Query 030662
Match_columns 173
No_of_seqs 287 out of 2079
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 02:42:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030662.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030662hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0107 Alternative splicing f 99.9 1.6E-23 3.4E-28 151.8 15.7 78 5-83 8-88 (195)
2 KOG4207 Predicted splicing fac 99.9 9.1E-22 2E-26 146.1 12.8 109 3-112 9-125 (256)
3 PLN03134 glycine-rich RNA-bind 99.9 2.4E-20 5.3E-25 134.8 14.0 78 5-83 32-117 (144)
4 KOG0113 U1 small nuclear ribon 99.7 5.8E-17 1.3E-21 126.3 14.8 81 4-85 98-186 (335)
5 TIGR01648 hnRNP-R-Q heterogene 99.7 5.6E-17 1.2E-21 139.3 14.6 77 6-83 232-310 (578)
6 KOG0105 Alternative splicing f 99.7 2.4E-17 5.1E-22 120.9 9.7 77 4-81 3-84 (241)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 6.7E-17 1.5E-21 132.0 11.2 74 7-81 269-350 (352)
8 TIGR01659 sex-lethal sex-letha 99.7 6.6E-17 1.4E-21 132.1 9.8 76 4-80 104-187 (346)
9 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.5E-16 3.2E-21 130.0 9.8 75 6-81 2-84 (352)
10 TIGR01659 sex-lethal sex-letha 99.7 7E-16 1.5E-20 126.0 13.4 76 6-82 192-277 (346)
11 PF00076 RRM_1: RNA recognitio 99.7 1.7E-16 3.6E-21 100.1 7.4 63 10-73 1-70 (70)
12 KOG0121 Nuclear cap-binding pr 99.7 1.1E-16 2.3E-21 110.9 6.1 74 5-79 34-115 (153)
13 KOG0130 RNA-binding protein RB 99.7 3.7E-16 8E-21 109.2 7.7 77 6-83 71-155 (170)
14 PLN03120 nucleic acid binding 99.6 1.5E-15 3.3E-20 118.0 9.7 72 7-80 4-80 (260)
15 KOG0125 Ataxin 2-binding prote 99.6 6.7E-16 1.5E-20 121.7 7.3 76 4-80 93-174 (376)
16 KOG0122 Translation initiation 99.6 2.6E-15 5.6E-20 114.3 8.7 75 5-80 187-269 (270)
17 KOG0117 Heterogeneous nuclear 99.6 2E-15 4.3E-20 123.2 7.2 79 6-85 258-336 (506)
18 KOG0109 RNA-binding protein LA 99.6 1.4E-15 3E-20 118.4 5.4 72 8-80 3-74 (346)
19 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 9.5E-15 2.1E-19 124.4 10.8 76 5-81 273-352 (481)
20 PLN03213 repressor of silencin 99.6 8.2E-15 1.8E-19 121.2 9.0 74 5-79 8-87 (759)
21 TIGR01642 U2AF_lg U2 snRNP aux 99.6 1.7E-14 3.7E-19 123.3 11.0 75 6-81 294-376 (509)
22 TIGR01645 half-pint poly-U bin 99.6 1.6E-14 3.4E-19 124.7 10.2 76 6-82 203-286 (612)
23 TIGR01622 SF-CC1 splicing fact 99.6 2.2E-14 4.8E-19 121.2 10.8 74 6-80 185-266 (457)
24 PF14259 RRM_6: RNA recognitio 99.6 1.6E-14 3.5E-19 91.5 7.6 63 10-73 1-70 (70)
25 KOG0114 Predicted RNA-binding 99.6 2.2E-14 4.7E-19 96.1 8.1 76 4-80 15-95 (124)
26 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 2E-14 4.3E-19 122.5 9.8 74 6-80 1-78 (481)
27 KOG0111 Cyclophilin-type pepti 99.5 5.4E-15 1.2E-19 111.2 5.0 79 5-84 8-94 (298)
28 KOG0148 Apoptosis-promoting RN 99.5 3.9E-14 8.4E-19 109.4 9.3 79 3-82 160-240 (321)
29 smart00362 RRM_2 RNA recogniti 99.5 6E-14 1.3E-18 87.7 8.3 66 9-75 1-72 (72)
30 TIGR01645 half-pint poly-U bin 99.5 3.8E-14 8.2E-19 122.3 9.5 73 5-78 105-185 (612)
31 PLN03121 nucleic acid binding 99.5 6.6E-14 1.4E-18 107.4 9.7 72 6-79 4-80 (243)
32 TIGR01628 PABP-1234 polyadenyl 99.5 4.9E-14 1.1E-18 122.1 9.9 76 5-81 283-365 (562)
33 TIGR01628 PABP-1234 polyadenyl 99.5 5.7E-14 1.2E-18 121.7 9.4 71 9-80 2-80 (562)
34 TIGR01622 SF-CC1 splicing fact 99.5 8.5E-14 1.8E-18 117.6 9.9 74 5-80 87-168 (457)
35 KOG0149 Predicted RNA-binding 99.5 3.1E-14 6.7E-19 108.0 6.2 71 7-79 12-90 (247)
36 PF13893 RRM_5: RNA recognitio 99.5 1.6E-13 3.6E-18 83.3 8.0 53 25-77 1-56 (56)
37 TIGR01648 hnRNP-R-Q heterogene 99.5 8.1E-14 1.7E-18 120.0 8.8 71 6-77 57-135 (578)
38 KOG0109 RNA-binding protein LA 99.5 4.7E-14 1E-18 109.9 6.6 97 5-102 76-172 (346)
39 KOG0144 RNA-binding protein CU 99.5 3E-14 6.5E-19 116.0 5.0 79 6-85 123-211 (510)
40 cd00590 RRM RRM (RNA recogniti 99.5 5.2E-13 1.1E-17 83.8 8.5 67 9-76 1-74 (74)
41 COG0724 RNA-binding proteins ( 99.5 3.9E-13 8.4E-18 104.1 9.2 72 7-79 115-194 (306)
42 KOG0131 Splicing factor 3b, su 99.4 1.2E-13 2.7E-18 101.0 5.7 75 3-78 5-87 (203)
43 KOG0127 Nucleolar protein fibr 99.4 2.9E-13 6.3E-18 113.1 8.2 75 6-81 116-197 (678)
44 smart00360 RRM RNA recognition 99.4 5E-13 1.1E-17 83.1 7.4 63 12-75 1-71 (71)
45 KOG0126 Predicted RNA-binding 99.4 2.4E-14 5.2E-19 104.8 0.8 74 5-79 33-114 (219)
46 KOG0117 Heterogeneous nuclear 99.4 7E-13 1.5E-17 108.5 8.6 73 5-78 81-162 (506)
47 KOG0415 Predicted peptidyl pro 99.4 5.3E-13 1.1E-17 106.6 5.6 76 4-80 236-319 (479)
48 KOG0148 Apoptosis-promoting RN 99.4 1E-12 2.2E-17 101.7 6.8 74 7-81 62-143 (321)
49 KOG0132 RNA polymerase II C-te 99.4 9.5E-13 2.1E-17 113.6 7.4 77 7-84 421-499 (894)
50 KOG0146 RNA-binding protein ET 99.4 7.8E-13 1.7E-17 102.3 5.0 79 3-82 281-367 (371)
51 TIGR01642 U2AF_lg U2 snRNP aux 99.4 2.7E-12 5.8E-17 109.8 8.8 72 5-78 173-258 (509)
52 KOG0108 mRNA cleavage and poly 99.4 2.6E-12 5.7E-17 107.1 8.2 75 8-83 19-101 (435)
53 KOG4206 Spliceosomal protein s 99.4 2.8E-12 6.1E-17 96.9 7.5 79 2-81 4-91 (221)
54 KOG0106 Alternative splicing f 99.3 1.5E-12 3.3E-17 98.9 5.3 74 8-82 2-75 (216)
55 KOG0145 RNA-binding protein EL 99.3 4.7E-12 1E-16 97.7 8.0 77 5-82 39-123 (360)
56 KOG0144 RNA-binding protein CU 99.3 4.2E-12 9.1E-17 103.6 6.5 77 5-82 32-119 (510)
57 KOG4212 RNA-binding protein hn 99.3 1.6E-11 3.5E-16 100.5 8.2 72 7-79 44-123 (608)
58 KOG0153 Predicted RNA-binding 99.2 2.9E-11 6.2E-16 96.4 8.2 74 5-79 226-302 (377)
59 smart00361 RRM_1 RNA recogniti 99.2 3.5E-11 7.5E-16 76.5 6.7 53 22-74 2-69 (70)
60 KOG0147 Transcriptional coacti 99.2 2E-11 4.3E-16 102.2 6.4 72 8-80 279-358 (549)
61 KOG0145 RNA-binding protein EL 99.2 8.8E-11 1.9E-15 90.7 9.0 74 6-80 277-358 (360)
62 KOG0127 Nucleolar protein fibr 99.2 2.6E-11 5.6E-16 101.6 6.5 74 7-81 5-86 (678)
63 KOG4661 Hsp27-ERE-TATA-binding 99.2 2.5E-11 5.4E-16 102.3 6.2 75 7-82 405-487 (940)
64 KOG0131 Splicing factor 3b, su 99.2 6.1E-11 1.3E-15 87.0 6.5 81 3-84 92-181 (203)
65 KOG0124 Polypyrimidine tract-b 99.2 2.1E-11 4.7E-16 97.9 4.2 69 7-76 113-189 (544)
66 KOG0146 RNA-binding protein ET 99.2 2.7E-11 5.8E-16 93.8 4.6 76 6-82 18-103 (371)
67 KOG0110 RNA-binding protein (R 99.2 7.7E-11 1.7E-15 101.2 7.4 68 10-78 518-596 (725)
68 KOG1457 RNA binding protein (c 99.2 2.6E-10 5.7E-15 86.3 9.3 78 5-83 32-121 (284)
69 KOG0123 Polyadenylate-binding 99.1 1.4E-10 3E-15 95.7 7.7 74 7-82 76-155 (369)
70 KOG0116 RasGAP SH3 binding pro 99.1 6.2E-10 1.4E-14 92.5 10.5 73 7-81 288-368 (419)
71 KOG0106 Alternative splicing f 99.1 2.2E-10 4.7E-15 87.2 5.4 68 6-74 98-165 (216)
72 KOG0110 RNA-binding protein (R 99.1 1.3E-10 2.9E-15 99.8 4.6 74 6-80 612-693 (725)
73 KOG4212 RNA-binding protein hn 99.0 4.6E-10 9.9E-15 92.2 6.5 73 4-77 533-608 (608)
74 KOG4208 Nucleolar RNA-binding 99.0 1.9E-09 4.1E-14 80.6 7.5 75 5-80 47-130 (214)
75 KOG0533 RRM motif-containing p 99.0 2.8E-09 6E-14 82.7 8.0 74 7-81 83-163 (243)
76 KOG0124 Polypyrimidine tract-b 99.0 1.3E-09 2.8E-14 87.8 6.2 73 7-80 210-290 (544)
77 KOG4454 RNA binding protein (R 98.9 2.9E-10 6.2E-15 85.8 1.7 77 3-80 5-87 (267)
78 KOG4660 Protein Mei2, essentia 98.9 5.5E-10 1.2E-14 93.8 3.4 69 4-73 72-143 (549)
79 KOG4205 RNA-binding protein mu 98.9 1.8E-09 3.9E-14 86.7 4.8 75 5-81 4-86 (311)
80 KOG0151 Predicted splicing reg 98.9 4.3E-09 9.4E-14 90.7 6.4 76 4-80 171-257 (877)
81 KOG1190 Polypyrimidine tract-b 98.9 8.4E-09 1.8E-13 84.1 7.6 76 7-82 297-375 (492)
82 KOG0123 Polyadenylate-binding 98.9 9.5E-09 2.1E-13 84.9 7.9 70 8-81 2-76 (369)
83 KOG4205 RNA-binding protein mu 98.8 4.2E-09 9.2E-14 84.6 5.0 76 6-83 96-179 (311)
84 KOG1548 Transcription elongati 98.8 2.2E-08 4.7E-13 80.1 7.0 76 5-81 132-222 (382)
85 PF11608 Limkain-b1: Limkain b 98.7 8E-08 1.7E-12 62.3 7.0 70 8-80 3-77 (90)
86 KOG4209 Splicing factor RNPS1, 98.7 3.4E-08 7.4E-13 76.6 6.1 74 5-80 99-180 (231)
87 KOG1456 Heterogeneous nuclear 98.7 1.3E-07 2.8E-12 76.6 8.7 78 4-81 284-364 (494)
88 KOG4206 Spliceosomal protein s 98.7 1E-07 2.2E-12 72.3 7.5 74 4-78 143-220 (221)
89 PF04059 RRM_2: RNA recognitio 98.7 1.4E-07 3.1E-12 63.4 7.4 72 8-80 2-87 (97)
90 KOG4211 Splicing factor hnRNP- 98.5 4.3E-07 9.3E-12 75.8 8.7 75 4-81 7-87 (510)
91 PF08777 RRM_3: RNA binding mo 98.5 2.3E-07 4.9E-12 63.5 5.9 69 8-77 2-77 (105)
92 KOG1995 Conserved Zn-finger pr 98.5 1.2E-07 2.6E-12 76.3 5.2 79 2-81 61-155 (351)
93 KOG1457 RNA binding protein (c 98.5 6.7E-08 1.4E-12 73.4 3.2 64 4-68 207-274 (284)
94 KOG0120 Splicing factor U2AF, 98.3 5.4E-07 1.2E-11 76.3 3.5 75 6-81 288-370 (500)
95 KOG1855 Predicted RNA-binding 98.2 1.1E-06 2.3E-11 72.4 3.7 62 5-67 229-311 (484)
96 KOG1456 Heterogeneous nuclear 98.2 7.7E-06 1.7E-10 66.5 8.3 78 4-81 117-200 (494)
97 KOG2416 Acinus (induces apopto 98.2 1.4E-06 3E-11 74.3 3.6 75 4-79 441-521 (718)
98 KOG4211 Splicing factor hnRNP- 98.2 4.9E-06 1.1E-10 69.6 6.7 71 6-78 102-180 (510)
99 KOG0105 Alternative splicing f 98.2 1.8E-05 3.9E-10 58.8 8.9 69 7-76 115-186 (241)
100 PF08952 DUF1866: Domain of un 98.2 1.4E-05 2.9E-10 57.4 7.8 78 4-82 24-109 (146)
101 KOG1190 Polypyrimidine tract-b 98.2 5.9E-06 1.3E-10 67.8 6.6 75 4-79 411-490 (492)
102 PF14605 Nup35_RRM_2: Nup53/35 98.1 7.3E-06 1.6E-10 49.1 5.3 50 8-59 2-53 (53)
103 PF05172 Nup35_RRM: Nup53/35/4 98.1 1.4E-05 3.1E-10 54.1 6.7 70 6-78 5-90 (100)
104 KOG0226 RNA-binding proteins [ 98.0 5.4E-06 1.2E-10 64.2 4.2 73 6-79 189-269 (290)
105 KOG4676 Splicing factor, argin 98.0 8.1E-07 1.8E-11 72.4 -1.2 66 8-75 152-221 (479)
106 KOG4210 Nuclear localization s 98.0 1.1E-05 2.3E-10 64.6 4.6 76 6-83 183-267 (285)
107 COG5175 MOT2 Transcriptional r 98.0 2.2E-05 4.7E-10 63.2 6.2 72 7-78 114-201 (480)
108 KOG0147 Transcriptional coacti 97.9 2.4E-05 5.2E-10 66.3 6.4 74 6-79 442-527 (549)
109 KOG2314 Translation initiation 97.9 5.2E-05 1.1E-09 64.7 7.8 72 5-78 56-142 (698)
110 KOG1548 Transcription elongati 97.9 4.2E-05 9.1E-10 61.6 6.9 74 6-80 264-352 (382)
111 KOG4849 mRNA cleavage factor I 97.9 1.2E-05 2.5E-10 65.0 3.2 69 7-76 80-158 (498)
112 KOG0120 Splicing factor U2AF, 97.8 6.7E-05 1.4E-09 63.8 7.2 58 23-80 424-492 (500)
113 KOG0129 Predicted RNA-binding 97.8 5.6E-05 1.2E-09 63.7 6.5 58 3-61 366-432 (520)
114 KOG0112 Large RNA-binding prot 97.8 2.5E-05 5.5E-10 69.5 4.7 78 4-82 452-533 (975)
115 KOG2202 U2 snRNP splicing fact 97.8 9.2E-06 2E-10 62.9 1.3 58 23-80 83-148 (260)
116 KOG3152 TBP-binding protein, a 97.7 2E-05 4.4E-10 61.0 2.2 65 6-71 73-157 (278)
117 KOG4307 RNA binding protein RB 97.7 0.00016 3.5E-09 63.1 7.3 71 5-76 864-943 (944)
118 KOG2193 IGF-II mRNA-binding pr 97.6 6.1E-05 1.3E-09 62.3 4.0 74 8-82 2-78 (584)
119 KOG0129 Predicted RNA-binding 97.6 0.00025 5.3E-09 60.0 7.5 55 7-63 259-327 (520)
120 PF08675 RNA_bind: RNA binding 97.6 0.00044 9.6E-09 44.9 6.9 56 7-64 9-64 (87)
121 KOG4676 Splicing factor, argin 97.6 0.0001 2.2E-09 60.4 4.7 72 2-75 2-84 (479)
122 KOG1365 RNA-binding protein Fu 97.5 9.8E-05 2.1E-09 60.4 3.8 73 5-78 278-360 (508)
123 KOG1996 mRNA splicing factor [ 97.4 0.00043 9.3E-09 54.9 5.8 58 22-79 300-366 (378)
124 PF10309 DUF2414: Protein of u 97.2 0.0021 4.5E-08 39.6 6.5 53 7-62 5-62 (62)
125 PF03880 DbpA: DbpA RNA bindin 97.1 0.002 4.4E-08 41.0 5.9 59 18-77 11-74 (74)
126 KOG4285 Mitotic phosphoprotein 97.1 0.0024 5.3E-08 50.8 7.3 71 7-80 197-270 (350)
127 KOG0128 RNA-binding protein SA 97.0 0.00037 8E-09 62.0 1.8 74 7-81 736-816 (881)
128 PF15023 DUF4523: Protein of u 96.9 0.0065 1.4E-07 43.5 7.5 73 4-78 83-160 (166)
129 PF04847 Calcipressin: Calcipr 96.9 0.0029 6.2E-08 47.6 5.7 60 21-80 8-71 (184)
130 KOG4307 RNA binding protein RB 96.8 0.00061 1.3E-08 59.6 2.1 71 6-77 433-511 (944)
131 KOG0112 Large RNA-binding prot 96.7 0.00022 4.8E-09 63.7 -1.3 72 5-77 370-448 (975)
132 KOG2591 c-Mpl binding protein, 96.7 0.002 4.4E-08 55.1 4.2 57 6-63 174-233 (684)
133 PRK11634 ATP-dependent RNA hel 96.6 0.072 1.6E-06 47.4 13.2 62 18-80 497-563 (629)
134 KOG2253 U1 snRNP complex, subu 96.6 0.0013 2.8E-08 57.3 2.1 73 3-77 36-108 (668)
135 PF03467 Smg4_UPF3: Smg-4/UPF3 96.6 0.0053 1.2E-07 45.8 5.2 78 1-79 1-97 (176)
136 KOG2135 Proteins containing th 96.5 0.0014 3.1E-08 55.0 2.2 59 21-80 386-446 (526)
137 KOG1365 RNA-binding protein Fu 96.3 0.013 2.9E-07 48.2 6.5 57 10-68 164-231 (508)
138 KOG2068 MOT2 transcription fac 96.3 0.0014 3.1E-08 52.8 0.8 72 8-79 78-162 (327)
139 KOG4660 Protein Mei2, essentia 96.2 0.0071 1.5E-07 51.7 4.4 75 5-80 386-473 (549)
140 PF07576 BRAP2: BRCA1-associat 96.1 0.11 2.4E-06 35.8 9.2 61 7-68 13-80 (110)
141 KOG4574 RNA-binding protein (c 96.0 0.0046 1E-07 55.3 2.5 72 10-82 301-376 (1007)
