.48 E-value=3.2e-13 Score=92.41 Aligned_cols=72 Identities=31% Similarity=0.436 Sum_probs=65.9
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEE
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG 86 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~ 86 (249)
+|||.|||..+++++|+++|.+||.+.. |.++.++ +.++++|||+|.+.++|++|++.+++..+.++.|.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~--------~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~ 70 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIES--------VKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLR 70 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEE--------EEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEe
Confidence 5899999999999999999999999987 7777766 67889999999999999999999999999999888
Q ss_pred EE
Q 025700 87 VF 88 (249)
Q Consensus 87 V~ 88 (249)
|+
T Consensus 71 v~ 72 (72)
T smart00362 71 VE 72 (72)
T ss_pred eC
Confidence 73
No 26
>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=99.48 E-value=1.7e-13 Score=131.48 Aligned_cols=79 Identities=28% Similarity=0.389 Sum_probs=75.2
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.+|||+|||.++||++|+++|++||.|.. |+|.+|+.|++++|||||+|.++++|++||+.++...|.++.|
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~--------v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i 72 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLS--------VRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPI 72 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeE
Confidence 37999999999999999999999999988 8999999999999999999999999999999999999999999
Q ss_pred EEEeccc
Q 025700 86 GVFIAES 92 (249)
Q Consensus 86 ~V~~a~~ 92 (249)
+|.++..
T Consensus 73 ~i~~s~~ 79 (562)
T TIGR01628 73 RIMWSQR 79 (562)
T ss_pred Eeecccc
Confidence 9998753
No 27
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.48 E-value=1.1e-13 Score=120.37 Aligned_cols=79 Identities=25% Similarity=0.232 Sum_probs=73.3
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
.++|+|+|||+...|.||+.+|.+||.|.+ |.|+.+.. -+|||+||+|++.++|++|-++||+..+.||+
T Consensus 96 pkRLhVSNIPFrFRdpDL~aMF~kfG~Vld--------VEIIfNER--GSKGFGFVTmen~~dadRARa~LHgt~VEGRk 165 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLD--------VEIIFNER--GSKGFGFVTMENPADADRARAELHGTVVEGRK 165 (376)
T ss_pred CceeEeecCCccccCccHHHHHHhhCceee--------EEEEeccC--CCCccceEEecChhhHHHHHHHhhcceeeceE
Confidence 478999999999999999999999999998 77888763 48999999999999999999999999999999
Q ss_pred EEEEecccC
Q 025700 85 IGVFIAESR 93 (249)
Q Consensus 85 i~V~~a~~~ 93 (249)
|+|..|..+
T Consensus 166 IEVn~ATar 174 (376)
T KOG0125|consen 166 IEVNNATAR 174 (376)
T ss_pred EEEeccchh
Confidence 999998765
No 28
>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=99.47 E-value=2.5e-13 Score=127.06 Aligned_cols=81 Identities=23% Similarity=0.365 Sum_probs=75.7
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
+..+|||+|||..+++++|+++|.+||.|.. |+|++++.|++++|||||+|.++++|++||. |++..|.++
T Consensus 88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~--------v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~ 158 (457)
T TIGR01622 88 DDRTVFVLQLALKARERDLYEFFSKVGKVRD--------VQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGR 158 (457)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCe
Confidence 4679999999999999999999999999988 8899999999999999999999999999997 899999999
Q ss_pred EEEEEecccC
Q 025700 84 LIGVFIAESR 93 (249)
Q Consensus 84 ~i~V~~a~~~ 93 (249)
.|.|.++...
T Consensus 159 ~i~v~~~~~~ 168 (457)
T TIGR01622 159 PIIVQSSQAE 168 (457)
T ss_pred eeEEeecchh
Confidence 9999886543
No 29
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=1.2e-13 Score=105.40 Aligned_cols=81 Identities=21% Similarity=0.252 Sum_probs=75.2
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
..+.||||+||+..++|++|.++|+++|.|.. |-+-.|+.+-.+-||+||+|.+.++|+.||..++++.++.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irr--------iiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLdd 105 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRR--------IIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDD 105 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchhe--------eEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccc
Confidence 35889999999999999999999999999998 6566788888899999999999999999999999999999
Q ss_pred eEEEEEecc
Q 025700 83 NLIGVFIAE 91 (249)
Q Consensus 83 ~~i~V~~a~ 91 (249)
+.|.|.+..
T Consensus 106 r~ir~D~D~ 114 (153)
T KOG0121|consen 106 RPIRIDWDA 114 (153)
T ss_pred cceeeeccc
Confidence 999999854
No 30
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=1.8e-13 Score=115.90 Aligned_cols=82 Identities=29% Similarity=0.391 Sum_probs=78.0
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
+.|+|.-||..+|++||+.+|...|+|++ ++|++||.||++-||+||.|.++++|++||..||+..+..++|
T Consensus 42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiES--------cKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTI 113 (360)
T KOG0145|consen 42 TNLIVNYLPQNMTQDELRSLFGSIGEIES--------CKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTI 113 (360)
T ss_pred ceeeeeecccccCHHHHHHHhhcccceee--------eeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceE
Confidence 56899999999999999999999999999 6699999999999999999999999999999999999999999
Q ss_pred EEEecccCCC
Q 025700 86 GVFIAESRGK 95 (249)
Q Consensus 86 ~V~~a~~~~~ 95 (249)
+|+||+|...
T Consensus 114 KVSyARPSs~ 123 (360)
T KOG0145|consen 114 KVSYARPSSD 123 (360)
T ss_pred EEEeccCChh
Confidence 9999998654
No 31
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.46 E-value=7.5e-15 Score=118.28 Aligned_cols=81 Identities=28% Similarity=0.356 Sum_probs=76.3
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
.++.-|||+|||.+.||.||..+|++||.|.. |.|++|+.||+++||||+.|++.-+...|+..|||..|.|
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vd--------inLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~g 104 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVD--------INLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILG 104 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEE--------EEEEecCCCCcccceEEEEecCccceEEEEeccCCceecc
Confidence 35778999999999999999999999999998 8999999999999999999999999999999999999999
Q ss_pred eEEEEEecc
Q 025700 83 NLIGVFIAE 91 (249)
Q Consensus 83 ~~i~V~~a~ 91 (249)
++|+|....
T Consensus 105 RtirVDHv~ 113 (219)
T KOG0126|consen 105 RTIRVDHVS 113 (219)
T ss_pred eeEEeeecc
Confidence 999998743
No 32
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.46 E-value=4.1e-13 Score=113.73 Aligned_cols=79 Identities=22% Similarity=0.228 Sum_probs=72.2
Q ss_pred CCCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 025700 1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 1 m~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
|.+...+|||+||++.+||++|+++|+.||.|.. |+|+++.. .++||||+|+++++|+.||. |++..|
T Consensus 1 m~~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~--------V~I~~D~e---t~gfAfVtF~d~~aaetAll-LnGa~l 68 (243)
T PLN03121 1 MYPGGYTAEVTNLSPKATEKDVYDFFSHCGAIEH--------VEIIRSGE---YACTAYVTFKDAYALETAVL-LSGATI 68 (243)
T ss_pred CCCCceEEEEecCCCCCCHHHHHHHHHhcCCeEE--------EEEecCCC---cceEEEEEECCHHHHHHHHh-cCCCee
Confidence 6777889999999999999999999999999998 88998864 45799999999999999995 999999
Q ss_pred cCeEEEEEecc
Q 025700 81 HGNLIGVFIAE 91 (249)
Q Consensus 81 ~g~~i~V~~a~ 91 (249)
.++.|.|....
T Consensus 69 ~d~~I~It~~~ 79 (243)
T PLN03121 69 VDQRVCITRWG 79 (243)
T ss_pred CCceEEEEeCc
Confidence 99999998865
No 33
>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=99.45 E-value=3.7e-13 Score=129.20 Aligned_cols=82 Identities=22% Similarity=0.304 Sum_probs=76.8
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
...+|||+||+.++|+++|+++|++||.|.. |+|+.+ .++.++|||||+|.+.++|++||+.||+..|.|+
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~--------~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk 354 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITS--------AKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGK 354 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEE--------EEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCc
Confidence 4578999999999999999999999999998 789988 5799999999999999999999999999999999
Q ss_pred EEEEEecccCC
Q 025700 84 LIGVFIAESRG 94 (249)
Q Consensus 84 ~i~V~~a~~~~ 94 (249)
.|.|.+|..+.
T Consensus 355 ~l~V~~a~~k~ 365 (562)
T TIGR01628 355 PLYVALAQRKE 365 (562)
T ss_pred eeEEEeccCcH
Confidence 99999998654
No 34
>smart00360 RRM RNA recognition motif.
Probab=99.45 E-value=6.1e-13 Score=90.57 Aligned_cols=71 Identities=38% Similarity=0.497 Sum_probs=65.8
Q ss_pred ecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEE
Q 025700 10 VCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVF 88 (249)
Q Consensus 10 V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~ 88 (249)
|.|||..+++++|+++|.+||.|.. |.+..++.+++++++|||+|.+.++|++|++.+++..+.++.|.|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~--------~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIES--------VRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeE--------EEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 6799999999999999999999987 7788888788999999999999999999999999999999988873
No 35
>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=99.43 E-value=5.1e-13 Score=127.31 Aligned_cols=76 Identities=32% Similarity=0.461 Sum_probs=69.0
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-Ce
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-GN 83 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~-g~ 83 (249)
..+|||+|||.+++|++|+++|++||.|.. |+|++| .+++++|||||+|.++++|++||+.||+..|. ++
T Consensus 58 ~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~--------vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr 128 (578)
T TIGR01648 58 GCEVFVGKIPRDLYEDELVPLFEKAGPIYE--------LRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGR 128 (578)
T ss_pred CCEEEeCCCCCCCCHHHHHHHHHhhCCEEE--------EEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCc
Confidence 479999999999999999999999999998 889999 78999999999999999999999999998885 56
Q ss_pred EEEEEe
Q 025700 84 LIGVFI 89 (249)
Q Consensus 84 ~i~V~~ 89 (249)
.|.|..
T Consensus 129 ~l~V~~ 134 (578)
T TIGR01648 129 LLGVCI 134 (578)
T ss_pred cccccc
Confidence 655543
No 36
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.43 E-value=8.4e-13 Score=112.44 Aligned_cols=80 Identities=35% Similarity=0.510 Sum_probs=76.1
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
..+|||+|||.++|+++|.++|.+||.|.. |.+..++.|++++|||||+|.++++|..|++.+++..|.++.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~--------~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~ 186 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKR--------VRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRP 186 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeE--------EEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCce
Confidence 489999999999999999999999999987 889999999999999999999999999999999999999999
Q ss_pred EEEEeccc
Q 025700 85 IGVFIAES 92 (249)
Q Consensus 85 i~V~~a~~ 92 (249)
|.|.++..
T Consensus 187 ~~v~~~~~ 194 (306)
T COG0724 187 LRVQKAQP 194 (306)
T ss_pred eEeecccc
Confidence 99999653
No 37
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.41 E-value=5.9e-13 Score=122.67 Aligned_cols=82 Identities=28% Similarity=0.399 Sum_probs=78.5
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
..|||+|||++++|++|.++|++.|.|.. ++++.|++||+++||+|++|.++++|+.|++.||+.++.+++|
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s--------~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l 90 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLS--------FRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccce--------eeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceE
Confidence 89999999999999999999999999998 8899999999999999999999999999999999999999999
Q ss_pred EEEecccCCC
Q 025700 86 GVFIAESRGK 95 (249)
Q Consensus 86 ~V~~a~~~~~ 95 (249)
+|.++.....
T Consensus 91 ~v~~~~~~~~ 100 (435)
T KOG0108|consen 91 RVNYASNRKN 100 (435)
T ss_pred Eeecccccch
Confidence 9999876544
No 38
>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=99.41 E-value=3.2e-12 Score=87.78 Aligned_cols=74 Identities=36% Similarity=0.511 Sum_probs=67.4
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEE
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG 86 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~ 86 (249)
+|+|.|||..+++++|+++|..+|.|.. +.+..++.+ .+++++||+|.+.++|..|++.+++..+.++.|.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~--------~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~ 71 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVES--------VRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLR 71 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEE--------EEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence 5899999999999999999999999987 778877754 6789999999999999999999999999999998
Q ss_pred EEe
Q 025700 87 VFI 89 (249)
Q Consensus 87 V~~ 89 (249)
|.+
T Consensus 72 v~~ 74 (74)
T cd00590 72 VEF 74 (74)
T ss_pred EeC
Confidence 864
No 39
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=1.8e-12 Score=116.84 Aligned_cols=80 Identities=29% Similarity=0.375 Sum_probs=71.4
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
.-+.|||.||+.++||+.|+++|.+||.|.. |+.++| ||||.|.+.++|.+||+.+|+++|+|.
T Consensus 258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veR--------Vkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~ 321 (506)
T KOG0117|consen 258 KVKVLYVRNLMESTTEETLKKLFNEFGKVER--------VKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGS 321 (506)
T ss_pred heeeeeeeccchhhhHHHHHHHHHhccceEE--------eecccc--------eeEEeecchHHHHHHHHHhcCceecCc
Confidence 3478999999999999999999999999987 555543 999999999999999999999999999
Q ss_pred EEEEEecccCCCCCcc
Q 025700 84 LIGVFIAESRGKDDHA 99 (249)
Q Consensus 84 ~i~V~~a~~~~~~~~~ 99 (249)
.|.|.+|+|..+....
T Consensus 322 ~iEvtLAKP~~k~k~~ 337 (506)
T KOG0117|consen 322 PIEVTLAKPVDKKKKE 337 (506)
T ss_pred eEEEEecCChhhhccc
Confidence 9999999997765443
No 40
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.39 E-value=1.3e-12 Score=117.80 Aligned_cols=79 Identities=29% Similarity=0.445 Sum_probs=73.4
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-Ce
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-GN 83 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~-g~ 83 (249)
.+.|||+.||.++.|+||.-+|++.|.|-+ |+|++|+.+|.+||||||+|.+.++|++||+.||+++|. |+
T Consensus 83 G~EVfvGkIPrD~~EdeLvplfEkiG~I~e--------lRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK 154 (506)
T KOG0117|consen 83 GCEVFVGKIPRDVFEDELVPLFEKIGKIYE--------LRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGK 154 (506)
T ss_pred CceEEecCCCccccchhhHHHHHhccceee--------EEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCC
Confidence 468999999999999999999999999988 999999999999999999999999999999999999986 78
Q ss_pred EEEEEecc
Q 025700 84 LIGVFIAE 91 (249)
Q Consensus 84 ~i~V~~a~ 91 (249)
.|.|..+.
T Consensus 155 ~igvc~Sv 162 (506)
T KOG0117|consen 155 LLGVCVSV 162 (506)
T ss_pred EeEEEEee
Confidence 87776643
No 41
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.38 E-value=1.6e-12 Score=113.96 Aligned_cols=93 Identities=33% Similarity=0.514 Sum_probs=87.1
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
.+..|||+|||.++|.+++.++|+++|.|..+.+|+.|+|+|+++.. |+.+|-|++.|...++++.|++.|++..|.|+
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~ 211 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDEDELRGK 211 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCcccccCc
Confidence 35679999999999999999999999999999999999999999987 99999999999999999999999999999999
Q ss_pred EEEEEecccCCCCC
Q 025700 84 LIGVFIAESRGKDD 97 (249)
Q Consensus 84 ~i~V~~a~~~~~~~ 97 (249)
.|+|+.|+-+.+..
T Consensus 212 ~~rVerAkfq~Kge 225 (382)
T KOG1548|consen 212 KLRVERAKFQMKGE 225 (382)
T ss_pred EEEEehhhhhhccC
Confidence 99999998665543
No 42
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.37 E-value=6.4e-12 Score=107.08 Aligned_cols=80 Identities=30% Similarity=0.495 Sum_probs=73.8
Q ss_pred CCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 2 ~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
++++++|||+||+..+||++|++.|+.||.|.+ |+|++++ |||||.|++.|.|..||..+|+.+|.
T Consensus 161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~E--------VRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~ 226 (321)
T KOG0148|consen 161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQE--------VRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIG 226 (321)
T ss_pred CCCCceEEeCCcCccccHHHHHHhcccCCcceE--------EEEeccc------ceEEEEecchhhHHHHHHHhcCceeC
Confidence 467889999999999999999999999999999 9999875 69999999999999999999999999
Q ss_pred CeEEEEEecccCCC
Q 025700 82 GNLIGVFIAESRGK 95 (249)
Q Consensus 82 g~~i~V~~a~~~~~ 95 (249)
|+.++..+-+....
T Consensus 227 G~~VkCsWGKe~~~ 240 (321)
T KOG0148|consen 227 GQLVRCSWGKEGDD 240 (321)
T ss_pred ceEEEEeccccCCC
Confidence 99999999776543
No 43
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.37 E-value=8.8e-13 Score=106.39 Aligned_cols=80 Identities=24% Similarity=0.321 Sum_probs=76.7
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
...||||+||+..++++.|.++|.+.|.|.. |++.+|+.|.+.+||+||+|.++++|+-|++.|+...|.|+
T Consensus 8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~--------i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgr 79 (203)
T KOG0131|consen 8 QDATLYVGNLDEKVSEELLYELFIQAGPVVN--------LHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGR 79 (203)
T ss_pred CCceEEEecCCHHHHHHHHHHHHHhcCceee--------eecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCc
Confidence 4679999999999999999999999999988 88999999999999999999999999999999998899999
Q ss_pred EEEEEecc
Q 025700 84 LIGVFIAE 91 (249)
Q Consensus 84 ~i~V~~a~ 91 (249)
+|+|..+.
T Consensus 80 pIrv~kas 87 (203)
T KOG0131|consen 80 PIRVNKAS 87 (203)
T ss_pred eeEEEecc
Confidence 99999987
No 44
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.36 E-value=4.3e-12 Score=119.81 Aligned_cols=79 Identities=22% Similarity=0.299 Sum_probs=71.7
Q ss_pred CCCCeEEecCCCC-CCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 3 MANGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 3 ~~~~tI~V~nLp~-~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
.++.+|||+|||+ .+|+++|+++|++||.|.. |+|++++ ++||||+|.++++|+.||+.||+..|.
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~--------vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~ 339 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVER--------VKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLF 339 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEE--------EEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence 3678999999997 6999999999999999998 7788764 589999999999999999999999999
Q ss_pred CeEEEEEecccCC
Q 025700 82 GNLIGVFIAESRG 94 (249)
Q Consensus 82 g~~i~V~~a~~~~ 94 (249)
|+.|+|.+++.+.
T Consensus 340 g~~l~v~~s~~~~ 352 (481)
T TIGR01649 340 GKPLRVCPSKQQN 352 (481)
T ss_pred CceEEEEEccccc
Confidence 9999999986543
No 45
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.34 E-value=5.8e-12 Score=92.92 Aligned_cols=78 Identities=23% Similarity=0.410 Sum_probs=70.8
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
+..|||.|||.++|.++.-++|.+||.|.. |+|-..+. .+|.|||.|++..+|+.|++.|.+..+.++.
T Consensus 18 nriLyirNLp~~ITseemydlFGkyg~IrQ--------IRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg~n~~~ry 86 (124)
T KOG0114|consen 18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQ--------IRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSGYNVDNRY 86 (124)
T ss_pred heeEEEecCCccccHHHHHHHhhcccceEE--------EEecCccC---cCceEEEEehHhhhHHHHHHHhcccccCCce
Confidence 578999999999999999999999999988 77766654 5789999999999999999999999999999
Q ss_pred EEEEecccC
Q 025700 85 IGVFIAESR 93 (249)
Q Consensus 85 i~V~~a~~~ 93 (249)
|.|-+-.+.
T Consensus 87 l~vlyyq~~ 95 (124)
T KOG0114|consen 87 LVVLYYQPE 95 (124)
T ss_pred EEEEecCHH
Confidence 999986654
No 46
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.31 E-value=4.3e-12 Score=108.13 Aligned_cols=81 Identities=23% Similarity=0.272 Sum_probs=76.9
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
..|||+-|..+++-++|++.|.+||.|.+ .+|++|..|+++|||+||.|...++|+.||+.|+|.=|..|.|
T Consensus 63 fhvfvgdls~eI~~e~lr~aF~pFGevS~--------akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~I 134 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDNEKLREAFAPFGEVSD--------AKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTI 134 (321)
T ss_pred eeEEehhcchhcchHHHHHHhcccccccc--------ceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeecccee
Confidence 46999999999999999999999999998 5699999999999999999999999999999999999999999
Q ss_pred EEEecccCC
Q 025700 86 GVFIAESRG 94 (249)
Q Consensus 86 ~V~~a~~~~ 94 (249)
+-.+|..++
T Consensus 135 RTNWATRKp 143 (321)
T KOG0148|consen 135 RTNWATRKP 143 (321)
T ss_pred eccccccCc
Confidence 999998765
No 47
>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=99.31 E-value=1.1e-11 Score=116.99 Aligned_cols=77 Identities=26% Similarity=0.223 Sum_probs=68.8
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh--CCceec
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF--NNKDFH 81 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l--~g~~~~ 81 (249)
|+.+|||+|||.++||++|+++|++||.|.. |.|+++ ++||||+|+++++|++||+.+ ++..|.
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~--------v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~ 66 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSY--------VMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIR 66 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeE--------EEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEc
Confidence 6889999999999999999999999999998 667753 479999999999999999864 678999
Q ss_pred CeEEEEEecccCC
Q 025700 82 GNLIGVFIAESRG 94 (249)
Q Consensus 82 g~~i~V~~a~~~~ 94 (249)
|+.|.|.++..+.
T Consensus 67 g~~l~v~~s~~~~ 79 (481)
T TIGR01649 67 GQPAFFNYSTSQE 79 (481)
T ss_pred CeEEEEEecCCcc
Confidence 9999999987543
No 48
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.28 E-value=6.6e-12 Score=112.86 Aligned_cols=84 Identities=25% Similarity=0.356 Sum_probs=75.0
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce-ecC-
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD-FHG- 82 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~-~~g- 82 (249)
.-++||+-||..++|.||+++|++||.|.+ |.|++||.|+.++|++||.|.+.++|.+|+..|+... |-|
T Consensus 34 ~vKlfVgqIprt~sE~dlr~lFe~yg~V~e--------inl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~ 105 (510)
T KOG0144|consen 34 AVKLFVGQIPRTASEKDLRELFEKYGNVYE--------INLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGM 105 (510)
T ss_pred hhhheeccCCccccHHHHHHHHHHhCceeE--------EEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCC
Confidence 458999999999999999999999999998 8899999999999999999999999999999998764 433
Q ss_pred -eEEEEEecccCCCC
Q 025700 83 -NLIGVFIAESRGKD 96 (249)
Q Consensus 83 -~~i~V~~a~~~~~~ 96 (249)
..|.|.+|+...++
T Consensus 106 ~~pvqvk~Ad~E~er 120 (510)
T KOG0144|consen 106 HHPVQVKYADGERER 120 (510)
T ss_pred Ccceeecccchhhhc
Confidence 78899998865544
No 49
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.28 E-value=4.2e-12 Score=114.13 Aligned_cols=86 Identities=22% Similarity=0.360 Sum_probs=76.8
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee-cC
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF-HG 82 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~-~g 82 (249)
++.+|||+-|+..+||.||+++|.+||.|++ +.|++|.+ +.+||+|||.|.+.+.|..||+.||+..- .|
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied--------~~ilrd~~-~~sRGcaFV~fstke~A~~Aika~ng~~tmeG 193 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIED--------CYILRDPD-GLSRGCAFVKFSTKEMAVAAIKALNGTQTMEG 193 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccch--------hhheeccc-ccccceeEEEEehHHHHHHHHHhhccceeecc
Confidence 4789999999999999999999999999998 67999875 89999999999999999999999999754 44
Q ss_pred --eEEEEEecccCCCCCc
Q 025700 83 --NLIGVFIAESRGKDDH 98 (249)
Q Consensus 83 --~~i~V~~a~~~~~~~~ 98 (249)
.+|.|.+|+++..+..
T Consensus 194 cs~PLVVkFADtqkdk~~ 211 (510)
T KOG0144|consen 194 CSQPLVVKFADTQKDKDG 211 (510)
T ss_pred CCCceEEEecccCCCchH
Confidence 7899999998766543
No 50
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.26 E-value=4.2e-11 Score=107.95 Aligned_cols=81 Identities=23% Similarity=0.334 Sum_probs=73.3
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHH-hcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFG-TIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~-~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
..+.+||.|||+++.+.||+++|. +.|.|+. |.|+.|. ++++||+|.|+|+++|.+++|++.||.+++.+
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~y--------veLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~G 113 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEY--------VELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNG 113 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceEe--------eeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccC
Confidence 345699999999999999999997 6799998 7799887 59999999999999999999999999999999
Q ss_pred eEEEEEecccC
Q 025700 83 NLIGVFIAESR 93 (249)
Q Consensus 83 ~~i~V~~a~~~ 93 (249)
++|.|......
T Consensus 114 R~l~vKEd~d~ 124 (608)
T KOG4212|consen 114 RELVVKEDHDE 124 (608)
T ss_pred ceEEEeccCch
Confidence 99999875543
No 51
>smart00361 RRM_1 RNA recognition motif.
Probab=99.26 E-value=2.8e-11 Score=84.62 Aligned_cols=61 Identities=23% Similarity=0.411 Sum_probs=55.2
Q ss_pred HHHHHHHHH----hcCCeeecCCCCCCeEE-EEecCCC--CCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEE
Q 025700 19 EDMLAEYFG----TIGLLKKDKRTGRPKVW-LYRDKTT--NEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGV 87 (249)
Q Consensus 19 e~dL~~~F~----~~G~i~~~~~~g~p~V~-i~~d~~t--g~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V 87 (249)
+++|+++|. +||.|.. |. |+.++.+ +.++||+||+|.++++|++|++.||+..+.++.|++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~--------v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGK--------INKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeE--------EEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578889998 9999988 63 7777777 899999999999999999999999999999999876
No 52
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.26 E-value=1.9e-11 Score=112.73 Aligned_cols=82 Identities=33% Similarity=0.440 Sum_probs=74.5
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh-----CC-c
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF-----NN-K 78 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l-----~g-~ 78 (249)
..+|||.|||+++||++|.++|++||.|.. +.|+.++.|+.++|.|||.|.+..+|+.+|+.. .+ .
T Consensus 292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~y--------a~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ 363 (678)
T KOG0127|consen 292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKY--------AIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSV 363 (678)
T ss_pred cceEEEecCCccccHHHHHHHHHhhcccee--------EEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceE
Confidence 379999999999999999999999999999 679999999999999999999999999999866 23 6
Q ss_pred eecCeEEEEEecccCC
Q 025700 79 DFHGNLIGVFIAESRG 94 (249)
Q Consensus 79 ~~~g~~i~V~~a~~~~ 94 (249)
.|.|+.|+|.+|-.+.
T Consensus 364 ll~GR~Lkv~~Av~Rk 379 (678)
T KOG0127|consen 364 LLDGRLLKVTLAVTRK 379 (678)
T ss_pred EEeccEEeeeeccchH
Confidence 7889999999987543
No 53
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.26 E-value=6.2e-12 Score=107.05 Aligned_cols=86 Identities=19% Similarity=0.313 Sum_probs=80.5
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
++...|||-.||.+..+.||..+|..||.|.+. +++.|+.|..+|.|+||.|+++.+|++||..|||..|.=
T Consensus 283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhivSa--------KVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGM 354 (371)
T KOG0146|consen 283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSA--------KVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGM 354 (371)
T ss_pred CCcceEEEEeCchhhccHHHHHHhccccceeee--------eeeehhccccccceeeEecCCchhHHHHHHHhcchhhhh
Confidence 467899999999999999999999999999984 599999999999999999999999999999999999999
Q ss_pred eEEEEEecccCCCC
Q 025700 83 NLIGVFIAESRGKD 96 (249)
Q Consensus 83 ~~i~V~~a~~~~~~ 96 (249)
++|+|.+.+++...
T Consensus 355 KRLKVQLKRPkdan 368 (371)
T KOG0146|consen 355 KRLKVQLKRPKDAN 368 (371)
T ss_pred hhhhhhhcCccccC
Confidence 99999998888654
No 54
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.20 E-value=1.7e-10 Score=105.90 Aligned_cols=81 Identities=20% Similarity=0.206 Sum_probs=66.2
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.+|||.|||+++++++|+++|.+||.|+... |.+.. ..++...|+||+|++.++++.||++- -..|.+++|
T Consensus 289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~------I~vr~--~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl 359 (419)
T KOG0116|consen 289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGG------IQVRS--PGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKL 359 (419)
T ss_pred cceEeecCCCCCCHHHHHHHHhhcccccccc------eEEec--cCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeE
Confidence 4699999999999999999999999999854 44433 22344489999999999999999854 667889999
Q ss_pred EEEecccCCC
Q 025700 86 GVFIAESRGK 95 (249)
Q Consensus 86 ~V~~a~~~~~ 95 (249)
.|+..++...
T Consensus 360 ~Veek~~~~~ 369 (419)
T KOG0116|consen 360 NVEEKRPGFR 369 (419)
T ss_pred EEEecccccc
Confidence 9998766544
No 55
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=4.4e-11 Score=105.35 Aligned_cols=87 Identities=21% Similarity=0.248 Sum_probs=81.5
Q ss_pred CCCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 025700 1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 1 m~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
|.+|.+.|||--|.+-+|.+||+-+|+.||.|.. ..|++|..|+.+..||||+|++.++.++|.-.|+...|
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~s--------ceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLI 306 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVS--------CEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLI 306 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhccccee--------eeEEecccccchhheeeeeecchhhHHHHHhhhcceee
Confidence 5789999999999999999999999999999999 55999999999999999999999999999999999999
Q ss_pred cCeEEEEEecccCCC
Q 025700 81 HGNLIGVFIAESRGK 95 (249)
Q Consensus 81 ~g~~i~V~~a~~~~~ 95 (249)
..+.|.|.++.+..+
T Consensus 307 DDrRIHVDFSQSVsk 321 (479)
T KOG0415|consen 307 DDRRIHVDFSQSVSK 321 (479)
T ss_pred ccceEEeehhhhhhh
Confidence 999999999876544
No 56
>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=99.18 E-value=1.6e-10 Score=77.01 Aligned_cols=56 Identities=30% Similarity=0.495 Sum_probs=48.8
Q ss_pred HHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEec
Q 025700 22 LAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIA 90 (249)
Q Consensus 22 L~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a 90 (249)
|.++|++||.|.. |.+..++ +++|||+|.+.++|+.|++.||+..+.|++|+|++|
T Consensus 1 L~~~f~~fG~V~~--------i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKK--------IKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEE--------EEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEE--------EEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 6789999999987 6565443 579999999999999999999999999999999985
No 57
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.15 E-value=1.3e-10 Score=95.60 Aligned_cols=82 Identities=32% Similarity=0.450 Sum_probs=74.2
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhc-CCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTI-GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~-G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
....+||..||.-+.+.+|..+|.+| |.+.. +++.+++.||.++|||||+|++++.|+-|-+.||++.|.+
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r--------~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e 119 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTR--------FRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLME 119 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeEE--------EEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhh
Confidence 34578999999999999999999998 66665 7788999999999999999999999999999999999999
Q ss_pred eEEEEEecccC
Q 025700 83 NLIGVFIAESR 93 (249)
Q Consensus 83 ~~i~V~~a~~~ 93 (249)
+.|.+.+-.+.
T Consensus 120 ~lL~c~vmppe 130 (214)
T KOG4208|consen 120 HLLECHVMPPE 130 (214)
T ss_pred heeeeEEeCch
Confidence 99999986655
No 58
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.14 E-value=2.2e-10 Score=97.33 Aligned_cols=80 Identities=29% Similarity=0.386 Sum_probs=75.8
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.-|||-||.++++|.-|-++|.+||.|.. |+|++|..|.+-|||+||++.+-++|..||..||++.+.++.|
T Consensus 279 ~ciFvYNLspd~de~~LWQlFgpFGAv~n--------VKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvL 350 (360)
T KOG0145|consen 279 WCIFVYNLSPDADESILWQLFGPFGAVTN--------VKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVL 350 (360)
T ss_pred eEEEEEecCCCchHhHHHHHhCcccceee--------EEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEE
Confidence 47999999999999999999999999998 8899999999999999999999999999999999999999999
Q ss_pred EEEecccC
Q 025700 86 GVFIAESR 93 (249)
Q Consensus 86 ~V~~a~~~ 93 (249)
.|.+...+
T Consensus 351 QVsFKtnk 358 (360)
T KOG0145|consen 351 QVSFKTNK 358 (360)
T ss_pred EEEEecCC
Confidence 99986544
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.13 E-value=1.3e-10 Score=93.99 Aligned_cols=86 Identities=26% Similarity=0.307 Sum_probs=78.4
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
+..|||+||.++++|..|.+.|+.||.+... -+|+++..|+.+++|+||.|++.+.+.+||+.+++..+..++
T Consensus 96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~-------P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~ 168 (203)
T KOG0131|consen 96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISP-------PKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRP 168 (203)
T ss_pred cccccccccCcchhHHHHHHHHHhccccccC-------CcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCc
Confidence 4689999999999999999999999998763 368899999999999999999999999999999999999999
Q ss_pred EEEEecccCCCCC
Q 025700 85 IGVFIAESRGKDD 97 (249)
Q Consensus 85 i~V~~a~~~~~~~ 97 (249)
|.|.++..+....
T Consensus 169 itv~ya~k~~~kg 181 (203)
T KOG0131|consen 169 ITVSYAFKKDTKG 181 (203)
T ss_pred eEEEEEEecCCCc
Confidence 9999998776543
No 60
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.13 E-value=6.9e-11 Score=109.19 Aligned_cols=81 Identities=32% Similarity=0.434 Sum_probs=75.5
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEE
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG 86 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~ 86 (249)
.|||+||..++||++|+.+|+.||.|.. |.+.+|.+||.++||+||+|.+.++|+.|++.||+.+|-|+.|+
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~--------v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ik 351 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIEN--------VQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIK 351 (549)
T ss_pred hhhhcccccCchHHHHhhhccCccccee--------eeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEE
Confidence 3899999999999999999999999998 88999999999999999999999999999999999999999999
Q ss_pred EEecccCCC
Q 025700 87 VFIAESRGK 95 (249)
Q Consensus 87 V~~a~~~~~ 95 (249)
|.....+..
T Consensus 352 V~~v~~r~~ 360 (549)
T KOG0147|consen 352 VSVVTERVD 360 (549)
T ss_pred EEEeeeecc
Confidence 988665443
No 61
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.12 E-value=1.1e-10 Score=100.47 Aligned_cols=74 Identities=26% Similarity=0.316 Sum_probs=68.0
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.+|||+|||..+++.+|+.+|++||.|.++ .|+++ |+||..++...|+.||..|++..|+|..|
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlEC--------DIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nI 66 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLEC--------DIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNI 66 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEee--------eeecc--------cceEEeecccccHHHHhhcccceecceEE
Confidence 479999999999999999999999999994 47765 89999999999999999999999999999
Q ss_pred EEEecccCCC
Q 025700 86 GVFIAESRGK 95 (249)
Q Consensus 86 ~V~~a~~~~~ 95 (249)
.|+.++.+.+
T Consensus 67 nVeaSksKsk 76 (346)
T KOG0109|consen 67 NVEASKSKSK 76 (346)
T ss_pred EEEeccccCC
Confidence 9999887743
No 62
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.12 E-value=2.2e-10 Score=95.63 Aligned_cols=83 Identities=27% Similarity=0.421 Sum_probs=72.6
Q ss_pred CCCCCeEEecCCCCCCCHHHHHH----HHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 025700 2 TMANGSVYVCNLPHGTDEDMLAE----YFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN 77 (249)
Q Consensus 2 ~~~~~tI~V~nLp~~~te~dL~~----~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g 77 (249)
..++.||||.||+..+..++|+. +|++||.|.. |... + |.+.||-|||.|.+++.|..|+..|+|
T Consensus 6 ~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ild--------I~a~--k-t~KmRGQA~VvFk~~~~As~A~r~l~g 74 (221)
T KOG4206|consen 6 VNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILD--------ISAF--K-TPKMRGQAFVVFKETEAASAALRALQG 74 (221)
T ss_pred cCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEE--------EEec--C-CCCccCceEEEecChhHHHHHHHHhcC
Confidence 35667999999999999999887 9999999866 3333 2 578999999999999999999999999
Q ss_pred ceecCeEEEEEecccCCC
Q 025700 78 KDFHGNLIGVFIAESRGK 95 (249)
Q Consensus 78 ~~~~g~~i~V~~a~~~~~ 95 (249)
..|.|+.++|+||+.+..
T Consensus 75 fpFygK~mriqyA~s~sd 92 (221)
T KOG4206|consen 75 FPFYGKPMRIQYAKSDSD 92 (221)
T ss_pred CcccCchhheecccCccc
Confidence 999999999999987654
No 63
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.12 E-value=2.3e-10 Score=105.74 Aligned_cols=82 Identities=23% Similarity=0.342 Sum_probs=75.0
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
.-+|+|.|||+.+.+.+|+.+|++||.|.. |.|++.++ ++..|||||.|....+|..||+.+|+..|.|++
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~E--------i~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~ 187 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVE--------IVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRP 187 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEE--------EEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCceecCce
Confidence 568999999999999999999999999988 88888776 555699999999999999999999999999999
Q ss_pred EEEEecccCCC
Q 025700 85 IGVFIAESRGK 95 (249)
Q Consensus 85 i~V~~a~~~~~ 95 (249)
|-|.||-++..
T Consensus 188 VAVDWAV~Kd~ 198 (678)
T KOG0127|consen 188 VAVDWAVDKDT 198 (678)
T ss_pred eEEeeeccccc
Confidence 99999887654
No 64
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.10 E-value=5.5e-11 Score=105.12 Aligned_cols=76 Identities=33% Similarity=0.370 Sum_probs=73.2
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.+|||+.|.+++.|+.|+..|..||.|++ |.+..|+.|++.++||||+|+-++.|+.|++.||+..+.|+.|
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKS--------InMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNi 185 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKS--------INMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI 185 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcce--------eecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccc
Confidence 47999999999999999999999999999 8899999999999999999999999999999999999999999
Q ss_pred EEEe
Q 025700 86 GVFI 89 (249)
Q Consensus 86 ~V~~ 89 (249)
+|..
T Consensus 186 KVgr 189 (544)
T KOG0124|consen 186 KVGR 189 (544)
T ss_pred cccC
Confidence 9875
No 65
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.10 E-value=1.4e-10 Score=109.94 Aligned_cols=84 Identities=14% Similarity=0.212 Sum_probs=61.8
Q ss_pred CCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCC--CCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 025700 2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKR--TGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 2 ~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~--~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~ 79 (249)
+....+|||+|||+.+|+++|+++|.++........ .+.+.+.+. ..+.++||||+|.+.++|+.||+ |++..
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~----~~~~kg~afVeF~~~e~A~~Al~-l~g~~ 246 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN----INKEKNFAFLEFRTVEEATFAMA-LDSII 246 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE----ECCCCCEEEEEeCCHHHHhhhhc-CCCeE
Confidence 345789999999999999999999998632211000 011111122 24467899999999999999995 99999
Q ss_pred ecCeEEEEEec
Q 025700 80 FHGNLIGVFIA 90 (249)
Q Consensus 80 ~~g~~i~V~~a 90 (249)
|.++.|+|...
T Consensus 247 ~~g~~l~v~r~ 257 (509)
T TIGR01642 247 YSNVFLKIRRP 257 (509)
T ss_pred eeCceeEecCc
Confidence 99999998754
No 66
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=99.08 E-value=1.2e-10 Score=103.00 Aligned_cols=95 Identities=31% Similarity=0.525 Sum_probs=64.6
Q ss_pred CCCCCccCCCcCCCCCcccccccccccccCCCCCCCC---CCC-CCCCC-CCCCCCCCCCC-CCCCCCCCCCCCCCCeec
Q 025700 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGA---GGR-AGGRG-RGRAGNESGSQ-GRQIGAATGLFGPNDWSC 218 (249)
Q Consensus 145 r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~~~~~~~---~~~-~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~dw~c 218 (249)
-...|.|. .|..+||..+..|..|.++.....-.. ..+ ++... .++ +..++.. ....++.+++++++||.|
T Consensus 145 ~ikvs~a~--~r~~ve~~rg~~~~~~g~g~fg~~~~grg~~~G~gg~~~~~~~-~~rGg~~~~g~~g~~~~~~~d~Dw~c 221 (351)
T KOG1995|consen 145 TIKVSLAE--RRTGVESVRGGYPNDGGAGEFGRLRGGRGGPGGPGGGDGEAGK-GDRGGVPDGGESGGGNVQDEDGDWDC 221 (351)
T ss_pred Cchhhhhh--hccCcccccccccCcCCCCCccccccCCCCCCCCCCccccccc-cccCCcCCCcccCCcccccccccccc
Confidence 45788888 888899999999888888875521111 110 11111 001 1111111 114567789999999999
Q ss_pred C-CCCCeeeeccccCccCCCCCCCC
Q 025700 219 P-MCGNINWAKRTKCNICNTNKPGH 242 (249)
Q Consensus 219 ~-~c~~~n~~~r~~c~~C~~~~~~~ 242 (249)
+ .|.|.||+||..||+|+++||..
T Consensus 222 ~~~c~N~nfa~r~~cnrck~~Kp~~ 246 (351)
T KOG1995|consen 222 PPSCGNRNFAWREECNRCKAPKPER 246 (351)
T ss_pred cccccccccccccccccccCCCccc
Confidence 8 99999999999999999999866
No 67
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=99.01 E-value=3.5e-10 Score=98.08 Aligned_cols=100 Identities=24% Similarity=0.522 Sum_probs=66.9
Q ss_pred ccCCCCCccCCCcCCCCCcccccccccccccCCCCCCCCCCC----CCCCC------------------CCCCC------
Q 025700 143 WQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGR----AGGRG------------------RGRAG------ 194 (249)
Q Consensus 143 ~~r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~~~~~~~~~~----~~~~~------------------~~~~~------ 194 (249)
.-++|||+|+ .|.++||++++.|++|.++++.+..-.... ..... ...++
T Consensus 135 ~~~~GDW~Cp--~C~fhNfarn~~C~rC~~~r~~~a~~~~~~s~~~~~~~~s~~~~~~~~t~~~~~~r~~~~~~~~~~~~ 212 (280)
T KOG4198|consen 135 PWRSGDWECP--GCNFHNFARNSECFRCGAKRPLAALLGNQASEATEHDWLSKVADSSSSTRFESLLRCNARGEMSESRV 212 (280)
T ss_pred CccccCcccC--CCCceeccccchhhhcCCcCcccccccccccccccccccccccccccceecccchhhcccCccccccc
Confidence 4588999999 999999999999999999999865211000 00000 00000
Q ss_pred ----CCCCCCC------CCCCCCCCCCCCCCeecCCCCCeeeeccccCccCCCCCCCCCC
Q 025700 195 ----NESGSQG------RQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNE 244 (249)
Q Consensus 195 ----~~~~~~~------~~~~~~~~~~~~~dw~c~~c~~~n~~~r~~c~~C~~~~~~~~~ 244 (249)
..+.... ....-.....+.+||.|+.|.+.||.+|.+|++|..++.....
T Consensus 213 d~~~~~~~~~~~~e~~~~~~sr~s~~~~dgdw~~~s~~~~~~r~r~a~~~c~~~~~~~~~ 272 (280)
T KOG4198|consen 213 DGADVKGNFSSDDESRLEPLSRGSKSSRDGDWMCESCKAENFRRRNACLKCISPRGSFDD 272 (280)
T ss_pred ccccccccccccccccccccccCcccccCCCcccccccchhhhhhhhhhccccCcccccc
Confidence 0001111 1112233457889999999999999999999999988876544
No 68
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.98 E-value=9.3e-10 Score=97.65 Aligned_cols=86 Identities=24% Similarity=0.343 Sum_probs=78.2
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
..+|||++||.++++++|+++|.+||.|.. +.++.|..+.++++|+||+|.++++++.++. ..-+.|.++.
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~--------~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~ 167 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVAD--------VVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKK 167 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEe--------eEEeecccccccccceeeEeccccccceecc-cceeeecCce
Confidence 468999999999999999999999998877 7799999999999999999999999999987 6778899999
Q ss_pred EEEEecccCCCCCcc
Q 025700 85 IGVFIAESRGKDDHA 99 (249)
Q Consensus 85 i~V~~a~~~~~~~~~ 99 (249)
+.|..|.++......
T Consensus 168 vevkrA~pk~~~~~~ 182 (311)
T KOG4205|consen 168 VEVKRAIPKEVMQST 182 (311)
T ss_pred eeEeeccchhhcccc
Confidence 999999998776543
No 69
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.96 E-value=2.1e-09 Score=98.02 Aligned_cols=80 Identities=25% Similarity=0.304 Sum_probs=72.5
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
...|||.||+++++..+|.++|+.||.|.+ +++.++.. | ++|| ||+|+++++|++||+.+|+..+.++.
T Consensus 76 ~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS--------~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kk 144 (369)
T KOG0123|consen 76 PSLVFIKNLDESIDNKSLYDTFSEFGNILS--------CKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKK 144 (369)
T ss_pred CceeeecCCCcccCcHHHHHHHHhhcCeeE--------EEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCe
Confidence 445999999999999999999999999999 66888875 4 9999 99999999999999999999999999
Q ss_pred EEEEecccCCC
Q 025700 85 IGVFIAESRGK 95 (249)
Q Consensus 85 i~V~~a~~~~~ 95 (249)
|.|.+...+..
T Consensus 145 i~vg~~~~~~e 155 (369)
T KOG0123|consen 145 IYVGLFERKEE 155 (369)
T ss_pred eEEeeccchhh
Confidence 99988776554
No 70
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.90 E-value=1.5e-09 Score=96.32 Aligned_cols=84 Identities=25% Similarity=0.397 Sum_probs=75.0
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
+..+|||++|+++++++.|++.|.+||.|.+ +.+++|+.|+++++|+||+|++++...++|. ..-+.|.++
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d--------~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr 75 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTD--------CVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGR 75 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceee--------EEEeccCCCCCcccccceecCCCcchheeec-ccccccCCc
Confidence 5789999999999999999999999999998 5699999999999999999999999998886 445668999
Q ss_pred EEEEEecccCCCC
Q 025700 84 LIGVFIAESRGKD 96 (249)
Q Consensus 84 ~i~V~~a~~~~~~ 96 (249)
.|.+..|.++...
T Consensus 76 ~ve~k~av~r~~~ 88 (311)
T KOG4205|consen 76 SVEPKRAVSREDQ 88 (311)
T ss_pred cccceeccCcccc
Confidence 9999988877644
No 71
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.89 E-value=7.2e-09 Score=88.79 Aligned_cols=82 Identities=29% Similarity=0.389 Sum_probs=73.0
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
+.+|+|.|||+.|+++||+++|.+|+.++. +-|-.++ +|.+.|.|-|.|...++|++||+.|++..++|+.
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r--------~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~ 153 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKR--------VAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRP 153 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceE--------EeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCce
Confidence 478999999999999999999999997776 5566666 6999999999999999999999999999999999
Q ss_pred EEEEecccCCC
Q 025700 85 IGVFIAESRGK 95 (249)
Q Consensus 85 i~V~~a~~~~~ 95 (249)
|++++..+...
T Consensus 154 mk~~~i~~~~~ 164 (243)
T KOG0533|consen 154 MKIEIISSPSQ 164 (243)
T ss_pred eeeEEecCccc
Confidence 99998765543
No 72
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.88 E-value=4e-09 Score=95.35 Aligned_cols=76 Identities=24% Similarity=0.304 Sum_probs=67.9
Q ss_pred CCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 2 ~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
+.+.++|||.|||.++|+..|++-|..||.|.... |+ +.++++| .|.|.++++|++|+..|++..+.
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yad--------im---e~GkskG--VVrF~s~edAEra~a~Mngs~l~ 599 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYAD--------IM---ENGKSKG--VVRFFSPEDAERACALMNGSRLD 599 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhh--------hh---ccCCccc--eEEecCHHHHHHHHHHhccCccc
Confidence 56788999999999999999999999999998743 43 3477877 89999999999999999999999
Q ss_pred CeEEEEEec
Q 025700 82 GNLIGVFIA 90 (249)
Q Consensus 82 g~~i~V~~a 90 (249)
++.|+|.|.
T Consensus 600 Gr~I~V~y~ 608 (608)
T KOG4212|consen 600 GRNIKVTYF 608 (608)
T ss_pred CceeeeeeC
Confidence 999999873
No 73
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.85 E-value=4.4e-09 Score=90.71 Aligned_cols=78 Identities=22% Similarity=0.299 Sum_probs=70.3
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
.+.+|+|+||.+.++..||++.|.+||.|.++ .|++| |+||.|+-.++|..||..|++.+|.|+
T Consensus 77 ~stkl~vgNis~tctn~ElRa~fe~ygpviec--------divkd--------y~fvh~d~~eda~~air~l~~~~~~gk 140 (346)
T KOG0109|consen 77 ASTKLHVGNISPTCTNQELRAKFEKYGPVIEC--------DIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGK 140 (346)
T ss_pred CccccccCCCCccccCHHHhhhhcccCCceee--------eeecc--------eeEEEEeeccchHHHHhcccccccccc
Confidence 56799999999999999999999999999884 46654 899999999999999999999999999
Q ss_pred EEEEEecccCCCCC
Q 025700 84 LIGVFIAESRGKDD 97 (249)
Q Consensus 84 ~i~V~~a~~~~~~~ 97 (249)
.++|+++.++-...
T Consensus 141 ~m~vq~stsrlrta 154 (346)
T KOG0109|consen 141 RMHVQLSTSRLRTA 154 (346)
T ss_pred eeeeeeeccccccC
Confidence 99999988765543
No 74
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.83 E-value=4.6e-09 Score=89.74 Aligned_cols=84 Identities=19% Similarity=0.249 Sum_probs=73.4
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec--
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-- 81 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~-- 81 (249)
++++|||+-|...-.|+|++.+|..||.|.+ +.+.+..+ +.+||+|||.|.+..+|+.||..|++...+
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e--------~tvlrg~d-g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpG 88 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEE--------CTVLRGPD-GNSKGCAFVKFSSHAEAQAAINALHGSQTMPG 88 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcce--------eEEecCCC-CCCCCceEEEeccchHHHHHHHHhcccccCCC
Confidence 4689999999999999999999999999998 55777764 889999999999999999999999998655
Q ss_pred -CeEEEEEecccCCCC
Q 025700 82 -GNLIGVFIAESRGKD 96 (249)
Q Consensus 82 -g~~i~V~~a~~~~~~ 96 (249)
...|.|++++...++
T Consensus 89 ASSSLVVK~ADTdkER 104 (371)
T KOG0146|consen 89 ASSSLVVKFADTDKER 104 (371)
T ss_pred CccceEEEeccchHHH
Confidence 367899998865543
No 75
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.82 E-value=2.7e-09 Score=101.26 Aligned_cols=81 Identities=21% Similarity=0.280 Sum_probs=74.6
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
++|+|.|||...+-.+|+++|..||.|.+ |+|++....+.++||+||+|.++.+|..|+..|..+-|.|+.|
T Consensus 614 tKIlVRNipFeAt~rEVr~LF~aFGqlks--------vRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrL 685 (725)
T KOG0110|consen 614 TKILVRNIPFEATKREVRKLFTAFGQLKS--------VRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRL 685 (725)
T ss_pred ceeeeeccchHHHHHHHHHHHhcccceee--------eccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhh
Confidence 58999999999999999999999999999 7788776667789999999999999999999999999999999
Q ss_pred EEEecccCC
Q 025700 86 GVFIAESRG 94 (249)
Q Consensus 86 ~V~~a~~~~ 94 (249)
.++||....
T Consensus 686 VLEwA~~d~ 694 (725)
T KOG0110|consen 686 VLEWAKSDN 694 (725)
T ss_pred heehhccch
Confidence 999987643
No 76
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.82 E-value=1.3e-08 Score=96.71 Aligned_cols=77 Identities=22% Similarity=0.309 Sum_probs=68.2
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT---NEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~t---g~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
+|||.||++++|.++|+.+|...|.|.+ |.|.+.+.. -.+.||+||+|.++++|+.|++.|+++.|+|+
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS--------~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH 588 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLS--------IEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGH 588 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEE--------EEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCc
Confidence 3999999999999999999999999998 556554431 13569999999999999999999999999999
Q ss_pred EEEEEecc
Q 025700 84 LIGVFIAE 91 (249)
Q Consensus 84 ~i~V~~a~ 91 (249)
.|.|+++.
T Consensus 589 ~l~lk~S~ 596 (725)
T KOG0110|consen 589 KLELKISE 596 (725)
T ss_pred eEEEEecc
Confidence 99999988
No 77
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.82 E-value=1e-08 Score=98.18 Aligned_cols=78 Identities=21% Similarity=0.302 Sum_probs=69.9
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
++||||++|+..++|.||..+|+.||.|.+ |.++- ++++|||.....++|++||..|..+.+..+.
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqS--------i~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~ 486 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQS--------IILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADKT 486 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhccccee--------Eeecc------CCceeEEEEeehhHHHHHHHHHhccccccee
Confidence 689999999999999999999999999998 54543 5679999999999999999999999999999
Q ss_pred EEEEecccCCCC
Q 025700 85 IGVFIAESRGKD 96 (249)
Q Consensus 85 i~V~~a~~~~~~ 96 (249)
|+|.|+..+..+
T Consensus 487 Iki~Wa~g~G~k 498 (894)
T KOG0132|consen 487 IKIAWAVGKGPK 498 (894)
T ss_pred eEEeeeccCCcc
Confidence 999998765443
No 78
>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=98.80 E-value=3.9e-08 Score=72.90 Aligned_cols=83 Identities=24% Similarity=0.277 Sum_probs=68.9
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec----
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH---- 81 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~---- 81 (249)
+||+|.|||...|+++|.+++...-.-..+ =+-|+.|..+..+.|||||.|.+++.|....+.+++..+.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yD------F~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s 75 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYD------FFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNS 75 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcce------EEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCC
Confidence 689999999999999999999864221111 2678889889999999999999999999999999999876
Q ss_pred CeEEEEEecccCC
Q 025700 82 GNLIGVFIAESRG 94 (249)
Q Consensus 82 g~~i~V~~a~~~~ 94 (249)
.+.+.|.+|+-+.