142 PF11767 SET_assoc: Histone ly 95.9 0.061 1.3E-06 33.5 6.8 55 19-74 11-65 (66)
143 KOG0115 RNA-binding protein p5 95.9 0.01 2.3E-07 46.3 3.7 67 8-75 32-109 (275)
144 KOG0128 RNA-binding protein SA 95.6 0.00093 2E-08 59.6 -3.4 61 7-68 667-735 (881)
145 KOG2318 Uncharacterized conser 95.5 0.07 1.5E-06 46.2 7.6 75 4-78 171-304 (650)
146 KOG4207 Predicted splicing fac 94.2 0.59 1.3E-05 35.8 8.8 23 45-67 61-85 (256)
147 KOG0804 Cytoplasmic Zn-finger 93.8 0.17 3.8E-06 42.6 5.8 64 5-69 72-142 (493)
148 KOG4210 Nuclear localization s 93.6 0.033 7.1E-07 44.7 1.3 74 6-80 87-168 (285)
149 KOG4019 Calcineurin-mediated s 89.9 0.41 8.9E-06 35.7 3.4 73 8-81 11-91 (193)
150 COG5638 Uncharacterized conser 89.6 1.6 3.6E-05 36.7 6.9 73 4-76 143-294 (622)
151 KOG2193 IGF-II mRNA-binding pr 88.5 0.026 5.7E-07 47.2 -4.1 73 7-80 80-157 (584)
152 KOG2891 Surface glycoprotein [ 86.0 0.26 5.6E-06 39.3 0.3 33 7-40 149-193 (445)
153 KOG0107 Alternative splicing f 84.7 6.8 0.00015 29.3 7.1 8 52-59 60-67 (195)
154 PF03468 XS: XS domain; Inter 84.1 1.6 3.5E-05 30.3 3.5 50 9-59 10-74 (116)
155 KOG4410 5-formyltetrahydrofola 84.1 3.4 7.4E-05 33.2 5.7 47 6-53 329-378 (396)
156 PRK10629 EnvZ/OmpR regulon mod 81.2 13 0.00028 26.2 7.2 72 6-78 34-109 (127)
157 KOG4483 Uncharacterized conser 80.7 3.8 8.3E-05 34.4 5.0 54 7-61 391-446 (528)
158 KOG1295 Nonsense-mediated deca 75.7 4.7 0.0001 33.5 4.1 63 5-68 5-78 (376)
159 PF02714 DUF221: Domain of unk 72.7 4.2 9E-05 32.9 3.2 34 45-80 1-34 (325)
160 KOG2295 C2H2 Zn-finger protein 72.5 0.54 1.2E-05 40.8 -2.0 65 6-71 230-302 (648)
161 KOG4840 Predicted hydrolases o 72.1 13 0.00028 29.2 5.5 72 5-77 35-115 (299)
162 PF00403 HMA: Heavy-metal-asso 71.9 18 0.00038 21.3 5.3 52 9-61 1-58 (62)
163 KOG4008 rRNA processing protei 71.4 2.8 6E-05 32.7 1.8 36 4-40 37-72 (261)
164 PRK14548 50S ribosomal protein 70.3 13 0.00028 24.2 4.5 45 18-62 30-81 (84)
165 COG0724 RNA-binding proteins ( 69.6 6.4 0.00014 29.6 3.6 35 5-40 223-257 (306)
166 TIGR03636 L23_arch archaeal ri 68.4 16 0.00034 23.4 4.6 51 10-61 16-73 (77)
167 PF14111 DUF4283: Domain of un 64.9 3.5 7.6E-05 29.2 1.2 69 9-78 17-90 (153)
168 KOG4357 Uncharacterized conser 64.2 37 0.0008 23.9 6.0 64 6-69 65-140 (164)
169 PF15513 DUF4651: Domain of un 63.3 13 0.00027 22.9 3.2 18 23-40 9-26 (62)
170 cd00027 BRCT Breast Cancer Sup 63.1 25 0.00054 20.3 4.7 46 8-54 2-47 (72)
171 PRK02886 hypothetical protein; 62.8 23 0.0005 23.2 4.5 55 4-67 4-58 (87)
172 KOG4365 Uncharacterized conser 60.6 0.99 2.1E-05 38.2 -2.6 71 8-80 4-82 (572)
173 PF10567 Nab6_mRNP_bdg: RNA-re 60.5 17 0.00036 29.4 4.2 72 7-79 15-107 (309)
174 KOG2146 Splicing coactivator S 60.0 36 0.00079 27.5 6.0 12 132-143 216-227 (354)
175 PF03439 Spt5-NGN: Early trans 59.0 32 0.0007 22.1 4.8 34 34-67 33-69 (84)
176 PF14893 PNMA: PNMA 59.0 8.7 0.00019 31.6 2.6 50 3-53 14-73 (331)
177 PF07292 NID: Nmi/IFP 35 domai 58.4 7.7 0.00017 25.6 1.8 25 5-30 50-74 (88)
178 PF08734 GYD: GYD domain; Int 57.5 41 0.00089 22.0 5.2 40 23-62 23-67 (91)
179 KOG0862 Synaptobrevin/VAMP-lik 56.7 9.1 0.0002 29.4 2.1 31 23-53 89-120 (216)
180 PF09902 DUF2129: Uncharacteri 56.5 26 0.00056 22.1 3.9 39 28-67 16-54 (71)
181 PF08544 GHMP_kinases_C: GHMP 55.6 37 0.0008 21.1 4.7 39 23-62 37-79 (85)
182 PF07292 NID: Nmi/IFP 35 domai 53.8 22 0.00047 23.4 3.3 32 45-77 1-34 (88)
183 smart00596 PRE_C2HC PRE_C2HC d 53.8 13 0.00029 23.3 2.2 53 23-78 2-63 (69)
184 PF07530 PRE_C2HC: Associated 53.0 21 0.00045 22.2 3.0 55 23-80 2-65 (68)
185 PRK08559 nusG transcription an 51.8 47 0.001 24.0 5.2 56 8-65 6-69 (153)
186 PF11823 DUF3343: Protein of u 51.7 19 0.00041 22.4 2.7 25 43-67 2-26 (73)
187 PF11411 DNA_ligase_IV: DNA li 51.4 9.4 0.0002 20.7 1.1 17 18-34 19-35 (36)
188 KOG4454 RNA binding protein (R 51.0 3.7 7.9E-05 31.8 -0.8 64 7-71 80-154 (267)
189 COG0150 PurM Phosphoribosylami 49.6 9.2 0.0002 31.5 1.3 45 21-65 274-322 (345)
190 COG2608 CopZ Copper chaperone 48.8 54 0.0012 20.2 4.5 43 8-51 4-48 (71)
191 PRK02302 hypothetical protein; 45.2 45 0.00097 22.0 3.8 39 28-67 22-60 (89)
192 KOG4213 RNA-binding protein La 45.2 42 0.00091 25.3 4.0 42 20-61 118-169 (205)
193 cd06405 PB1_Mekk2_3 The PB1 do 44.6 82 0.0018 20.1 7.1 59 17-76 17-76 (79)
194 KOG0151 Predicted splicing reg 43.2 26 0.00055 31.9 3.1 9 45-53 695-703 (877)
195 PRK11901 hypothetical protein; 43.0 46 0.001 27.3 4.3 46 20-66 254-308 (327)
196 PF01782 RimM: RimM N-terminal 42.4 55 0.0012 20.6 4.0 29 38-67 50-78 (84)
197 PF08156 NOP5NT: NOP5NT (NUC12 41.8 7.7 0.00017 24.1 -0.2 39 23-63 27-65 (67)
198 PF14268 YoaP: YoaP-like 41.3 21 0.00046 20.3 1.6 34 44-77 2-37 (44)
199 PRK11230 glycolate oxidase sub 40.5 86 0.0019 27.3 5.9 42 22-63 203-255 (499)
200 KOG2888 Putative RNA binding p 40.4 19 0.0004 29.7 1.7 15 18-32 167-181 (453)
201 PF00313 CSD: 'Cold-shock' DNA 38.7 28 0.00062 20.9 2.0 46 33-78 3-53 (66)
202 KOG1999 RNA polymerase II tran 38.4 61 0.0013 30.6 4.8 36 41-77 209-244 (1024)
203 PF13046 DUF3906: Protein of u 37.6 57 0.0012 20.1 3.1 28 20-47 30-63 (64)
204 COG0018 ArgS Arginyl-tRNA synt 36.9 2.1E+02 0.0045 25.6 7.7 62 23-84 61-131 (577)
205 PF03254 XG_FTase: Xyloglucan 36.6 31 0.00067 29.9 2.5 67 5-73 352-422 (476)
206 KOG0156 Cytochrome P450 CYP2 s 36.6 75 0.0016 27.6 4.9 64 6-72 31-97 (489)
207 PF13721 SecD-TM1: SecD export 35.9 1.3E+02 0.0029 20.0 6.7 59 6-65 30-92 (101)
208 PF07693 KAP_NTPase: KAP famil 34.2 31 0.00067 27.5 2.1 69 8-81 174-250 (325)
209 PF12871 PRP38_assoc: Pre-mRNA 33.7 58 0.0013 21.6 3.1 6 167-172 91-96 (97)
210 PF07237 DUF1428: Protein of u 33.6 1.1E+02 0.0024 20.8 4.3 39 24-62 24-85 (103)
211 PF08538 DUF1749: Protein of u 32.2 47 0.001 27.1 2.8 57 5-62 32-97 (303)
212 PRK12450 foldase protein PrsA; 31.7 81 0.0018 25.5 4.2 39 19-63 132-170 (309)
213 PF00533 BRCT: BRCA1 C Terminu 31.4 32 0.00069 20.8 1.4 43 6-50 7-49 (78)
214 cd07052 BMC_like_1_repeat2 Bac 31.3 1.4E+02 0.003 19.2 4.3 27 35-61 46-73 (79)
215 cd04458 CSP_CDS Cold-Shock Pro 30.6 38 0.00083 20.2 1.6 47 33-79 3-54 (65)
216 cd04908 ACT_Bt0572_1 N-termina 30.5 1.2E+02 0.0026 17.9 7.6 45 21-66 14-63 (66)
217 PF08206 OB_RNB: Ribonuclease 30.4 20 0.00043 21.3 0.3 37 41-78 7-44 (58)
218 PRK15464 cold shock-like prote 30.3 40 0.00086 21.0 1.7 48 33-81 7-60 (70)
219 PF09707 Cas_Cas2CT1978: CRISP 30.0 93 0.002 20.3 3.4 44 6-50 24-72 (86)
220 PRK09507 cspE cold shock prote 29.8 43 0.00093 20.7 1.8 47 33-80 6-58 (69)
221 TIGR02381 cspD cold shock doma 29.8 45 0.00098 20.5 1.9 49 32-81 3-57 (68)
222 TIGR00302 phosphoribosylformyl 29.6 95 0.002 19.7 3.4 55 9-64 4-63 (80)
223 PF09869 DUF2096: Uncharacteri 29.5 1.6E+02 0.0034 21.8 4.9 46 14-62 118-163 (169)
224 KOG2854 Possible pfkB family c 29.1 39 0.00084 27.9 1.9 20 42-61 212-231 (343)
225 PF11491 DUF3213: Protein of u 28.9 1.6E+02 0.0035 19.2 4.3 64 10-75 3-72 (88)
226 PF01762 Galactosyl_T: Galacto 28.8 60 0.0013 24.0 2.8 56 6-62 20-78 (195)
227 TIGR00387 glcD glycolate oxida 28.7 1.5E+02 0.0033 24.9 5.5 43 20-62 144-197 (413)
228 CHL00123 rps6 ribosomal protei 28.7 1.8E+02 0.0038 19.2 6.0 54 5-61 6-81 (97)
229 PF13820 Nucleic_acid_bd: Puta 28.6 64 0.0014 23.4 2.7 56 9-64 6-67 (149)
230 PRK14998 cold shock-like prote 28.5 51 0.0011 20.7 2.0 48 33-81 4-57 (73)
231 PRK09937 stationary phase/star 28.4 50 0.0011 20.8 1.9 48 33-81 4-57 (74)
232 COG0735 Fur Fe2+/Zn2+ uptake r 28.2 2E+02 0.0044 20.4 5.3 52 25-76 61-134 (145)
233 COG1098 VacB Predicted RNA bin 28.1 1.5E+02 0.0032 21.0 4.3 46 32-77 5-61 (129)
234 COG2813 RsmC 16S RNA G1207 met 27.7 27 0.00058 28.4 0.7 51 4-56 63-113 (300)
235 PRK15463 cold shock-like prote 27.7 48 0.001 20.6 1.7 50 32-81 6-60 (70)
236 smart00195 DSPc Dual specifici 27.7 1.6E+02 0.0036 20.0 4.7 27 9-38 7-33 (138)
237 PF06804 Lipoprotein_18: NlpB/ 27.4 1.6E+02 0.0035 23.8 5.2 49 6-55 197-246 (303)
238 PRK09890 cold shock protein Cs 26.4 51 0.0011 20.4 1.7 48 32-80 6-59 (70)
239 KOG2187 tRNA uracil-5-methyltr 26.4 39 0.00086 29.6 1.5 40 41-80 62-101 (534)
240 PF04127 DFP: DNA / pantothena 26.3 1.6E+02 0.0035 21.9 4.7 53 9-62 20-79 (185)
241 cd04889 ACT_PDH-BS-like C-term 26.2 1.3E+02 0.0029 16.9 4.6 38 22-59 12-55 (56)
242 PF02829 3H: 3H domain; Inter 26.0 1.9E+02 0.0041 19.3 4.5 45 20-64 9-58 (98)
243 KOG0113 U1 small nuclear ribon 25.9 3.7E+02 0.0081 22.0 7.0 31 21-54 152-182 (335)
244 PRK10943 cold shock-like prote 25.7 61 0.0013 20.0 2.0 48 32-80 5-58 (69)
245 PRK14887 KEOPS complex Pcc1-li 25.6 1.9E+02 0.0042 18.6 4.5 22 42-63 5-26 (84)
246 PTZ00191 60S ribosomal protein 25.5 1.7E+02 0.0037 21.1 4.4 51 7-60 83-140 (145)
247 smart00115 CASc Caspase, inter 25.5 2.9E+02 0.0062 21.4 6.1 36 1-37 3-47 (241)
248 COG5507 Uncharacterized conser 25.4 83 0.0018 21.2 2.6 20 43-62 67-86 (117)
249 PRK10354 RNA chaperone/anti-te 25.4 54 0.0012 20.2 1.7 48 32-80 6-59 (70)
250 PF15063 TC1: Thyroid cancer p 25.4 36 0.00077 21.7 0.8 24 11-35 29-52 (79)
251 PRK05974 phosphoribosylformylg 24.9 1.2E+02 0.0027 19.1 3.4 37 9-46 4-44 (80)
252 cd00412 pyrophosphatase Inorga 24.8 68 0.0015 23.4 2.3 38 22-62 116-153 (155)
253 COG5236 Uncharacterized conser 24.8 1.6E+02 0.0035 24.7 4.6 49 22-70 264-312 (493)
254 cd04880 ACT_AAAH-PDT-like ACT 24.1 1.8E+02 0.0038 17.6 4.0 44 21-64 12-66 (75)
255 PLN02373 soluble inorganic pyr 24.0 79 0.0017 23.9 2.6 37 22-62 138-174 (188)
256 PF12829 Mhr1: Transcriptional 23.5 79 0.0017 20.9 2.2 45 19-63 23-72 (91)
257 COG1828 PurS Phosphoribosylfor 23.4 1.1E+02 0.0025 19.8 2.9 47 23-69 20-69 (83)
258 PF05573 NosL: NosL; InterPro 23.3 70 0.0015 22.9 2.2 23 42-64 114-136 (149)
259 PF08442 ATP-grasp_2: ATP-gras 23.0 1.6E+02 0.0034 22.4 4.1 49 20-68 25-81 (202)
260 COG0030 KsgA Dimethyladenosine 23.0 1.1E+02 0.0025 24.2 3.4 27 8-35 96-122 (259)
261 PF00398 RrnaAD: Ribosomal RNA 22.9 64 0.0014 25.3 2.0 27 7-34 97-125 (262)
262 PRK10162 acetyl esterase; Prov 22.7 2.1E+02 0.0046 22.9 5.1 57 6-62 249-308 (318)
263 PF02700 PurS: Phosphoribosylf 22.5 1.5E+02 0.0033 18.9 3.4 58 9-67 4-66 (80)
264 COG4274 Uncharacterized conser 22.5 2.6E+02 0.0056 18.9 4.7 39 23-61 33-76 (104)
265 cd04883 ACT_AcuB C-terminal AC 22.3 1.8E+02 0.0039 17.1 5.9 46 21-67 14-68 (72)
266 PF12623 Hen1_L: RNA repair, l 22.3 1.8E+02 0.0039 22.8 4.3 54 8-62 119-183 (245)
267 TIGR00405 L26e_arch ribosomal 22.1 1E+02 0.0023 21.7 2.9 25 41-65 37-61 (145)
268 KOG3702 Nuclear polyadenylated 22.1 48 0.001 29.8 1.2 63 9-73 513-583 (681)
269 PF04800 ETC_C1_NDUFA4: ETC co 22.0 1.3E+02 0.0028 20.3 3.1 21 45-66 51-71 (101)
270 COG0079 HisC Histidinol-phosph 22.0 1.2E+02 0.0026 25.1 3.6 50 6-58 145-197 (356)
271 PF09250 Prim-Pol: Bifunctiona 22.0 1.2E+02 0.0027 21.3 3.3 34 20-53 32-67 (163)
272 PRK10536 hypothetical protein; 21.9 3.7E+02 0.0081 21.4 6.1 32 7-40 177-208 (262)
273 PHA01632 hypothetical protein 21.9 74 0.0016 19.1 1.6 19 12-31 21-39 (64)
274 PRK12933 secD preprotein trans 21.6 5.2E+02 0.011 23.4 7.5 73 6-78 39-112 (604)
275 KOG0524 Pyruvate dehydrogenase 21.6 3.5E+02 0.0075 22.1 5.8 58 5-63 195-259 (359)
276 PF05711 TylF: Macrocin-O-meth 21.5 92 0.002 24.5 2.6 55 20-74 140-210 (248)
277 PF01037 AsnC_trans_reg: AsnC 21.4 1.9E+02 0.0042 17.1 7.0 40 22-61 12-55 (74)
278 PF01329 Pterin_4a: Pterin 4 a 21.3 2.4E+02 0.0052 18.4 4.3 63 18-80 3-75 (95)
279 PRK05772 translation initiatio 21.2 2.6E+02 0.0056 23.5 5.3 44 20-63 3-57 (363)
280 PHA03008 hypothetical protein; 21.1 1.7E+02 0.0036 22.5 3.8 44 7-51 21-64 (234)
281 cd04882 ACT_Bt0572_2 C-termina 21.1 1.8E+02 0.0039 16.6 4.5 43 22-65 13-62 (65)
282 PRK04405 prsA peptidylprolyl i 21.1 1.7E+02 0.0037 23.5 4.2 40 19-64 128-167 (298)
283 PLN02805 D-lactate dehydrogena 21.0 2.9E+02 0.0062 24.6 5.8 42 21-62 279-331 (555)
284 TIGR00755 ksgA dimethyladenosi 21.0 1.1E+02 0.0025 23.6 3.1 24 9-33 96-119 (253)
285 COG1308 EGD2 Transcription fac 20.7 1.7E+02 0.0038 20.4 3.6 30 19-64 82-111 (122)
286 KOG1635 Peptide methionine sul 20.3 2.6E+02 0.0055 21.0 4.5 68 8-76 76-150 (191)
287 KOG0829 60S ribosomal protein 20.2 1.4E+02 0.003 21.9 3.1 50 2-53 12-81 (169)
288 PRK13828 rimM 16S rRNA-process 20.1 1.6E+02 0.0034 21.4 3.5 31 35-66 34-64 (161)
289 PF07045 DUF1330: Protein of u 20.0 1.3E+02 0.0028 18.0 2.6 19 42-60 39-57 (65)
No 1
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.92 E-value=1.6e-23 Score=151.76 Aligned_cols=78 Identities=27% Similarity=0.445 Sum_probs=72.9
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCC
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI---RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDD 81 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~ 81 (173)
+-.++|||+|| +..+++.||+.+|.+||.|..|+| +.|||||||++..+|++|+..|+|..|+|..|.|+++....
T Consensus 8 ~~~~kVYVGnL-~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~ 86 (195)
T KOG0107|consen 8 NGNTKVYVGNL-GSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRP 86 (195)
T ss_pred CCCceEEeccC-CCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCc
Confidence 45789999999 889999999999999999999999 68999999999999999999999999999999999998765
Q ss_pred CC
Q 030662 82 SE 83 (173)
Q Consensus 82 ~~ 83 (173)
..
T Consensus 87 r~ 88 (195)
T KOG0107|consen 87 RG 88 (195)
T ss_pred cc
Confidence 53
No 2
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.88 E-value=9.1e-22 Score=146.12 Aligned_cols=109 Identities=34% Similarity=0.451 Sum_probs=84.4
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
+.+-..+|.|-|| .+.|+.++|..+|++||.|.+|.| .+|||||.|....+|+.|+++|+|.+|+|+.|.|
T Consensus 9 dv~gm~SLkVdNL-TyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrV 87 (256)
T KOG4207|consen 9 DVEGMTSLKVDNL-TYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRV 87 (256)
T ss_pred CcccceeEEecce-eccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeee
Confidence 3445678999999 799999999999999999999999 4899999999999999999999999999999999
Q ss_pred EEeecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 030662 75 EYALKDDSERDDRYDSPRRGGYGRHSPYGRSPSPAYRR 112 (173)
Q Consensus 75 ~~a~~~~~~~~~~~~~~~~g~~~~~~~~~r~~~~~~rr 112 (173)
++|+-..............++++++++++++.++.+++
T Consensus 88 q~arygr~~d~~~s~~~~~~gR~~gg~~rR~r~~~RrR 125 (256)
T KOG4207|consen 88 QMARYGRPSDLPHSSRVERGGRSGGGGYRRSRSSPRRR 125 (256)
T ss_pred hhhhcCCCcccccccccccCCcCCCCCCccccCCcccc
Confidence 99986544222111122233333444566666555544
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.85 E-value=2.4e-20 Score=134.81 Aligned_cols=78 Identities=27% Similarity=0.439 Sum_probs=71.6
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
...++|||+|| +++++|++|+++|.+||.|..|.|. +|||||+|.+.++|++||+.||++.|.|+.|+|+|
T Consensus 32 ~~~~~lfVgnL-~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 32 LMSTKLFIGGL-SWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred CCCCEEEEeCC-CCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 45779999999 8999999999999999999999883 79999999999999999999999999999999999
Q ss_pred eecCCCC
Q 030662 77 ALKDDSE 83 (173)
Q Consensus 77 a~~~~~~ 83 (173)
+..+...
T Consensus 111 a~~~~~~ 117 (144)
T PLN03134 111 ANDRPSA 117 (144)
T ss_pred CCcCCCC
Confidence 9876543
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.75 E-value=5.8e-17 Score=126.28 Aligned_cols=81 Identities=28% Similarity=0.498 Sum_probs=74.3
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
.+|-+||||+-| +++|+|..|+..|++||.|+.|.| ++|||||+|+++.++.+|.+..+|++|+|+.|.|.
T Consensus 98 gDPy~TLFv~RL-nydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VD 176 (335)
T KOG0113|consen 98 GDPYKTLFVARL-NYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVD 176 (335)
T ss_pred CCccceeeeeec-cccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEE
Confidence 468899999999 799999999999999999999988 58999999999999999999999999999999999
Q ss_pred EeecCCCCCC
Q 030662 76 YALKDDSERD 85 (173)
Q Consensus 76 ~a~~~~~~~~ 85 (173)
+-.....+.+
T Consensus 177 vERgRTvkgW 186 (335)
T KOG0113|consen 177 VERGRTVKGW 186 (335)
T ss_pred eccccccccc
Confidence 9876655544
No 5
>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=99.74 E-value=5.6e-17 Score=139.31 Aligned_cols=77 Identities=34% Similarity=0.506 Sum_probs=72.5
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccC--CCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCCCC
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPY--GNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDDSE 83 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~--G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~~~ 83 (173)
..++|||+|| ++.+++++|+++|++| |+|+.|.+.++||||+|.+.++|++||+.||+.+|.|+.|+|.|+++....
T Consensus 232 ~~k~LfVgNL-~~~~tee~L~~~F~~f~~G~I~rV~~~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~~ 310 (578)
T TIGR01648 232 KVKILYVRNL-MTTTTEEIIEKSFSEFKPGKVERVKKIRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDKK 310 (578)
T ss_pred cccEEEEeCC-CCCCCHHHHHHHHHhcCCCceEEEEeecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCcc
Confidence 4578999999 8999999999999999 999999999999999999999999999999999999999999999876544
No 6
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.73 E-value=2.4e-17 Score=120.90 Aligned_cols=77 Identities=27% Similarity=0.472 Sum_probs=71.2
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-----eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-----RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
....++|||+|| |.++.+.+|+++|.+||.|.+|.| +..||||+|++..+|+.||..-+|..++|..|.|+|+.
T Consensus 3 gr~~~~iyvGNL-P~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 3 GRNSRRIYVGNL-PGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred CcccceEEecCC-CcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 346789999999 889999999999999999999998 35799999999999999999999999999999999998
Q ss_pred cCC
Q 030662 79 KDD 81 (173)
Q Consensus 79 ~~~ 81 (173)
.-.
T Consensus 82 ggr 84 (241)
T KOG0105|consen 82 GGR 84 (241)
T ss_pred CCC
Confidence 665
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.71 E-value=6.7e-17 Score=132.03 Aligned_cols=74 Identities=28% Similarity=0.460 Sum_probs=69.3
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
+.+|||+|| |..+++++|.++|++||.|..|.| .+|||||+|.+.++|.+||+.|||..|.|+.|.|.|+.
T Consensus 269 ~~~lfV~NL-~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~ 347 (352)
T TIGR01661 269 GYCIFVYNL-SPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKT 347 (352)
T ss_pred CcEEEEeCC-CCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcc
Confidence 457999999 899999999999999999999988 38999999999999999999999999999999999998
Q ss_pred cCC
Q 030662 79 KDD 81 (173)
Q Consensus 79 ~~~ 81 (173)
.+.
T Consensus 348 ~~~ 350 (352)
T TIGR01661 348 NKA 350 (352)
T ss_pred CCC
Confidence 764
No 8
>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=99.70 E-value=6.6e-17 Score=132.05 Aligned_cols=76 Identities=21% Similarity=0.417 Sum_probs=70.3
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
....++|||+|| |+++++++|+++|++||+|+.|+| .+|||||+|.++++|++||+.||++.|.++.|+|.
T Consensus 104 ~~~~~~LfVgnL-p~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 104 NNSGTNLIVNYL-PQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCcEEEEeCC-CCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 456789999999 899999999999999999999988 25899999999999999999999999999999999
Q ss_pred EeecC
Q 030662 76 YALKD 80 (173)
Q Consensus 76 ~a~~~ 80 (173)
++++.
T Consensus 183 ~a~p~ 187 (346)
T TIGR01659 183 YARPG 187 (346)
T ss_pred ccccc
Confidence 98753
No 9
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.69 E-value=1.5e-16 Score=130.04 Aligned_cols=75 Identities=24% Similarity=0.453 Sum_probs=70.1
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
+..+|||+|| |..+++++|+++|++||+|..|.| .+|||||+|.+.++|++||+.|||..|.|+.|.|.|+
T Consensus 2 ~~~~l~V~nL-p~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a 80 (352)
T TIGR01661 2 SKTNLIVNYL-PQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYA 80 (352)
T ss_pred CCcEEEEeCC-CCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEee
Confidence 5789999999 899999999999999999999988 2589999999999999999999999999999999999
Q ss_pred ecCC
Q 030662 78 LKDD 81 (173)
Q Consensus 78 ~~~~ 81 (173)
++..
T Consensus 81 ~~~~ 84 (352)
T TIGR01661 81 RPSS 84 (352)
T ss_pred cccc
Confidence 7654
No 10
>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=99.68 E-value=7e-16 Score=126.05 Aligned_cols=76 Identities=25% Similarity=0.452 Sum_probs=68.1
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecC--ceEEEE
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVD--RVISVE 75 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g--~~l~v~ 75 (173)
...+|||+|| |..++|++|+++|++||+|+.|.|. ++||||+|.+.++|++||+.||++.|.+ ..|+|.
T Consensus 192 ~~~~lfV~nL-p~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~ 270 (346)
T TIGR01659 192 KDTNLYVTNL-PRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVR 270 (346)
T ss_pred ccceeEEeCC-CCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEE
Confidence 4678999999 8999999999999999999998872 5899999999999999999999998865 689999
Q ss_pred EeecCCC
Q 030662 76 YALKDDS 82 (173)
Q Consensus 76 ~a~~~~~ 82 (173)
|++....
T Consensus 271 ~a~~~~~ 277 (346)
T TIGR01659 271 LAEEHGK 277 (346)
T ss_pred ECCcccc
Confidence 9886544
No 11
>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=99.68 E-value=1.7e-16 Score=100.13 Aligned_cols=63 Identities=33% Similarity=0.675 Sum_probs=59.2
Q ss_pred EEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEE
Q 030662 10 LFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVIS 73 (173)
Q Consensus 10 l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~ 73 (173)
|||+|| |.++++++|.++|++||.|..+.| .+++|||+|.+.++|++|++.|+|..|.|+.|+
T Consensus 1 l~v~nl-p~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNL-PPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESE-TTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCC-CCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999 899999999999999999998888 267999999999999999999999999999875
No 12
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.67 E-value=1.1e-16 Score=110.90 Aligned_cols=74 Identities=26% Similarity=0.460 Sum_probs=69.3
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
..++||||+|| .+-|+|++|.++|+++|+|..|.| +.|||||+|.+.++|+.||+.++++.++.+.|.|.|
T Consensus 34 r~S~tvyVgNl-SfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~ 112 (153)
T KOG0121|consen 34 RKSCTVYVGNL-SFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDW 112 (153)
T ss_pred hhcceEEEeee-eeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeec
Confidence 46799999999 899999999999999999999988 579999999999999999999999999999999998
Q ss_pred eec
Q 030662 77 ALK 79 (173)
Q Consensus 77 a~~ 79 (173)
...
T Consensus 113 D~G 115 (153)
T KOG0121|consen 113 DAG 115 (153)
T ss_pred ccc
Confidence 753
No 13
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.66 E-value=3.7e-16 Score=109.24 Aligned_cols=77 Identities=25% Similarity=0.510 Sum_probs=70.9
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
..-.|||.++ ...++|++|.+.|..||+|+.|.| .+|||+|+|++.++|++||.+|||..|.|+.|.|.|+
T Consensus 71 EGwIi~Vtgv-HeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 71 EGWIIFVTGV-HEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWC 149 (170)
T ss_pred eeEEEEEecc-CcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEE
Confidence 3568999999 578999999999999999999998 4899999999999999999999999999999999999
Q ss_pred ecCCCC
Q 030662 78 LKDDSE 83 (173)
Q Consensus 78 ~~~~~~ 83 (173)
..+.+.
T Consensus 150 Fv~gp~ 155 (170)
T KOG0130|consen 150 FVKGPE 155 (170)
T ss_pred EecCCc
Confidence 977554
No 14
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.63 E-value=1.5e-15 Score=117.98 Aligned_cols=72 Identities=29% Similarity=0.442 Sum_probs=67.3
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-----eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-----RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
.++|||+|| ++.+++++|+++|+.||+|..|.| .+|||||+|.+.++|+.||. |+|..|.|+.|.|.++..-
T Consensus 4 ~rtVfVgNL-s~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 4 VRTVKVSNV-SLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY 80 (260)
T ss_pred CCEEEEeCC-CCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence 579999999 889999999999999999999999 46899999999999999995 9999999999999998743
No 15
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=6.7e-16 Score=121.75 Aligned_cols=76 Identities=33% Similarity=0.534 Sum_probs=70.6
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
..-.+.|+|.|| |+...+.||..+|++||+|++|.| +|||+||+|++.++|++|-++|||..|.|++|.|..|
T Consensus 93 ~~~pkRLhVSNI-PFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A 171 (376)
T KOG0125|consen 93 KDTPKRLHVSNI-PFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA 171 (376)
T ss_pred CCCCceeEeecC-CccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence 344678999999 999999999999999999999988 5999999999999999999999999999999999998
Q ss_pred ecC
Q 030662 78 LKD 80 (173)
Q Consensus 78 ~~~ 80 (173)
...