T Consensus 76 ~Kvc~i~yAriQG 88 (97)
T PF04059_consen 76 KKVCEISYARIQG 88 (97)
T ss_pred CcEEEEehhHhhC
Confidence 4677888887553
No 79
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.77 E-value=5.3e-08 Score=81.32 Aligned_cols=86 Identities=22% Similarity=0.281 Sum_probs=67.9
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec---
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH--- 81 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~--- 81 (249)
-+||||.+||.++...||..+|..|--.+.+- |+ +.++...--+-+|||+|.+..+|++|+..|||..|+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgsl------LK-~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~ 106 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSL------LK-YTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPET 106 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCcccee------ee-eccCCCccccceEEEEecchHHHHHHHHHhcCeeecccc
Confidence 57999999999999999999999885555431 22 233322223469999999999999999999999997
Q ss_pred CeEEEEEecccCCCCC
Q 025700 82 GNLIGVFIAESRGKDD 97 (249)
Q Consensus 82 g~~i~V~~a~~~~~~~ 97 (249)
+.+|+|++|+...+..
T Consensus 107 ~stLhiElAKSNtK~k 122 (284)
T KOG1457|consen 107 GSTLHIELAKSNTKRK 122 (284)
T ss_pred CceeEeeehhcCcccc
Confidence 6899999998766543
No 80
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.76 E-value=2.4e-08 Score=91.18 Aligned_cols=75 Identities=27% Similarity=0.369 Sum_probs=69.6
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
.+|||+ +++||.+|.++|+.+|.+.+ |+|-+|. | +-|||||.|.++++|++||+.||...+.|+.|
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s--------~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~ 67 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLS--------IRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPI 67 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCcee--------EEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEE
Confidence 468998 99999999999999999998 8899998 7 99999999999999999999999999999999
Q ss_pred EEEecccCC
Q 025700 86 GVFIAESRG 94 (249)
Q Consensus 86 ~V~~a~~~~ 94 (249)
+|-++....
T Consensus 68 rim~s~rd~ 76 (369)
T KOG0123|consen 68 RIMWSQRDP 76 (369)
T ss_pred EeehhccCC
Confidence 999876543
No 81
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.74 E-value=3e-08 Score=87.40 Aligned_cols=74 Identities=23% Similarity=0.267 Sum_probs=64.8
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHH-hCCceecCe
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEW-FNNKDFHGN 83 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~-l~g~~~~g~ 83 (249)
..+|||++|-..++|.||+++|.+||.|.. |.++..+ +.|||+|.+.++|+.|.+. ++...|+|.
T Consensus 228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirs--------i~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~ 293 (377)
T KOG0153|consen 228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRS--------IRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGF 293 (377)
T ss_pred eeEEEecccccchhHHHHHHHHhhcCCeee--------EEeeccc------ccceeeehhhHHHHHHHHhhcceeeecce
Confidence 368999999999999999999999999998 6666543 4999999999999998876 455678999
Q ss_pred EEEEEeccc
Q 025700 84 LIGVFIAES 92 (249)
Q Consensus 84 ~i~V~~a~~ 92 (249)
.|+|.+..+
T Consensus 294 Rl~i~Wg~~ 302 (377)
T KOG0153|consen 294 RLKIKWGRP 302 (377)
T ss_pred EEEEEeCCC
Confidence 999999887
No 82
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.71 E-value=3.6e-08 Score=91.81 Aligned_cols=82 Identities=18% Similarity=0.251 Sum_probs=74.0
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
...|||.+|...+...||+.+|++||.|.- .+|+++-.+--.+.|+||++.+.++|.++|+.|+.++|.|+.
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvG--------AKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrm 476 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVG--------AKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRM 476 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceec--------eeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhccee
Confidence 468999999999999999999999999987 458888777778999999999999999999999999999999
Q ss_pred EEEEecccCC
Q 025700 85 IGVFIAESRG 94 (249)
Q Consensus 85 i~V~~a~~~~ 94 (249)
|.|+.++...
T Consensus 477 ISVEkaKNEp 486 (940)
T KOG4661|consen 477 ISVEKAKNEP 486 (940)
T ss_pred eeeeecccCc
Confidence 9999887543
No 83
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.70 E-value=4e-08 Score=87.25 Aligned_cols=80 Identities=21% Similarity=0.261 Sum_probs=73.8
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
++|||..+.++.+|+||+.+|+.||.|.. +.|-+++.+...|||+||+|.+..+...||..||=..+.|..|
T Consensus 211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~--------C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyL 282 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIKSVFEAFGEIVK--------CQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYL 282 (544)
T ss_pred heEEeeecCCCccHHHHHHHHHhhcceee--------EEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceE
Confidence 68999999999999999999999999998 5699999999999999999999999999999999999999999
Q ss_pred EEEecccC
Q 025700 86 GVFIAESR 93 (249)
Q Consensus 86 ~V~~a~~~ 93 (249)
+|-.+...
T Consensus 283 RVGk~vTP 290 (544)
T KOG0124|consen 283 RVGKCVTP 290 (544)
T ss_pred ecccccCC
Confidence 98876543
No 84
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.67 E-value=7.4e-09 Score=86.13 Aligned_cols=78 Identities=22% Similarity=0.216 Sum_probs=68.5
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
....||||.||...++|+.|.++|-+-|.|.. |.|..+++ ++.+ ||||.|+++.++.-|++.+|+..+.+
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~k--------v~ip~~~d-~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~ 76 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYK--------VGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENGDDLEE 76 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEE--------EeCCCCcc-CCCc-eeeeecccccchhhhhhhcccchhcc
Confidence 34679999999999999999999999999977 66766665 5566 99999999999999999999999999
Q ss_pred eEEEEEec
Q 025700 83 NLIGVFIA 90 (249)
Q Consensus 83 ~~i~V~~a 90 (249)
..|.|.+-
T Consensus 77 ~e~q~~~r 84 (267)
T KOG4454|consen 77 DEEQRTLR 84 (267)
T ss_pred chhhcccc
Confidence 88888763
No 85
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=98.62 E-value=1.7e-08 Score=58.69 Aligned_cols=30 Identities=43% Similarity=1.032 Sum_probs=24.5
Q ss_pred CCCCeecCCCCCeeeeccccCccCCCCCCC
Q 025700 212 GPNDWSCPMCGNINWAKRTKCNICNTNKPG 241 (249)
Q Consensus 212 ~~~dw~c~~c~~~n~~~r~~c~~C~~~~~~ 241 (249)
++++|.|+.|.++|++.+..|.+|+++||+
T Consensus 1 k~g~W~C~~C~~~N~~~~~~C~~C~~~rp~ 30 (30)
T PF00641_consen 1 KEGDWKCPSCTFMNPASRSKCVACGAPRPG 30 (30)
T ss_dssp -SSSEEETTTTEEEESSSSB-TTT--BTTB
T ss_pred CCcCccCCCCcCCchHHhhhhhCcCCCCcC
Confidence 357999999999999999999999999984
No 86
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.59 E-value=7.3e-08 Score=82.51 Aligned_cols=82 Identities=21% Similarity=0.228 Sum_probs=75.8
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
.+...|||+|+...+|.++|+.+|+.+|.|.. |.|..|+.++.+++|+||+|.+.+.++.++. |++..|.+
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~--------~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~ 169 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIELHFESCGGINR--------VTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPG 169 (231)
T ss_pred cCCceEEEeccccccccchhhheeeccCCccc--------eeeeccccCCCcceeEEEecccHhhhHHHhh-cCCccccc
Confidence 45679999999999999999999999999987 7799999999999999999999999999999 99999999
Q ss_pred eEEEEEecccC
Q 025700 83 NLIGVFIAESR 93 (249)
Q Consensus 83 ~~i~V~~a~~~ 93 (249)
+.|.|.+.+..
T Consensus 170 ~~i~vt~~r~~ 180 (231)
T KOG4209|consen 170 PAIEVTLKRTN 180 (231)
T ss_pred ccceeeeeeee
Confidence 99999987655
No 87
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.57 E-value=2.5e-07 Score=84.95 Aligned_cols=81 Identities=20% Similarity=0.313 Sum_probs=67.2
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
....|-+.+||+++|++||.++|+.++ |.. |+..+.++++.|.|||+|.++++++.||+ .+...+..+
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~----------~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~R 76 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG-IEN----------LEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHR 76 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc-eeE----------EEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCc
Confidence 345688899999999999999999876 333 55666789999999999999999999998 666777788
Q ss_pred EEEEEecccCCCC
Q 025700 84 LIGVFIAESRGKD 96 (249)
Q Consensus 84 ~i~V~~a~~~~~~ 96 (249)
-|.|..+...+..
T Consensus 77 YIEVf~~~~~e~d 89 (510)
T KOG4211|consen 77 YIEVFTAGGAEAD 89 (510)
T ss_pred eEEEEccCCcccc
Confidence 9999988665543
No 88
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.45 E-value=2.3e-07 Score=78.93 Aligned_cols=81 Identities=25% Similarity=0.314 Sum_probs=72.7
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
.+.+||-+-|..+++++.|...|.+|-.... -++++|+.|++++||+||.|.+++++..||..|++..+..+
T Consensus 189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~--------akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsr 260 (290)
T KOG0226|consen 189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQK--------AKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSR 260 (290)
T ss_pred ccceeecccccccccHHHHHHHHHhccchhh--------ccccccccccccccceeeeecCHHHHHHHHHhhcccccccc
Confidence 4678999999999999999999999977666 45999999999999999999999999999999999999999
Q ss_pred EEEEEeccc
Q 025700 84 LIGVFIAES 92 (249)
Q Consensus 84 ~i~V~~a~~ 92 (249)
.|++..+.-
T Consensus 261 piklRkS~w 269 (290)
T KOG0226|consen 261 PIKLRKSEW 269 (290)
T ss_pred hhHhhhhhH
Confidence 888776543
No 89
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.42 E-value=2.4e-07 Score=77.92 Aligned_cols=72 Identities=26% Similarity=0.383 Sum_probs=62.6
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
..|||++||+.+.+.||+.+|..||.+..+ .+ + .+|+||+|+++.+|..||..|++..|.+..+
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~--------~m-k-------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~ 65 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDA--------DM-K-------NGFGFVEFEDPRDADDAVHDLDGKELCGERL 65 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccc--------ee-e-------cccceeccCchhhhhcccchhcCceecceee
Confidence 368999999999999999999999999873 22 2 2589999999999999999999999999888
Q ss_pred EEEecccC
Q 025700 86 GVFIAESR 93 (249)
Q Consensus 86 ~V~~a~~~ 93 (249)
.|+++...
T Consensus 66 vve~~r~~ 73 (216)
T KOG0106|consen 66 VVEHARGK 73 (216)
T ss_pred eeeccccc
Confidence 88887654
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.39 E-value=1.2e-06 Score=80.59 Aligned_cols=80 Identities=23% Similarity=0.384 Sum_probs=65.0
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
....|-|.+||+.+|++||.++|+-.-.+... |.++.++. +++.|.|||+|++.+.|+.||. -|...|.-+
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~g-------i~l~~d~r-gR~tGEAfVqF~sqe~ae~Al~-rhre~iGhR 172 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDG-------ILLPMDQR-GRPTGEAFVQFESQESAEIALG-RHRENIGHR 172 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccc-------eeeeccCC-CCcccceEEEecCHHHHHHHHH-HHHHhhccc
Confidence 45689999999999999999999977655542 66666764 7799999999999999999998 445567778
Q ss_pred EEEEEeccc
Q 025700 84 LIGVFIAES 92 (249)
Q Consensus 84 ~i~V~~a~~ 92 (249)
-|.|..+..
T Consensus 173 YIEvF~Ss~ 181 (510)
T KOG4211|consen 173 YIEVFRSSR 181 (510)
T ss_pred eEEeehhHH
Confidence 888887654
No 91
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.31 E-value=4.8e-07 Score=84.22 Aligned_cols=70 Identities=27% Similarity=0.440 Sum_probs=62.1
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
+..+|+|-|||..|++++|+.+|+.||+|+. |+. |-..++..||+|.|.-+|++|++.|+..++.++
T Consensus 74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~--------ir~-----t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~ 140 (549)
T KOG4660|consen 74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIRE--------IRE-----TPNKRGIVFVEFYDVRDAERALKALNRREIAGK 140 (549)
T ss_pred ccceEEEEecCCcCCHHHHHHHHHhhcchhh--------hhc-----ccccCceEEEEEeehHhHHHHHHHHHHHHhhhh
Confidence 5679999999999999999999999999987 433 334578999999999999999999999999888
Q ss_pred EEE
Q 025700 84 LIG 86 (249)
Q Consensus 84 ~i~ 86 (249)
.|+
T Consensus 141 ~~k 143 (549)
T KOG4660|consen 141 RIK 143 (549)
T ss_pred hhc
Confidence 777
No 92
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.26 E-value=1.8e-06 Score=82.40 Aligned_cols=84 Identities=18% Similarity=0.175 Sum_probs=71.8
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecC---CCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK---TTNEYKGDATVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~---~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~ 79 (249)
+.++.|||+||++.++|+.|...|..||.|.. |+|+..+ +....+-++||.|-+..+|++|++.|++..
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlas--------vKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~i 243 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLAS--------VKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGII 243 (877)
T ss_pred CcccceeeecCCccccHHHHHHHhcccCcccc--------eeeecccchhhhccccccceeeehhhhhHHHHHHHhccee
Confidence 45678999999999999999999999999998 5554433 334567799999999999999999999999
Q ss_pred ecCeEEEEEecccCC
Q 025700 80 FHGNLIGVFIAESRG 94 (249)
Q Consensus 80 ~~g~~i~V~~a~~~~ 94 (249)
++...+++-++++..
T Consensus 244 v~~~e~K~gWgk~V~ 258 (877)
T KOG0151|consen 244 VMEYEMKLGWGKAVP 258 (877)
T ss_pred eeeeeeeeccccccc
Confidence 999999999986544
No 93
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.24 E-value=9e-07 Score=82.80 Aligned_cols=82 Identities=27% Similarity=0.306 Sum_probs=76.7
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
..+|||++||..+++.++++++..||.++. .+++.|..++.+++|||.+|.++.....|++.||++.+.+++
T Consensus 289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~--------f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~ 360 (500)
T KOG0120|consen 289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKA--------FRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKK 360 (500)
T ss_pred cchhhhccCcCccCHHHHHHHHHhcccchh--------heeecccccccccceeeeeeeCCcchhhhhcccchhhhcCce
Confidence 468999999999999999999999999998 789999999999999999999999999999999999999999
Q ss_pred EEEEecccCC
Q 025700 85 IGVFIAESRG 94 (249)
Q Consensus 85 i~V~~a~~~~ 94 (249)
|.|+.|..-.
T Consensus 361 lvvq~A~~g~ 370 (500)
T KOG0120|consen 361 LVVQRAIVGA 370 (500)
T ss_pred eEeehhhccc
Confidence 9999887543
No 94
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=98.24 E-value=4.7e-07 Score=50.70 Aligned_cols=26 Identities=42% Similarity=1.099 Sum_probs=24.3
Q ss_pred CCeecCCCCCeeeeccccCccCCCCC
Q 025700 214 NDWSCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 214 ~dw~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
+||.|+.|.++||+.+..|++|++|.
T Consensus 1 g~W~C~~C~~~N~~~~~~C~~C~~p~ 26 (26)
T smart00547 1 GDWECPACTFLNFASRSKCFACGAPX 26 (26)
T ss_pred CcccCCCCCCcChhhhccccccCCcC
Confidence 58999999999999999999999873
No 95
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=98.20 E-value=3.4e-07 Score=53.14 Aligned_cols=29 Identities=52% Similarity=1.195 Sum_probs=23.9
Q ss_pred CCCCCccCCCcCCCCCcccccccccccccCC
Q 025700 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARP 175 (249)
Q Consensus 145 r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~ 175 (249)
+.|+|.|+ .|...|+..+..|+.|+++||
T Consensus 1 k~g~W~C~--~C~~~N~~~~~~C~~C~~~rp 29 (30)
T PF00641_consen 1 KEGDWKCP--SCTFMNPASRSKCVACGAPRP 29 (30)
T ss_dssp -SSSEEET--TTTEEEESSSSB-TTT--BTT
T ss_pred CCcCccCC--CCcCCchHHhhhhhCcCCCCc
Confidence 46899999 999999999999999999997
No 96
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.19 E-value=2e-06 Score=76.19 Aligned_cols=78 Identities=23% Similarity=0.275 Sum_probs=67.6
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
..+||+||-+.+|++||.+.+...|.-.... |+++.++.+|++||||+|...+..+.++.|+.|..++|.|..-
T Consensus 81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~d------mKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P 154 (498)
T KOG4849|consen 81 YCCYVGNLLWYTTDADLLKALQSTGLAQFAD------MKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSP 154 (498)
T ss_pred EEEEecceeEEeccHHHHHHHHhhhHHHHhh------hhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCC
Confidence 4689999999999999999998877654433 7899999999999999999999999999999999999998655
Q ss_pred EEEe
Q 025700 86 GVFI 89 (249)
Q Consensus 86 ~V~~ 89 (249)
.|..
T Consensus 155 ~V~~ 158 (498)
T KOG4849|consen 155 TVLS 158 (498)
T ss_pred eeec
Confidence 5443
No 97
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.17 E-value=1.7e-05 Score=71.76 Aligned_cols=78 Identities=23% Similarity=0.347 Sum_probs=69.2
Q ss_pred CCeEEecCCC-CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 5 NGSVYVCNLP-HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 5 ~~tI~V~nLp-~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
+..|.|.||. ..+|.+.|-.+|..||.|.. |+|+.++. --|+|+|.+...|+.|++.|++..+.|+
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqR--------Vkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk 363 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQR--------VKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGK 363 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEE--------EEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCc
Confidence 4778899986 67899999999999999998 88888774 3599999999999999999999999999
Q ss_pred EEEEEecccCCC
Q 025700 84 LIGVFIAESRGK 95 (249)
Q Consensus 84 ~i~V~~a~~~~~ 95 (249)
.|+|.+++-..-
T Consensus 364 ~lrvt~SKH~~v 375 (492)
T KOG1190|consen 364 KLRVTLSKHTNV 375 (492)
T ss_pred eEEEeeccCccc
Confidence 999999885543
No 98
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.15 E-value=9e-06 Score=68.20 Aligned_cols=78 Identities=22% Similarity=0.340 Sum_probs=66.9
Q ss_pred CCCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 025700 1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 1 m~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
|.+++.++|+.|||.+++.+.|..+|.+|...+. |+++... ++.|||+|.+...|..|...+++..+
T Consensus 142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~ke--------ir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~i 208 (221)
T KOG4206|consen 142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKE--------IRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKI 208 (221)
T ss_pred CCCCceEEEEecCCcchhHHHHHHHHhhCcccce--------eEeccCC-----CceeEEecchhhhhHHHhhhhcccee
Confidence 3578899999999999999999999999988887 7776543 46899999999999999999999887
Q ss_pred c-CeEEEEEecc
Q 025700 81 H-GNLIGVFIAE 91 (249)
Q Consensus 81 ~-g~~i~V~~a~ 91 (249)
- ..++.|.+++
T Consensus 209 t~~~~m~i~~a~ 220 (221)
T KOG4206|consen 209 TKKNTMQITFAK 220 (221)
T ss_pred ccCceEEecccC
Confidence 6 7778877764
No 99
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.06 E-value=1.7e-06 Score=80.47 Aligned_cols=80 Identities=21% Similarity=0.369 Sum_probs=73.4
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
..|||+.-|+..+++.||.++|+.+|.|.. |+|+.|+.+..++|.+||+|.++++...||. |.|..++|.+
T Consensus 179 ~Rtvf~~qla~r~~pRdL~efFs~~gkVrd--------VriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~p 249 (549)
T KOG0147|consen 179 QRTVFCMQLARRNPPRDLEEFFSIVGKVRD--------VRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVP 249 (549)
T ss_pred HHHHHHHHHhhcCCchhHHHHHHhhcCcce--------eEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCce
Confidence 467888889999999999999999999998 8999999999999999999999999999995 9999999999
Q ss_pred EEEEecccC
Q 025700 85 IGVFIAESR 93 (249)
Q Consensus 85 i~V~~a~~~ 93 (249)
|.|+.....
T Consensus 250 v~vq~sEae 258 (549)
T KOG0147|consen 250 VIVQLSEAE 258 (549)
T ss_pred eEecccHHH
Confidence 999986543
No 100
>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=98.05 E-value=2.3e-05 Score=56.03 Aligned_cols=71 Identities=23% Similarity=0.307 Sum_probs=46.2
Q ss_pred CeEEecCCCCCCCHHHHH----HHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 6 GSVYVCNLPHGTDEDMLA----EYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~----~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
..|||.|||.+.+...|+ .++..+|--. +.|. .+.|+|.|.+++.|++|.+.|++..+.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkV---------l~v~--------~~tAilrF~~~~~A~RA~KRmegEdVf 65 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKV---------LSVS--------GGTAILRFPNQEFAERAQKRMEGEDVF 65 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--E---------EE----------TT-EEEEESSHHHHHHHHHHHTT--SS
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEE---------EEEe--------CCEEEEEeCCHHHHHHHHHhhcccccc
Confidence 469999999999887765 4445665322 2231 247999999999999999999999999
Q ss_pred CeEEEEEecccC
Q 025700 82 GNLIGVFIAESR 93 (249)
Q Consensus 82 g~~i~V~~a~~~ 93 (249)
|++|.|++....
T Consensus 66 G~kI~v~~~~~~ 77 (90)
T PF11608_consen 66 GNKISVSFSPKN 77 (90)
T ss_dssp SS--EEESS--S
T ss_pred cceEEEEEcCCc
Confidence 999999987543
No 101
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.99 E-value=6.2e-06 Score=72.88 Aligned_cols=84 Identities=23% Similarity=0.284 Sum_probs=74.8
Q ss_pred CCCeEE-ecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 4 ANGSVY-VCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 4 ~~~tI~-V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
++.++| |.+|+.++++++|..+|..++.|.. |++..++.++..++|+||+|.+...+..++.. +...+.+
T Consensus 183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~--------~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~ 253 (285)
T KOG4210|consen 183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEITS--------VRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGG 253 (285)
T ss_pred ccccceeecccccccchHHHhhhccCcCccee--------eccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccC
Confidence 456777 9999999999999999999999988 88999999999999999999999999999886 7778889
Q ss_pred eEEEEEecccCCCC
Q 025700 83 NLIGVFIAESRGKD 96 (249)
Q Consensus 83 ~~i~V~~a~~~~~~ 96 (249)
+++.|....+....
T Consensus 254 ~~~~~~~~~~~~~~ 267 (285)
T KOG4210|consen 254 RPLRLEEDEPRPKS 267 (285)
T ss_pred cccccccCCCCccc
Confidence 99999887776543
No 102
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.98 E-value=8.2e-06 Score=68.42 Aligned_cols=64 Identities=16% Similarity=0.215 Sum_probs=51.7
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
-.||||-||..++||++|+.+|+.|--... ++| +.+ .| ...|||+|++.+.|..||..|+|..|
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~--------l~~-~~~-~g--~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHI--------LKI-RAR-GG--MPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceE--------EEE-ecC-CC--cceEeecHHHHHHHHHHHHHhhccee
Confidence 368999999999999999999999966554 333 233 23 34899999999999999999988755
No 103
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=97.95 E-value=4.4e-06 Score=46.72 Aligned_cols=25 Identities=52% Similarity=1.278 Sum_probs=23.8
Q ss_pred CCCccCCCcCCCCCccccccccccccc
Q 025700 147 GDWMCPNTSCSNVNFAFRGVCNRCGTA 173 (249)
Q Consensus 147 Gdw~C~~~~c~~~nf~~r~~C~~C~~~ 173 (249)
+||.|+ .|.+.||..+..|++|++|
T Consensus 1 g~W~C~--~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 1 GDWECP--ACTFLNFASRSKCFACGAP 25 (26)
T ss_pred CcccCC--CCCCcChhhhccccccCCc
Confidence 699999 9999999999999999986
No 104
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.91 E-value=3.5e-05 Score=73.76 Aligned_cols=76 Identities=14% Similarity=0.251 Sum_probs=67.0
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI 85 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i 85 (249)
+.|-+.|+|.+++-+||.++|.-|-.+..+ |.|.++. .|.+.|.+.|.|++.++|.+|...|++..|..++|
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~s-------I~~r~nd-~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V 939 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNS-------IRIRRND-DGVPTGECMVAFESQEEARRASMDLDGQKIRNRVV 939 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCc-------eeEeecC-CCCcccceeEeecCHHHHHhhhhccccCcccceeE
Confidence 378899999999999999999999877765 6555544 49999999999999999999999999999999999
Q ss_pred EEEe
Q 025700 86 GVFI 89 (249)
Q Consensus 86 ~V~~ 89 (249)
+|.+
T Consensus 940 ~l~i 943 (944)
T KOG4307|consen 940 SLRI 943 (944)
T ss_pred EEEe
Confidence 8875
No 105
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.77 E-value=1.7e-05 Score=66.89 Aligned_cols=70 Identities=21% Similarity=0.155 Sum_probs=61.0
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
....|+|.+|+..+.+.+|.+.|.++|.+... +. .++++||+|++.++|..||+.|++..+.++
T Consensus 98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~---------~~-------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~ 161 (216)
T KOG0106|consen 98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYV---------DA-------RRNFAFVEFSEQEDAKRALEKLDGKKLNGR 161 (216)
T ss_pred ccceeeeccchhhhhHHHHhhhhcccCCCchh---------hh-------hccccceeehhhhhhhhcchhccchhhcCc
Confidence 35689999999999999999999999998542 11 356899999999999999999999999999
Q ss_pred EEEEEe
Q 025700 84 LIGVFI 89 (249)
Q Consensus 84 ~i~V~~ 89 (249)
.|.+..
T Consensus 162 ~l~~~~ 167 (216)
T KOG0106|consen 162 RISVEK 167 (216)
T ss_pred eeeecc
Confidence 999943
No 106
>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=97.77 E-value=4.3e-05 Score=57.61 Aligned_cols=70 Identities=20% Similarity=0.275 Sum_probs=42.4
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc-----ee
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK-----DF 80 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~-----~~ 80 (249)
..|+|.+++..++.++|+++|.+|+.|.. |.+.+.. -.|||.|.++++|+.|++.+... .+
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~y--------VD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i 67 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAY--------VDFSRGD------TEGYVRFKTPEAAQKALEKLKEANDGKLKI 67 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEE--------EE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-T
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcce--------EEecCCC------CEEEEEECCcchHHHHHHHHHhccCCceEE
Confidence 36889999999999999999999998876 5444322 27999999999999999876433 45
Q ss_pred cCeEEEEEe
Q 025700 81 HGNLIGVFI 89 (249)
Q Consensus 81 ~g~~i~V~~ 89 (249)
.+..+.+++
T Consensus 68 ~~~~~~~~v 76 (105)
T PF08777_consen 68 KGKEVTLEV 76 (105)
T ss_dssp TSSSEEEE-
T ss_pred cCceEEEEE
Confidence 566666665
No 107
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.69 E-value=7.9e-05 Score=66.01 Aligned_cols=78 Identities=24% Similarity=0.416 Sum_probs=61.3
Q ss_pred CCeEEecCCCCCCCHHH----H--HHHHHhcCCeeecCCCCCCeEEEEecCCCCC---cccEE--EEEeCCHHHHHHHHH
Q 025700 5 NGSVYVCNLPHGTDEDM----L--AEYFGTIGLLKKDKRTGRPKVWLYRDKTTNE---YKGDA--TVTYEDPHAALAAVE 73 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~d----L--~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~---~rG~a--FV~F~s~~~A~~Ai~ 73 (249)
..-|||-+||+.+..++ | .++|.+||.|.. |+.++.|.. ..+.+ ||+|.+.++|.++|.
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~K----------IvvNkkt~s~nst~~h~gvYITy~~kedAarcIa 183 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKK----------IVVNKKTSSLNSTASHAGVYITYSTKEDAARCIA 183 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeE----------EEecccccccccccccceEEEEecchHHHHHHHH
Confidence 45689999998887666 3 389999999966 555554411 12223 999999999999999
Q ss_pred HhCCceecCeEEEEEeccc
Q 025700 74 WFNNKDFHGNLIGVFIAES 92 (249)
Q Consensus 74 ~l~g~~~~g~~i~V~~a~~ 92 (249)
..++..++|+.|+..|-..
T Consensus 184 ~vDgs~~DGr~lkatYGTT 202 (480)
T COG5175 184 EVDGSLLDGRVLKATYGTT 202 (480)
T ss_pred HhccccccCceEeeecCch
Confidence 9999999999999988554
No 108
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.66 E-value=7.5e-05 Score=67.15 Aligned_cols=85 Identities=16% Similarity=0.214 Sum_probs=69.0
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
....|-+.+||++.+.+||.++|..|-.-.. .--|+++.+.+ |++.|.|||+|.+.++|.+|+...+.+..+.+
T Consensus 279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~-----f~gVHmv~N~q-GrPSGeAFIqm~nae~a~aaaqk~hk~~mk~R 352 (508)
T KOG1365|consen 279 SKDCVRLRGLPYEATVEDILDFLGDFATDIR-----FQGVHMVLNGQ-GRPSGEAFIQMRNAERARAAAQKCHKKLMKSR 352 (508)
T ss_pred CCCeeEecCCChhhhHHHHHHHHHHHhhhcc-----cceeEEEEcCC-CCcChhhhhhhhhhHHHHHHHHHHHHhhcccc
Confidence 3567899999999999999999998854322 11266777764 89999999999999999999998888777789
Q ss_pred EEEEEecccCC
Q 025700 84 LIGVFIAESRG 94 (249)
Q Consensus 84 ~i~V~~a~~~~ 94 (249)
.|+|..+...+
T Consensus 353 YiEvfp~S~ee 363 (508)
T KOG1365|consen 353 YIEVFPCSVEE 363 (508)
T ss_pred eEEEeeccHHH
Confidence 99998876443
No 109
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.66 E-value=0.00011 Score=66.64 Aligned_cols=79 Identities=18% Similarity=0.185 Sum_probs=64.2
Q ss_pred CCCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 2 ~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
-+++.+|.+.|||++++|+||+++|.+-|..... .+.+ .+.+-+|++.++++++|..|+..++.+.+.
T Consensus 411 ~PpsatlHlsnip~svsee~lk~~f~~~g~~vka-------fkff-----~kd~kmal~q~~sveeA~~ali~~hnh~lg 478 (492)
T KOG1190|consen 411 FPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKA-------FKFF-----QKDRKMALPQLESVEEAIQALIDLHNHYLG 478 (492)
T ss_pred CCchhheeeccCCcccchhHHHHhhhcCCceEEe-------eeec-----CCCcceeecccCChhHhhhhccccccccCC
Confidence 3678899999999999999999999988766442 1121 234559999999999999999999988887
Q ss_pred C-eEEEEEeccc
Q 025700 82 G-NLIGVFIAES 92 (249)
Q Consensus 82 g-~~i~V~~a~~ 92 (249)
. ..|+|++++.
T Consensus 479 en~hlRvSFSks 490 (492)
T KOG1190|consen 479 ENHHLRVSFSKS 490 (492)
T ss_pred CCceEEEEeecc
Confidence 5 5899998764
No 110
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.56 E-value=0.0005 Score=54.43 Aligned_cols=76 Identities=22% Similarity=0.289 Sum_probs=52.4
Q ss_pred CCCCCCeEEecCCC------CCCCH---HHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHH
Q 025700 1 MTMANGSVYVCNLP------HGTDE---DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAA 71 (249)
Q Consensus 1 m~~~~~tI~V~nLp------~~~te---~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~A 71 (249)
|-+++.||.|.=+. ....+ .+|.+.|.+||.+.- |+++-+ .-.|+|.+-++|.+|
T Consensus 23 ~GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvL--------vRfv~~--------~mwVTF~dg~sALaa 86 (146)
T PF08952_consen 23 QGPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVL--------VRFVGD--------TMWVTFRDGQSALAA 86 (146)
T ss_dssp ---TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECE--------EEEETT--------CEEEEESSCHHHHHH
T ss_pred cCCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEE--------EEEeCC--------eEEEEECccHHHHHH
Confidence 45778898887665 12232 256677888998765 555544 379999999999999
Q ss_pred HHHhCCceecCeEEEEEecccC
Q 025700 72 VEWFNNKDFHGNLIGVFIAESR 93 (249)
Q Consensus 72 i~~l~g~~~~g~~i~V~~a~~~ 93 (249)
+. +++.++.|+.|+|++..+.
T Consensus 87 ls-~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 87 LS-LDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp HH-GCCSEETTEEEEEEE----
T ss_pred Hc-cCCcEECCEEEEEEeCCcc
Confidence 98 9999999999999997653
No 111
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.39 E-value=0.00044 Score=45.47 Aligned_cols=53 Identities=17% Similarity=0.281 Sum_probs=40.3
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV 72 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai 72 (249)
++.|-|.+.+++..+. |..+|.+||.|.. +.+. . ..-+.+|.|.+..+|++||
T Consensus 1 ~~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~--------~~~~--~----~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 1 STWISVSGFPPDLAEE-VLEHFASFGEIVD--------IYVP--E----STNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred CcEEEEEeECchHHHH-HHHHHHhcCCEEE--------EEcC--C----CCcEEEEEECCHHHHHhhC
Confidence 3578899998776644 5558999999977 3333 1 2348999999999999985
No 112
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.37 E-value=0.00048 Score=64.78 Aligned_cols=77 Identities=22% Similarity=0.234 Sum_probs=60.6
Q ss_pred CCeEEecCCCCCC--C----HHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 025700 5 NGSVYVCNLPHGT--D----EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK 78 (249)
Q Consensus 5 ~~tI~V~nLp~~~--t----e~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~ 78 (249)
...|+|.|+|.-- . ..-|..+|+++|.+.. +.++.+.+++ .+||.|++|.+..+|+.|++.|||+
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn--------~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~ 128 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVN--------MYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGK 128 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccc--------eeeccCccCC-eeeEEEEEecChhhHHHHHHhcccc
Confidence 4678999998422 2 2346688999998876 5566677655 9999999999999999999999999
Q ss_pred eec-CeEEEEEec
Q 025700 79 DFH-GNLIGVFIA 90 (249)
Q Consensus 79 ~~~-g~~i~V~~a 90 (249)
.|+ .+++.|..-
T Consensus 129 ~ldknHtf~v~~f 141 (698)
T KOG2314|consen 129 RLDKNHTFFVRLF 141 (698)
T ss_pred eecccceEEeehh
Confidence 886 677777653
No 113
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.17 E-value=0.0049 Score=50.63 Aligned_cols=62 Identities=23% Similarity=0.208 Sum_probs=53.5
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
...|+|.+||++.+++||+++..+-|.|... .+.+| +.+.|+|...++.+-||..|+...+.
T Consensus 115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfa--------dv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFA--------DVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred ceeEEEecCCCCCchHHHHHHHHhhCCeeee--------eeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 4689999999999999999999999998763 36655 37999999999999999999877665
No 114
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.16 E-value=0.0014 Score=61.11 Aligned_cols=62 Identities=23% Similarity=0.313 Sum_probs=49.1
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecC---CCCCccc---EEEEEeCCHHHHHHHHHHh
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK---TTNEYKG---DATVTYEDPHAALAAVEWF 75 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~---~tg~~rG---~aFV~F~s~~~A~~Ai~~l 75 (249)
+.+|||++||++++|+.|...|..||.+..+ +.... .--.++| |+|+.|+++.++.+-|...
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs~~Vd---------WP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGSVKVD---------WPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccceEee---------cCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 6799999999999999999999999998753 43211 1123567 9999999999988877654
No 115
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.15 E-value=0.00047 Score=62.86 Aligned_cols=66 Identities=29% Similarity=0.370 Sum_probs=54.6
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEec---CCC--CCc--------ccEEEEEeCCHHHHHH
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRD---KTT--NEY--------KGDATVTYEDPHAALA 70 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d---~~t--g~~--------rG~aFV~F~s~~~A~~ 70 (249)
++++|.+.|||.+-.-+.|.++|..+|.|+. |+|... +.. +.+ +-.|||+|+..+.|.+
T Consensus 230 ~srtivaenLP~Dh~~enl~kiFg~~G~Iks--------IRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~K 301 (484)
T KOG1855|consen 230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKS--------IRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARK 301 (484)
T ss_pred ccceEEEecCCcchHHHHHHHHhhcccceee--------eeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHH
Confidence 6899999999999998999999999999998 777655 221 112 4479999999999999
Q ss_pred HHHHhCC
Q 025700 71 AVEWFNN 77 (249)
Q Consensus 71 Ai~~l~g 77 (249)
|.+.|+.
T Consensus 302 A~e~~~~ 308 (484)
T KOG1855|consen 302 ARELLNP 308 (484)
T ss_pred HHHhhch
Confidence 9998754
No 116
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.14 E-value=0.0017 Score=58.40 Aligned_cols=79 Identities=15% Similarity=0.168 Sum_probs=61.6
Q ss_pred CCCCeEEecCCC--CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 025700 3 MANGSVYVCNLP--HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 3 ~~~~tI~V~nLp--~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
.+++.|.+.=|. +.+|.+-|..+-...|.|.. |.|++. ++. .|.|||++.+.|++|.+.|||..|
T Consensus 118 ~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlR--------IvIfkk--ngV---QAmVEFdsv~~AqrAk~alNGADI 184 (494)
T KOG1456|consen 118 TPNKVLLFTILNPQYPITVDVLYTICNPQGKVLR--------IVIFKK--NGV---QAMVEFDSVEVAQRAKAALNGADI 184 (494)
T ss_pred CCCeEEEEEeecCccccchhhhhhhcCCCCceEE--------EEEEec--cce---eeEEeechhHHHHHHHhhcccccc
Confidence 345555555443 57888999999999999977 545443 454 699999999999999999999988
Q ss_pred cC--eEEEEEecccCC
Q 025700 81 HG--NLIGVFIAESRG 94 (249)
Q Consensus 81 ~g--~~i~V~~a~~~~ 94 (249)
.- -+|+|++|++..
T Consensus 185 YsGCCTLKIeyAkP~r 200 (494)
T KOG1456|consen 185 YSGCCTLKIEYAKPTR 200 (494)
T ss_pred cccceeEEEEecCcce
Confidence 73 689999998743
No 117
>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=96.99 E-value=0.006 Score=45.51 Aligned_cols=80 Identities=20% Similarity=0.316 Sum_probs=51.7
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecC------CCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK------TTNEYKGDATVTYEDPHAALAAVEWFNN 77 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~------~tg~~rG~aFV~F~s~~~A~~Ai~~l~g 77 (249)
.+..|.|-+.|+. ..+.|.++|++||.|.+. +.+.++. ..-....+..|+|+++.+|++||. .||
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~-------~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG 75 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEH-------FEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNG 75 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECE-------EGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTT
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEe-------ecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCC
Confidence 3566888899988 557788899999998762 1011100 001124599999999999999998 799
Q ss_pred ceecCe-EEEEEeccc
Q 025700 78 KDFHGN-LIGVFIAES 92 (249)
Q Consensus 78 ~~~~g~-~i~V~~a~~ 92 (249)
..|.|. .+-|.+.++
T Consensus 76 ~i~~g~~mvGV~~~~~ 91 (100)
T PF05172_consen 76 TIFSGSLMVGVKPCDP 91 (100)
T ss_dssp EEETTCEEEEEEE-HH
T ss_pred eEEcCcEEEEEEEcHH
Confidence 999885 455777643
No 118
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.98 E-value=0.0049 Score=41.76 Aligned_cols=54 Identities=19% Similarity=0.307 Sum_probs=44.2
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhc----CCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTI----GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF 75 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~----G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l 75 (249)
..+|+|.+| .+++.+||+.+|..| ... +|.++-|. -+-|.|.+++.|.+||..|
T Consensus 5 peavhirGv-d~lsT~dI~~y~~~y~~~~~~~---------~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGV-DELSTDDIKAYFSEYFDEEGPF---------RIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcC-CCCCHHHHHHHHHHhcccCCCc---------eEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 468999999 558889999999998 322 27788776 4999999999999999754
No 119
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.95 E-value=0.0038 Score=55.70 Aligned_cols=79 Identities=22% Similarity=0.348 Sum_probs=61.5
Q ss_pred CCCeEEecCCC----CCCC-------HHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 025700 4 ANGSVYVCNLP----HGTD-------EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV 72 (249)
Q Consensus 4 ~~~tI~V~nLp----~~~t-------e~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai 72 (249)
.+.+|+|.||= ...+ ++||++.-.+||.|.. |.|+ ++ .+.|.+.|.|.+.++|..+|
T Consensus 264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~--------vvv~-d~---hPdGvvtV~f~n~eeA~~ci 331 (382)
T KOG1548|consen 264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRK--------VVVY-DR---HPDGVVTVSFRNNEEADQCI 331 (382)
T ss_pred CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcce--------EEEe-cc---CCCceeEEEeCChHHHHHHH
Confidence 45789999882 1223 3556666789999988 5444 33 37789999999999999999
Q ss_pred HHhCCceecCeEEEEEecccCC
Q 025700 73 EWFNNKDFHGNLIGVFIAESRG 94 (249)
Q Consensus 73 ~~l~g~~~~g~~i~V~~a~~~~ 94 (249)
+.|+|.-|.|++|..++...+.
T Consensus 332 q~m~GR~fdgRql~A~i~DG~t 353 (382)
T KOG1548|consen 332 QTMDGRWFDGRQLTASIWDGKT 353 (382)
T ss_pred HHhcCeeecceEEEEEEeCCcc
Confidence 9999999999999998865443
No 120
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.94 E-value=0.0025 Score=60.07 Aligned_cols=63 Identities=14% Similarity=0.159 Sum_probs=48.8
Q ss_pred HHHHHHHhcCCeeecCCCCCCeEEEEecCC---CCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEecc
Q 025700 21 MLAEYFGTIGLLKKDKRTGRPKVWLYRDKT---TNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE 91 (249)
Q Consensus 21 dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~---tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a~ 91 (249)
+|+..+.+||.|.+ |.|.++-. ..-.-|-.||+|.+.++++.|++.|+|..|.+++|...|..
T Consensus 425 dvr~ec~k~g~v~~--------v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 425 DVRTECAKFGAVRS--------VEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred HHHHHhcccCceeE--------EecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 34555668899888 66666621 12234568999999999999999999999999999988854
No 121
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.93 E-value=0.0033 Score=58.68 Aligned_cols=64 Identities=23% Similarity=0.254 Sum_probs=57.4
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHH-hcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHH
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFG-TIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEW 74 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~-~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~ 74 (249)
.+.+||||++||.-++.++|..+|. -||.|.. +-|=+|++-..++|-+=|+|.+..+-.+||+.
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~y--------aGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLY--------VGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceEE--------EEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 4578999999999999999999998 7999987 56777877788999999999999999999984
No 122
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.89 E-value=0.003 Score=57.06 Aligned_cols=77 Identities=21% Similarity=0.241 Sum_probs=53.4
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEE
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG 86 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~ 86 (249)
.|-+.+||+++|+.|+.++|..-=.|.. +...|.+++.. .++..|.|||.|..+++|+.||... ...+.-+.|+
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~----g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~kh-rq~iGqRYIE 236 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTG----GTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRKH-RQNIGQRYIE 236 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccC----CccceEEEECC-CCCcccceEEEecCHHHHHHHHHHH-HHHHhHHHHH
Confidence 4667899999999999999974322221 22335455444 5899999999999999999999743 3334444444
Q ss_pred EEe
Q 025700 87 VFI 89 (249)
Q Consensus 87 V~~ 89 (249)
+..
T Consensus 237 lFR 239 (508)
T KOG1365|consen 237 LFR 239 (508)
T ss_pred HHH
Confidence 443
No 123
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=96.89 E-value=0.001 Score=57.03 Aligned_cols=72 Identities=24% Similarity=0.339 Sum_probs=56.7
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCC--------CCccc----EEEEEeCCHHHHHHHH
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT--------NEYKG----DATVTYEDPHAALAAV 72 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~t--------g~~rG----~aFV~F~s~~~A~~Ai 72 (249)
...|||++||+.+...-|+++|.+||.|-. |.|-....+ +..+. .+.|+|.+...|.+..
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~yGeVGR--------vylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iA 145 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQYGEVGR--------VYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIA 145 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhccccce--------EEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHH
Confidence 468999999999999999999999999976 433333222 12222 3679999999999999
Q ss_pred HHhCCceecCeE
Q 025700 73 EWFNNKDFHGNL 84 (249)
Q Consensus 73 ~~l~g~~~~g~~ 84 (249)
+.||+..|.|+.
T Consensus 146 e~Lnn~~Iggkk 157 (278)
T KOG3152|consen 146 ELLNNTPIGGKK 157 (278)
T ss_pred HHhCCCccCCCC
Confidence 999999998754
No 124
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.84 E-value=0.0065 Score=54.80 Aligned_cols=77 Identities=27% Similarity=0.371 Sum_probs=66.4
Q ss_pred CCCeEEecCCCCC-CCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 4 ANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 4 ~~~tI~V~nLp~~-~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
+...++|.+|... ++-+.|-.+|-.||.|.. |++++.+. |-|.|++.+..+.++|+..||+..+-|
T Consensus 286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~r--------vkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG 352 (494)
T KOG1456|consen 286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVER--------VKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFG 352 (494)
T ss_pred CCcEEEEEeccccccchhhhhhhhhhcCceee--------EEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCcccc
Confidence 4568899999864 566779999999999998 88888763 579999999999999999999999999
Q ss_pred eEEEEEecccC
Q 025700 83 NLIGVFIAESR 93 (249)
Q Consensus 83 ~~i~V~~a~~~ 93 (249)
.+|.|..++-.
T Consensus 353 ~kl~v~~SkQ~ 363 (494)
T KOG1456|consen 353 GKLNVCVSKQN 363 (494)
T ss_pred ceEEEeecccc
Confidence 99999887643
No 125
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.69 E-value=0.0007 Score=66.37 Aligned_cols=81 Identities=19% Similarity=0.154 Sum_probs=70.4
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
...|+|.|+|+..|.++|+.++..+|.+.+ ++++..+. ++++|.|||.|.++.++.+++...+...++-..
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~--------~~~vt~r~-gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~ 806 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTS--------LRLVTVRA-GKPKGKARVDYNTEADASRKVASVDVAGKRENN 806 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccc--------cchhhhhc-cccccceeccCCCcchhhhhcccchhhhhhhcC
Confidence 457999999999999999999999999988 66777774 999999999999999999999888877777777
Q ss_pred EEEEecccCC
Q 025700 85 IGVFIAESRG 94 (249)
Q Consensus 85 i~V~~a~~~~ 94 (249)
+.|..+.+..
T Consensus 807 ~~v~vsnp~~ 816 (881)
T KOG0128|consen 807 GEVQVSNPER 816 (881)
T ss_pred ccccccCCcc
Confidence 8888876643
No 126
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.44 E-value=0.0038 Score=59.22 Aligned_cols=78 Identities=19% Similarity=0.215 Sum_probs=62.6
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhc-CCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTI-GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~-G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
..++.|||.||-.-+|.-+|+++|..- |.|.. +.+|+ -+-.|||.|.+.++|.+.+.+||+..+-
T Consensus 442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee----------~WmDk----IKShCyV~yss~eEA~atr~AlhnV~WP 507 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEE----------FWMDK----IKSHCYVSYSSVEEAAATREALHNVQWP 507 (718)
T ss_pred CccceEeeecccccchHHHHHHHHhhccCchHH----------HHHHH----hhcceeEecccHHHHHHHHHHHhccccC
Confidence 357899999999999999999999954 55544 34454 3557999999999999999999998764
Q ss_pred ---CeEEEEEecccCC
Q 025700 82 ---GNLIGVFIAESRG 94 (249)
Q Consensus 82 ---g~~i~V~~a~~~~ 94 (249)
.+.|.|.|.....
T Consensus 508 ~sNPK~L~adf~~~de 523 (718)
T KOG2416|consen 508 PSNPKHLIADFVRADE 523 (718)
T ss_pred CCCCceeEeeecchhH
Confidence 5788888876433
No 127
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.30 E-value=0.00027 Score=69.15 Aligned_cols=68 Identities=28% Similarity=0.386 Sum_probs=57.6
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
.++||+||+..+.++||...|..++.+.. |++...+.+++.||.|||+|.+++.+.+||...+...+.
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~--------vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEV--------VQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhh--------HHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 47899999999999999999999998887 445555667899999999999999999999865555444
No 128
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=96.23 E-value=0.0095 Score=49.04 Aligned_cols=85 Identities=15% Similarity=0.051 Sum_probs=48.7
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHh-cCCeeecCCCCCCeEEEEecCCCCC--cccEEEEEeCCHHHHHHHHHHhCCce
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGT-IGLLKKDKRTGRPKVWLYRDKTTNE--YKGDATVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~-~G~i~~~~~~g~p~V~i~~d~~tg~--~rG~aFV~F~s~~~A~~Ai~~l~g~~ 79 (249)
.+..+|.|+.||+.+||+++.+.+.. ++...... -+.-.....+-+ ....|||.|.+.+++...+..++++.
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~-----y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~ 79 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWY-----YFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHV 79 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---E-----EEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEE
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceE-----EEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcE
Confidence 34568999999999999999885554 33331100 021111111111 23369999999999999999999988
Q ss_pred ecC-----eEEEEEeccc
Q 025700 80 FHG-----NLIGVFIAES 92 (249)
Q Consensus 80 ~~g-----~~i~V~~a~~ 92 (249)
|.+ ....|++|.-
T Consensus 80 F~D~kg~~~~~~VE~Apy 97 (176)
T PF03467_consen 80 FVDSKGNEYPAVVEFAPY 97 (176)
T ss_dssp EE-TTS-EEEEEEEE-SS
T ss_pred EECCCCCCcceeEEEcch
Confidence 764 3445666654
No 129
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.12 E-value=0.0093 Score=54.08 Aligned_cols=76 Identities=20% Similarity=0.311 Sum_probs=59.0
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT---NEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~t---g~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
..|.|.||.+.+|.+++..+|.-+|.|.. |+|+-+... ....-.+||.|.+...+..|-. |..+.|-+
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~e--------lrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvd 78 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPE--------LRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVD 78 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhcccccc--------ccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeee
Confidence 47999999999999999999999999988 666543221 2234579999999999998876 66677777
Q ss_pred eEEEEEec
Q 025700 83 NLIGVFIA 90 (249)
Q Consensus 83 ~~i~V~~a 90 (249)
..|.|..+
T Consensus 79 raliv~p~ 86 (479)
T KOG4676|consen 79 RALIVRPY 86 (479)
T ss_pred eeEEEEec
Confidence 76666543
No 130
>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=96.08 E-value=0.02 Score=41.08 Aligned_cols=56 Identities=16% Similarity=0.235 Sum_probs=41.8
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN 77 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g 77 (249)
..||--..|..+-..||.++|+.||.|. |.++.|- -|||.....+.|..++..+.-
T Consensus 9 dHVFhltFPkeWK~~DI~qlFspfG~I~---------VsWi~dT-------SAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLTFPKEWKTSDIYQLFSPFGQIY---------VSWINDT-------SAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE--TT--HHHHHHHCCCCCCEE---------EEEECTT-------EEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEeCchHhhhhhHHHHhccCCcEE---------EEEEcCC-------cEEEEeecHHHHHHHHHHhcc
Confidence 3444445999999999999999999987 4466554 599999999999999987753
No 131
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.06 E-value=0.0089 Score=59.24 Aligned_cols=78 Identities=21% Similarity=0.201 Sum_probs=65.7
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
.+++.++|++|+..+....|...|..||.|.. |.+ +. +.+ ||+|.|++...|++|++.|.+..|.+
T Consensus 453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~--------Idy--~h--gq~--yayi~yes~~~aq~a~~~~rgap~G~ 518 (975)
T KOG0112|consen 453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRI--------IDY--RH--GQP--YAYIQYESPPAAQAATHDMRGAPLGG 518 (975)
T ss_pred ccceeeccCCCCCCChHHHHHHHhhccCccee--------eec--cc--CCc--ceeeecccCccchhhHHHHhcCcCCC
Confidence 46788999999999999999999999999876 333 22 333 99999999999999999999998885
Q ss_pred --eEEEEEecccCC
Q 025700 83 --NLIGVFIAESRG 94 (249)
Q Consensus 83 --~~i~V~~a~~~~ 94 (249)
+.|.|.++.+..
T Consensus 519 P~~r~rvdla~~~~ 532 (975)
T KOG0112|consen 519 PPRRLRVDLASPPG 532 (975)
T ss_pred CCcccccccccCCC
Confidence 778999887543
No 132
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=95.74 E-value=0.0065 Score=58.70 Aligned_cols=77 Identities=23% Similarity=0.133 Sum_probs=58.4
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
...|||..||..+++.++.++|...-.|++. |.|...+ |++.++.|||+|..++++..|+..-+.+.+..+.
T Consensus 434 g~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~-------I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~ 505 (944)
T KOG4307|consen 434 GGALYVFQLPVMTPIVPPVNKFMGAAAVEDF-------IELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRI 505 (944)
T ss_pred cceEEeccCCccccccchhhhhhhhhhhhhe-------eEeccCC-cccccchhhheeccccccchhhhcccccccCceE
Confidence 4689999999999999999999987766653 5454444 5778889999999988888777644444445566
Q ss_pred EEEEe
Q 025700 85 IGVFI 89 (249)
Q Consensus 85 i~V~~ 89 (249)
|+|..
T Consensus 506 irv~s 510 (944)
T KOG4307|consen 506 IRVDS 510 (944)
T ss_pred EEeec
Confidence 66664
No 133
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=95.73 E-value=0.0064 Score=52.21 Aligned_cols=63 Identities=17% Similarity=0.245 Sum_probs=48.4
Q ss_pred HHHHHHHH-hcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEecc
Q 025700 20 DMLAEYFG-TIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE 91 (249)
Q Consensus 20 ~dL~~~F~-~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a~ 91 (249)
+||...|. +||.|+. +.|-.+. .-..+|=++|.|..+++|++|++.||+.-+.|++|..++..