T Consensus 172 Tar 174 (376)
T KOG0125|consen 172 TAR 174 (376)
T ss_pred chh
Confidence 743
No 16
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.61 E-value=2.6e-15 Score=114.29 Aligned_cols=75 Identities=27% Similarity=0.515 Sum_probs=70.8
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
...++|-|.|| +.+++|.+|.++|.+||.|..|.| .+|||||.|.+.++|.+||..|||.-++.-.|.|+|
T Consensus 187 ~D~~tvRvtNL-sed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEw 265 (270)
T KOG0122|consen 187 DDEATVRVTNL-SEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEW 265 (270)
T ss_pred CccceeEEecC-ccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEe
Confidence 45678999999 899999999999999999999988 489999999999999999999999999999999999
Q ss_pred eecC
Q 030662 77 ALKD 80 (173)
Q Consensus 77 a~~~ 80 (173)
++++
T Consensus 266 skP~ 269 (270)
T KOG0122|consen 266 SKPS 269 (270)
T ss_pred cCCC
Confidence 9975
No 17
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.60 E-value=2e-15 Score=123.19 Aligned_cols=79 Identities=33% Similarity=0.512 Sum_probs=73.9
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCCCCCC
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDDSERD 85 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~~~~~ 85 (173)
..+.|||.|| +.+|||+.|+++|.+||.|..|+..+.||||.|.+.++|.+||+.|||++|+|..|.|.+|++...+..
T Consensus 258 ~VKvLYVRNL-~~~tTeE~lk~~F~~~G~veRVkk~rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k~k~ 336 (506)
T KOG0117|consen 258 KVKVLYVRNL-MESTTEETLKKLFNEFGKVERVKKPRDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDKKKK 336 (506)
T ss_pred heeeeeeecc-chhhhHHHHHHHHHhccceEEeecccceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhhhcc
Confidence 3578999999 999999999999999999999999999999999999999999999999999999999999998765433
No 18
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.59 E-value=1.4e-15 Score=118.36 Aligned_cols=72 Identities=31% Similarity=0.504 Sum_probs=69.5
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
-+|||||| |.++++++|+.+|++||+|++|.|.|.||||..++...|+.||..||+.+|+|..|+|+-++.+
T Consensus 3 ~KLFIGNL-p~~~~~~elr~lFe~ygkVlECDIvKNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNL-PREATEQELRSLFEQYGKVLECDIVKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCC-CcccchHHHHHHHHhhCceEeeeeecccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 36999999 8999999999999999999999999999999999999999999999999999999999999876
No 19
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.59 E-value=9.5e-15 Score=124.43 Aligned_cols=76 Identities=21% Similarity=0.285 Sum_probs=70.0
Q ss_pred CCCCEEEEcCCCCC-CCCHHHHHHhhccCCCeEEEEee---CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 5 RPTKTLFVINFDPI-RTRERDIKRHFEPYGNVLHVRIR---RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 5 ~~~~~l~V~nL~p~-~~~e~~L~~~F~~~G~i~~~~~~---~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
+++++|||+|| +. .+++++|.++|+.||.|..|.|. +|||||+|.+.++|+.||+.|||..|.|+.|.|.+++..
T Consensus 273 ~~~~~l~v~nL-~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 273 GPGSVLMVSGL-HQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred CCCCEEEEeCC-CCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 47789999999 66 69999999999999999999883 699999999999999999999999999999999998765
Q ss_pred C
Q 030662 81 D 81 (173)
Q Consensus 81 ~ 81 (173)
.
T Consensus 352 ~ 352 (481)
T TIGR01649 352 N 352 (481)
T ss_pred c
Confidence 3
No 20
>PLN03213 repressor of silencing 3; Provisional
Probab=99.58 E-value=8.2e-15 Score=121.23 Aligned_cols=74 Identities=22% Similarity=0.284 Sum_probs=68.9
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee----CCeEEEEeCCH--HHHHHHHHhcCCCeecCceEEEEEee
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR----RNFAFVQFETQ--EEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~----~g~afV~f~~~--~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
....+|||||| ++.+++++|..+|..||.|..|.|+ +|||||+|.+. .++++||..|||..+.|..|+|+.|+
T Consensus 8 ~~gMRIYVGNL-SydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAK 86 (759)
T PLN03213 8 GGGVRLHVGGL-GESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAK 86 (759)
T ss_pred CcceEEEEeCC-CCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeecc
Confidence 34679999999 8999999999999999999999995 79999999987 78999999999999999999999998
Q ss_pred c
Q 030662 79 K 79 (173)
Q Consensus 79 ~ 79 (173)
+
T Consensus 87 P 87 (759)
T PLN03213 87 E 87 (759)
T ss_pred H
Confidence 4
No 21
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.57 E-value=1.7e-14 Score=123.30 Aligned_cols=75 Identities=17% Similarity=0.375 Sum_probs=69.1
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
+..+|||+|| |+.+++++|+++|+.||.|..+.| .+|||||+|.+.++|+.||+.|||+.|.|..|.|.++
T Consensus 294 ~~~~l~v~nl-p~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 294 SKDRIYIGNL-PLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCEEEEeCC-CCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 4579999999 899999999999999999998877 3789999999999999999999999999999999998
Q ss_pred ecCC
Q 030662 78 LKDD 81 (173)
Q Consensus 78 ~~~~ 81 (173)
....
T Consensus 373 ~~~~ 376 (509)
T TIGR01642 373 CVGA 376 (509)
T ss_pred ccCC
Confidence 7543
No 22
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.56 E-value=1.6e-14 Score=124.72 Aligned_cols=76 Identities=17% Similarity=0.400 Sum_probs=70.1
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
...+|||+|| +..+++++|+++|+.||.|..|.| .+|||||+|.+.++|++||+.||+..|+|+.|.|.++
T Consensus 203 ~~~rLfVgnL-p~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kA 281 (612)
T TIGR01645 203 KFNRIYVASV-HPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC 281 (612)
T ss_pred ccceEEeecC-CCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEec
Confidence 4579999999 889999999999999999999988 3789999999999999999999999999999999999
Q ss_pred ecCCC
Q 030662 78 LKDDS 82 (173)
Q Consensus 78 ~~~~~ 82 (173)
..++.
T Consensus 282 i~pP~ 286 (612)
T TIGR01645 282 VTPPD 286 (612)
T ss_pred CCCcc
Confidence 86543
No 23
>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=99.56 E-value=2.2e-14 Score=121.17 Aligned_cols=74 Identities=34% Similarity=0.607 Sum_probs=68.6
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
...+|||+|| |..+++++|+++|++||.|..|.|. +|||||+|.+.++|++||+.|||..|.|+.|.|.|+
T Consensus 185 ~~~~l~v~nl-~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a 263 (457)
T TIGR01622 185 NFLKLYVGNL-HFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYA 263 (457)
T ss_pred CCCEEEEcCC-CCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEc
Confidence 3689999999 8999999999999999999999883 689999999999999999999999999999999998
Q ss_pred ecC
Q 030662 78 LKD 80 (173)
Q Consensus 78 ~~~ 80 (173)
...
T Consensus 264 ~~~ 266 (457)
T TIGR01622 264 QDS 266 (457)
T ss_pred cCC
Confidence 743
No 24
>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=99.56 E-value=1.6e-14 Score=91.48 Aligned_cols=63 Identities=35% Similarity=0.664 Sum_probs=56.6
Q ss_pred EEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEE
Q 030662 10 LFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-------RNFAFVQFETQEEATKALESTDRSKLVDRVIS 73 (173)
Q Consensus 10 l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~ 73 (173)
|||+|| |.++++++|.++|+.||.|..+.+. +++|||+|.+.++|+.|++.+++..|.|+.|.
T Consensus 1 v~i~nl-p~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNL-PPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESS-TTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCC-CCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 799999 8999999999999999999999882 58999999999999999999999999999874
No 25
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=2.2e-14 Score=96.05 Aligned_cols=76 Identities=25% Similarity=0.448 Sum_probs=70.2
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-----eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-----RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
+..+..|||.|| |+.+|.+++.++|.+||.|..|.| .+|-|||.|++..+|.+|+++|+|..+++..|.|-+..
T Consensus 15 pevnriLyirNL-p~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq 93 (124)
T KOG0114|consen 15 PEVNRILYIRNL-PFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ 93 (124)
T ss_pred hhhheeEEEecC-CccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence 345789999999 999999999999999999999999 48999999999999999999999999999999998876
Q ss_pred cC
Q 030662 79 KD 80 (173)
Q Consensus 79 ~~ 80 (173)
+.
T Consensus 94 ~~ 95 (124)
T KOG0114|consen 94 PE 95 (124)
T ss_pred HH
Confidence 44
No 26
>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=99.55 E-value=2e-14 Score=122.51 Aligned_cols=74 Identities=23% Similarity=0.347 Sum_probs=68.1
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--eCCeEEEEeCCHHHHHHHHHhc--CCCeecCceEEEEEeecC
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--RRNFAFVQFETQEEATKALEST--DRSKLVDRVISVEYALKD 80 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~~g~afV~f~~~~~a~~A~~~l--~g~~i~g~~l~v~~a~~~ 80 (173)
|+++|||+|| |+.+++++|.++|++||.|..|.| .++||||+|.+.++|++||+.| ++..|.|+.|.|+|+..+
T Consensus 1 ps~vv~V~nL-p~~~te~~L~~~f~~fG~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~ 78 (481)
T TIGR01649 1 PSPVVHVRNL-PQDVVEADLVEALIPFGPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQ 78 (481)
T ss_pred CccEEEEcCC-CCCCCHHHHHHHHHhcCCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCc
Confidence 6789999999 899999999999999999999988 4789999999999999999864 778999999999998654
No 27
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=5.4e-15 Score=111.23 Aligned_cols=79 Identities=29% Similarity=0.558 Sum_probs=73.4
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
....+||||+| ..+++|..|...|-+||.|+.|.+ .+|||||+|...++|.+||..||+.+|.|+.|.|.+
T Consensus 8 ~~KrtlYVGGl-adeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~ 86 (298)
T KOG0111|consen 8 NQKRTLYVGGL-ADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL 86 (298)
T ss_pred ccceeEEeccc-hHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence 45789999999 899999999999999999999998 389999999999999999999999999999999999
Q ss_pred eecCCCCC
Q 030662 77 ALKDDSER 84 (173)
Q Consensus 77 a~~~~~~~ 84 (173)
|++.+-+.
T Consensus 87 AkP~kike 94 (298)
T KOG0111|consen 87 AKPEKIKE 94 (298)
T ss_pred cCCccccC
Confidence 99876543
No 28
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.54 E-value=3.9e-14 Score=109.39 Aligned_cols=79 Identities=23% Similarity=0.501 Sum_probs=72.4
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
..+.+++|||||| +..++|++|++.|+.||.|.+|.| .+|||||.|++.|.|..||..||+.+|.|+.+++.|-+..
T Consensus 160 ssp~NtsVY~G~I-~~~lte~~mr~~Fs~fG~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~ 238 (321)
T KOG0148|consen 160 SSPDNTSVYVGNI-ASGLTEDLMRQTFSPFGPIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEG 238 (321)
T ss_pred CCCCCceEEeCCc-CccccHHHHHHhcccCCcceEEEEecccceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccC
Confidence 3467899999999 668999999999999999999998 5899999999999999999999999999999999998865
Q ss_pred CC
Q 030662 81 DS 82 (173)
Q Consensus 81 ~~ 82 (173)
..
T Consensus 239 ~~ 240 (321)
T KOG0148|consen 239 DD 240 (321)
T ss_pred CC
Confidence 43
No 29
>smart00362 RRM_2 RNA recognition motif.
Probab=99.53 E-value=6e-14 Score=87.67 Aligned_cols=66 Identities=44% Similarity=0.710 Sum_probs=60.8
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR------RNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
+|||+|| |..+++++|.++|.+||.|..+.+. .++|||+|.+.++|+.|++.|++..|.|..|.|+
T Consensus 1 ~v~i~~l-~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNL-PPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCC-CCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 5899999 8899999999999999999998873 3899999999999999999999999999998873
No 30
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.53 E-value=3.8e-14 Score=122.35 Aligned_cols=73 Identities=30% Similarity=0.496 Sum_probs=67.8
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
...++|||+|| ++.+++++|+++|.+||.|..|.| ++|||||+|.+.++|+.||+.|||..|.|+.|.|.+
T Consensus 105 ~~~~rLfVGnL-p~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r 183 (612)
T TIGR01645 105 AIMCRVYVGSI-SFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 183 (612)
T ss_pred cCCCEEEEcCC-CCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence 35689999999 899999999999999999999988 489999999999999999999999999999999986
Q ss_pred ee
Q 030662 77 AL 78 (173)
Q Consensus 77 a~ 78 (173)
..
T Consensus 184 p~ 185 (612)
T TIGR01645 184 PS 185 (612)
T ss_pred cc
Confidence 44
No 31
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.53 E-value=6.6e-14 Score=107.42 Aligned_cols=72 Identities=22% Similarity=0.265 Sum_probs=65.6
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-----CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeec
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-----RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALK 79 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-----~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~ 79 (173)
...+|||+|| ++.+++++|+++|+.||+|..|.|. .+||||+|.+.++|+.||. |+|..|.++.|.|..+..
T Consensus 4 ~g~TV~V~NL-S~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~~ 80 (243)
T PLN03121 4 GGYTAEVTNL-SPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWGQ 80 (243)
T ss_pred CceEEEEecC-CCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCcc
Confidence 4579999999 7899999999999999999999993 5799999999999999995 999999999999987653
No 32
>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=99.52 E-value=4.9e-14 Score=122.08 Aligned_cols=76 Identities=22% Similarity=0.404 Sum_probs=70.2
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
....+|||+|| +..+++++|+++|++||.|+.|.| .+|||||+|.+.++|++|++.|||..|.|+.|.|.+|
T Consensus 283 ~~~~~l~V~nl-~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 283 AQGVNLYVKNL-DDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred cCCCEEEEeCC-CCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 35678999999 789999999999999999999988 3699999999999999999999999999999999999
Q ss_pred ecCC
Q 030662 78 LKDD 81 (173)
Q Consensus 78 ~~~~ 81 (173)
..+.
T Consensus 362 ~~k~ 365 (562)
T TIGR01628 362 QRKE 365 (562)
T ss_pred cCcH
Confidence 8653
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=99.51 E-value=5.7e-14 Score=121.66 Aligned_cols=71 Identities=27% Similarity=0.549 Sum_probs=66.4
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
+|||+|| |.++||++|.++|++||.|..|.| .+|||||+|.+.++|++||+.||+..|.|+.|.|.|+...
T Consensus 2 sl~VgnL-p~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~ 80 (562)
T TIGR01628 2 SLYVGDL-DPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRD 80 (562)
T ss_pred eEEEeCC-CCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccc
Confidence 7999999 889999999999999999999988 2589999999999999999999999999999999998643
No 34
>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=99.51 E-value=8.5e-14 Score=117.61 Aligned_cols=74 Identities=31% Similarity=0.515 Sum_probs=67.8
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
.+.++|||+|| |..+++++|+++|++||.|..|.| .+|||||+|.+.++|++||. |+|..|.|..|.|++
T Consensus 87 ~~~~~l~V~nl-p~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~ 164 (457)
T TIGR01622 87 RDDRTVFVLQL-ALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQS 164 (457)
T ss_pred cCCcEEEEeCC-CCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEee
Confidence 35789999999 899999999999999999999988 37899999999999999997 899999999999998
Q ss_pred eecC
Q 030662 77 ALKD 80 (173)
Q Consensus 77 a~~~ 80 (173)
+...
T Consensus 165 ~~~~ 168 (457)
T TIGR01622 165 SQAE 168 (457)
T ss_pred cchh
Confidence 7644
No 35
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.50 E-value=3.1e-14 Score=107.96 Aligned_cols=71 Identities=23% Similarity=0.425 Sum_probs=64.4
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
-++||||+| +|.+..++|.++|++||+|++..| ++||+||+|.+.+.|..|++. .+-.|+|++..+++|.
T Consensus 12 ~TKifVggL-~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 12 FTKIFVGGL-AWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNLAS 89 (247)
T ss_pred EEEEEEcCc-ccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccchhh
Confidence 468999999 999999999999999999998877 589999999999999999985 5678899999999886
Q ss_pred c
Q 030662 79 K 79 (173)
Q Consensus 79 ~ 79 (173)
-
T Consensus 90 l 90 (247)
T KOG0149|consen 90 L 90 (247)
T ss_pred h
Confidence 5
No 36
>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=99.50 E-value=1.6e-13 Score=83.35 Aligned_cols=53 Identities=34% Similarity=0.644 Sum_probs=49.0
Q ss_pred HHHhhccCCCeEEEEee--C-CeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 25 IKRHFEPYGNVLHVRIR--R-NFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 25 L~~~F~~~G~i~~~~~~--~-g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
|.++|++||+|..+.+. . ++|||+|.+.++|+.|++.|||..|.|+.|.|+||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 68899999999999984 3 99999999999999999999999999999999986
No 37
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.50 E-value=8.1e-14 Score=119.98 Aligned_cols=71 Identities=27% Similarity=0.427 Sum_probs=62.8
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeec-CceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLV-DRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~-g~~l~v~~a 77 (173)
..++|||+|| |.+++|++|.++|++||.|..|.| ++|||||+|.+.++|++||+.||+.+|. |+.|.|.++
T Consensus 57 ~~~~lFVgnL-p~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 57 RGCEVFVGKI-PRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CCCEEEeCCC-CCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 4689999999 899999999999999999999988 4799999999999999999999998884 666655433
No 38
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.50 E-value=4.7e-14 Score=109.93 Aligned_cols=97 Identities=21% Similarity=0.393 Sum_probs=81.3
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCCCCC
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDDSER 84 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~~~~ 84 (173)
.+..+|+|+|| ...++.+||...|++||.|.+|+|.++|+||.|+-.++|..|+..|++.+|+|+.|+|+++...-...