T Consensus 83 Ed~f~E~~~kygEiee--------~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p 146 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEE--------LNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP 146 (260)
T ss_pred HHHHHHHHHHhhhhhh--------hhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence 34444555 8999987 3333332 23457789999999999999999999999999999988854
No 134
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=95.47 E-value=0.019 Score=52.63 Aligned_cols=75 Identities=23% Similarity=0.286 Sum_probs=57.5
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc-eecCeE
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK-DFHGNL 84 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~-~~~g~~ 84 (249)
+++|++||.+.++.+||+.+|...- +... .-.+++ .+|+||.+.+..-|.+|++.++++ ++.|+.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak-~~~~------g~fl~k-------~gyafvd~pdq~wa~kaie~~sgk~elqGkr 67 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAK-IPGS------GQFLVK-------SGYAFVDCPDQQWANKAIETLSGKVELQGKR 67 (584)
T ss_pred CcccccccCCCCChHHHHHHhcccc-CCCC------cceeee-------cceeeccCCchhhhhhhHHhhchhhhhcCce
Confidence 4789999999999999999997431 1110 011222 369999999999999999999986 577999
Q ss_pred EEEEecccCC
Q 025700 85 IGVFIAESRG 94 (249)
Q Consensus 85 i~V~~a~~~~ 94 (249)
+.|..+-++.
T Consensus 68 ~e~~~sv~kk 77 (584)
T KOG2193|consen 68 QEVEHSVPKK 77 (584)
T ss_pred eeccchhhHH
Confidence 9998876554
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=95.35 E-value=0.13 Score=39.03 Aligned_cols=67 Identities=21% Similarity=0.218 Sum_probs=45.4
Q ss_pred CeEEecCCC-CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 6 GSVYVCNLP-HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 6 ~tI~V~nLp-~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
.+|.|--+| .-++-++|..+...+-..... ++|++|.. ..+=.+++.|.+.++|.++.+.+||+.|+
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~-------~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEH-------IRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEE-------EEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 344444444 445556666555555433321 78888753 34557899999999999999999999876
No 136
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=95.13 E-value=0.028 Score=48.38 Aligned_cols=62 Identities=23% Similarity=0.356 Sum_probs=53.1
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN 76 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~ 76 (249)
..|||.||+.-++-+.|++.|..||.|... |-++.+ .+++.+-.+|+|...-.|.+|+....
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~a-------v~~vD~--r~k~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERA-------VAKVDD--RGKPTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchh-------eeeecc--cccccccchhhhhcchhHHHHHHHhc
Confidence 789999999999999999999999999885 433333 37788899999999999999998764
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=95.03 E-value=0.0075 Score=53.69 Aligned_cols=81 Identities=21% Similarity=0.349 Sum_probs=58.1
Q ss_pred CeEEecCCCCCCCHHHH-H--HHHHhcCCeeecCCCCCCeEEEEecCCCCCc---ccEEEEEeCCHHHHHHHHHHhCCce
Q 025700 6 GSVYVCNLPHGTDEDML-A--EYFGTIGLLKKDKRTGRPKVWLYRDKTTNEY---KGDATVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL-~--~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~---rG~aFV~F~s~~~A~~Ai~~l~g~~ 79 (249)
.-+||-+|+..+..+++ + +.|.+||.|.. |.+..+..+-.+ ..-++|+|...++|..||...++..
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~k--------i~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~ 149 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINK--------IVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFV 149 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceE--------EeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHH
Confidence 56788899877655544 3 67888998876 444443310111 1238999999999999999999999
Q ss_pred ecCeEEEEEecccCC
Q 025700 80 FHGNLIGVFIAESRG 94 (249)
Q Consensus 80 ~~g~~i~V~~a~~~~ 94 (249)
+.++.|+..+...+.
T Consensus 150 ~dg~~lka~~gttky 164 (327)
T KOG2068|consen 150 DDGRALKASLGTTKY 164 (327)
T ss_pred hhhhhhHHhhCCCcc
Confidence 999888877766543
No 138
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=95.00 E-value=0.094 Score=46.09 Aligned_cols=65 Identities=22% Similarity=0.243 Sum_probs=48.1
Q ss_pred HHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCc-ccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEecc
Q 025700 19 EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEY-KGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE 91 (249)
Q Consensus 19 e~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~-rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a~ 91 (249)
++++++...+||.|.. |.|+..+..-.. ----||+|+..++|.+|+..|||..|.|+.++..+..
T Consensus 300 ede~keEceKyg~V~~--------viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGN--------VIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHHhhcceee--------EEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 3567788889999987 334444311111 1247999999999999999999999999998876643
No 139
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=94.48 E-value=0.27 Score=34.35 Aligned_cols=64 Identities=14% Similarity=0.103 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEec
Q 025700 15 HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIA 90 (249)
Q Consensus 15 ~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a 90 (249)
..++..+|..++.....+.... .=+|+|.. .|+||+-.. +.|+.+++.|++..+.|++|+|+.|
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~---IG~I~I~~--------~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRD---IGRIDIFD--------NFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGG---EEEEEE-S--------S-EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred cCCCHHHHHHHHHhccCCCHHh---EEEEEEee--------eEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 5788899999998776665532 00133332 289999876 4788899999999999999999875
No 140
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=94.39 E-value=0.61 Score=45.93 Aligned_cols=67 Identities=7% Similarity=0.130 Sum_probs=48.2
Q ss_pred CCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEeccc
Q 025700 14 PHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAES 92 (249)
Q Consensus 14 p~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a~~ 92 (249)
-..++..+|..++..-+.|.... .=.|+|+.+ |.||+... +.|...++.|+...+.++.|.|+.+..
T Consensus 496 ~~~~~~~~~~~~i~~~~~~~~~~---ig~i~i~~~--------~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 562 (629)
T PRK11634 496 DDGVEVRHIVGAIANEGDISSRY---IGNIKLFAS--------HSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLLGD 562 (629)
T ss_pred ccCCCHHHHHHHHHhhcCCChhh---CCcEEEeCC--------ceEEEcCh-hhHHHHHHHhccccccCCceEEEECCC
Confidence 36788888888887666554321 112555433 78999865 457888888999999999999998753
No 141
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=94.26 E-value=0.067 Score=50.62 Aligned_cols=53 Identities=23% Similarity=0.308 Sum_probs=42.6
Q ss_pred EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec----CeEEEEEecccCCC
Q 025700 43 VWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH----GNLIGVFIAESRGK 95 (249)
Q Consensus 43 V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~----g~~i~V~~a~~~~~ 95 (249)
|.|+.|-.+....|||||.|.+++++..+.++++++.+. .+..+|.||+-+.+
T Consensus 419 lYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQGk 475 (549)
T KOG4660|consen 419 LYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQGK 475 (549)
T ss_pred EEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhhch
Confidence 567777767778999999999999999999999998754 35567778775544
No 142
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=94.04 E-value=0.35 Score=33.20 Aligned_cols=56 Identities=13% Similarity=0.162 Sum_probs=44.9
Q ss_pred CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEE
Q 025700 15 HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGV 87 (249)
Q Consensus 15 ~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V 87 (249)
..++-+||+..|.+|.-.. |..|+ || =||.|.+.++|+++....++..+....|.+
T Consensus 10 ~~~~v~d~K~~Lr~y~~~~-----------I~~d~-tG-----fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 10 HGVTVEDFKKRLRKYRWDR-----------IRDDR-TG-----FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CCccHHHHHHHHhcCCcce-----------EEecC-CE-----EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4678899999999997533 55555 33 489999999999999999999888777655
No 143
>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=93.91 E-value=0.26 Score=40.84 Aligned_cols=63 Identities=19% Similarity=0.276 Sum_probs=43.5
Q ss_pred CHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC--CceecCeEEEEEecccCC
Q 025700 18 DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN--NKDFHGNLIGVFIAESRG 94 (249)
Q Consensus 18 te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~--g~~~~g~~i~V~~a~~~~ 94 (249)
..+.|+++|..++.+.. +.+++ +-+-..|.|.+.++|.+|...|+ +..+.+..|+|.++....
T Consensus 8 ~~~~l~~l~~~~~~~~~--------~~~L~------sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~ 72 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQ--------FSPLK------SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP 72 (184)
T ss_dssp -HHHHHHHHHTT-SS-E--------EEEET------TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred hHHHHHHHHHhcCCceE--------EEEcC------CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence 45789999999988765 32332 23468999999999999999999 899999999999885443
No 144
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.82 E-value=0.2 Score=46.46 Aligned_cols=70 Identities=17% Similarity=0.207 Sum_probs=56.5
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
++..|.|-.+|..+|-.||..|...+-....+ |+|++|.. ..+=..+|.|.+.++|..+.+.+||..|..
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~-------irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISD-------IRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhhe-------eEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 36789999999999999999998876443332 88999653 223358999999999999999999998873
No 145
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=93.57 E-value=0.046 Score=50.80 Aligned_cols=76 Identities=16% Similarity=0.178 Sum_probs=57.0
Q ss_pred CCCeEEecCCCCCC-CHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 4 ANGSVYVCNLPHGT-DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 4 ~~~tI~V~nLp~~~-te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
+...|-+.-+|... |.++|...|.+||.|.. |.+-.. .-.|.|+|.+..+|-.|.. .++..|++
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n--------~qv~~~------~~~a~vTF~t~aeag~a~~-s~~avlnn 435 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIEN--------IQVDYS------SLHAVVTFKTRAEAGEAYA-SHGAVLNN 435 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCcccc--------ccccCc------hhhheeeeeccccccchhc-cccceecC
Confidence 34455555566554 56889999999999987 444333 2269999999999976654 78899999
Q ss_pred eEEEEEecccCC
Q 025700 83 NLIGVFIAESRG 94 (249)
Q Consensus 83 ~~i~V~~a~~~~ 94 (249)
+.|+|.+-++..
T Consensus 436 r~iKl~whnps~ 447 (526)
T KOG2135|consen 436 RFIKLFWHNPSP 447 (526)
T ss_pred ceeEEEEecCCc
Confidence 999999977643
No 146
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.47 E-value=0.02 Score=56.91 Aligned_cols=78 Identities=13% Similarity=0.045 Sum_probs=59.9
Q ss_pred CCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCe
Q 025700 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN 83 (249)
Q Consensus 4 ~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~ 83 (249)
.+.|||++||+..+++.+|+-.|..+|.|.. |.|-+.+ -+.-.-|+||.|.+.+.+..|...+.+..|..-
T Consensus 371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~--------VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g 441 (975)
T KOG0112|consen 371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEE--------VDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNG 441 (975)
T ss_pred hhhhhhhcCcccchhhhhhhhhhhhhccccc--------cccccCC-CCcccchhhhhhhccccCcccchhhcCCccccC
Confidence 4689999999999999999999999999988 4443322 122345899999999999999888887776644
Q ss_pred EEEEEec
Q 025700 84 LIGVFIA 90 (249)
Q Consensus 84 ~i~V~~a 90 (249)
.+++-+.
T Consensus 442 ~~r~glG 448 (975)
T KOG0112|consen 442 THRIGLG 448 (975)
T ss_pred ccccccc
Confidence 4444444
No 147
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=93.47 E-value=0.061 Score=52.80 Aligned_cols=50 Identities=28% Similarity=0.684 Sum_probs=42.8
Q ss_pred ccCCCcCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCeecCCCCCeeeecc
Q 025700 150 MCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKR 229 (249)
Q Consensus 150 ~C~~~~c~~~nf~~r~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~~n~~~r 229 (249)
+|+ .|+..|-..-.+|.+|+++-.. -.|+.|+..|-..-
T Consensus 3 ~Cp--~Cg~~n~~~akFC~~CG~~l~~---------------------------------------~~Cp~CG~~~~~~~ 41 (645)
T PRK14559 3 ICP--QCQFENPNNNRFCQKCGTSLTH---------------------------------------KPCPQCGTEVPVDE 41 (645)
T ss_pred cCC--CCCCcCCCCCccccccCCCCCC---------------------------------------CcCCCCCCCCCccc
Confidence 588 9999999999999999887420 14999999999999
Q ss_pred ccCccCCCCCC
Q 025700 230 TKCNICNTNKP 240 (249)
Q Consensus 230 ~~c~~C~~~~~ 240 (249)
.+|.+|+++-.
T Consensus 42 ~fC~~CG~~~~ 52 (645)
T PRK14559 42 AHCPNCGAETG 52 (645)
T ss_pred ccccccCCccc
Confidence 99999998754
No 148
>PF12773 DZR: Double zinc ribbon
Probab=93.19 E-value=0.09 Score=33.67 Aligned_cols=48 Identities=29% Similarity=0.569 Sum_probs=40.0
Q ss_pred cCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCeecCCCCCeeeeccccCcc
Q 025700 155 SCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNI 234 (249)
Q Consensus 155 ~c~~~nf~~r~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~~n~~~r~~c~~ 234 (249)
.|+..+-.....|..|+++-+.. ....+.|+.|+..|-.....|..
T Consensus 3 ~Cg~~~~~~~~fC~~CG~~l~~~----------------------------------~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 3 HCGTPNPDDAKFCPHCGTPLPPP----------------------------------DQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred CcCCcCCccccCChhhcCChhhc----------------------------------cCCCCCCcCCcCCCcCCcCccCc
Confidence 89999999999999999987611 12357899999999999999999
Q ss_pred CC
Q 025700 235 CN 236 (249)
Q Consensus 235 C~ 236 (249)
|+
T Consensus 49 CG 50 (50)
T PF12773_consen 49 CG 50 (50)
T ss_pred cc
Confidence 85
No 149
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=93.09 E-value=0.098 Score=51.87 Aligned_cols=78 Identities=19% Similarity=0.221 Sum_probs=63.2
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec--CeE
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH--GNL 84 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~--g~~ 84 (249)
+.++.|.+-..+-..|..++.+||.+.+ +|.+++-. .|.|+|.+.+.|..|+++++|+++- |-+
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s--------~wtlr~~N------~alvs~~s~~sai~a~dAl~gkevs~~g~P 365 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVAS--------AWTLRDLN------MALVSFSSVESAILALDALQGKEVSVTGAP 365 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhh--------heeccccc------chhhhhHHHHHHHHhhhhhcCCcccccCCc
Confidence 4455566667788899999999999988 66666653 7999999999999999999998754 778
Q ss_pred EEEEecccCCCCCc
Q 025700 85 IGVFIAESRGKDDH 98 (249)
Q Consensus 85 i~V~~a~~~~~~~~ 98 (249)
.+|.+|+.-+..++
T Consensus 366 s~V~~ak~~~~~ep 379 (1007)
T KOG4574|consen 366 SRVSFAKTLPMYEP 379 (1007)
T ss_pred eeEEeccccccccC
Confidence 89999887765443
No 150
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=92.93 E-value=0.56 Score=37.17 Aligned_cols=72 Identities=18% Similarity=0.226 Sum_probs=50.6
Q ss_pred CCCCCeEEecCCCCCCC-HHH---HHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 025700 2 TMANGSVYVCNLPHGTD-EDM---LAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN 77 (249)
Q Consensus 2 ~~~~~tI~V~nLp~~~t-e~d---L~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g 77 (249)
.++=.||.|.=|..++. .+| |...++.||.|.+ |.+. | +--|.|.|.+..+|=.|+.+++.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~S--------VT~c-----G--rqsavVvF~d~~SAC~Av~Af~s 147 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQS--------VTLC-----G--RQSAVVVFKDITSACKAVSAFQS 147 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcce--------eeec-----C--CceEEEEehhhHHHHHHHHhhcC
Confidence 45667888987766553 234 4456778999988 4332 2 23699999999999999998875
Q ss_pred ceecCeEEEEEe
Q 025700 78 KDFHGNLIGVFI 89 (249)
Q Consensus 78 ~~~~g~~i~V~~ 89 (249)
..-|..+...+
T Consensus 148 -~~pgtm~qCsW 158 (166)
T PF15023_consen 148 -RAPGTMFQCSW 158 (166)
T ss_pred -CCCCceEEeec
Confidence 34566666655
No 151
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=91.97 E-value=0.079 Score=29.36 Aligned_cols=24 Identities=25% Similarity=0.504 Sum_probs=21.5
Q ss_pred eecCCCCCeeeeccccCccCCCCC
Q 025700 216 WSCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 216 w~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
+.|+.|+..+-.....|..|+++.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred CCCcccCCcCCcccccChhhCCCC
Confidence 579999999999999999999863
No 152
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=91.31 E-value=0.13 Score=49.71 Aligned_cols=70 Identities=13% Similarity=0.140 Sum_probs=59.8
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG 82 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g 82 (249)
++..+|||+||...+.++-++.++..+|.|.+. .+.+ |+|.+|..+..+.+|+..+.-..+.+
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~----------kr~~-------fgf~~f~~~~~~~ra~r~~t~~~~~~ 100 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSW----------KRDK-------FGFCEFLKHIGDLRASRLLTELNIDD 100 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhh----------hhhh-------hcccchhhHHHHHHHHHHhcccCCCc
Confidence 567899999999999999999999999999873 3333 89999999999999999888888888
Q ss_pred eEEEEEe
Q 025700 83 NLIGVFI 89 (249)
Q Consensus 83 ~~i~V~~ 89 (249)
..+.+..
T Consensus 101 ~kl~~~~ 107 (668)
T KOG2253|consen 101 QKLIENV 107 (668)
T ss_pred chhhccc
Confidence 7766555
No 153
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=91.09 E-value=0.21 Score=29.60 Aligned_cols=26 Identities=42% Similarity=1.022 Sum_probs=20.8
Q ss_pred CeecCCCCCeeee--ccccCccCCCCCC
Q 025700 215 DWSCPMCGNINWA--KRTKCNICNTNKP 240 (249)
Q Consensus 215 dw~c~~c~~~n~~--~r~~c~~C~~~~~ 240 (249)
-|.|..|+++--. ....|..|++++.
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~~~ 29 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAPKE 29 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCchH
Confidence 4999999998543 3579999999864
No 154
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=90.99 E-value=0.31 Score=46.34 Aligned_cols=67 Identities=18% Similarity=0.245 Sum_probs=45.3
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhc--CCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC--cee
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTI--GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN--KDF 80 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~--G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g--~~~ 80 (249)
...|+|.-||..+.+++|+.+|..- -.+.+ +.+-.+. --||+|++..+|+.|.+.|.. ++|
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~is--------cefa~N~-------nWyITfesd~DAQqAykylreevk~f 239 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVIS--------CEFAHND-------NWYITFESDTDAQQAYKYLREEVKTF 239 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCcee--------eeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhh
Confidence 3568899999999999999999842 22222 1222221 259999999999999876642 235
Q ss_pred cCeEEE
Q 025700 81 HGNLIG 86 (249)
Q Consensus 81 ~g~~i~ 86 (249)
.|+.|.
T Consensus 240 qgKpIm 245 (684)
T KOG2591|consen 240 QGKPIM 245 (684)
T ss_pred cCcchh
Confidence 555443
No 155
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=90.64 E-value=0.13 Score=27.68 Aligned_cols=23 Identities=30% Similarity=0.560 Sum_probs=20.2
Q ss_pred ecCCCCCeeeeccccCccCCCCC
Q 025700 217 SCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 217 ~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
.|+.|++.+-....+|..|+++.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCcC
Confidence 38999999999999999999863
No 156
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=90.56 E-value=0.22 Score=29.19 Aligned_cols=25 Identities=32% Similarity=0.817 Sum_probs=19.2
Q ss_pred eecCCCCCeeeec--cccCccCCCCCC
Q 025700 216 WSCPMCGNINWAK--RTKCNICNTNKP 240 (249)
Q Consensus 216 w~c~~c~~~n~~~--r~~c~~C~~~~~ 240 (249)
|.|..|+++.... ...|..|++++.
T Consensus 2 ~~C~~CGy~y~~~~~~~~CP~Cg~~~~ 28 (33)
T cd00350 2 YVCPVCGYIYDGEEAPWVCPVCGAPKD 28 (33)
T ss_pred EECCCCCCEECCCcCCCcCcCCCCcHH
Confidence 8899999885543 668999988764
No 157
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=89.40 E-value=1.6 Score=38.65 Aligned_cols=67 Identities=22% Similarity=0.277 Sum_probs=48.2
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE-E
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL-I 85 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~-i 85 (249)
=|-|-+.|+.-+ ..|..+|++||.|.. .+.. .++ .|-+|.|.+.-+|++||. .+++.|.+.. |
T Consensus 199 WVTVfGFppg~~-s~vL~~F~~cG~Vvk----------hv~~-~ng---NwMhirYssr~~A~KALs-kng~ii~g~vmi 262 (350)
T KOG4285|consen 199 WVTVFGFPPGQV-SIVLNLFSRCGEVVK----------HVTP-SNG---NWMHIRYSSRTHAQKALS-KNGTIIDGDVMI 262 (350)
T ss_pred eEEEeccCccch-hHHHHHHHhhCeeee----------eecC-CCC---ceEEEEecchhHHHHhhh-hcCeeeccceEE
Confidence 355557766544 557788999999865 3332 223 499999999999999998 7888888754 4
Q ss_pred EEEe
Q 025700 86 GVFI 89 (249)
Q Consensus 86 ~V~~ 89 (249)
-|..
T Consensus 263 GVkp 266 (350)
T KOG4285|consen 263 GVKP 266 (350)
T ss_pred eeee
Confidence 5555
No 158
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=88.29 E-value=0.42 Score=49.75 Aligned_cols=53 Identities=30% Similarity=0.716 Sum_probs=40.8
Q ss_pred CCCccCCCcCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCeecCCCCCeee
Q 025700 147 GDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINW 226 (249)
Q Consensus 147 Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~~n~ 226 (249)
+.-.|+ .|+..++.. .|..|+.+.. -.+.|+.|+...-
T Consensus 666 ~~rkCP--kCG~~t~~~--fCP~CGs~te--------------------------------------~vy~CPsCGaev~ 703 (1337)
T PRK14714 666 GRRRCP--SCGTETYEN--RCPDCGTHTE--------------------------------------PVYVCPDCGAEVP 703 (1337)
T ss_pred EEEECC--CCCCccccc--cCcccCCcCC--------------------------------------CceeCccCCCccC
Confidence 458899 999998875 9999998851 1458999998653
Q ss_pred ec---cccCccCCCCCCC
Q 025700 227 AK---RTKCNICNTNKPG 241 (249)
Q Consensus 227 ~~---r~~c~~C~~~~~~ 241 (249)
.. ..+|..|+.|...
T Consensus 704 ~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 704 PDESGRVECPRCDVELTP 721 (1337)
T ss_pred CCccccccCCCCCCcccc
Confidence 22 5689999988654
No 159
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=87.58 E-value=0.35 Score=42.91 Aligned_cols=80 Identities=18% Similarity=0.154 Sum_probs=61.5
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
..++|++++...+.+.++..++.++|.+..+ .+........+++++.|.|...+.+..+++....+.+....
T Consensus 88 ~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~--------~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~ 159 (285)
T KOG4210|consen 88 SSTFFVGELSENIEESEDDNFSSEAGLRVDA--------RSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNK 159 (285)
T ss_pred cccccccccccchhhccccccchhhcCcccc--------hhhhhccccccccceeeccccHHHHHHHHHhhhcccccccc
Confidence 5688999999999999888999988877653 35555566788999999999999999999865555555655
Q ss_pred EEEEeccc
Q 025700 85 IGVFIAES 92 (249)
Q Consensus 85 i~V~~a~~ 92 (249)
+...+.+.
T Consensus 160 ~~~dl~~~ 167 (285)
T KOG4210|consen 160 GEKDLNTR 167 (285)
T ss_pred ccCccccc
Confidence 55554443
No 160
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=85.84 E-value=0.095 Score=48.23 Aligned_cols=77 Identities=16% Similarity=0.214 Sum_probs=63.3
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
+++|-|.|+|+...++.|..++.+||.+..+. .+..+.+|- ..-|+|.+.+.++.||..+++..++...
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~e-------qvnt~~eta----vvnvty~~~~~~~~ai~kl~g~Q~en~~ 148 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCE-------QVNTDSETA----VVNVTYSAQQQHRQAIHKLNGPQLENQH 148 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhh-------hhccchHHH----HHHHHHHHHHHHHHHHHhhcchHhhhhh
Confidence 46688999999999999999999999998863 244555432 3457899999999999999999999999
Q ss_pred EEEEeccc
Q 025700 85 IGVFIAES 92 (249)
Q Consensus 85 i~V~~a~~ 92 (249)
++|.|-..
T Consensus 149 ~k~~YiPd 156 (584)
T KOG2193|consen 149 LKVGYIPD 156 (584)
T ss_pred hhcccCch
Confidence 99988543
No 161
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.07 E-value=2.5 Score=38.87 Aligned_cols=55 Identities=16% Similarity=0.158 Sum_probs=46.1
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHH
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEW 74 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~ 74 (249)
+.|-|.++|...-.+||...|..|+.--.+ |+++.|. .||..|.+...|..||-.
T Consensus 392 HVlEIydfp~efkteDll~~f~~yq~kgfd-------IkWvDdt-------halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 392 HVLEIYDFPDEFKTEDLLKAFETYQNKGFD-------IKWVDDT-------HALAVFSSVNRAAEALTL 446 (528)
T ss_pred ceeEeccCchhhccHHHHHHHHHhhcCCce-------eEEeecc-------eeEEeecchHHHHHHhhc
Confidence 567888999999999999999999764432 7787776 699999999999999974
No 162
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=79.40 E-value=1.1 Score=36.40 Aligned_cols=26 Identities=35% Similarity=0.894 Sum_probs=21.4
Q ss_pred CeecCCCCCeee-eccccCccCCCCCC
Q 025700 215 DWSCPMCGNINW-AKRTKCNICNTNKP 240 (249)
Q Consensus 215 dw~c~~c~~~n~-~~r~~c~~C~~~~~ 240 (249)
.|.|+.||+.-- --...|+-|++|+.
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~k~ 160 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAPKE 160 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCChHH
Confidence 799999998755 34678999999874
No 163
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=78.98 E-value=19 Score=37.05 Aligned_cols=9 Identities=11% Similarity=-0.156 Sum_probs=4.4
Q ss_pred ccCCCCCcc
Q 025700 143 WQQDGDWMC 151 (249)
Q Consensus 143 ~~r~Gdw~C 151 (249)
..++|+|.-
T Consensus 1230 vsrgGfrnn 1238 (1282)
T KOG0921|consen 1230 VSRGGFRNN 1238 (1282)
T ss_pred ccCCccccC
Confidence 334555544
No 164
>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=77.20 E-value=6.4 Score=30.03 Aligned_cols=56 Identities=20% Similarity=0.176 Sum_probs=30.8
Q ss_pred eEEecCCCCC---------CCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCC-HHHHHHHHH
Q 025700 7 SVYVCNLPHG---------TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED-PHAALAAVE 73 (249)
Q Consensus 7 tI~V~nLp~~---------~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s-~~~A~~Ai~ 73 (249)
+++|-|++.. ++.++|++.|..|..++ |+.+.++. -..++++|+|.+ -.--..|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k---------v~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK---------VKPLYGKQ--GHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SE---------EEEEEETT--EEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce---------eEECcCCC--CCcEEEEEEECCChHHHHHHHH
Confidence 5667788643 35578999999998876 44555553 468899999985 444455554
No 165
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=72.95 E-value=4.6 Score=35.63 Aligned_cols=48 Identities=8% Similarity=0.022 Sum_probs=36.9
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHH
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~ 66 (249)
.-|||+|||.++.-.||+..+.+.+.+.. .|... -+++-||+.|.+..
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm---------~iswk----g~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPM---------SISWK----GHFGKCFLHFGNRK 378 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCce---------eEeee----cCCcceeEecCCcc
Confidence 46999999999999999999998887664 23222 24667999997643
No 166
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=72.85 E-value=2.9 Score=23.16 Aligned_cols=24 Identities=25% Similarity=0.551 Sum_probs=20.0
Q ss_pred ecCCCCCeeeeccccCccCCCCCC
Q 025700 217 SCPMCGNINWAKRTKCNICNTNKP 240 (249)
Q Consensus 217 ~c~~c~~~n~~~r~~c~~C~~~~~ 240 (249)
.||.|+...-..-..|..|+..+.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCCc
Confidence 489999998888999999987653
No 167
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=69.88 E-value=7.9 Score=26.74 Aligned_cols=63 Identities=14% Similarity=0.078 Sum_probs=43.5
Q ss_pred HHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEeccc
Q 025700 20 DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAES 92 (249)
Q Consensus 20 ~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a~~ 92 (249)
++|++.|..+|.-... |..+..+++..+-..-||+.....+-.. .|+=+.|.++.|.|+....
T Consensus 2 ~~I~~~L~~~G~~v~~-------i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~k 64 (69)
T smart00596 2 SQIEEALKDIGFPVLF-------IHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPHK 64 (69)
T ss_pred HHHHHHHHHcCCceeE-------EEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCcc
Confidence 4688888888865443 6677777777777788898876654444 3444567788888876543
No 168
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=69.17 E-value=2.4 Score=27.00 Aligned_cols=13 Identities=54% Similarity=1.515 Sum_probs=8.1
Q ss_pred CCCCeecCCCCCe
Q 025700 212 GPNDWSCPMCGNI 224 (249)
Q Consensus 212 ~~~dw~c~~c~~~ 224 (249)
-+.||.|+.|++.
T Consensus 31 Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 31 LPDDWVCPVCGAP 43 (47)
T ss_dssp S-TT-B-TTTSSB
T ss_pred CCCCCcCcCCCCc
Confidence 3789999999864
No 169
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=68.69 E-value=4.4 Score=27.12 Aligned_cols=26 Identities=27% Similarity=0.713 Sum_probs=21.9
Q ss_pred CeecCCCCCeee-----eccccCccCCCCCC
Q 025700 215 DWSCPMCGNINW-----AKRTKCNICNTNKP 240 (249)
Q Consensus 215 dw~c~~c~~~n~-----~~r~~c~~C~~~~~ 240 (249)
|.+|+.|.+++- +....|..|++...
T Consensus 11 ~VkCp~C~n~q~vFsha~t~V~C~~Cg~~L~ 41 (59)
T PRK00415 11 KVKCPDCGNEQVVFSHASTVVRCLVCGKTLA 41 (59)
T ss_pred EEECCCCCCeEEEEecCCcEEECcccCCCcc
Confidence 678999999983 67789999998774
No 170
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=66.80 E-value=12 Score=25.78 Aligned_cols=64 Identities=14% Similarity=0.111 Sum_probs=42.1
Q ss_pred HHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeEEEEEecccC
Q 025700 20 DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESR 93 (249)
Q Consensus 20 ~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~ 93 (249)
++|++.|...|.-... |.-+..+.+..+--.-||+++...+... .++=..+.+..|+|+..+.+
T Consensus 2 ~~I~~~L~~~G~~v~~-------i~~~~~~~~k~pl~mf~veL~p~~~~k~---i~~Ik~l~~~~V~vE~~~k~ 65 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRN-------IHNMHSRNTKKPLNMFFVELEPKPNNKE---IYKIKTLCGQRVKVERPRKR 65 (68)
T ss_pred HHHHHHHHHcCCceEE-------EEccccCCCCCCceEEEEeeccCccccc---eeehHhhCCeEEEEecCCCC
Confidence 5788888877754432 5556666666777788888876655333 34445677888888865543
No 171
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=63.22 E-value=4.3 Score=24.08 Aligned_cols=22 Identities=27% Similarity=0.908 Sum_probs=13.9
Q ss_pred ecCCCCCeeeeccccCccCCCC
Q 025700 217 SCPMCGNINWAKRTKCNICNTN 238 (249)
Q Consensus 217 ~c~~c~~~n~~~r~~c~~C~~~ 238 (249)
.|..|+.+.|--+..|..|...
T Consensus 13 rC~~Cg~~~~pPr~~Cp~C~s~ 34 (37)
T PF12172_consen 13 RCRDCGRVQFPPRPVCPHCGSD 34 (37)
T ss_dssp E-TTT--EEES--SEETTTT--
T ss_pred EcCCCCCEecCCCcCCCCcCcc
Confidence 5899999999999999999754
No 172
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=61.66 E-value=37 Score=32.98 Aligned_cols=78 Identities=18% Similarity=0.159 Sum_probs=54.7
Q ss_pred CCCCeEEecCCCCC-CCHHHHHHHHHhc----CCeeecCCCCCCeEEEEecC----------CCCC--------------
Q 025700 3 MANGSVYVCNLPHG-TDEDMLAEYFGTI----GLLKKDKRTGRPKVWLYRDK----------TTNE-------------- 53 (249)
Q Consensus 3 ~~~~tI~V~nLp~~-~te~dL~~~F~~~----G~i~~~~~~g~p~V~i~~d~----------~tg~-------------- 53 (249)
.++++|-|-||.++ +.-.||..+|..| |.|.+ |.|+... .+|.
T Consensus 172 ~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilS--------V~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s 243 (650)
T KOG2318|consen 172 EETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILS--------VKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKES 243 (650)
T ss_pred cccceeeEeccccccccHHHHHHHHHhhcCCCCceeE--------EEechhhhhHHHhhhhcccCChhhhccccccCccc
Confidence 45778999999964 6778999999877 45655 3333221 0111
Q ss_pred ----------------------cc-cEEEEEeCCHHHHHHHHHHhCCceecCeEEEEE
Q 025700 54 ----------------------YK-GDATVTYEDPHAALAAVEWFNNKDFHGNLIGVF 88 (249)
Q Consensus 54 ----------------------~r-G~aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~ 88 (249)
.+ =||.|+|.+.++|....+..+|.+|...-..+.
T Consensus 244 ~sD~ee~~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~D 301 (650)
T KOG2318|consen 244 ESDDEEEEDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLD 301 (650)
T ss_pred ccchhhhhhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceee
Confidence 11 169999999999999999999999885443333
No 173
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=61.59 E-value=5.5 Score=31.44 Aligned_cols=24 Identities=25% Similarity=0.772 Sum_probs=21.9
Q ss_pred eecCCCCCeeeeccccCccCCCCC
Q 025700 216 WSCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 216 w~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
-.|..|+.+-|--|..|.+|+.+-
T Consensus 30 ~kC~~CG~v~~PPr~~Cp~C~~~~ 53 (140)
T COG1545 30 TKCKKCGRVYFPPRAYCPKCGSET 53 (140)
T ss_pred EEcCCCCeEEcCCcccCCCCCCCC
Confidence 379999999999999999999883
No 174
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=61.42 E-value=4.3 Score=26.20 Aligned_cols=13 Identities=54% Similarity=1.467 Sum_probs=10.7
Q ss_pred CCCCeecCCCCCe
Q 025700 212 GPNDWSCPMCGNI 224 (249)
Q Consensus 212 ~~~dw~c~~c~~~ 224 (249)
-+.||.|+.|+..
T Consensus 31 Lp~~w~CP~C~a~ 43 (50)
T cd00730 31 LPDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCCCCc
Confidence 4689999999864
No 175
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=61.00 E-value=3.7 Score=27.90 Aligned_cols=13 Identities=54% Similarity=1.385 Sum_probs=11.2
Q ss_pred CCeecCCCCCeee
Q 025700 214 NDWSCPMCGNINW 226 (249)
Q Consensus 214 ~dw~c~~c~~~n~ 226 (249)
.-|.|+.|++.||
T Consensus 3 ~~~kCpKCgn~~~ 15 (68)
T COG3478 3 NAFKCPKCGNTNY 15 (68)
T ss_pred ccccCCCcCCcch
Confidence 3578999999998
No 176
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=60.84 E-value=9.8 Score=25.17 Aligned_cols=26 Identities=23% Similarity=0.745 Sum_probs=21.3
Q ss_pred ecCCCCCeeeeccccCccCCCCCCCCCC
Q 025700 217 SCPMCGNINWAKRTKCNICNTNKPGHNE 244 (249)
Q Consensus 217 ~c~~c~~~n~~~r~~c~~C~~~~~~~~~ 244 (249)
.|+.|+.-++ ...|..|+++-....+
T Consensus 7 ~C~~CgvYTL--k~~CP~CG~~t~~~~P 32 (56)
T PRK13130 7 KCPKCGVYTL--KEICPVCGGKTKNPHP 32 (56)
T ss_pred ECCCCCCEEc--cccCcCCCCCCCCCCC
Confidence 6999998887 8999999998765443
No 177
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=60.19 E-value=9.1 Score=31.57 Aligned_cols=74 Identities=16% Similarity=0.301 Sum_probs=49.1
Q ss_pred CeEEecCCCCCCCH-----HHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 025700 6 GSVYVCNLPHGTDE-----DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 6 ~tI~V~nLp~~~te-----~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
.+|++..|+..+-. ...+.+|.+|-.... .++++ +.++.-|.|.+++.|..|...++...|
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~--------fq~lr------sfrrvRi~f~~p~~a~~a~i~~~~~~f 76 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDAT--------FQLLR------SFRRVRINFSNPEAAADARIKLHSTSF 76 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchH--------HHHHH------hhceeEEeccChhHHHHHHHHhhhccc
Confidence 45777788765432 223455555544332 22332 334677899999999999999999999
Q ss_pred cCe-EEEEEecccC
Q 025700 81 HGN-LIGVFIAESR 93 (249)
Q Consensus 81 ~g~-~i~V~~a~~~ 93 (249)
.++ .++.-++.+.
T Consensus 77 ~~~~~~k~yfaQ~~ 90 (193)
T KOG4019|consen 77 NGKNELKLYFAQPG 90 (193)
T ss_pred CCCceEEEEEccCC
Confidence 987 7777776654
No 178
>PTZ00146 fibrillarin; Provisional
Probab=59.98 E-value=23 Score=31.62 Aligned_cols=7 Identities=0% Similarity=-0.083 Sum_probs=3.1
Q ss_pred ccccccc
Q 025700 167 CNRCGTA 173 (249)
Q Consensus 167 C~~C~~~ 173 (249)
|-++.+|
T Consensus 78 ~t~n~~p 84 (293)
T PTZ00146 78 VTKNMVP 84 (293)
T ss_pred EeecCCC
Confidence 4444444
No 179
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=59.85 E-value=5.1 Score=36.03 Aligned_cols=29 Identities=17% Similarity=0.380 Sum_probs=24.9
Q ss_pred CCeecCCCCCeeeeccccCccCCCCCCCC
Q 025700 214 NDWSCPMCGNINWAKRTKCNICNTNKPGH 242 (249)
Q Consensus 214 ~dw~c~~c~~~n~~~r~~c~~C~~~~~~~ 242 (249)
-||.|..|++.--.|...|+.|++--.-.
T Consensus 353 p~~~c~~cg~~~~~~~~~c~~c~~~~~~~ 381 (389)
T PRK11788 353 PRYRCRNCGFTARTLYWHCPSCKAWETIK 381 (389)
T ss_pred CCEECCCCCCCCccceeECcCCCCccCcC
Confidence 47999999999999999999999865433
No 180
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=57.13 E-value=25 Score=23.75 Aligned_cols=15 Identities=13% Similarity=0.477 Sum_probs=13.6
Q ss_pred HHHHHHHHhcCCeee
Q 025700 20 DMLAEYFGTIGLLKK 34 (249)
Q Consensus 20 ~dL~~~F~~~G~i~~ 34 (249)
.+|+++|++.|.|..
T Consensus 9 ~~iR~~fs~lG~I~v 23 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAV 23 (62)
T ss_pred HHHHHHHHhcCcEEE
Confidence 689999999999986
No 181
>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=56.92 E-value=12 Score=33.33 Aligned_cols=36 Identities=25% Similarity=0.180 Sum_probs=26.2
Q ss_pred EEEEeCCHHHHHHHHHHhCCceecCeEEEEEecccCCC
Q 025700 58 ATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95 (249)
Q Consensus 58 aFV~F~s~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~~~ 95 (249)
|||+|+++++|+.|++.+.... ...++|+.|.++.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APeP~D 36 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPEPDD 36 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCCccc
Confidence 7999999999999999654432 35557777655443
No 182
>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=56.48 E-value=37 Score=23.91 Aligned_cols=58 Identities=12% Similarity=-0.024 Sum_probs=39.8
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE 73 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~ 73 (249)
.-|+-.++..++..+|+..++++-.|+..+ |..+.-+. ..-=|||++...++|...-.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~------Vnt~~~~~---~~KKA~VtL~~g~~a~~va~ 72 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEK------VNTLITPR---GEKKAYVKLAEEYAAEEIAS 72 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEE------EEeEEcCC---CceEEEEEECCCCcHHHHHH
Confidence 456667889999999999998754454422 55544432 12249999998888876544
No 183
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=55.99 E-value=7.1 Score=32.19 Aligned_cols=32 Identities=25% Similarity=0.548 Sum_probs=27.3
Q ss_pred cCCCCCccCCCcCCCCCcccccccccccccCCCC
Q 025700 144 QQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVG 177 (249)
Q Consensus 144 ~r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~~~ 177 (249)
...|-|.|. .|-+.|-+.-..||.|...+-.+
T Consensus 20 ~Deg~WdCs--vCTFrNsAeAfkC~vCdvRKGTS 51 (228)
T KOG4477|consen 20 DDEGKWDCS--VCTFRNSAEAFKCFVCDVRKGTS 51 (228)
T ss_pred cccCceeee--eeeecchhhhhheeeeccccccc
Confidence 356899999 99999999999999998877444
No 184
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=55.70 E-value=2.1 Score=39.34 Aligned_cols=63 Identities=10% Similarity=0.052 Sum_probs=46.8
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
.+|+|.+|+..+...++.+.|..+|.|.... +- .+...-++-|+|....+...|+. +++.++.
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~--------~a----sk~~s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAH--------TA----SKSRSSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhh--------hh----ccCCCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 5799999999999999999999999887532 11 12223367789988888888887 5555554
No 185
>PRK04023 DNA polymerase II large subunit; Validated
Probab=55.65 E-value=14 Score=38.22 Aligned_cols=55 Identities=29% Similarity=0.666 Sum_probs=41.1
Q ss_pred cCCCCCccCCCcCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCeecCCCCC
Q 025700 144 QQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGN 223 (249)
Q Consensus 144 ~r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~ 223 (249)
-.-+.-.|+ .|+...+. ..|..|+...+ .-|.|+.|+.
T Consensus 622 VEVg~RfCp--sCG~~t~~--frCP~CG~~Te--------------------------------------~i~fCP~CG~ 659 (1121)
T PRK04023 622 VEIGRRKCP--SCGKETFY--RRCPFCGTHTE--------------------------------------PVYRCPRCGI 659 (1121)
T ss_pred ecccCccCC--CCCCcCCc--ccCCCCCCCCC--------------------------------------cceeCccccC
Confidence 455788999 99998654 48999998721 2578999986
Q ss_pred eeeeccccCccCCCCCCCC
Q 025700 224 INWAKRTKCNICNTNKPGH 242 (249)
Q Consensus 224 ~n~~~r~~c~~C~~~~~~~ 242 (249)
.. ....|.+|+.+....
T Consensus 660 ~~--~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 660 EV--EEDECEKCGREPTPY 676 (1121)
T ss_pred cC--CCCcCCCCCCCCCcc
Confidence 64 357799999876643
No 186
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=55.40 E-value=6 Score=25.22 Aligned_cols=24 Identities=33% Similarity=0.533 Sum_probs=21.7
Q ss_pred CCeecCCCCCeeeeccccCccCCC
Q 025700 214 NDWSCPMCGNINWAKRTKCNICNT 237 (249)
Q Consensus 214 ~dw~c~~c~~~n~~~r~~c~~C~~ 237 (249)
.-++|-.|.+.|-..-+.|-+|+.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 458999999999999999999986
No 187
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=54.86 E-value=11 Score=32.41 Aligned_cols=34 Identities=15% Similarity=0.411 Sum_probs=29.6
Q ss_pred CCCCCCeEEecCCCCCCCHHHHHHHHHhcCCeee
Q 025700 1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKK 34 (249)
Q Consensus 1 m~~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~ 34 (249)
|..+.+++|+-|||...|++.|..+..+.|.+..
T Consensus 36 ~~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~ 69 (261)
T KOG4008|consen 36 NSNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQE 69 (261)
T ss_pred ccccccceeeecccccccHHHHHHHHHHhhhhhh
Confidence 4567789999999999999999999999887654
No 188
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=54.86 E-value=36 Score=24.45 Aligned_cols=59 Identities=10% Similarity=-0.051 Sum_probs=40.3
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHH
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEW 74 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~ 74 (249)
..|+--++..++..+|++.++++-.|+..+ |..+.-+. ..-=|||++...++|......
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~------VnT~~~~~---~~KKA~V~L~~g~~A~~va~k 80 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEK------VNTLITPK---GEKKAYVKLAEEYDAEEIASR 80 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEE------EEeEEcCC---CcEEEEEEeCCCCcHHHHHHh
Confidence 345556788999999999999754454422 55554442 122499999998888876543
No 189
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=53.09 E-value=18 Score=33.24 Aligned_cols=67 Identities=21% Similarity=0.259 Sum_probs=46.2
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCC-C---CCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT-T---NEYKGDATVTYEDPHAALAAVEWFNNKDFH 81 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~-t---g~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~ 81 (249)
..|.|..||+..++.+|.+-+..|-.-.. +....+. . ..-...|||.|..+++.......++++.|.
T Consensus 8 ~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~---------~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 8 VKVVVRRLPPKLTEEQLLEQINPFPEHVN---------WEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred eeeeeecCCCcccHHHHhhhcCCCccccc---------hheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 46889999999999998887665422211 1111110 0 112567999999999999998889988765
No 190
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=50.58 E-value=19 Score=29.74 Aligned_cols=32 Identities=34% Similarity=0.521 Sum_probs=28.4
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHhcCCeee
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKK 34 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~~G~i~~ 34 (249)
.....+++.+++..++..++..+|..++.+..
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 254 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIVR 254 (306)
T ss_pred cccceeeccccccccchhHHHHhcccccccee
Confidence 35678999999999999999999999998865
No 191
>COG1773 Rubredoxin [Energy production and conversion]
Probab=49.49 E-value=8.5 Score=25.36 Aligned_cols=13 Identities=54% Similarity=1.326 Sum_probs=10.8
Q ss_pred CCCCCeecCCCCC
Q 025700 211 FGPNDWSCPMCGN 223 (249)
Q Consensus 211 ~~~~dw~c~~c~~ 223 (249)
.-+.||.|+.|+.
T Consensus 32 dlPd~w~CP~Cg~ 44 (55)
T COG1773 32 DLPDDWVCPECGV 44 (55)
T ss_pred hCCCccCCCCCCC
Confidence 3578999999996
No 192
>PHA00626 hypothetical protein
Probab=48.92 E-value=12 Score=24.78 Aligned_cols=23 Identities=43% Similarity=0.806 Sum_probs=14.0
Q ss_pred ecCCCCCeeee---------ccccCccCCCCC
Q 025700 217 SCPMCGNINWA---------KRTKCNICNTNK 239 (249)
Q Consensus 217 ~c~~c~~~n~~---------~r~~c~~C~~~~ 239 (249)
.||.|+..|.. -+-.|..|+--.
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~f 33 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYND 33 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcCCCCCee
Confidence 57888776543 345677776443
No 193
>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=48.76 E-value=7.6 Score=28.19 Aligned_cols=25 Identities=24% Similarity=0.424 Sum_probs=21.0
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHH
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFG 27 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~ 27 (249)
...++|.|.|||....|++|++.++
T Consensus 50 vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 50 VSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred ccCCEEEEeCCCCCCChhhheeeEE
Confidence 3567899999999999999988644
No 194
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 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 [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families include mammalian, yeast, Chlamydomonas reinhardtii and Entamoeba histolytica S27, and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0250 []. These proteins have from 62 to 87 amino acids. They contain, in their central section, a putative zinc-finger region of the type C-x(2)-C-x(14)-C-x(2)-C.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1QXF_A 3IZ6_X 2XZN_6 2XZM_6 3U5G_b 3IZB_X 3U5C_b.
Probab=46.97 E-value=13 Score=24.51 Aligned_cols=25 Identities=40% Similarity=0.719 Sum_probs=16.6
Q ss_pred CeecCCCCCeee-----eccccCccCCCCC
Q 025700 215 DWSCPMCGNINW-----AKRTKCNICNTNK 239 (249)
Q Consensus 215 dw~c~~c~~~n~-----~~r~~c~~C~~~~ 239 (249)
|.+|+.|.+++- +....|..|++..
T Consensus 7 ~VkCp~C~~~q~vFSha~t~V~C~~Cg~~L 36 (55)
T PF01667_consen 7 DVKCPGCYNIQTVFSHAQTVVKCVVCGTVL 36 (55)
T ss_dssp EEE-TTT-SEEEEETT-SS-EE-SSSTSEE
T ss_pred EEECCCCCCeeEEEecCCeEEEcccCCCEe
Confidence 678999999876 5567899998765
No 195
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=46.42 E-value=6.6 Score=39.69 Aligned_cols=51 Identities=27% Similarity=0.683 Sum_probs=0.0
Q ss_pred CCCCCccCCCcCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCeecCCCCCe
Q 025700 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNI 224 (249)
Q Consensus 145 r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~~ 224 (249)
.=+.-.|+ .|+...|.. .|-.|+.... --|.|+.|+..
T Consensus 652 ei~~r~Cp--~Cg~~t~~~--~Cp~CG~~T~--------------------------------------~~~~Cp~C~~~ 689 (900)
T PF03833_consen 652 EIGRRRCP--KCGKETFYN--RCPECGSHTE--------------------------------------PVYVCPDCGIE 689 (900)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred eeecccCc--ccCCcchhh--cCcccCCccc--------------------------------------cceeccccccc
Confidence 34678898 999998766 7989987741 26889999976
Q ss_pred eeeccccCccCCCCC
Q 025700 225 NWAKRTKCNICNTNK 239 (249)
Q Consensus 225 n~~~r~~c~~C~~~~ 239 (249)
.- ..+|.+|+.+-
T Consensus 690 ~~--~~~C~~C~~~~ 702 (900)
T PF03833_consen 690 VE--EDECPKCGRET 702 (900)
T ss_dssp ---------------
T ss_pred cC--ccccccccccC
Confidence 53 45999998763
No 196
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=46.21 E-value=12 Score=25.51 Aligned_cols=26 Identities=35% Similarity=0.712 Sum_probs=20.3
Q ss_pred CeecCCCCCeee-----eccccCccCCCCCC
Q 025700 215 DWSCPMCGNINW-----AKRTKCNICNTNKP 240 (249)
Q Consensus 215 dw~c~~c~~~n~-----~~r~~c~~C~~~~~ 240 (249)
+..|+.|+|..- +....|+-|++-..
T Consensus 19 ~VkCpdC~N~q~vFshast~V~C~~CG~~l~ 49 (67)
T COG2051 19 RVKCPDCGNEQVVFSHASTVVTCLICGTTLA 49 (67)
T ss_pred EEECCCCCCEEEEeccCceEEEecccccEEE
Confidence 578999998754 66788999987543
No 197
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=45.38 E-value=13 Score=27.99 Aligned_cols=27 Identities=30% Similarity=0.717 Sum_probs=21.5
Q ss_pred eecCCCCCeee---eccccCccCCCCCCCC
Q 025700 216 WSCPMCGNINW---AKRTKCNICNTNKPGH 242 (249)
Q Consensus 216 w~c~~c~~~n~---~~r~~c~~C~~~~~~~ 242 (249)
+.|+.|+..-| .....|++|++..+-.
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 57999998755 5677899999887655
No 198
>PLN00209 ribosomal protein S27; Provisional
Probab=45.36 E-value=15 Score=26.42 Aligned_cols=26 Identities=31% Similarity=0.446 Sum_probs=21.6
Q ss_pred CeecCCCCCeee-----eccccCccCCCCCC
Q 025700 215 DWSCPMCGNINW-----AKRTKCNICNTNKP 240 (249)
Q Consensus 215 dw~c~~c~~~n~-----~~r~~c~~C~~~~~ 240 (249)
|..|+.|.+++- +..+.|..|++...
T Consensus 36 ~VkCp~C~n~q~VFShA~t~V~C~~Cg~~L~ 66 (86)
T PLN00209 36 DVKCQGCFNITTVFSHSQTVVVCGSCQTVLC 66 (86)
T ss_pred EEECCCCCCeeEEEecCceEEEccccCCEee
Confidence 689999999876 56788999998774
No 199
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=42.59 E-value=13 Score=23.41 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=8.9
Q ss_pred CeecCCCCCeeee
Q 025700 215 DWSCPMCGNINWA 227 (249)
Q Consensus 215 dw~c~~c~~~n~~ 227 (249)
.|.|+.|+++-..
T Consensus 20 ~~vC~~Cg~~~~~ 32 (52)
T smart00661 20 RFVCRKCGYEEPI 32 (52)
T ss_pred EEECCcCCCeEEC
Confidence 5778778776544
No 200
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=41.84 E-value=21 Score=27.95 Aligned_cols=29 Identities=28% Similarity=0.604 Sum_probs=20.6
Q ss_pred CCCCeecCCCCCeeeec------------------------cccCccCCCCCCC
Q 025700 212 GPNDWSCPMCGNINWAK------------------------RTKCNICNTNKPG 241 (249)
Q Consensus 212 ~~~dw~c~~c~~~n~~~------------------------r~~c~~C~~~~~~ 241 (249)
.+.-|.|..|+.. |.. ...|+.|+.....
T Consensus 67 ~p~~~~C~~CG~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~ 119 (135)
T PRK03824 67 EEAVLKCRNCGNE-WSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFE 119 (135)
T ss_pred cceEEECCCCCCE-EecccccccccccccccccccccccccCcCCcCCCCCCcE
Confidence 4567999999955 433 2459999987543
No 201
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=41.69 E-value=19 Score=22.37 Aligned_cols=24 Identities=21% Similarity=0.610 Sum_probs=13.4
Q ss_pred eecCCCCCeee----eccccCccCCCCC
Q 025700 216 WSCPMCGNINW----AKRTKCNICNTNK 239 (249)
Q Consensus 216 w~c~~c~~~n~----~~r~~c~~C~~~~ 239 (249)
..|+.|+...- .....|+.|+.+.