T Consensus 76 k~stkl~vgNi-s~tctn~ElRa~fe~ygpviecdivkdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrta 154 (346)
T KOG0109|consen 76 KASTKLHVGNI-SPTCTNQELRAKFEKYGPVIECDIVKDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTA 154 (346)
T ss_pred CCccccccCCC-CccccCHHHhhhhcccCCceeeeeecceeEEEEeeccchHHHHhcccccccccceeeeeeeccccccC
Confidence 46789999999 67899999999999999999999999999999999999999999999999999999999998765555
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 030662 85 DDRYDSPRRGGYGRHSPY 102 (173)
Q Consensus 85 ~~~~~~~~~g~~~~~~~~ 102 (173)
.+..+....-..|..+.+
T Consensus 155 pgmgDq~~cyrcGkeghw 172 (346)
T KOG0109|consen 155 PGMGDQSGCYRCGKEGHW 172 (346)
T ss_pred CCCCCHHHheeccccccc
Confidence 544444433333443333
No 39
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=3e-14 Score=115.98 Aligned_cols=79 Identities=23% Similarity=0.437 Sum_probs=70.7
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCe-e--cCceEEEE
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSK-L--VDRVISVE 75 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~-i--~g~~l~v~ 75 (173)
...+|||+.| +..++|.||.++|.+||.|++|.| .+|||||.|.+.+.|..||++|||.. + +...|.|+
T Consensus 123 ~e~KLFvg~l-sK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 123 EERKLFVGML-SKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred cchhhhhhhc-cccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 4678999999 799999999999999999999988 58999999999999999999999964 4 45789999
Q ss_pred EeecCCCCCC
Q 030662 76 YALKDDSERD 85 (173)
Q Consensus 76 ~a~~~~~~~~ 85 (173)
||..++.+..
T Consensus 202 FADtqkdk~~ 211 (510)
T KOG0144|consen 202 FADTQKDKDG 211 (510)
T ss_pred ecccCCCchH
Confidence 9998876543
No 40
>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=99.46 E-value=5.2e-13 Score=83.79 Aligned_cols=67 Identities=45% Similarity=0.718 Sum_probs=62.0
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
+|+|+|| |..+++++|.++|+.||.|..+.+. .++|||+|.+.++|+.|++.+++..+.|..|.|.+
T Consensus 1 ~i~i~~l-~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNL-PPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCC-CCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 4899999 8899999999999999999998882 58999999999999999999999999999998864
No 41
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.45 E-value=3.9e-13 Score=104.06 Aligned_cols=72 Identities=40% Similarity=0.650 Sum_probs=67.5
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
..+|||+|| +..+++++|.++|.+||.|..+.| .+|||||+|.+.++|..|++.|++..|.|+.|.|.++.
T Consensus 115 ~~~l~v~nL-~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNL-PYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCC-CCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 589999999 899999999999999999988877 47999999999999999999999999999999999976
Q ss_pred c
Q 030662 79 K 79 (173)
Q Consensus 79 ~ 79 (173)
.
T Consensus 194 ~ 194 (306)
T COG0724 194 P 194 (306)
T ss_pred c
Confidence 4
No 42
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.45 E-value=1.2e-13 Score=101.04 Aligned_cols=75 Identities=28% Similarity=0.403 Sum_probs=69.6
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
+.+...||||+|| +..++++.|.++|-+.|.|+.+.| .+|||||+|.++|+|+-|++.||..+|.|+.|+|
T Consensus 5 ~rnqd~tiyvgnl-d~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv 83 (203)
T KOG0131|consen 5 ERNQDATLYVGNL-DEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRV 83 (203)
T ss_pred ccCCCceEEEecC-CHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEE
Confidence 4567889999999 578999999999999999999998 3799999999999999999999999999999999
Q ss_pred EEee
Q 030662 75 EYAL 78 (173)
Q Consensus 75 ~~a~ 78 (173)
..+.
T Consensus 84 ~kas 87 (203)
T KOG0131|consen 84 NKAS 87 (203)
T ss_pred Eecc
Confidence 9887
No 43
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=2.9e-13 Score=113.07 Aligned_cols=75 Identities=35% Similarity=0.641 Sum_probs=70.5
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
+...|+|.|| ||.+...+|+.+|+.||.|.+|.|+ .|||||+|.+..+|..||+.||+.+|+|+.|-|.||-
T Consensus 116 ~k~rLIIRNL-Pf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV 194 (678)
T KOG0127|consen 116 PKWRLIIRNL-PFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAV 194 (678)
T ss_pred ccceEEeecC-CcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeec
Confidence 4678999999 9999999999999999999999993 6999999999999999999999999999999999998
Q ss_pred cCC
Q 030662 79 KDD 81 (173)
Q Consensus 79 ~~~ 81 (173)
.+.
T Consensus 195 ~Kd 197 (678)
T KOG0127|consen 195 DKD 197 (678)
T ss_pred ccc
Confidence 654
No 44
>smart00360 RRM RNA recognition motif.
Probab=99.44 E-value=5e-13 Score=83.07 Aligned_cols=63 Identities=37% Similarity=0.646 Sum_probs=57.7
Q ss_pred EcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 12 VINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 12 V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
|+|| |..+++++|+++|.+||.|..+.+. +++|||+|.+.++|+.|++.|++..+.|+.|.|.
T Consensus 1 i~~l-~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNL-PPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCC-CcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 6799 8899999999999999999998882 4799999999999999999999999999998873
No 45
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.43 E-value=2.4e-14 Score=104.82 Aligned_cols=74 Identities=23% Similarity=0.489 Sum_probs=68.6
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
..+..|||||| |+++||.+|.-+|++||+|+.|.| ++||||+.|++.....-||..|||..|.|+.|.|..
T Consensus 33 kdsA~Iyiggl-~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDH 111 (219)
T KOG0126|consen 33 KDSAYIYIGGL-PYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDH 111 (219)
T ss_pred ccceEEEECCC-cccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeee
Confidence 34678999999 899999999999999999999988 489999999999999999999999999999999997
Q ss_pred eec
Q 030662 77 ALK 79 (173)
Q Consensus 77 a~~ 79 (173)
...
T Consensus 112 v~~ 114 (219)
T KOG0126|consen 112 VSN 114 (219)
T ss_pred ccc
Confidence 653
No 46
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.42 E-value=7e-13 Score=108.48 Aligned_cols=73 Identities=26% Similarity=0.455 Sum_probs=67.9
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCee-cCceEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKL-VDRVISVE 75 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i-~g~~l~v~ 75 (173)
+..+-||||.| |.++.|++|..+|++.|+|-++.| ++|||||+|.+.++|+.||+.||+.+| .|+.|.|+
T Consensus 81 ~~G~EVfvGkI-PrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc 159 (506)
T KOG0117|consen 81 PRGCEVFVGKI-PRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVC 159 (506)
T ss_pred CCCceEEecCC-CccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEE
Confidence 45789999999 999999999999999999999988 489999999999999999999999999 68999888
Q ss_pred Eee
Q 030662 76 YAL 78 (173)
Q Consensus 76 ~a~ 78 (173)
.+.
T Consensus 160 ~Sv 162 (506)
T KOG0117|consen 160 VSV 162 (506)
T ss_pred Eee
Confidence 876
No 47
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=5.3e-13 Score=106.61 Aligned_cols=76 Identities=26% Similarity=0.535 Sum_probs=69.3
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
.+|..+|||+.||| .|+.++|+-+|+.||+|..|.|. ..||||+|++.+++++|.-+|++..|+.+.|.|.
T Consensus 236 ~PPeNVLFVCKLNP-VTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVD 314 (479)
T KOG0415|consen 236 KPPENVLFVCKLNP-VTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVD 314 (479)
T ss_pred CCCcceEEEEecCC-cccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEee
Confidence 57889999999976 68889999999999999999983 4699999999999999999999999999999999
Q ss_pred EeecC
Q 030662 76 YALKD 80 (173)
Q Consensus 76 ~a~~~ 80 (173)
|++.-
T Consensus 315 FSQSV 319 (479)
T KOG0415|consen 315 FSQSV 319 (479)
T ss_pred hhhhh
Confidence 98743
No 48
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.38 E-value=1e-12 Score=101.67 Aligned_cols=74 Identities=22% Similarity=0.478 Sum_probs=69.2
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
...|||+.| ...++-++|++.|.+||+|.+++| .+||+||.|.+.++|+.||+.|||.-|.++.|+..||.
T Consensus 62 hfhvfvgdl-s~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWAT 140 (321)
T KOG0148|consen 62 HFHVFVGDL-SPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWAT 140 (321)
T ss_pred ceeEEehhc-chhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccc
Confidence 457999999 678999999999999999999988 48999999999999999999999999999999999998
Q ss_pred cCC
Q 030662 79 KDD 81 (173)
Q Consensus 79 ~~~ 81 (173)
.+.
T Consensus 141 RKp 143 (321)
T KOG0148|consen 141 RKP 143 (321)
T ss_pred cCc
Confidence 776
No 49
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.38 E-value=9.5e-13 Score=113.65 Aligned_cols=77 Identities=26% Similarity=0.530 Sum_probs=72.3
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCCCCC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDDSER 84 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~~~~ 84 (173)
++|||||+| +.+++|++|..+|+.||+|..|.| +++||||.+...++|++||.+|.+..+.++.|+|.||..+..+.
T Consensus 421 SrTLwvG~i-~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks 499 (894)
T KOG0132|consen 421 SRTLWVGGI-PKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS 499 (894)
T ss_pred eeeeeeccc-cchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence 579999999 899999999999999999999988 68999999999999999999999999999999999998776554
No 50
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=7.8e-13 Score=102.27 Aligned_cols=79 Identities=18% Similarity=0.432 Sum_probs=72.5
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
+.++.|+|||-.| |.+..+.||..+|-.||.|+..+| +|+|+||.|+|...|++||.+|||..|.-+.|+|
T Consensus 281 eGPeGCNlFIYHL-PQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKV 359 (371)
T KOG0146|consen 281 EGPEGCNLFIYHL-PQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKV 359 (371)
T ss_pred cCCCcceEEEEeC-chhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhh
Confidence 3467899999999 999999999999999999987766 5899999999999999999999999999999999
Q ss_pred EEeecCCC
Q 030662 75 EYALKDDS 82 (173)
Q Consensus 75 ~~a~~~~~ 82 (173)
++..++..
T Consensus 360 QLKRPkda 367 (371)
T KOG0146|consen 360 QLKRPKDA 367 (371)
T ss_pred hhcCcccc
Confidence 99887654
No 51
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.36 E-value=2.7e-12 Score=109.82 Aligned_cols=72 Identities=29% Similarity=0.422 Sum_probs=61.2
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccC------------CCeEEEEe--eCCeEEEEeCCHHHHHHHHHhcCCCeecCc
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPY------------GNVLHVRI--RRNFAFVQFETQEEATKALESTDRSKLVDR 70 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~------------G~i~~~~~--~~g~afV~f~~~~~a~~A~~~l~g~~i~g~ 70 (173)
....+|||+|| |+.+++++|.++|.++ +.|..+.+ .+|||||+|.+.++|+.|| +|+|+.|.|.
T Consensus 173 ~~~r~lyVgnL-p~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al-~l~g~~~~g~ 250 (509)
T TIGR01642 173 RQARRLYVGGI-PPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAM-ALDSIIYSNV 250 (509)
T ss_pred ccccEEEEeCC-CCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhh-cCCCeEeeCc
Confidence 35679999999 8999999999999874 34555555 4799999999999999999 5999999999
Q ss_pred eEEEEEee
Q 030662 71 VISVEYAL 78 (173)
Q Consensus 71 ~l~v~~a~ 78 (173)
.|.|....
T Consensus 251 ~l~v~r~~ 258 (509)
T TIGR01642 251 FLKIRRPH 258 (509)
T ss_pred eeEecCcc
Confidence 99986543
No 52
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.35 E-value=2.6e-12 Score=107.11 Aligned_cols=75 Identities=27% Similarity=0.500 Sum_probs=70.9
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeec
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALK 79 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~ 79 (173)
..|||||| |+++++++|.++|++.|.|..+++ .+||||++|.+.++|+.|++.|||.++.|..|+|.|+..
T Consensus 19 ~~v~vgni-p~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 19 SSVFVGNI-PYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN 97 (435)
T ss_pred cceEecCC-CCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence 89999999 999999999999999999999988 489999999999999999999999999999999999987
Q ss_pred CCCC
Q 030662 80 DDSE 83 (173)
Q Consensus 80 ~~~~ 83 (173)
.+..
T Consensus 98 ~~~~ 101 (435)
T KOG0108|consen 98 RKNA 101 (435)
T ss_pred cchh
Confidence 6543
No 53
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.35 E-value=2.8e-12 Score=96.89 Aligned_cols=79 Identities=27% Similarity=0.504 Sum_probs=72.0
Q ss_pred CCCCCCCEEEEcCCCCCCCCHHHHHH----hhccCCCeEEEEe-----eCCeEEEEeCCHHHHHHHHHhcCCCeecCceE
Q 030662 2 ANQRPTKTLFVINFDPIRTRERDIKR----HFEPYGNVLHVRI-----RRNFAFVQFETQEEATKALESTDRSKLVDRVI 72 (173)
Q Consensus 2 ~~~~~~~~l~V~nL~p~~~~e~~L~~----~F~~~G~i~~~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l 72 (173)
.+.+|+.||||-|| ...+..++|+. +|++||+|..|.+ .+|-|||.|.+.+.|-.|+.+|+|..+.|+.+
T Consensus 4 ~~~~pn~TlYInnL-nekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~m 82 (221)
T KOG4206|consen 4 MSVNPNGTLYINNL-NEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPM 82 (221)
T ss_pred cccCCCceEeehhc-cccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchh
Confidence 45677889999999 68999998887 9999999999887 58999999999999999999999999999999
Q ss_pred EEEEeecCC
Q 030662 73 SVEYALKDD 81 (173)
Q Consensus 73 ~v~~a~~~~ 81 (173)
.|++|+.+.
T Consensus 83 riqyA~s~s 91 (221)
T KOG4206|consen 83 RIQYAKSDS 91 (221)
T ss_pred heecccCcc
Confidence 999998654
No 54
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.33 E-value=1.5e-12 Score=98.88 Aligned_cols=74 Identities=30% Similarity=0.575 Sum_probs=69.7
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCCC
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDDS 82 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~~ 82 (173)
..|||++| |+.+.+.+|+.+|.+||.|..|.|..||+||+|++..+|+.||..||+.+|++..|.|+++.....
T Consensus 2 ~rv~vg~~-~~~~~~~d~E~~f~~yg~~~d~~mk~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~ 75 (216)
T KOG0106|consen 2 PRVYIGRL-PYRARERDVERFFKGYGKIPDADMKNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRR 75 (216)
T ss_pred Cceeeccc-CCccchhHHHHHHhhccccccceeecccceeccCchhhhhcccchhcCceecceeeeeeccccccc
Confidence 46999999 899999999999999999999999999999999999999999999999999999999999986543
No 55
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.33 E-value=4.7e-12 Score=97.66 Aligned_cols=77 Identities=19% Similarity=0.427 Sum_probs=70.4
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
+....|+|--| |.++|++||+.+|...|+|+.|+| +-||+||.|-++++|++||..|||..+..+.|+|.+
T Consensus 39 ~skTNLIvNYL-PQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy 117 (360)
T KOG0145|consen 39 ESKTNLIVNYL-PQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY 117 (360)
T ss_pred cccceeeeeec-ccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence 34567888889 999999999999999999999998 368999999999999999999999999999999999
Q ss_pred eecCCC
Q 030662 77 ALKDDS 82 (173)
Q Consensus 77 a~~~~~ 82 (173)
|.+...
T Consensus 118 ARPSs~ 123 (360)
T KOG0145|consen 118 ARPSSD 123 (360)
T ss_pred ccCChh
Confidence 997643
No 56
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.30 E-value=4.2e-12 Score=103.63 Aligned_cols=77 Identities=29% Similarity=0.533 Sum_probs=67.5
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCee---cCceEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKL---VDRVIS 73 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i---~g~~l~ 73 (173)
...-+|||+.| |..++|.||+.+|++||.|.+|.| .+|||||.|.+.++|.+|+.+||+++. ....|.
T Consensus 32 ~~~vKlfVgqI-prt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvq 110 (510)
T KOG0144|consen 32 GSAVKLFVGQI-PRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQ 110 (510)
T ss_pred chhhhheeccC-CccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCccee
Confidence 34568999999 999999999999999999999988 479999999999999999999998654 357889
Q ss_pred EEEeecCCC
Q 030662 74 VEYALKDDS 82 (173)
Q Consensus 74 v~~a~~~~~ 82 (173)
|++|.....
T Consensus 111 vk~Ad~E~e 119 (510)
T KOG0144|consen 111 VKYADGERE 119 (510)
T ss_pred ecccchhhh
Confidence 999876544
No 57
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.27 E-value=1.6e-11 Score=100.53 Aligned_cols=72 Identities=28% Similarity=0.424 Sum_probs=66.3
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhc-cCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFE-PYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~-~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
.+.+||+|| |+++.|++|+++|. +.|+|+.|.| .+|||.|||.++|.+++|++.||.+++.|++|+|+...
T Consensus 44 ~R~vfItNI-pyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 44 DRSVFITNI-PYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred cceEEEecC-cchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence 456999999 99999999999996 6899999988 58999999999999999999999999999999998665
Q ss_pred c
Q 030662 79 K 79 (173)
Q Consensus 79 ~ 79 (173)
.
T Consensus 123 d 123 (608)
T KOG4212|consen 123 D 123 (608)
T ss_pred c
Confidence 4
No 58
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.24 E-value=2.9e-11 Score=96.40 Aligned_cols=74 Identities=31% Similarity=0.518 Sum_probs=65.8
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--eCCeEEEEeCCHHHHHHHHHhc-CCCeecCceEEEEEeec
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--RRNFAFVQFETQEEATKALEST-DRSKLVDRVISVEYALK 79 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~~g~afV~f~~~~~a~~A~~~l-~g~~i~g~~l~v~~a~~ 79 (173)
...++|||++| ...++|.+|.++|.+||+|..+.+ .++||||+|.+.+.|+.|.+.+ +...|+|..|.|.|..+
T Consensus 226 ~~I~tLyIg~l-~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 226 TSIKTLYIGGL-NDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred cceeEEEeccc-ccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 34689999999 569999999999999999999888 4789999999999999988765 55677999999999988
No 59
>smart00361 RRM_1 RNA recognition motif.
Probab=99.23 E-value=3.5e-11 Score=76.46 Aligned_cols=53 Identities=25% Similarity=0.523 Sum_probs=47.4
Q ss_pred HHHHHHhhc----cCCCeEEEE-e----------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 22 ERDIKRHFE----PYGNVLHVR-I----------RRNFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 22 e~~L~~~F~----~~G~i~~~~-~----------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
+++|.++|. +||.|..|. | ++|||||+|.+.++|++|++.|||..|.|+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578888888 999998884 3 2789999999999999999999999999999876
No 60
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.22 E-value=2e-11 Score=102.22 Aligned_cols=72 Identities=31% Similarity=0.570 Sum_probs=66.0
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeec
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALK 79 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~ 79 (173)
..|||+|| .+++++++|..+|+.||.|..|.+ .+||+||+|.+.++|.+|++.|||.+|.|..|+|.....
T Consensus 279 ~rl~vgnL-HfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~ 357 (549)
T KOG0147|consen 279 RRLYVGNL-HFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTE 357 (549)
T ss_pred hhhhhccc-ccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeee
Confidence 34899999 689999999999999999999988 489999999999999999999999999999999987654
Q ss_pred C
Q 030662 80 D 80 (173)
Q Consensus 80 ~ 80 (173)
.
T Consensus 358 r 358 (549)
T KOG0147|consen 358 R 358 (549)
T ss_pred e
Confidence 3
No 61
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=8.8e-11 Score=90.69 Aligned_cols=74 Identities=28% Similarity=0.475 Sum_probs=67.7
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
...+|||-|| ..+++|..|+.+|.+||.|..|+|. +||+||++.+-++|..||..|||..+.++.|.|.|.
T Consensus 277 ~g~ciFvYNL-spd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFK 355 (360)
T KOG0145|consen 277 GGWCIFVYNL-SPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFK 355 (360)
T ss_pred CeeEEEEEec-CCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEe
Confidence 3578999999 6689999999999999999999882 799999999999999999999999999999999987
Q ss_pred ecC
Q 030662 78 LKD 80 (173)
Q Consensus 78 ~~~ 80 (173)
..+
T Consensus 356 tnk 358 (360)
T KOG0145|consen 356 TNK 358 (360)
T ss_pred cCC
Confidence 644
No 62
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=2.6e-11 Score=101.59 Aligned_cols=74 Identities=31% Similarity=0.570 Sum_probs=69.7
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
..||||++| |+.++.++|.++|+.+|+|..|.+ .+||+||+|...++++.|+..+++..|.|+.|.|.+|+
T Consensus 5 g~TlfV~~l-p~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~ 83 (678)
T KOG0127|consen 5 GATLFVSRL-PFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAK 83 (678)
T ss_pred CceEEEecC-CCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccccccc
Confidence 489999999 999999999999999999999988 47999999999999999999999999999999999998
Q ss_pred cCC
Q 030662 79 KDD 81 (173)
Q Consensus 79 ~~~ 81 (173)
...
T Consensus 84 ~R~ 86 (678)
T KOG0127|consen 84 KRA 86 (678)
T ss_pred ccc
Confidence 654
No 63
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.20 E-value=2.5e-11 Score=102.26 Aligned_cols=75 Identities=36% Similarity=0.580 Sum_probs=67.8
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
..+|||.+| ...|...+|+.||++||+|+-.+| .++|+||+|.+.++|.+||+.||.++|.|+.|.|+.++
T Consensus 405 gRNlWVSGL-SstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 405 GRNLWVSGL-SSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred ccceeeecc-ccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 578999999 677888999999999999987776 36899999999999999999999999999999999998
Q ss_pred cCCC
Q 030662 79 KDDS 82 (173)
Q Consensus 79 ~~~~ 82 (173)
....
T Consensus 484 NEp~ 487 (940)
T KOG4661|consen 484 NEPG 487 (940)
T ss_pred cCcc
Confidence 6543
No 64
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.18 E-value=6.1e-11 Score=87.02 Aligned_cols=81 Identities=30% Similarity=0.538 Sum_probs=70.1
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEE-Ee--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEE
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHV-RI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVIS 73 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~-~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~ 73 (173)
+...+..|||+||+| .++|..|.++|+.||.|... .+ +++||||.|.+.+.+.+|+..|||..++..+|+
T Consensus 92 nl~vganlfvgNLd~-~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~it 170 (203)
T KOG0131|consen 92 NLDVGANLFVGNLDP-EVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPIT 170 (203)
T ss_pred cccccccccccccCc-chhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceE
Confidence 345568999999965 89999999999999987652 22 478999999999999999999999999999999
Q ss_pred EEEeecCCCCC
Q 030662 74 VEYALKDDSER 84 (173)
Q Consensus 74 v~~a~~~~~~~ 84 (173)
|.+++.+..+.
T Consensus 171 v~ya~k~~~kg 181 (203)
T KOG0131|consen 171 VSYAFKKDTKG 181 (203)
T ss_pred EEEEEecCCCc
Confidence 99999876554
No 65
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.17 E-value=2.1e-11 Score=97.94 Aligned_cols=69 Identities=32% Similarity=0.548 Sum_probs=65.1
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
-|.||||.| .+++.|+.|...|..||.|+.|.| .+|||||+|+-+|.|+-|++.|||..+.|+.|+|..
T Consensus 113 McRvYVGSI-sfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 113 MCRVYVGSI-SFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred hHheeeeee-EEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 378999999 899999999999999999999988 489999999999999999999999999999999874
No 66
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.17 E-value=2.7e-11 Score=93.82 Aligned_cols=76 Identities=28% Similarity=0.503 Sum_probs=67.3
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCee-c--CceEEEE
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKL-V--DRVISVE 75 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i-~--g~~l~v~ 75 (173)
..++||||.| ...-.|+|+..+|..||+|.+|.+ .||||||.|.+..+|+.||..|||... - ...|.|+
T Consensus 18 ~drklfvgml-~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGML-NKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhh-cccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 4689999999 688999999999999999999998 589999999999999999999999654 3 4679999
Q ss_pred EeecCCC
Q 030662 76 YALKDDS 82 (173)
Q Consensus 76 ~a~~~~~ 82 (173)
|+...++
T Consensus 97 ~ADTdkE 103 (371)
T KOG0146|consen 97 FADTDKE 103 (371)
T ss_pred eccchHH
Confidence 9986654
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.16 E-value=7.7e-11 Score=101.20 Aligned_cols=68 Identities=29% Similarity=0.455 Sum_probs=64.8
Q ss_pred EEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-----------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 10 LFVINFDPIRTRERDIKRHFEPYGNVLHVRI-----------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 10 l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-----------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
|||.|| .+.++.++|..+|.+.|.|..+.| +.|||||+|.+.++|+.|++.|+|+.|+|+.|.|.++.
T Consensus 518 lfvkNl-nf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 518 LFVKNL-NFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred hhhhcC-CcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 999999 799999999999999999999977 23999999999999999999999999999999999998
No 68
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.16 E-value=2.6e-10 Score=86.29 Aligned_cols=78 Identities=19% Similarity=0.361 Sum_probs=67.3
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee---------CCeEEEEeCCHHHHHHHHHhcCCCee---cCceE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR---------RNFAFVQFETQEEATKALESTDRSKL---VDRVI 72 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~---------~g~afV~f~~~~~a~~A~~~l~g~~i---~g~~l 72 (173)
...+||||.+| |.++...||..+|..|...+.+.|. +-+|||+|.+.++|++|+++|||+.| .+..|
T Consensus 32 ~~VRTLFVSGL-P~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stL 110 (284)
T KOG1457|consen 32 GAVRTLFVSGL-PNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTL 110 (284)
T ss_pred cccceeeeccC-CcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCcee
Confidence 34789999999 9999999999999998766655551 36999999999999999999999998 48899
Q ss_pred EEEEeecCCCC
Q 030662 73 SVEYALKDDSE 83 (173)
Q Consensus 73 ~v~~a~~~~~~ 83 (173)
.|++|+.....
T Consensus 111 hiElAKSNtK~ 121 (284)
T KOG1457|consen 111 HIELAKSNTKR 121 (284)
T ss_pred EeeehhcCccc
Confidence 99999976543
No 69
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.14 E-value=1.4e-10 Score=95.69 Aligned_cols=74 Identities=26% Similarity=0.485 Sum_probs=66.9
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
...|||.|| +..++..+|.++|+.||+|+.|+| ++|| ||+|++++.|++||+.|||..+.++.|.|.....+
T Consensus 76 ~~~~~i~nl-~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~ 153 (369)
T KOG0123|consen 76 PSLVFIKNL-DESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERK 153 (369)
T ss_pred CceeeecCC-CcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccch
Confidence 334999999 578999999999999999999999 5889 99999999999999999999999999999888765
Q ss_pred CC
Q 030662 81 DS 82 (173)
Q Consensus 81 ~~ 82 (173)
..
T Consensus 154 ~e 155 (369)
T KOG0123|consen 154 EE 155 (369)
T ss_pred hh
Confidence 43
No 70
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.11 E-value=6.2e-10 Score=92.54 Aligned_cols=73 Identities=25% Similarity=0.397 Sum_probs=64.1
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--e------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--R------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
..+|||.|| |.++++.+|+++|..||.|+...| . .+||||+|.+.++++.||++ +-..|++++|.|+..+
T Consensus 288 ~~~i~V~nl-P~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~ 365 (419)
T KOG0116|consen 288 GLGIFVKNL-PPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKR 365 (419)
T ss_pred ccceEeecC-CCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEecc
Confidence 456999999 999999999999999999998776 1 28999999999999999997 5788899999999877
Q ss_pred cCC
Q 030662 79 KDD 81 (173)
Q Consensus 79 ~~~ 81 (173)
..-
T Consensus 366 ~~~ 368 (419)
T KOG0116|consen 366 PGF 368 (419)
T ss_pred ccc
Confidence 643
No 71
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.07 E-value=2.2e-10 Score=87.18 Aligned_cols=68 Identities=49% Similarity=0.676 Sum_probs=62.8
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
..+.|+|.+| +..+.|++|.++|.++|++....+..+++||+|...++|..||..|++..+.++.|.+
T Consensus 98 s~~r~~~~~~-~~r~~~qdl~d~~~~~g~~~~~~~~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 98 THFRLIVRNL-SLRVSWQDLKDHFRPAGEVTYVDARRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred ccceeeeccc-hhhhhHHHHhhhhcccCCCchhhhhccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 3567888999 7889999999999999999777678899999999999999999999999999999999
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.06 E-value=1.3e-10 Score=99.76 Aligned_cols=74 Identities=30% Similarity=0.593 Sum_probs=69.4
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
.+..|+|.|| |+.++..+|+.+|..||.|..|.|+ +|||||+|-++.+|..|+.+|..+.|.|+.|.++||
T Consensus 612 ~~tKIlVRNi-pFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA 690 (725)
T KOG0110|consen 612 KGTKILVRNI-PFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA 690 (725)
T ss_pred ccceeeeecc-chHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence 4578999999 9999999999999999999999983 789999999999999999999999999999999999
Q ss_pred ecC
Q 030662 78 LKD 80 (173)
Q Consensus 78 ~~~ 80 (173)
+..
T Consensus 691 ~~d 693 (725)
T KOG0110|consen 691 KSD 693 (725)
T ss_pred ccc
Confidence 854
No 73
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.04 E-value=4.6e-10 Score=92.16 Aligned_cols=73 Identities=26% Similarity=0.374 Sum_probs=65.9
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee---CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR---RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~---~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
....|+|||.|| |+++||+.|++-|..||.|..+.|. +.-+.|.|.++++|+.|+..|+|..+.|+.|.|.+.
T Consensus 533 arKa~qIiirNl-P~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 533 ARKACQIIIRNL-PFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred cccccEEEEecC-CccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 456789999999 9999999999999999999988882 335589999999999999999999999999999863
No 74
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.99 E-value=1.9e-09 Score=80.63 Aligned_cols=75 Identities=24% Similarity=0.422 Sum_probs=67.0
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccC-CCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPY-GNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~-G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
.....+||..| |..+.+.+|..+|.+| |.|..+.| ++|||||+|++.+.|+.|.+.||+..|.++.|.+.
T Consensus 47 ~~~g~~~~~~~-p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~ 125 (214)
T KOG4208|consen 47 EIEGVVYVDHI-PHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECH 125 (214)
T ss_pred CCccceeeccc-ccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeE
Confidence 44567899999 8999999999999988 67777777 48999999999999999999999999999999999
Q ss_pred EeecC
Q 030662 76 YALKD 80 (173)
Q Consensus 76 ~a~~~ 80 (173)
+-.+.
T Consensus 126 vmppe 130 (214)
T KOG4208|consen 126 VMPPE 130 (214)
T ss_pred EeCch
Confidence 87765
No 75
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.96 E-value=2.8e-09 Score=82.74 Aligned_cols=74 Identities=22% Similarity=0.352 Sum_probs=67.2
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeec
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALK 79 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~ 79 (173)
..+|+|.|| ++.|++++|+++|..||++..+.| ..|.|-|.|...++|++||+.||+..++|..|+|.+...
T Consensus 83 ~~~v~v~NL-~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~ 161 (243)
T KOG0533|consen 83 STKVNVSNL-PYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS 161 (243)
T ss_pred cceeeeecC-CcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence 367999999 899999999999999998888877 468999999999999999999999999999999998765
Q ss_pred CC
Q 030662 80 DD 81 (173)
Q Consensus 80 ~~ 81 (173)
..
T Consensus 162 ~~ 163 (243)
T KOG0533|consen 162 PS 163 (243)
T ss_pred cc
Confidence 54
No 76
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.96 E-value=1.3e-09 Score=87.83 Aligned_cols=73 Identities=18% Similarity=0.427 Sum_probs=66.7
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
-..|||..++ .+++|++|+.+|+.||+|+.|.| .+||+||+|.+.+....||..||-..+.|+-|.|-.+.
T Consensus 210 fnRiYVaSvH-pDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 210 FNRIYVASVH-PDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred hheEEeeecC-CCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 4689999995 58999999999999999999999 48999999999999999999999999999999998765
Q ss_pred cC
Q 030662 79 KD 80 (173)
Q Consensus 79 ~~ 80 (173)
.+
T Consensus 289 TP 290 (544)
T KOG0124|consen 289 TP 290 (544)
T ss_pred CC
Confidence 43
No 77
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.94 E-value=2.9e-10 Score=85.80 Aligned_cols=77 Identities=21% Similarity=0.219 Sum_probs=68.8
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
..+...||||+|| ...++|+-|.++|-+.|.|.+|.|+ ..||||+|.++..+.-|++.|||..+.+..|+|++
T Consensus 5 aae~drtl~v~n~-~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~ 83 (267)
T KOG4454|consen 5 AAEMDRTLLVQNM-YSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL 83 (267)
T ss_pred CcchhhHHHHHhh-hhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhccc
Confidence 4556789999999 7899999999999999999999994 23999999999999999999999999999999887
Q ss_pred eecC
Q 030662 77 ALKD 80 (173)
Q Consensus 77 a~~~ 80 (173)
-...
T Consensus 84 r~G~ 87 (267)
T KOG4454|consen 84 RCGN 87 (267)
T ss_pred ccCC
Confidence 6543
No 78
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.93 E-value=5.5e-10 Score=93.84 Aligned_cols=69 Identities=28% Similarity=0.512 Sum_probs=64.0
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEE
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI---RRNFAFVQFETQEEATKALESTDRSKLVDRVIS 73 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~ 73 (173)
..+..+|+|-|| |..|++++|+.+|+.||+|..|.. ..+..||+|.+..+|+.|+++|++.+|.|+.|+
T Consensus 72 ~~~~~~L~v~nl-~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNL-PRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEec-CCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 446789999999 789999999999999999999876 579999999999999999999999999999887
No 79
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.89 E-value=1.8e-09 Score=86.74 Aligned_cols=75 Identities=25% Similarity=0.436 Sum_probs=66.1
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
...++|||++| .|.++++.|.+.|.+||+|.+|.++ ++|+||+|++.+.+.++|.. ..+.|+|+.|.++-
T Consensus 4 ~~~~KlfiGgi-sw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ve~k~ 81 (311)
T KOG4205|consen 4 GESGKLFIGGL-SWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEPKR 81 (311)
T ss_pred cCCcceeecCc-CccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCcccccee
Confidence 36789999999 8999999999999999999999984 59999999999998888763 56788999999888
Q ss_pred eecCC
Q 030662 77 ALKDD 81 (173)
Q Consensus 77 a~~~~ 81 (173)
|.+..