T Consensus 4 y~C~~CG~~~~~~~~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 4 YKCARCGREVELDEYGTGVRCPYCGYRI 31 (46)
T ss_pred EECCCCCCEEEECCCCCceECCCCCCeE
Confidence 35667766542 1245677776654
No 202
>KOG0712 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=41.27 E-value=53 Score=29.87 Aligned_cols=21 Identities=5% Similarity=0.279 Sum_probs=17.6
Q ss_pred ecCCCCCCCHHHHHHHHHhcC
Q 025700 10 VCNLPHGTDEDMLAEYFGTIG 30 (249)
Q Consensus 10 V~nLp~~~te~dL~~~F~~~G 30 (249)
|-+|++++|++||+..+.+.-
T Consensus 9 il~v~~~As~~eikkayrkla 29 (337)
T KOG0712|consen 9 ILGVSPDASEEEIKKAYRKLA 29 (337)
T ss_pred eeccCCCcCHHHHHHHHHHHH
Confidence 668999999999998887653
No 203
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=41.15 E-value=19 Score=25.91 Aligned_cols=26 Identities=27% Similarity=0.565 Sum_probs=21.5
Q ss_pred CeecCCCCCeee-----eccccCccCCCCCC
Q 025700 215 DWSCPMCGNINW-----AKRTKCNICNTNKP 240 (249)
Q Consensus 215 dw~c~~c~~~n~-----~~r~~c~~C~~~~~ 240 (249)
|..|+.|.+++- +..+.|..|++...
T Consensus 35 ~VkCp~C~n~q~VFShA~t~V~C~~Cg~~L~ 65 (85)
T PTZ00083 35 DVKCPGCSQITTVFSHAQTVVLCGGCSSQLC 65 (85)
T ss_pred EEECCCCCCeeEEEecCceEEEccccCCEee
Confidence 689999999876 56778999998763
No 204
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=40.59 E-value=71 Score=24.55 Aligned_cols=50 Identities=14% Similarity=0.163 Sum_probs=32.3
Q ss_pred CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEE---ecCCCCCcccEEEEEeCCHHHHHHH
Q 025700 15 HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLY---RDKTTNEYKGDATVTYEDPHAALAA 71 (249)
Q Consensus 15 ~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~---~d~~tg~~rG~aFV~F~s~~~A~~A 71 (249)
..++.+||++-+.+.-....+. |.++ ..--++++.|||.| |++.+.|...
T Consensus 33 a~vsK~EirEKla~mYkt~~d~------V~vfgfrt~~GggkstgfalI-Ydsve~akkf 85 (132)
T KOG3424|consen 33 ANVSKTEIREKLAKMYKTTPDA------VFVFGFRTHFGGGKSTGFALI-YDSVEYAKKF 85 (132)
T ss_pred CCCCHHHHHHHHHHHhcCCcce------EEEEEeeeccCCcccceeeee-eehHHHHHhc
Confidence 4678999999888765444332 4332 33346788889875 7777766643
No 205
>PRK00420 hypothetical protein; Validated
Probab=40.54 E-value=16 Score=27.74 Aligned_cols=24 Identities=21% Similarity=0.517 Sum_probs=19.1
Q ss_pred ecCCCCCeeee---ccccCccCCCCCC
Q 025700 217 SCPMCGNINWA---KRTKCNICNTNKP 240 (249)
Q Consensus 217 ~c~~c~~~n~~---~r~~c~~C~~~~~ 240 (249)
.||.|+...|. ....|..|+.+..
T Consensus 25 ~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 25 HCPVCGLPLFELKDGEVVCPVHGKVYI 51 (112)
T ss_pred CCCCCCCcceecCCCceECCCCCCeee
Confidence 69999998884 6778999987543
No 206
>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.
Probab=39.50 E-value=15 Score=23.45 Aligned_cols=25 Identities=28% Similarity=0.643 Sum_probs=17.7
Q ss_pred CCccCCCcCCCCC----cccccccccccc
Q 025700 148 DWMCPNTSCSNVN----FAFRGVCNRCGT 172 (249)
Q Consensus 148 dw~C~~~~c~~~n----f~~r~~C~~C~~ 172 (249)
...||++.|+... ...|..|-+|+.
T Consensus 18 rk~CP~~~CG~GvFMA~H~dR~~CGKCg~ 46 (47)
T PF01599_consen 18 RKECPSPRCGAGVFMAEHKDRHYCGKCGY 46 (47)
T ss_dssp SEE-TSTTTTSSSEEEE-SSEEEETTTSS
T ss_pred hhcCCCcccCCceEeeecCCCccCCCccc
Confidence 4679988998855 456778999875
No 207
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=37.95 E-value=7 Score=33.29 Aligned_cols=58 Identities=22% Similarity=0.318 Sum_probs=45.2
Q ss_pred CCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 025700 13 LPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 13 Lp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~ 79 (249)
|...++++.+.+.|++-+.+.. +++.++.+ ++++.+.|+++....+.-.++..+.+..
T Consensus 92 ld~r~~~ei~~~v~s~a~p~~~--------~R~~~~~d-~rnrn~~~~~~qr~~~~P~~~~~y~~l~ 149 (267)
T KOG4454|consen 92 LDERVTEEILYEVFSQAGPIEG--------VRIPTDND-GRNRNFGFVTYQRLCAVPFALDLYQGLE 149 (267)
T ss_pred hhhhcchhhheeeecccCCCCC--------cccccccc-CCccCccchhhhhhhcCcHHhhhhcccC
Confidence 6667788888888888888876 66777765 7889999999988877777777666543
No 208
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=37.77 E-value=31 Score=30.50 Aligned_cols=72 Identities=15% Similarity=0.241 Sum_probs=42.7
Q ss_pred CCeEEecCCCCC------------CCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCccc-----EE---------
Q 025700 5 NGSVYVCNLPHG------------TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKG-----DA--------- 58 (249)
Q Consensus 5 ~~tI~V~nLp~~------------~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG-----~a--------- 58 (249)
..|||+.+||-. .+|+-|+..|..||.|..+. .|.+.-++..-+++..| |+
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vd---ipicdplr~~mn~kisgiq~~gfg~g~dlffea 225 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVD---IPICDPLREEMNGKISGIQFHGFGFGGDLFFEA 225 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecC---CcccchhHHHhcCccccceeeccccCcchhHHH
Confidence 579999999832 45678999999999998743 23333333334455433 32
Q ss_pred EEEeCCHHHHHHHHHHhCCce
Q 025700 59 TVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 59 FV~F~s~~~A~~Ai~~l~g~~ 79 (249)
||+|..-..-..||..|.+..
T Consensus 226 yvqfmeykgfa~amdalr~~k 246 (445)
T KOG2891|consen 226 YVQFMEYKGFAQAMDALRGMK 246 (445)
T ss_pred HHHHHHHHhHHHHHHHHhcch
Confidence 344443334445666565544
No 209
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=36.82 E-value=8.5 Score=30.88 Aligned_cols=27 Identities=19% Similarity=0.474 Sum_probs=19.0
Q ss_pred CCeecC-CCCC-eeeeccccCccCCCCCC
Q 025700 214 NDWSCP-MCGN-INWAKRTKCNICNTNKP 240 (249)
Q Consensus 214 ~dw~c~-~c~~-~n~~~r~~c~~C~~~~~ 240 (249)
|+|.++ .+.. .++.....|+.|+.|.|
T Consensus 51 G~y~v~gv~~~g~~~~~PsYC~~CGkpyP 79 (158)
T PF10083_consen 51 GDYHVEGVFGLGGHYEAPSYCHNCGKPYP 79 (158)
T ss_pred CceecCCeeeeCCCCCCChhHHhCCCCCc
Confidence 466675 3333 45667889999999987
No 210
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=35.62 E-value=18 Score=23.70 Aligned_cols=9 Identities=44% Similarity=1.062 Sum_probs=4.5
Q ss_pred eecCCCCCe
Q 025700 216 WSCPMCGNI 224 (249)
Q Consensus 216 w~c~~c~~~ 224 (249)
..|+.|++.
T Consensus 22 VvCp~Cgap 30 (54)
T PF14446_consen 22 VVCPECGAP 30 (54)
T ss_pred EECCCCCCc
Confidence 445555544
No 211
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=35.51 E-value=27 Score=20.57 Aligned_cols=23 Identities=22% Similarity=0.595 Sum_probs=14.6
Q ss_pred ecCCCCCeeeec---------cccCccCCCCC
Q 025700 217 SCPMCGNINWAK---------RTKCNICNTNK 239 (249)
Q Consensus 217 ~c~~c~~~n~~~---------r~~c~~C~~~~ 239 (249)
.|+.|+..+... ...|..|+++.
T Consensus 4 ~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 4 QCPNCKTSFRVVDSQLGANGGKVRCGKCGHVW 35 (38)
T ss_pred ECCCCCCEEEeCHHHcCCCCCEEECCCCCCEE
Confidence 577888765522 25777777653
No 212
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=35.37 E-value=1.4e+02 Score=22.35 Aligned_cols=43 Identities=21% Similarity=0.217 Sum_probs=29.5
Q ss_pred HHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 025700 20 DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE 73 (249)
Q Consensus 20 ~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~ 73 (249)
.+|.+++++.|.-.. .|+.+..+... |+++++.+.+...++|.
T Consensus 27 PE~~a~lk~agi~nY---------SIfLde~~n~l--Fgy~E~~d~~a~m~~~a 69 (105)
T COG3254 27 PELLALLKEAGIRNY---------SIFLDEEENLL--FGYWEYEDFEADMAKMA 69 (105)
T ss_pred HHHHHHHHHcCCcee---------EEEecCCcccE--EEEEEEcChHHHHHHHh
Confidence 567888888885543 36777655544 99999996666555543
No 213
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=35.14 E-value=26 Score=27.27 Aligned_cols=28 Identities=36% Similarity=0.825 Sum_probs=22.6
Q ss_pred CCCCCeecCCCCCeeeeccccCccCCCCC
Q 025700 211 FGPNDWSCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 211 ~~~~dw~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
....+|.|..|... |--...|..|++-.
T Consensus 93 ~~~~~W~Cv~C~~~-Y~GeK~C~~C~tGi 120 (128)
T PF11682_consen 93 PRKTDWHCVMCGNH-YHGEKYCPKCGTGI 120 (128)
T ss_pred CcCceEEEecCCCc-cCcCEecCCCCCcc
Confidence 46789999999987 45579999998743
No 214
>PHA01632 hypothetical protein
Probab=34.31 E-value=43 Score=22.10 Aligned_cols=21 Identities=14% Similarity=0.347 Sum_probs=16.6
Q ss_pred EEecCCCCCCCHHHHHHHHHh
Q 025700 8 VYVCNLPHGTDEDMLAEYFGT 28 (249)
Q Consensus 8 I~V~nLp~~~te~dL~~~F~~ 28 (249)
|.|..+|..-||++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 345688999999999977654
No 215
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=34.13 E-value=2.2e+02 Score=21.99 Aligned_cols=74 Identities=15% Similarity=0.211 Sum_probs=48.7
Q ss_pred CCCCeEEecCCCCC---CCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 025700 3 MANGSVYVCNLPHG---TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 3 ~~~~tI~V~nLp~~---~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~ 79 (249)
.++..|.|+..... .+-..|.+.+.+-|.-.. .+..+. .-..|.|++.++..+|.+.|....
T Consensus 33 gedpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~k---------si~~~~------~~~~irf~~~~~Ql~Ak~vL~~~L 97 (127)
T PRK10629 33 QQESTLAIRAVHQGASLPDGFYVYQHLDANGIHIK---------SITPEN------DSLLIRFDSPEQSAAAKEVLDRTL 97 (127)
T ss_pred CCCceEEEecCCCCCccchHHHHHHHHHHCCCCcc---------eEEeeC------CEEEEEECCHHHHHHHHHHHHHHc
Confidence 35567777766433 466778888887764322 132222 158999999999999988887665
Q ss_pred ecCeEEEEEecc
Q 025700 80 FHGNLIGVFIAE 91 (249)
Q Consensus 80 ~~g~~i~V~~a~ 91 (249)
-.+..|.+.++.
T Consensus 98 ~~~y~VAlnl~p 109 (127)
T PRK10629 98 PHGYIIAQQDDN 109 (127)
T ss_pred CCCCEEEEecCC
Confidence 455666666654
No 216
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=33.80 E-value=1.1e+02 Score=24.29 Aligned_cols=57 Identities=12% Similarity=0.024 Sum_probs=37.4
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV 72 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai 72 (249)
..|+--+....+..+|++.+++.-.|...+ |..+.-+. + .-=|||.+....+|....
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~k------VNTli~p~-g--~KKA~V~L~~~~~aidva 139 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVK------VNTLITPD-G--LKKAYIRLSPDVDALDVA 139 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEE------EEeEEcCC-C--ceEEEEEECCCCcHHHHH
Confidence 455566788999999999999855555433 55544432 1 124999998777655443
No 217
>PF12523 DUF3725: Protein of unknown function (DUF3725); InterPro: IPR022199 This domain family is found in viruses, and is approximately 70 amino acids in length. The family is found in association with PF01577 from PFAM. There is a conserved FLE sequence motif.
Probab=33.01 E-value=21 Score=24.46 Aligned_cols=17 Identities=29% Similarity=0.759 Sum_probs=13.7
Q ss_pred CCCCCeecCCCCCeeee
Q 025700 211 FGPNDWSCPMCGNINWA 227 (249)
Q Consensus 211 ~~~~dw~c~~c~~~n~~ 227 (249)
|..++|.|-.|++.|-.
T Consensus 55 fe~Elw~Ch~C~~ts~k 71 (74)
T PF12523_consen 55 FESELWECHSCDNTSTK 71 (74)
T ss_pred CccceEEeecCCCchhh
Confidence 56789999999987743
No 218
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=32.83 E-value=27 Score=20.75 Aligned_cols=22 Identities=32% Similarity=0.783 Sum_probs=11.9
Q ss_pred eecCCCCCeee------eccccCccCCC
Q 025700 216 WSCPMCGNINW------AKRTKCNICNT 237 (249)
Q Consensus 216 w~c~~c~~~n~------~~r~~c~~C~~ 237 (249)
|.|+.|+.+.. .....|-.|+.
T Consensus 2 r~C~~Cg~~Yh~~~~pP~~~~~Cd~cg~ 29 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNPPKVEGVCDNCGG 29 (36)
T ss_dssp EEETTTTEEEETTTB--SSTTBCTTTTE
T ss_pred cCcCCCCCccccccCCCCCCCccCCCCC
Confidence 66777775543 22345555554
No 219
>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=32.34 E-value=1e+02 Score=27.44 Aligned_cols=79 Identities=9% Similarity=0.199 Sum_probs=53.1
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCC-------CCCcccEEEEEeCCHHHHHHHHH----
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT-------TNEYKGDATVTYEDPHAALAAVE---- 73 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~-------tg~~rG~aFV~F~s~~~A~~Ai~---- 73 (249)
++.|.+.||..+++--++...|.+||.|++ |.++.+.. .-+..--..+.|-+.+.+.....
T Consensus 15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIES--------iYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQ 86 (309)
T PF10567_consen 15 TRSLLFENVNNSIDLHSFLTKFVKFGPIES--------IYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQ 86 (309)
T ss_pred eHHHHHhhccccccHHHHHHHhhccCceeE--------EEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHH
Confidence 467888999999988888889999999999 77877651 11223457889998888765432
Q ss_pred HhCC--ceecCeEEEEEecc
Q 025700 74 WFNN--KDFHGNLIGVFIAE 91 (249)
Q Consensus 74 ~l~g--~~~~g~~i~V~~a~ 91 (249)
.|.. ..+.-..|.|.+..
T Consensus 87 rLsEfK~~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 87 RLSEFKTKLKSESLTLSFVS 106 (309)
T ss_pred HHHHHHHhcCCcceeEEEEE
Confidence 2221 23444555555543
No 220
>COG4260 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]
Probab=31.91 E-value=30 Score=30.70 Aligned_cols=19 Identities=32% Similarity=1.024 Sum_probs=15.8
Q ss_pred CCCeecCCCCCeeeeccccCccCC
Q 025700 213 PNDWSCPMCGNINWAKRTKCNICN 236 (249)
Q Consensus 213 ~~dw~c~~c~~~n~~~r~~c~~C~ 236 (249)
+.+|.|+.|.-.| +|..|+
T Consensus 304 a~t~~~~r~~k~n-----fc~ncG 322 (345)
T COG4260 304 AATWPCARCAKLN-----FCLNCG 322 (345)
T ss_pred cccCcchhccccc-----cccccC
Confidence 5789999999888 677777
No 221
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=31.68 E-value=32 Score=26.73 Aligned_cols=28 Identities=14% Similarity=0.265 Sum_probs=21.3
Q ss_pred CeecCCCCCeee---eccccCccCCCCCCCC
Q 025700 215 DWSCPMCGNINW---AKRTKCNICNTNKPGH 242 (249)
Q Consensus 215 dw~c~~c~~~n~---~~r~~c~~C~~~~~~~ 242 (249)
-+.|+.|+..-| .....|.+|++..+..
T Consensus 9 Kr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 9 KRICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred cccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 357999998755 5688999999876544
No 222
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=29.87 E-value=18 Score=32.76 Aligned_cols=12 Identities=42% Similarity=1.254 Sum_probs=9.7
Q ss_pred CCCeecCCCCCe
Q 025700 213 PNDWSCPMCGNI 224 (249)
Q Consensus 213 ~~dw~c~~c~~~ 224 (249)
..+|.|+.|+-.
T Consensus 263 ~~~wrCpkCGg~ 274 (403)
T COG1379 263 SLRWRCPKCGGK 274 (403)
T ss_pred hhcccCcccccc
Confidence 468999999963
No 223
>PRK11901 hypothetical protein; Reviewed
Probab=29.55 E-value=1.2e+02 Score=27.35 Aligned_cols=60 Identities=15% Similarity=0.174 Sum_probs=38.5
Q ss_pred CeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEE--EEEeCCHHHHHHHHHHhCCc
Q 025700 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDA--TVTYEDPHAALAAVEWFNNK 78 (249)
Q Consensus 6 ~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~a--FV~F~s~~~A~~Ai~~l~g~ 78 (249)
.+|-|.. ...++.|+.|..++. +.. ++++.....|+. -|. +=.|.+.++|++||..|...
T Consensus 246 YTLQL~A---as~~~~L~~f~~~~~-L~~--------~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa~ 307 (327)
T PRK11901 246 YTLQLSS---ASRSDTLNAYAKKQN-LSH--------YHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPAE 307 (327)
T ss_pred eEEEeec---CCCHHHHHHHHHHcC-cCc--------eEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCHH
Confidence 3444443 345788888888775 333 666665544443 122 23689999999999988653
No 224
>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=29.14 E-value=42 Score=20.09 Aligned_cols=16 Identities=50% Similarity=0.600 Sum_probs=10.4
Q ss_pred CCCCHHHHHHHHHhcC
Q 025700 15 HGTDEDMLAEYFGTIG 30 (249)
Q Consensus 15 ~~~te~dL~~~F~~~G 30 (249)
.++++++|++.|.+..
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 4789999999998754
No 225
>COG4907 Predicted membrane protein [Function unknown]
Probab=28.59 E-value=1.1e+02 Score=29.17 Aligned_cols=15 Identities=13% Similarity=0.372 Sum_probs=8.0
Q ss_pred HHHHHHHHhcCCeee
Q 025700 20 DMLAEYFGTIGLLKK 34 (249)
Q Consensus 20 ~dL~~~F~~~G~i~~ 34 (249)
+..+.+++.|..++.
T Consensus 489 ~aFKnfLsd~s~lke 503 (595)
T COG4907 489 QAFKNFLSDYSQLKE 503 (595)
T ss_pred HHHHHHHHhHHHHhh
Confidence 344555555655554
No 226
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=28.36 E-value=48 Score=25.06 Aligned_cols=29 Identities=17% Similarity=0.442 Sum_probs=20.5
Q ss_pred CCCCeecCCCCCeeeec---c-ccCccCCCCCCC
Q 025700 212 GPNDWSCPMCGNINWAK---R-TKCNICNTNKPG 241 (249)
Q Consensus 212 ~~~dw~c~~c~~~n~~~---r-~~c~~C~~~~~~ 241 (249)
.|..+.|..|+.. |.. . ..|+.|+.+...
T Consensus 67 ~p~~~~C~~Cg~~-~~~~~~~~~~CP~Cgs~~~~ 99 (114)
T PRK03681 67 QEAECWCETCQQY-VTLLTQRVRRCPQCHGDMLR 99 (114)
T ss_pred eCcEEEcccCCCe-eecCCccCCcCcCcCCCCcE
Confidence 4667899999964 432 2 559999977543
No 227
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=28.00 E-value=33 Score=20.19 Aligned_cols=23 Identities=43% Similarity=1.181 Sum_probs=13.2
Q ss_pred cCCCCCeeeec-----cccCccCCCCCC
Q 025700 218 CPMCGNINWAK-----RTKCNICNTNKP 240 (249)
Q Consensus 218 c~~c~~~n~~~-----r~~c~~C~~~~~ 240 (249)
|+.|+++-+.. +..|.+|....+
T Consensus 4 Cp~C~nlL~p~~~~~~~~~C~~C~Y~~~ 31 (35)
T PF02150_consen 4 CPECGNLLYPKEDKEKRVACRTCGYEEP 31 (35)
T ss_dssp ETTTTSBEEEEEETTTTEEESSSS-EEE
T ss_pred CCCCCccceEcCCCccCcCCCCCCCccC
Confidence 77888776622 114777765443
No 228
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=27.71 E-value=48 Score=24.94 Aligned_cols=26 Identities=23% Similarity=0.698 Sum_probs=19.4
Q ss_pred CCeecCCCCCeeee----ccccCccCCCCC
Q 025700 214 NDWSCPMCGNINWA----KRTKCNICNTNK 239 (249)
Q Consensus 214 ~dw~c~~c~~~n~~----~r~~c~~C~~~~ 239 (249)
..|.|+.|+..-+. +...|++|+...
T Consensus 41 ~~~~C~~Cg~~~~~~~SCk~R~CP~C~~~~ 70 (111)
T PF14319_consen 41 HRYRCEDCGHEKIVYNSCKNRHCPSCQAKA 70 (111)
T ss_pred ceeecCCCCceEEecCcccCcCCCCCCChH
Confidence 36899999998773 334889998653
No 229
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=27.29 E-value=45 Score=21.91 Aligned_cols=24 Identities=33% Similarity=0.956 Sum_probs=16.6
Q ss_pred Ce-ecCCCCCeee----------eccccCccCCCC
Q 025700 215 DW-SCPMCGNINW----------AKRTKCNICNTN 238 (249)
Q Consensus 215 dw-~c~~c~~~n~----------~~r~~c~~C~~~ 238 (249)
.| .||.|++..- -....|.+|+..
T Consensus 3 ~Wi~CP~CgnKTR~kir~DT~LkNfPlyCpKCK~E 37 (55)
T PF14205_consen 3 EWILCPICGNKTRLKIREDTVLKNFPLYCPKCKQE 37 (55)
T ss_pred eEEECCCCCCccceeeecCceeccccccCCCCCce
Confidence 35 4799996542 345789999865
No 230
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.59 E-value=39 Score=24.67 Aligned_cols=26 Identities=23% Similarity=0.511 Sum_probs=19.2
Q ss_pred ecCCCCCeeee----ccccCccCCCCCCCC
Q 025700 217 SCPMCGNINWA----KRTKCNICNTNKPGH 242 (249)
Q Consensus 217 ~c~~c~~~n~~----~r~~c~~C~~~~~~~ 242 (249)
.|-.||+.-+. ....|++|+...-++
T Consensus 60 ~CkkCGfef~~~~ik~pSRCP~CKSE~Ie~ 89 (97)
T COG3357 60 RCKKCGFEFRDDKIKKPSRCPKCKSEWIEE 89 (97)
T ss_pred hhcccCccccccccCCcccCCcchhhcccC
Confidence 49999998664 366799998766544
No 231
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=26.45 E-value=57 Score=24.61 Aligned_cols=30 Identities=17% Similarity=0.395 Sum_probs=20.6
Q ss_pred CCCCeecCCCCCeee--eccccCccCCCCCCC
Q 025700 212 GPNDWSCPMCGNINW--AKRTKCNICNTNKPG 241 (249)
Q Consensus 212 ~~~dw~c~~c~~~n~--~~r~~c~~C~~~~~~ 241 (249)
.|..+.|..|+..-- .....|+.|+.+...
T Consensus 67 vp~~~~C~~Cg~~~~~~~~~~~CP~Cgs~~~~ 98 (113)
T PRK12380 67 KPAQAWCWDCSQVVEIHQHDAQCPHCHGERLR 98 (113)
T ss_pred eCcEEEcccCCCEEecCCcCccCcCCCCCCcE
Confidence 466789999995422 234559999977543
No 232
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=26.39 E-value=32 Score=23.38 Aligned_cols=11 Identities=45% Similarity=1.395 Sum_probs=9.0
Q ss_pred eecCCCCCeee
Q 025700 216 WSCPMCGNINW 226 (249)
Q Consensus 216 w~c~~c~~~n~ 226 (249)
|.|+.|++..+
T Consensus 1 y~C~KCg~~~~ 11 (64)
T PF09855_consen 1 YKCPKCGNEEY 11 (64)
T ss_pred CCCCCCCCcce
Confidence 78999988776
No 233
>PF14893 PNMA: PNMA
Probab=26.18 E-value=52 Score=29.88 Aligned_cols=26 Identities=15% Similarity=0.289 Sum_probs=21.5
Q ss_pred CCCCeEEecCCCCCCCHHHHHHHHHh
Q 025700 3 MANGSVYVCNLPHGTDEDMLAEYFGT 28 (249)
Q Consensus 3 ~~~~tI~V~nLp~~~te~dL~~~F~~ 28 (249)
.+-+.|.|.+||.++++++|++.+..
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHH
Confidence 34567899999999999999988763
No 234
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=25.66 E-value=38 Score=36.03 Aligned_cols=24 Identities=29% Similarity=0.868 Sum_probs=16.3
Q ss_pred CCeecCCCCCeeeeccccCccCCCCC
Q 025700 214 NDWSCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 214 ~dw~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
+.-.|+.|+..++.. .|..|+++.
T Consensus 666 ~~rkCPkCG~~t~~~--fCP~CGs~t 689 (1337)
T PRK14714 666 GRRRCPSCGTETYEN--RCPDCGTHT 689 (1337)
T ss_pred EEEECCCCCCccccc--cCcccCCcC
Confidence 346788888777653 777777664
No 235
>PF09567 RE_MamI: MamI restriction endonuclease; InterPro: IPR019067 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the MamI restriction endonuclease which recognises and cleaves GATNN^NNATC. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=25.40 E-value=37 Score=29.55 Aligned_cols=23 Identities=22% Similarity=0.554 Sum_probs=20.4
Q ss_pred ecCCCCCeeeeccccCccCCCCC
Q 025700 217 SCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 217 ~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
+|..|+...-++..+|..|+...
T Consensus 84 ~C~~CGa~V~~~e~~Cp~C~Stn 106 (314)
T PF09567_consen 84 KCNNCGANVSRLEESCPNCGSTN 106 (314)
T ss_pred hhccccceeeehhhcCCCCCccc
Confidence 59999999999999999998654
No 236
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=25.14 E-value=36 Score=21.29 Aligned_cols=19 Identities=32% Similarity=0.763 Sum_probs=14.2
Q ss_pred CeecCCCCCeeeeccccCc
Q 025700 215 DWSCPMCGNINWAKRTKCN 233 (249)
Q Consensus 215 dw~c~~c~~~n~~~r~~c~ 233 (249)
-=+|+.|+..|=.+-..|-
T Consensus 11 irkCp~CGt~NG~R~~~CK 29 (44)
T PF14952_consen 11 IRKCPKCGTYNGTRGLSCK 29 (44)
T ss_pred cccCCcCcCccCccccccc
Confidence 4479999999966665664
No 237
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=24.97 E-value=12 Score=36.12 Aligned_cols=67 Identities=13% Similarity=0.041 Sum_probs=41.9
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD 79 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~ 79 (249)
..+|+|.|+++.++-++|+.+...+-.+.. +.+.....-....-+..|+|.---....|+.+||+..