T Consensus 82 av~r~ 86 (311)
T KOG4205|consen 82 AVSRE 86 (311)
T ss_pred ccCcc
Confidence 87655
No 80
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.87 E-value=4.3e-09 Score=90.72 Aligned_cols=76 Identities=24% Similarity=0.378 Sum_probs=69.1
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-----------CCeEEEEeCCHHHHHHHHHhcCCCeecCceE
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-----------RNFAFVQFETQEEATKALESTDRSKLVDRVI 72 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-----------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l 72 (173)
.+.+++|||+||+ ..++++.|...|..||+|..|+|+ ..|+||.|-+..+|++|++.|+|..|.+..|
T Consensus 171 DP~TTNlyv~Nln-psv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~ 249 (877)
T KOG0151|consen 171 DPQTTNLYVGNLN-PSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM 249 (877)
T ss_pred CCcccceeeecCC-ccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence 4568899999995 589999999999999999998882 5799999999999999999999999999999
Q ss_pred EEEEeecC
Q 030662 73 SVEYALKD 80 (173)
Q Consensus 73 ~v~~a~~~ 80 (173)
++-|++.-
T Consensus 250 K~gWgk~V 257 (877)
T KOG0151|consen 250 KLGWGKAV 257 (877)
T ss_pred eecccccc
Confidence 99999643
No 81
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.86 E-value=8.4e-09 Score=84.11 Aligned_cols=76 Identities=22% Similarity=0.350 Sum_probs=70.4
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCCC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI---RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDDS 82 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~~ 82 (173)
+.+|.|.||+++.+|.+.|..+|.-||.|..|+| ++.-|+|+|.+...|+-|+++|+|+.|.|+.|+|.+++-..-
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~v 375 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNV 375 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccc
Confidence 5889999999999999999999999999999998 467899999999999999999999999999999999986543
No 82
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.85 E-value=9.5e-09 Score=84.85 Aligned_cols=70 Identities=26% Similarity=0.474 Sum_probs=63.8
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-----eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecCC
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-----RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKDD 81 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~~ 81 (173)
..|||| .++|+.+|.++|+++|+|+.+.| .-|||||.|.++++|++||+.||...|.|+.|.|.|+....
T Consensus 2 ~sl~vg----~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~ 76 (369)
T KOG0123|consen 2 ASLYVG----PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP 76 (369)
T ss_pred CceecC----CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC
Confidence 468998 37999999999999999999888 46899999999999999999999999999999999987554
No 83
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.83 E-value=4.2e-09 Score=84.63 Aligned_cols=76 Identities=30% Similarity=0.487 Sum_probs=67.5
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
..++|||++| |.++++++|++.|.+||.|..+.+ +++|+||+|.+++.+++++. +.-+.|+++.+.|..|
T Consensus 96 ~tkkiFvGG~-~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA 173 (311)
T KOG4205|consen 96 RTKKIFVGGL-PPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRA 173 (311)
T ss_pred ceeEEEecCc-CCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeec
Confidence 3569999999 899999999999999998877766 48999999999999999986 5889999999999999
Q ss_pred ecCCCC
Q 030662 78 LKDDSE 83 (173)
Q Consensus 78 ~~~~~~ 83 (173)
.++...
T Consensus 174 ~pk~~~ 179 (311)
T KOG4205|consen 174 IPKEVM 179 (311)
T ss_pred cchhhc
Confidence 887653
No 84
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.77 E-value=2.2e-08 Score=80.15 Aligned_cols=76 Identities=16% Similarity=0.276 Sum_probs=67.3
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEE--------EEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecC
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLH--------VRI-------RRNFAFVQFETQEEATKALESTDRSKLVD 69 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~--------~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g 69 (173)
..++.|||.|| |.++|.+++.++|++||.|.. |+| .+|=|+|.|...+.++-|++.|++..|.|
T Consensus 132 ~~Nt~VYVsgL-P~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg 210 (382)
T KOG1548|consen 132 KVNTSVYVSGL-PLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRG 210 (382)
T ss_pred ccCceEEecCC-CCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccC
Confidence 34677999999 999999999999999998753 444 47899999999999999999999999999
Q ss_pred ceEEEEEeecCC
Q 030662 70 RVISVEYALKDD 81 (173)
Q Consensus 70 ~~l~v~~a~~~~ 81 (173)
+.|.|+.|+-..
T Consensus 211 ~~~rVerAkfq~ 222 (382)
T KOG1548|consen 211 KKLRVERAKFQM 222 (382)
T ss_pred cEEEEehhhhhh
Confidence 999999998554
No 85
>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=98.71 E-value=8e-08 Score=62.28 Aligned_cols=70 Identities=26% Similarity=0.407 Sum_probs=49.2
Q ss_pred CEEEEcCCCCCCCCHHH----HHHhhccCC-CeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 8 KTLFVINFDPIRTRERD----IKRHFEPYG-NVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~----L~~~F~~~G-~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
..|+|.|| |.+.+... |+.++..+| +|..| ..+.|+|-|.+.+.|+.|++.|+|..+.|..|.|.+....
T Consensus 3 s~L~V~NL-P~~~d~~~I~~RL~qLsdNCGGkVl~v--~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~ 77 (90)
T PF11608_consen 3 SLLYVSNL-PTNKDPSSIKNRLRQLSDNCGGKVLSV--SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKN 77 (90)
T ss_dssp EEEEEES---TTS-HHHHHHHHHHHHHTTT--EEE----TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S
T ss_pred cEEEEecC-CCCCCHHHHHHHHHHHhhccCCEEEEE--eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCc
Confidence 36899999 88777654 667777886 66665 6899999999999999999999999999999999988544
No 86
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.70 E-value=3.4e-08 Score=76.56 Aligned_cols=74 Identities=26% Similarity=0.402 Sum_probs=66.4
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
.....+||+|++ +.++.++|+.+|+.||.|..+.| +++||||+|.+.+.++.|++ |++..|.+..|.|.+
T Consensus 99 ~d~~sv~v~nvd-~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 99 VDAPSVWVGNVD-FLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred cCCceEEEeccc-cccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 356789999994 78888889999999999987666 47899999999999999999 999999999999998
Q ss_pred eecC
Q 030662 77 ALKD 80 (173)
Q Consensus 77 a~~~ 80 (173)
....
T Consensus 177 ~r~~ 180 (231)
T KOG4209|consen 177 KRTN 180 (231)
T ss_pred eeee
Confidence 8766
No 87
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.67 E-value=1.3e-07 Score=76.58 Aligned_cols=78 Identities=18% Similarity=0.218 Sum_probs=70.8
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI---RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
..+.+.++|.+|+...++.+.|..+|..||.|..|++ ..|-|+||+.+..+.+.||.+||+..+.|.+|.|.+++-.
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~ 363 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN 363 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc
Confidence 4578999999998777888999999999999999988 4689999999999999999999999999999999998854
Q ss_pred C
Q 030662 81 D 81 (173)
Q Consensus 81 ~ 81 (173)
-
T Consensus 364 ~ 364 (494)
T KOG1456|consen 364 F 364 (494)
T ss_pred c
Confidence 3
No 88
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.66 E-value=1e-07 Score=72.30 Aligned_cols=74 Identities=23% Similarity=0.469 Sum_probs=66.5
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCCeec-CceEEEEEee
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI---RRNFAFVQFETQEEATKALESTDRSKLV-DRVISVEYAL 78 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~~i~-g~~l~v~~a~ 78 (173)
.+|+.+||+.|| |..++.+.|..+|.+|....++.+ ..+.|||+|.+...|..|...|++..|. ...|.|.+++
T Consensus 143 ~ppn~ilf~~ni-P~es~~e~l~~lf~qf~g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 143 APPNNILFLTNI-PSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred CCCceEEEEecC-CcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 567889999999 899999999999999988877777 5789999999999999999999999985 8888888875
No 89
>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=98.66 E-value=1.4e-07 Score=63.41 Aligned_cols=72 Identities=18% Similarity=0.318 Sum_probs=60.2
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccC--CCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeec----CceEE
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPY--GNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLV----DRVIS 73 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~--G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~----g~~l~ 73 (173)
+||.|.|| |...+.++|.+++... |..-.+.| ..|||||.|.+.+.|....+.++|..+. .+.+.
T Consensus 2 TTvMirNI-Pn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~ 80 (97)
T PF04059_consen 2 TTVMIRNI-PNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCE 80 (97)
T ss_pred eeEEEecC-CCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEE
Confidence 68999999 9999999999888753 55555555 3799999999999999999999998874 57788
Q ss_pred EEEeecC
Q 030662 74 VEYALKD 80 (173)
Q Consensus 74 v~~a~~~ 80 (173)
|.+|+-+
T Consensus 81 i~yAriQ 87 (97)
T PF04059_consen 81 ISYARIQ 87 (97)
T ss_pred EehhHhh
Confidence 8888754
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.54 E-value=4.3e-07 Score=75.77 Aligned_cols=75 Identities=25% Similarity=0.369 Sum_probs=61.6
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
......|-+.+| ||.+|++||++||+.++ |..+.+ +.|-|||+|.+++++++|+++ +-..+..+-|.|--+
T Consensus 7 ~~~~~~vr~rGL-Pwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alkk-dR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 7 GSTAFEVRLRGL-PWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALKK-DRESMGHRYIEVFTA 83 (510)
T ss_pred CCcceEEEecCC-CccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHHh-hHHHhCCceEEEEcc
Confidence 344566778899 99999999999999996 566655 468999999999999999984 888888888888777
Q ss_pred ecCC
Q 030662 78 LKDD 81 (173)
Q Consensus 78 ~~~~ 81 (173)
....
T Consensus 84 ~~~e 87 (510)
T KOG4211|consen 84 GGAE 87 (510)
T ss_pred CCcc
Confidence 5443
No 91
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.54 E-value=2.3e-07 Score=63.52 Aligned_cols=69 Identities=30% Similarity=0.401 Sum_probs=45.0
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCC--eEEEEeCCHHHHHHHHHhcCC-----CeecCceEEEEEe
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRN--FAFVQFETQEEATKALESTDR-----SKLVDRVISVEYA 77 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g--~afV~f~~~~~a~~A~~~l~g-----~~i~g~~l~v~~a 77 (173)
+.|+|.++ ...++.++|+++|..||.|..|.+.+| .|||-|.+.+.|+.|++.+.. ..|.+..+++.+-
T Consensus 2 ~il~~~g~-~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL 77 (105)
T PF08777_consen 2 CILKFSGL-GEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL 77 (105)
T ss_dssp -EEEEEE---SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred eEEEEecC-CCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence 57899999 678999999999999999999999766 799999999999999887643 3567777776654
No 92
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.54 E-value=1.2e-07 Score=76.27 Aligned_cols=79 Identities=24% Similarity=0.309 Sum_probs=68.7
Q ss_pred CCCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEE--------EEe--------eCCeEEEEeCCHHHHHHHHHhcCCC
Q 030662 2 ANQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLH--------VRI--------RRNFAFVQFETQEEATKALESTDRS 65 (173)
Q Consensus 2 ~~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~--------~~~--------~~g~afV~f~~~~~a~~A~~~l~g~ 65 (173)
+......+|||-+| +..+++++|.++|.++|.|.. |+| +|+-|.|.|++...|++||.-++++
T Consensus 61 ~~~s~~~ti~v~g~-~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agk 139 (351)
T KOG1995|consen 61 ADKSDNETIFVWGC-PDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGK 139 (351)
T ss_pred ccccccccceeecc-CccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccc
Confidence 34556789999999 899999999999999998753 222 4889999999999999999999999
Q ss_pred eecCceEEEEEeecCC
Q 030662 66 KLVDRVISVEYALKDD 81 (173)
Q Consensus 66 ~i~g~~l~v~~a~~~~ 81 (173)
.+++..|+|.+|....
T Consensus 140 df~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 140 DFCGNTIKVSLAERRT 155 (351)
T ss_pred cccCCCchhhhhhhcc
Confidence 9999999999988655
No 93
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.52 E-value=6.7e-08 Score=73.40 Aligned_cols=64 Identities=30% Similarity=0.440 Sum_probs=54.4
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--eC--CeEEEEeCCHHHHHHHHHhcCCCeec
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--RR--NFAFVQFETQEEATKALESTDRSKLV 68 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~~--g~afV~f~~~~~a~~A~~~l~g~~i~ 68 (173)
...+.||||.|| ..+++|++|+.+|+.|.....++| .. .+|||+|++.+.|..||..|+|..|.
T Consensus 207 ~~acstlfianl-~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 207 ARACSTLFIANL-GPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred chhhhhHhhhcc-CCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhcceec
Confidence 345679999999 679999999999999987766666 22 47999999999999999999998763
No 94
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.29 E-value=5.4e-07 Score=76.34 Aligned_cols=75 Identities=20% Similarity=0.422 Sum_probs=67.5
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
....|||++| |..+++.++.+++..||.+....+ .+||||.+|.+......|+..|||+.+.+..|.|+.|
T Consensus 288 ~~~ki~v~~l-p~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A 366 (500)
T KOG0120|consen 288 SPNKIFVGGL-PLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRA 366 (500)
T ss_pred ccchhhhccC-cCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehh
Confidence 4578999999 999999999999999998876655 5899999999999999999999999999999999998
Q ss_pred ecCC
Q 030662 78 LKDD 81 (173)
Q Consensus 78 ~~~~ 81 (173)
....
T Consensus 367 ~~g~ 370 (500)
T KOG0120|consen 367 IVGA 370 (500)
T ss_pred hccc
Confidence 7554
No 95
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=98.22 E-value=1.1e-06 Score=72.37 Aligned_cols=62 Identities=26% Similarity=0.454 Sum_probs=53.9
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--e-------------------CCeEEEEeCCHHHHHHHHHhcC
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--R-------------------RNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~-------------------~g~afV~f~~~~~a~~A~~~l~ 63 (173)
-+.++|.+.|| |.+-.-+.|.+||..+|.|+.|.| + +-||||+|+..+.|.+|.+.|+
T Consensus 229 l~srtivaenL-P~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~ 307 (484)
T KOG1855|consen 229 LPSRTIVAENL-PLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN 307 (484)
T ss_pred cccceEEEecC-CcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence 47899999999 888888999999999999999988 1 4589999999999999999886
Q ss_pred CCee
Q 030662 64 RSKL 67 (173)
Q Consensus 64 g~~i 67 (173)
....
T Consensus 308 ~e~~ 311 (484)
T KOG1855|consen 308 PEQN 311 (484)
T ss_pred hhhh
Confidence 5433
No 96
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.21 E-value=7.7e-06 Score=66.51 Aligned_cols=78 Identities=23% Similarity=0.354 Sum_probs=64.5
Q ss_pred CCCCCEEEEcCCCC-CCCCHHHHHHhhccCCCeEEEEee--CC-eEEEEeCCHHHHHHHHHhcCCCeec-C-ceEEEEEe
Q 030662 4 QRPTKTLFVINFDP-IRTRERDIKRHFEPYGNVLHVRIR--RN-FAFVQFETQEEATKALESTDRSKLV-D-RVISVEYA 77 (173)
Q Consensus 4 ~~~~~~l~V~nL~p-~~~~e~~L~~~F~~~G~i~~~~~~--~g-~afV~f~~~~~a~~A~~~l~g~~i~-g-~~l~v~~a 77 (173)
..+++.|.+.=|+| +.+|.+-|..+....|+|..|.|. .| .|+|||++.+.|++|.++|||..|. | ..|+|++|
T Consensus 117 ~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyA 196 (494)
T KOG1456|consen 117 ATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYA 196 (494)
T ss_pred CCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccccccceeEEEEec
Confidence 45677787776654 568889999999999999998883 33 6999999999999999999999884 4 57999999
Q ss_pred ecCC
Q 030662 78 LKDD 81 (173)
Q Consensus 78 ~~~~ 81 (173)
++.+
T Consensus 197 kP~r 200 (494)
T KOG1456|consen 197 KPTR 200 (494)
T ss_pred Ccce
Confidence 9765
No 97
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=98.18 E-value=1.4e-06 Score=74.33 Aligned_cols=75 Identities=16% Similarity=0.253 Sum_probs=65.7
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhc-cCCCeEEEEe--eCCeEEEEeCCHHHHHHHHHhcCCCee---cCceEEEEEe
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFE-PYGNVLHVRI--RRNFAFVQFETQEEATKALESTDRSKL---VDRVISVEYA 77 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~-~~G~i~~~~~--~~g~afV~f~~~~~a~~A~~~l~g~~i---~g~~l~v~~a 77 (173)
..++..|+|.|| -...|..+|+.++. ..|.|...+| .+..|||.|.+.++|.+.+.+|||..+ +.+.|.|.|.
T Consensus 441 ~~~SnvlhI~nL-vRPFTlgQLkelL~rtgg~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 441 KEPSNVLHIDNL-VRPFTLGQLKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred CCccceEeeecc-cccchHHHHHHHHhhccCchHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 356889999999 78899999999999 5677777777 688999999999999999999999887 6788999998
Q ss_pred ec
Q 030662 78 LK 79 (173)
Q Consensus 78 ~~ 79 (173)
..