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lr--------fals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~ir 297 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLR--------FALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIR 297 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchhee--------eeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcc
Confidence 457899999999999999999887644433 2222221112234467788875555555555555543
No 238
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=24.76 E-value=1.4e+02 Score=18.40 Aligned_cols=33 Identities=18% Similarity=0.204 Sum_probs=22.8
Q ss_pred EEEE-ecCCCCCcccEEEEEeCCHHHHHHHHHHh
Q 025700 43 VWLY-RDKTTNEYKGDATVTYEDPHAALAAVEWF 75 (249)
Q Consensus 43 V~i~-~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l 75 (249)
++|. .+..||+.+-.----|.+..+|+.++..+
T Consensus 4 ~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~ 37 (46)
T PF14657_consen 4 YRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKI 37 (46)
T ss_pred EEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHH
Confidence 4553 66667876554444489999999988754
No 239
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=24.71 E-value=1.6e+02 Score=24.25 Aligned_cols=24 Identities=29% Similarity=0.164 Sum_probs=16.6
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcC
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIG 30 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G 30 (249)
.|.|.==|..++-++|.++|-+.-
T Consensus 59 ~V~V~yDp~~isy~~LL~~ff~ih 82 (174)
T COG0225 59 AVEVTYDPKVISYEELLEVFFEIH 82 (174)
T ss_pred EEEEEeCCccccHHHHHHHHheec
Confidence 455555577788888888876543
No 240
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=24.65 E-value=59 Score=24.59 Aligned_cols=29 Identities=17% Similarity=0.388 Sum_probs=20.6
Q ss_pred CCCCeecCCCCCeeeec---cccCccCCCCCCC
Q 025700 212 GPNDWSCPMCGNINWAK---RTKCNICNTNKPG 241 (249)
Q Consensus 212 ~~~dw~c~~c~~~n~~~---r~~c~~C~~~~~~ 241 (249)
.|....|..|+.. |.. ...|+.|+.+...
T Consensus 67 ~p~~~~C~~Cg~~-~~~~~~~~~CP~Cgs~~~~ 98 (115)
T TIGR00100 67 EPVECECEDCSEE-VSPEIDLYRCPKCHGIMLQ 98 (115)
T ss_pred eCcEEEcccCCCE-EecCCcCccCcCCcCCCcE
Confidence 4567899999944 432 4569999987643
No 241
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=24.65 E-value=76 Score=18.78 Aligned_cols=19 Identities=11% Similarity=0.160 Sum_probs=15.6
Q ss_pred CCCHHHHHHHHHhcCCeee
Q 025700 16 GTDEDMLAEYFGTIGLLKK 34 (249)
Q Consensus 16 ~~te~dL~~~F~~~G~i~~ 34 (249)
..++++|++++..+|.+..
T Consensus 3 tWs~~~L~~wL~~~gi~~~ 21 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIPVP 21 (38)
T ss_pred CCCHHHHHHHHHHcCCCCC
Confidence 5688999999999986543
No 242
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=24.62 E-value=1.2e+02 Score=22.16 Aligned_cols=49 Identities=16% Similarity=0.168 Sum_probs=28.0
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEe----cCCCCCcccEEEEEe
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYR----DKTTNEYKGDATVTY 62 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~----d~~tg~~rG~aFV~F 62 (249)
..|+.+||.++.+.++...-..+.... |.|+|.. ......+.|++.+-+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~-------~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYG-------PDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTC-------SEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhC-------CCeEEEEecccCccCCCCCceEEEEE
Confidence 468899999999888765555443221 1255554 234455666654433
No 243
>PRK15321 putative type III secretion system effector protein OrgC; Provisional
Probab=24.36 E-value=28 Score=25.78 Aligned_cols=42 Identities=19% Similarity=0.323 Sum_probs=23.8
Q ss_pred cCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHH
Q 025700 11 CNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAA 68 (249)
Q Consensus 11 ~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A 68 (249)
..||+.++.+.+++...+. ++-+.|++.|.+ |||.|+..-+.
T Consensus 27 ~~LP~la~S~~~KD~I~q~-------------m~~F~dp~~G~p---AF~s~~QQ~~m 68 (120)
T PRK15321 27 LALPESASSETLKDSIYQE-------------MNAFKDPNSGDS---AFVSFEQQTAM 68 (120)
T ss_pred HhCCcccCcHHHHHHHHHH-------------HHHhCCCCCCCc---ccccHHHHHHH
Confidence 3577777666666443321 123455555665 99999754433
No 244
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=24.29 E-value=2.1e+02 Score=27.47 Aligned_cols=50 Identities=16% Similarity=0.060 Sum_probs=34.2
Q ss_pred CHHHHHHHHH----hcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 025700 18 DEDMLAEYFG----TIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN 76 (249)
Q Consensus 18 te~dL~~~F~----~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~ 76 (249)
+..+|..+|. .+|.|.... +++...+. .+...++.|.+.++|..++..+.
T Consensus 202 ~g~dl~~l~~Gs~GtlGIIt~at------lkl~p~p~---~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 202 PGFDLLALFTGSEGMLGVVTEVT------VKLLPKPP---VARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred CccchHhhhccCCCccEEEEEEE------EEEEcCCc---ceEEEEEECCCHHHHHHHHHHHH
Confidence 3457777765 578787743 55544432 34567889999999999987654
No 245
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=24.24 E-value=45 Score=29.84 Aligned_cols=29 Identities=14% Similarity=0.374 Sum_probs=25.3
Q ss_pred CCCCCccCCCcCCCCCcccccccccccccCC
Q 025700 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARP 175 (249)
Q Consensus 145 r~Gdw~C~~~~c~~~nf~~r~~C~~C~~~~~ 175 (249)
..-+|.|. .|+..--.|-..|-+|++-..
T Consensus 351 ~~p~~~c~--~cg~~~~~~~~~c~~c~~~~~ 379 (389)
T PRK11788 351 RKPRYRCR--NCGFTARTLYWHCPSCKAWET 379 (389)
T ss_pred CCCCEECC--CCCCCCccceeECcCCCCccC
Confidence 45689999 999999999999999987654
No 246
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=24.17 E-value=50 Score=25.05 Aligned_cols=28 Identities=21% Similarity=0.541 Sum_probs=23.1
Q ss_pred CeecCCCCCee--eeccccCccCCCCCCCC
Q 025700 215 DWSCPMCGNIN--WAKRTKCNICNTNKPGH 242 (249)
Q Consensus 215 dw~c~~c~~~n--~~~r~~c~~C~~~~~~~ 242 (249)
...||.|+-.. ..+-..|--|++|..=+
T Consensus 69 ~V~CP~C~K~TKmLGr~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 69 QVECPNCGKQTKMLGRVDACMHCKEPLTLD 98 (114)
T ss_pred eeECCCCCChHhhhchhhccCcCCCcCccC
Confidence 45799999888 67888999999997644
No 247
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=24.00 E-value=52 Score=30.05 Aligned_cols=27 Identities=22% Similarity=0.639 Sum_probs=22.0
Q ss_pred CCCeecCCCCC-eeeeccccCccCCCCC
Q 025700 213 PNDWSCPMCGN-INWAKRTKCNICNTNK 239 (249)
Q Consensus 213 ~~dw~c~~c~~-~n~~~r~~c~~C~~~~ 239 (249)
+.-|.|+.|.. ..+..+..|..|+++-
T Consensus 55 ~~i~kC~~c~~~~~y~~~~~C~~cg~~~ 82 (415)
T COG5257 55 AKIYKCPECYRPECYTTEPKCPNCGAET 82 (415)
T ss_pred CceEeCCCCCCCcccccCCCCCCCCCCc
Confidence 34599999997 5678899999998764
No 248
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.70 E-value=55 Score=31.39 Aligned_cols=26 Identities=19% Similarity=0.459 Sum_probs=16.5
Q ss_pred CeecCCCCCeeeeccccCccCCCCCCC
Q 025700 215 DWSCPMCGNINWAKRTKCNICNTNKPG 241 (249)
Q Consensus 215 dw~c~~c~~~n~~~r~~c~~C~~~~~~ 241 (249)
-..|..|+.. ......|..|+...-.
T Consensus 240 ~l~Ch~Cg~~-~~~~~~Cp~C~s~~l~ 265 (505)
T TIGR00595 240 KLRCHYCGYQ-EPIPKTCPQCGSEDLV 265 (505)
T ss_pred eEEcCCCcCc-CCCCCCCCCCCCCeeE
Confidence 4567777755 3446677777765433
No 249
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=23.66 E-value=44 Score=21.40 Aligned_cols=22 Identities=32% Similarity=0.836 Sum_probs=14.7
Q ss_pred ccCCCcCCCC---Cccccccccccccc
Q 025700 150 MCPNTSCSNV---NFAFRGVCNRCGTA 173 (249)
Q Consensus 150 ~C~~~~c~~~---nf~~r~~C~~C~~~ 173 (249)
.|| .|++. ....|..|.+|+..
T Consensus 22 fCP--~Cg~~~m~~~~~r~~C~~Cgyt 46 (50)
T PRK00432 22 FCP--RCGSGFMAEHLDRWHCGKCGYT 46 (50)
T ss_pred cCc--CCCcchheccCCcEECCCcCCE
Confidence 687 78873 22346778888764
No 250
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=23.35 E-value=2.4e+02 Score=22.02 Aligned_cols=47 Identities=9% Similarity=0.017 Sum_probs=25.7
Q ss_pred CCCHHHHHHHHHhcCCe-eecCCCCCCeEEEEecC----CCCCcccEEEEEeCCHHHHHH
Q 025700 16 GTDEDMLAEYFGTIGLL-KKDKRTGRPKVWLYRDK----TTNEYKGDATVTYEDPHAALA 70 (249)
Q Consensus 16 ~~te~dL~~~F~~~G~i-~~~~~~g~p~V~i~~d~----~tg~~rG~aFV~F~s~~~A~~ 70 (249)
..+..||++.+.+.-.| ..+ +-++..- -.+++.|||.| |++.+.|..
T Consensus 35 TpSr~eirekLA~~~~v~d~~-------~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~kk 86 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADAR-------TIVLFGFKTKFGGGKTTGFGLI-YDNLAALKK 86 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCC-------EEEEEccEecCCCceEEEEEEE-ECCHHHHHh
Confidence 67789999888765442 221 2222222 23556666654 666665543
No 251
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=22.57 E-value=28 Score=21.21 Aligned_cols=21 Identities=38% Similarity=1.047 Sum_probs=12.8
Q ss_pred ecCCCCCeeeeccccCccCCCCC
Q 025700 217 SCPMCGNINWAKRTKCNICNTNK 239 (249)
Q Consensus 217 ~c~~c~~~n~~~r~~c~~C~~~~ 239 (249)
.|..|+ |++-...|.-|.-|+
T Consensus 19 ~C~~C~--nlse~~~C~IC~d~~ 39 (41)
T PF02132_consen 19 FCSICG--NLSEEDPCEICSDPK 39 (41)
T ss_dssp E-SSS----EESSSS-HHHH-TT
T ss_pred ccCCCC--CcCCCCcCcCCCCCC
Confidence 588999 777788998887664
No 252
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=22.38 E-value=48 Score=25.20 Aligned_cols=29 Identities=14% Similarity=0.474 Sum_probs=19.9
Q ss_pred CCCCeecCCCCCeeeec---cc-cCccCCCCCCC
Q 025700 212 GPNDWSCPMCGNINWAK---RT-KCNICNTNKPG 241 (249)
Q Consensus 212 ~~~dw~c~~c~~~n~~~---r~-~c~~C~~~~~~ 241 (249)
.+.-..|..|+.. |.. .. .|++|+.+...
T Consensus 68 vp~~~~C~~Cg~~-~~~~~~~~~~CP~Cgs~~~~ 100 (117)
T PRK00564 68 EKVELECKDCSHV-FKPNALDYGVCEKCHSKNVI 100 (117)
T ss_pred cCCEEEhhhCCCc-cccCCccCCcCcCCCCCceE
Confidence 4567889999944 433 23 39999988654
No 253
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=22.07 E-value=46 Score=21.44 Aligned_cols=23 Identities=30% Similarity=0.811 Sum_probs=16.5
Q ss_pred CccCCCcCCCC----Cccccccccccccc
Q 025700 149 WMCPNTSCSNV----NFAFRGVCNRCGTA 173 (249)
Q Consensus 149 w~C~~~~c~~~----nf~~r~~C~~C~~~ 173 (249)
=.|| .|+.. +...|..|=+|+..
T Consensus 20 ~~CP--rCG~gvfmA~H~dR~~CGkCgyT 46 (51)
T COG1998 20 RFCP--RCGPGVFMADHKDRWACGKCGYT 46 (51)
T ss_pred ccCC--CCCCcchhhhcCceeEeccccce
Confidence 3688 89864 44568889999864
No 254
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=22.02 E-value=40 Score=26.49 Aligned_cols=23 Identities=35% Similarity=0.928 Sum_probs=21.4
Q ss_pred ccCCCcCCCCCcccccccccccccC
Q 025700 150 MCPNTSCSNVNFAFRGVCNRCGTAR 174 (249)
Q Consensus 150 ~C~~~~c~~~nf~~r~~C~~C~~~~ 174 (249)
.|. +||..-|--|..|-+|+.+.
T Consensus 31 kC~--~CG~v~~PPr~~Cp~C~~~~ 53 (140)
T COG1545 31 KCK--KCGRVYFPPRAYCPKCGSET 53 (140)
T ss_pred EcC--CCCeEEcCCcccCCCCCCCC
Confidence 588 99999999999999999984
No 255
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=21.89 E-value=54 Score=30.76 Aligned_cols=28 Identities=25% Similarity=0.434 Sum_probs=21.9
Q ss_pred Cee-cCCCCCeeeeccccCccCCCCCCCC
Q 025700 215 DWS-CPMCGNINWAKRTKCNICNTNKPGH 242 (249)
Q Consensus 215 dw~-c~~c~~~n~~~r~~c~~C~~~~~~~ 242 (249)
++. |+.|+...-..+..|.+|++.....
T Consensus 220 ~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~ 248 (419)
T PRK15103 220 GLRSCSCCTAILPADQPVCPRCHTKGYVR 248 (419)
T ss_pred CCCcCCCCCCCCCCCCCCCCCCCCcCcCC
Confidence 444 9999998777777899999876433
No 256
>PRK14873 primosome assembly protein PriA; Provisional
Probab=21.76 E-value=57 Score=32.53 Aligned_cols=26 Identities=19% Similarity=0.544 Sum_probs=18.5
Q ss_pred CeecCCCCCeeeeccccCccCCCCCCCC
Q 025700 215 DWSCPMCGNINWAKRTKCNICNTNKPGH 242 (249)
Q Consensus 215 dw~c~~c~~~n~~~r~~c~~C~~~~~~~ 242 (249)
-..|..|+..- ....|..|+...--.
T Consensus 410 ~l~Ch~CG~~~--~p~~Cp~Cgs~~l~~ 435 (665)
T PRK14873 410 TPRCRWCGRAA--PDWRCPRCGSDRLRA 435 (665)
T ss_pred eeECCCCcCCC--cCccCCCCcCCccee
Confidence 46788898753 477899998765433
No 257
>PRK12496 hypothetical protein; Provisional
Probab=21.76 E-value=57 Score=26.37 Aligned_cols=27 Identities=19% Similarity=0.292 Sum_probs=19.4
Q ss_pred CCCeecCCCCCeee--eccccCccCCCCC
Q 025700 213 PNDWSCPMCGNINW--AKRTKCNICNTNK 239 (249)
Q Consensus 213 ~~dw~c~~c~~~n~--~~r~~c~~C~~~~ 239 (249)
.+...|..|+-.-- .....|..|+.|.
T Consensus 125 ~w~~~C~gC~~~~~~~~~~~~C~~CG~~~ 153 (164)
T PRK12496 125 KWRKVCKGCKKKYPEDYPDDVCEICGSPV 153 (164)
T ss_pred eeeEECCCCCccccCCCCCCcCCCCCChh
Confidence 35567999995532 3557899999873
No 258
>PRK10905 cell division protein DamX; Validated
Probab=21.69 E-value=2e+02 Score=26.01 Aligned_cols=55 Identities=16% Similarity=0.111 Sum_probs=34.2
Q ss_pred CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcc-cEEEEEeCCHHHHHHHHHHhCCc
Q 025700 15 HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYK-GDATVTYEDPHAALAAVEWFNNK 78 (249)
Q Consensus 15 ~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~r-G~aFV~F~s~~~A~~Ai~~l~g~ 78 (249)
-..+++.|++|..+++. .. ..++.....|+.. -.-+=.|.+.++|++|++.|...
T Consensus 254 A~Ss~~~l~~fakKlgL-~~--------y~vy~TtRnGkpWYVV~yG~YaSraeAk~AiakLPa~ 309 (328)
T PRK10905 254 SSSNYDNLNGWAKKENL-KN--------YVVYETTRNGQPWYVLVSGVYASKEEAKRAVSTLPAD 309 (328)
T ss_pred ecCCHHHHHHHHHHcCC-Cc--------eEEEEeccCCceEEEEEecCCCCHHHHHHHHHHCCHH
Confidence 34566888888888753 32 3344444334321 11233689999999999987643
No 259
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=21.66 E-value=3.2e+02 Score=20.17 Aligned_cols=49 Identities=18% Similarity=0.198 Sum_probs=25.6
Q ss_pred CCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCC----CCCcccEEEEEeCCHHHHHHH
Q 025700 15 HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT----TNEYKGDATVTYEDPHAALAA 71 (249)
Q Consensus 15 ~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~----tg~~rG~aFV~F~s~~~A~~A 71 (249)
...+..||++.+.+.-....+ +-++..-. .+++.|||.| |++.+.|+..
T Consensus 29 ~tpsr~eirekLa~~~~~~~~-------~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk~ 81 (99)
T PRK01178 29 ATPSRKDVRKKLAAMLNADKE-------LVVVRKIKTEYGMGKSKGYAKV-YDDKERARKI 81 (99)
T ss_pred CCCCHHHHHHHHHHHHCcCCC-------EEEEEccCccCCCceEEEEEEE-ECCHHHHHhh
Confidence 356788898887653222221 22222222 2455666654 6666665543
No 260
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=21.66 E-value=47 Score=21.69 Aligned_cols=14 Identities=36% Similarity=1.047 Sum_probs=11.2
Q ss_pred CCCCeecCCCCCee
Q 025700 212 GPNDWSCPMCGNIN 225 (249)
Q Consensus 212 ~~~dw~c~~c~~~n 225 (249)
..-.|.|+.|++.|
T Consensus 41 ~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 41 EEIQYRCPYCGALN 54 (54)
T ss_pred CceEEEcCCCCCcC
Confidence 44579999999876
No 261
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=21.52 E-value=39 Score=31.38 Aligned_cols=61 Identities=15% Similarity=0.110 Sum_probs=41.9
Q ss_pred eEEecCCCCCCCH--------HHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 025700 7 SVYVCNLPHGTDE--------DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE 73 (249)
Q Consensus 7 tI~V~nLp~~~te--------~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~ 73 (249)
.+|+.+.....+. ++|...|...+...... |+..++.....++|..|++|.....+++++.
T Consensus 176 ~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~------i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 176 DVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQ------IRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hHHhhcCCcccccccccchhhhhHHhhCCCcccCChhh------ccchhhhhhccccCcccccccChHHHHHHhc
Confidence 4566666554443 48888888743333221 6666666556788889999999999999983
No 262
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=21.37 E-value=2.3e+02 Score=20.47 Aligned_cols=28 Identities=11% Similarity=0.083 Sum_probs=21.9
Q ss_pred eEEecCCCCCCCHHHHHHHHHhcCCeee
Q 025700 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKK 34 (249)
Q Consensus 7 tI~V~nLp~~~te~dL~~~F~~~G~i~~ 34 (249)
..|+--++..+|..||+++|+++-.|+.
T Consensus 21 n~~~F~V~~~a~K~eIK~aie~lf~VkV 48 (92)
T PRK05738 21 NKYVFEVAPDATKPEIKAAVEKLFGVKV 48 (92)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCce
Confidence 4556678899999999999998655554
No 263
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.30 E-value=14 Score=34.56 Aligned_cols=79 Identities=3% Similarity=-0.190 Sum_probs=51.7
Q ss_pred CCeEEecCCCCCCCHHHHHHHHHhcCCeeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCeE
Q 025700 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL 84 (249)
Q Consensus 5 ~~tI~V~nLp~~~te~dL~~~F~~~G~i~~~~~~g~p~V~i~~d~~tg~~rG~aFV~F~s~~~A~~Ai~~l~g~~~~g~~ 84 (249)
+.+.++..||...++++|.-+|.-|+.|... .+...-..+...-.+||+-.. +.+..+|..+.-..+.+..
T Consensus 3 s~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~--------d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~ 73 (572)
T KOG4365|consen 3 SMKKSLKDSVASNNKDQNSMKHEDPSIISME--------DGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQ 73 (572)
T ss_pred chhhhHhhcccccccchhhhhccCCcceeec--------cCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhh
Confidence 3456788899999999999999999999873 233322234444467776654 3445555544444566666
Q ss_pred EEEEeccc
Q 025700 85 IGVFIAES 92 (249)
Q Consensus 85 i~V~~a~~ 92 (249)
++|.++..
T Consensus 74 ~r~~~~~~ 81 (572)
T KOG4365|consen 74 DRKAVSPS 81 (572)
T ss_pred hhhhcCch
Confidence 77777654
No 264
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=20.93 E-value=62 Score=25.83 Aligned_cols=14 Identities=36% Similarity=0.975 Sum_probs=11.0
Q ss_pred CCCeecCCCCCeee
Q 025700 213 PNDWSCPMCGNINW 226 (249)
Q Consensus 213 ~~dw~c~~c~~~n~ 226 (249)
.+||.|+.|-...-
T Consensus 16 ~g~W~Cp~C~~~~~ 29 (148)
T cd04718 16 EGDWICPFCEVEKS 29 (148)
T ss_pred CCCcCCCCCcCCCC
Confidence 48999999986543
No 265
>PF12385 Peptidase_C70: Papain-like cysteine protease AvrRpt2; InterPro: IPR022118 This is a family of cysteine proteases, found in actinobacteria, protobacteria and firmicutes. Papain-like cysteine proteases play a crucial role in plant-pathogen/pest interactions. On entering the host they act on non-self substrates, thereby manipulating the host to evade proteolysis []. AvrRpt2 from Pseudomonas syringae pv tomato DC3000 triggers resistance to P. syringae-2-dependent defence responses, including hypersensitive cell death, by cleaving the Arabidopsis RIN4 protein which is monitored by the cognate resistance protein RPS2 [].
Probab=20.92 E-value=1.8e+02 Score=23.65 Aligned_cols=19 Identities=21% Similarity=0.148 Sum_probs=17.1
Q ss_pred CCCHHHHHHHHHhcCCeee
Q 025700 16 GTDEDMLAEYFGTIGLLKK 34 (249)
Q Consensus 16 ~~te~dL~~~F~~~G~i~~ 34 (249)
..+.+.|..+|.+||.|-.
T Consensus 95 ~~t~e~~~~LL~~yGPLwv 113 (166)
T PF12385_consen 95 SYTAEGLANLLREYGPLWV 113 (166)
T ss_pred ccCHHHHHHHHHHcCCeEE
Confidence 7789999999999999865
No 266
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=20.86 E-value=70 Score=23.72 Aligned_cols=30 Identities=23% Similarity=0.643 Sum_probs=21.4
Q ss_pred CCCeecCCCCCeeee-------ccccCccCCCCCCCC
Q 025700 213 PNDWSCPMCGNINWA-------KRTKCNICNTNKPGH 242 (249)
Q Consensus 213 ~~dw~c~~c~~~n~~-------~r~~c~~C~~~~~~~ 242 (249)
+.-..|+.|++.... -+..|..|+.-+...
T Consensus 19 pt~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y~~~~ 55 (99)
T PRK14892 19 PKIFECPRCGKVSISVKIKKNIAIITCGNCGLYTEFE 55 (99)
T ss_pred CcEeECCCCCCeEeeeecCCCcceEECCCCCCccCEE
Confidence 456789999953222 389999999876543
No 267
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=20.48 E-value=47 Score=31.63 Aligned_cols=13 Identities=31% Similarity=0.813 Sum_probs=10.7
Q ss_pred CCCCeecCCCCCe
Q 025700 212 GPNDWSCPMCGNI 224 (249)
Q Consensus 212 ~~~dw~c~~c~~~ 224 (249)
=|.||.||.|+..
T Consensus 455 lp~~~~cp~c~~~ 467 (479)
T PRK05452 455 VPDNFLCPECSLG 467 (479)
T ss_pred CCCCCcCcCCCCc
Confidence 3689999999864
No 268
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=20.20 E-value=1.2e+02 Score=20.54 Aligned_cols=24 Identities=17% Similarity=0.300 Sum_probs=19.4
Q ss_pred EEEEEeCCHHHHHHHHHHhCCcee
Q 025700 57 DATVTYEDPHAALAAVEWFNNKDF 80 (249)
Q Consensus 57 ~aFV~F~s~~~A~~Ai~~l~g~~~ 80 (249)
+.+|.|.+..+|.+|-+.|....+
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCC
Confidence 679999999999999887765433
No 269
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=20.09 E-value=97 Score=19.41 Aligned_cols=24 Identities=21% Similarity=0.599 Sum_probs=12.2
Q ss_pred CeecCCCCCeeeec-------cccCccCCCC
Q 025700 215 DWSCPMCGNINWAK-------RTKCNICNTN 238 (249)
Q Consensus 215 dw~c~~c~~~n~~~-------r~~c~~C~~~ 238 (249)
|..|..|+..--.+ ...|..|+..
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGGE 35 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCCC
Confidence 34567777521111 1257777763
No 270
>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=20.05 E-value=45 Score=21.78 Aligned_cols=37 Identities=22% Similarity=0.176 Sum_probs=18.1
Q ss_pred cccEEEEEeCC-HHHHHHHHHHhCCceecCeEEEEEecc
Q 025700 54 YKGDATVTYED-PHAALAAVEWFNNKDFHGNLIGVFIAE 91 (249)
Q Consensus 54 ~rG~aFV~F~s-~~~A~~Ai~~l~g~~~~g~~i~V~~a~ 91 (249)
++||+||..++ .++.--.-..|++. ++|-++.|.+..
T Consensus 7 ~~GfGFv~~~~~~~DifIp~~~l~~A-~~gD~V~v~i~~ 44 (58)
T PF08206_consen 7 PKGFGFVIPDDGGEDIFIPPRNLNGA-MDGDKVLVRITP 44 (58)
T ss_dssp SSS-EEEEECT-TEEEEE-HHHHTTS--TT-EEEEEEEE
T ss_pred cCCCEEEEECCCCCCEEECHHHHCCC-CCCCEEEEEEec
Confidence 56899999887 11111111223333 566667777655
Done!