T Consensus 520 ~~ 521 (718)
T KOG2416|consen 520 RA 521 (718)
T ss_pred ch
Confidence 63
No 98
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.17 E-value=4.9e-06 Score=69.56 Aligned_cols=71 Identities=30% Similarity=0.330 Sum_probs=58.7
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEE-EEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLH-VRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~-~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
+..+|-+.+| |+.||++||.+||+..-.|.. +.| +.|.|||+|++.+.|++||.. |...|..+-|.|..+
T Consensus 102 ~d~vVRLRGL-Pfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 102 NDGVVRLRGL-PFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRS 179 (510)
T ss_pred CCceEEecCC-CccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehh
Confidence 5568889999 999999999999998754444 323 468999999999999999985 778888888888766
Q ss_pred e
Q 030662 78 L 78 (173)
Q Consensus 78 ~ 78 (173)
.
T Consensus 180 s 180 (510)
T KOG4211|consen 180 S 180 (510)
T ss_pred H
Confidence 4
No 99
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.17 E-value=1.8e-05 Score=58.76 Aligned_cols=69 Identities=19% Similarity=0.304 Sum_probs=58.7
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-eCCeEEEEeCCHHHHHHHHHhcCCCeec--CceEEEEE
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-RRNFAFVQFETQEEATKALESTDRSKLV--DRVISVEY 76 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-~~g~afV~f~~~~~a~~A~~~l~g~~i~--g~~l~v~~ 76 (173)
...|.|.+| |...+|++|++++.+.|.|+...+ .-|+++|+|...++++-||..|+...+. |....|.+
T Consensus 115 e~RVvVsGL-p~SgSWQDLKDHmReaGdvCfadv~rDg~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yirv 186 (241)
T KOG0105|consen 115 EYRVVVSGL-PPSGSWQDLKDHMREAGDVCFADVQRDGVGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYIRV 186 (241)
T ss_pred ceeEEEecC-CCCCchHHHHHHHHhhCCeeeeeeecccceeeeeeehhhHHHHHHhhccccccCcCcEeeEEe
Confidence 457889999 889999999999999999999888 4689999999999999999999887774 44444433
No 100
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=98.15 E-value=1.4e-05 Score=57.40 Aligned_cols=78 Identities=23% Similarity=0.333 Sum_probs=55.6
Q ss_pred CCCCCEEEEcCCCC-----CCCCH---HHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 4 QRPTKTLFVINFDP-----IRTRE---RDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 4 ~~~~~~l~V~nL~p-----~~~~e---~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
.+|..||.|.-+.+ ....+ .+|.+.|..||+|.-+.+..+.-+|+|.+.+.|.+|+. |+|.+|+|+.|+|.
T Consensus 24 GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~ 102 (146)
T PF08952_consen 24 GPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGDTMWVTFRDGQSALAALS-LDGIQVNGRTLKIR 102 (146)
T ss_dssp --TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETTCEEEEESSCHHHHHHHH-GCCSEETTEEEEEE
T ss_pred CCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCCeEEEEECccHHHHHHHc-cCCcEECCEEEEEE
Confidence 35677787765520 11222 47888999999999899888999999999999999997 79999999999999
Q ss_pred EeecCCC
Q 030662 76 YALKDDS 82 (173)
Q Consensus 76 ~a~~~~~ 82 (173)
+..+..-
T Consensus 103 LKtpdW~ 109 (146)
T PF08952_consen 103 LKTPDWL 109 (146)
T ss_dssp E------
T ss_pred eCCccHH
Confidence 8876653
No 101
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.15 E-value=5.9e-06 Score=67.79 Aligned_cols=75 Identities=28% Similarity=0.374 Sum_probs=64.4
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe----eCCeEEEEeCCHHHHHHHHHhcCCCeecC-ceEEEEEee
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI----RRNFAFVQFETQEEATKALESTDRSKLVD-RVISVEYAL 78 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~----~~g~afV~f~~~~~a~~A~~~l~g~~i~g-~~l~v~~a~ 78 (173)
-+|+.+|++.|+ |..++|++|+.+|..-|..++... .+.+|++.+++.|+|..|+..|+++.+.+ .-|+|.|++
T Consensus 411 ~PpsatlHlsni-p~svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSk 489 (492)
T KOG1190|consen 411 FPPSATLHLSNI-PPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSK 489 (492)
T ss_pred CCchhheeeccC-CcccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhHhhhhccccccccCCCCceEEEEeec
Confidence 367889999999 889999999999999886654433 35699999999999999999999999965 589999987
Q ss_pred c
Q 030662 79 K 79 (173)
Q Consensus 79 ~ 79 (173)
.
T Consensus 490 s 490 (492)
T KOG1190|consen 490 S 490 (492)
T ss_pred c
Confidence 5
No 102
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.14 E-value=7.3e-06 Score=49.05 Aligned_cols=50 Identities=22% Similarity=0.585 Sum_probs=42.4
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--CCeEEEEeCCHHHHHHHH
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--RNFAFVQFETQEEATKAL 59 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--~g~afV~f~~~~~a~~A~ 59 (173)
+.|-|.+. +. -..++|..+|..||+|+.+.+. ..+.+|.|.+..+|++||
T Consensus 2 ~wI~V~Gf-~~-~~~~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGF-PP-DLAEEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeE-Cc-hHHHHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence 56888999 53 3456677899999999999997 789999999999999985
No 103
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=98.10 E-value=1.4e-05 Score=54.08 Aligned_cols=70 Identities=20% Similarity=0.401 Sum_probs=52.4
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEE-------------e--eCCeEEEEeCCHHHHHHHHHhcCCCeecCc
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVR-------------I--RRNFAFVQFETQEEATKALESTDRSKLVDR 70 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~-------------~--~~g~afV~f~~~~~a~~A~~~l~g~~i~g~ 70 (173)
....|.|-+. |. .....|...|++||.|++.. + ...+..|+|++..+|++||.. ||..|.|.
T Consensus 5 ~~~wVtVFGf-p~-~~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g~ 81 (100)
T PF05172_consen 5 SETWVTVFGF-PP-SASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSGS 81 (100)
T ss_dssp GCCEEEEE----G-GGHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETTC
T ss_pred CCeEEEEEcc-CH-HHHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcCc
Confidence 4567888899 64 46788999999999998875 2 356899999999999999985 99999886
Q ss_pred eE-EEEEee
Q 030662 71 VI-SVEYAL 78 (173)
Q Consensus 71 ~l-~v~~a~ 78 (173)
.| -|.+++
T Consensus 82 ~mvGV~~~~ 90 (100)
T PF05172_consen 82 LMVGVKPCD 90 (100)
T ss_dssp EEEEEEE-H
T ss_pred EEEEEEEcH
Confidence 54 466664
No 104
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.05 E-value=5.4e-06 Score=64.19 Aligned_cols=73 Identities=12% Similarity=0.272 Sum_probs=62.0
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
....||.|.| ..+++.+.|-..|.+|-......+ .+||+||.|.+.+++..|+..|+|..++.+.|++.-+
T Consensus 189 ~DfRIfcgdl-gNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 189 DDFRIFCGDL-GNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred ccceeecccc-cccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 4568999999 788999999999999975544443 5899999999999999999999999999998887655
Q ss_pred ec
Q 030662 78 LK 79 (173)
Q Consensus 78 ~~ 79 (173)
..
T Consensus 268 ~w 269 (290)
T KOG0226|consen 268 EW 269 (290)
T ss_pred hH
Confidence 43
No 105
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.99 E-value=8.1e-07 Score=72.37 Aligned_cols=66 Identities=17% Similarity=0.093 Sum_probs=52.3
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe----eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI----RRNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~----~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
.+|+|++| +..+...++.++|..+|+|....+ ..-+|.|+|........|+. ++|.++.-+...+.
T Consensus 152 Rt~~v~sl-~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr~a 221 (479)
T KOG4676|consen 152 RTREVQSL-ISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSRRA 221 (479)
T ss_pred hhhhhhcc-hhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhhhh
Confidence 57999999 888999999999999999988777 34577899999888888887 57776654333333
No 106
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.96 E-value=1.1e-05 Score=64.63 Aligned_cols=76 Identities=25% Similarity=0.449 Sum_probs=65.6
Q ss_pred CCCEEE-EcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 6 PTKTLF-VINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 6 ~~~~l~-V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
+..++| |++| ++.+++++|..+|..+|.|..+.+ .+|||+|+|.+...+..|+.. +...+.+..|.|..
T Consensus 183 ~s~~~~~~~~~-~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 260 (285)
T KOG4210|consen 183 PSDTIFFVGEL-DFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEE 260 (285)
T ss_pred ccccceeeccc-ccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCccccccc
Confidence 344555 9999 799999999999999999999988 378999999999999999987 88889999999988
Q ss_pred eecCCCC
Q 030662 77 ALKDDSE 83 (173)
Q Consensus 77 a~~~~~~ 83 (173)
..+....
T Consensus 261 ~~~~~~~ 267 (285)
T KOG4210|consen 261 DEPRPKS 267 (285)
T ss_pred CCCCccc
Confidence 8766443
No 107
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.95 E-value=2.2e-05 Score=63.23 Aligned_cols=72 Identities=22% Similarity=0.486 Sum_probs=58.3
Q ss_pred CCEEEEcCCCCCCCCHH---HH--HHhhccCCCeEEEEee---------CCe--EEEEeCCHHHHHHHHHhcCCCeecCc
Q 030662 7 TKTLFVINFDPIRTRER---DI--KRHFEPYGNVLHVRIR---------RNF--AFVQFETQEEATKALESTDRSKLVDR 70 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~---~L--~~~F~~~G~i~~~~~~---------~g~--afV~f~~~~~a~~A~~~l~g~~i~g~ 70 (173)
..-+||-+|+|.-..|+ .| .++|.+||+|.+|.|. .+. .||+|.+.++|..||...+|..++|+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr 193 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR 193 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence 45689999955444444 23 5899999999999883 222 39999999999999999999999999
Q ss_pred eEEEEEee
Q 030662 71 VISVEYAL 78 (173)
Q Consensus 71 ~l~v~~a~ 78 (173)
.|+..+..
T Consensus 194 ~lkatYGT 201 (480)
T COG5175 194 VLKATYGT 201 (480)
T ss_pred eEeeecCc
Confidence 99988765
No 108
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.93 E-value=2.4e-05 Score=66.28 Aligned_cols=74 Identities=24% Similarity=0.403 Sum_probs=58.5
Q ss_pred CCCEEEEcCC-CCCCCCH--------HHHHHhhccCCCeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEE
Q 030662 6 PTKTLFVINF-DPIRTRE--------RDIKRHFEPYGNVLHVRI---RRNFAFVQFETQEEATKALESTDRSKLVDRVIS 73 (173)
Q Consensus 6 ~~~~l~V~nL-~p~~~~e--------~~L~~~F~~~G~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~ 73 (173)
++.+|.+.|+ ||.+.|+ +++.+...+||+|..|.| .-||.||.|.+.+.|.+|+.+|||..|.|+.|+
T Consensus 442 ~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~It 521 (549)
T KOG0147|consen 442 PTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRMIT 521 (549)
T ss_pred ccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccceeE
Confidence 4455666664 3333322 566677799999999998 348999999999999999999999999999999
Q ss_pred EEEeec
Q 030662 74 VEYALK 79 (173)
Q Consensus 74 v~~a~~ 79 (173)
+.|-..
T Consensus 522 a~~~~~ 527 (549)
T KOG0147|consen 522 AKYLPL 527 (549)
T ss_pred EEEeeh
Confidence 988653
No 109
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.90 E-value=5.2e-05 Score=64.66 Aligned_cols=72 Identities=17% Similarity=0.320 Sum_probs=58.7
Q ss_pred CCCCEEEEcCCCCCCCCH-------HHHHHhhccCCCeEEEEee-------CCeEEEEeCCHHHHHHHHHhcCCCeec-C
Q 030662 5 RPTKTLFVINFDPIRTRE-------RDIKRHFEPYGNVLHVRIR-------RNFAFVQFETQEEATKALESTDRSKLV-D 69 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e-------~~L~~~F~~~G~i~~~~~~-------~g~afV~f~~~~~a~~A~~~l~g~~i~-g 69 (173)
.-...|+|.|+ |. +.. ..|..+|+++|+|+.+.++ +||.|++|.+..+|+.|++.|||+.|+ .
T Consensus 56 g~D~vVvv~g~-Pv-V~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldkn 133 (698)
T KOG2314|consen 56 GFDSVVVVDGA-PV-VGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKN 133 (698)
T ss_pred CcceEEEECCC-cc-cChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceeccc
Confidence 34568889999 73 443 3467899999999999884 799999999999999999999999984 6
Q ss_pred ceEEEEEee
Q 030662 70 RVISVEYAL 78 (173)
Q Consensus 70 ~~l~v~~a~ 78 (173)
+.+.|..-+
T Consensus 134 Htf~v~~f~ 142 (698)
T KOG2314|consen 134 HTFFVRLFK 142 (698)
T ss_pred ceEEeehhh
Confidence 777776544
No 110
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.90 E-value=4.2e-05 Score=61.65 Aligned_cols=74 Identities=19% Similarity=0.295 Sum_probs=60.6
Q ss_pred CCCEEEEcCCCCC----CCC-------HHHHHHhhccCCCeEEEEe----eCCeEEEEeCCHHHHHHHHHhcCCCeecCc
Q 030662 6 PTKTLFVINFDPI----RTR-------ERDIKRHFEPYGNVLHVRI----RRNFAFVQFETQEEATKALESTDRSKLVDR 70 (173)
Q Consensus 6 ~~~~l~V~nL~p~----~~~-------e~~L~~~F~~~G~i~~~~~----~~g~afV~f~~~~~a~~A~~~l~g~~i~g~ 70 (173)
..++|.|.|| -. ..+ +++|.+-..+||.|..|.| +.|.+-|.|.+.++|+.||+.|+|..|.|+
T Consensus 264 ~~~tVi~kn~-Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgR 342 (382)
T KOG1548|consen 264 ADRTVILKNM-FTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGR 342 (382)
T ss_pred CCcEEEeeec-CCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecce
Confidence 4578888887 21 122 2456667889999999988 689999999999999999999999999999
Q ss_pred eEEEEEeecC
Q 030662 71 VISVEYALKD 80 (173)
Q Consensus 71 ~l~v~~a~~~ 80 (173)
+|...+....
T Consensus 343 ql~A~i~DG~ 352 (382)
T KOG1548|consen 343 QLTASIWDGK 352 (382)
T ss_pred EEEEEEeCCc
Confidence 9998876543
No 111
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.86 E-value=1.2e-05 Score=64.99 Aligned_cols=69 Identities=12% Similarity=0.232 Sum_probs=57.0
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCC--CeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYG--NVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G--~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
.-++||||| -|++|.++|.+.+...| .|.++++ ++|||+|...+...+++.++.|..++|.|+.-+|.-
T Consensus 80 k~~~YvGNL-~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~ 158 (498)
T KOG4849|consen 80 KYCCYVGNL-LWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLS 158 (498)
T ss_pred eEEEEecce-eEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeec
Confidence 347999999 79999999999988777 3444443 589999999999999999999999999987655543
No 112
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.81 E-value=6.7e-05 Score=63.85 Aligned_cols=58 Identities=26% Similarity=0.483 Sum_probs=49.8
Q ss_pred HHHHHhhccCCCeEEEEee-----------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 23 RDIKRHFEPYGNVLHVRIR-----------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~~-----------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
++|+..+.+||.|..|.++ .|..||+|.+.++|+.|+++|+|.+|.++.|...+....
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeD 492 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDED 492 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHH
Confidence 3456677899999999983 467899999999999999999999999999998887543
No 113
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.80 E-value=5.6e-05 Score=63.72 Aligned_cols=58 Identities=28% Similarity=0.405 Sum_probs=52.5
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhc-cCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHh
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFE-PYGNVLHVRI--------RRNFAFVQFETQEEATKALES 61 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~-~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~ 61 (173)
..+|.+|||||+| |--++.++|..+|. -||.|+.+-| ++|-|=|+|.+.+.-.+||.+
T Consensus 366 ~lDprrTVFVGgv-prpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 366 PIDPRRTVFVGGL-PRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred ccCccceEEecCC-CCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 4678999999999 89999999999999 7999988877 689999999999999999874
No 114
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.80 E-value=2.5e-05 Score=69.50 Aligned_cols=78 Identities=21% Similarity=0.331 Sum_probs=68.8
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeC--CeEEEEeCCHHHHHHHHHhcCCCeecC--ceEEEEEeec
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRR--NFAFVQFETQEEATKALESTDRSKLVD--RVISVEYALK 79 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~--g~afV~f~~~~~a~~A~~~l~g~~i~g--~~l~v~~a~~ 79 (173)
..+++.|||++| ..++....|..+|..||.|..|.+-. -||+|.|++...|++|++.|-|..|.+ +.|.|.||..
T Consensus 452 st~ttr~~sggl-g~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~ 530 (975)
T KOG0112|consen 452 STPTTRLQSGGL-GPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASP 530 (975)
T ss_pred cccceeeccCCC-CCCChHHHHHHHhhccCcceeeecccCCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccC
Confidence 456789999999 77899999999999999999999854 599999999999999999999999965 6799999986
Q ss_pred CCC
Q 030662 80 DDS 82 (173)
Q Consensus 80 ~~~ 82 (173)
...
T Consensus 531 ~~~ 533 (975)
T KOG0112|consen 531 PGA 533 (975)
T ss_pred CCC
Confidence 543
No 115
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.77 E-value=9.2e-06 Score=62.93 Aligned_cols=58 Identities=24% Similarity=0.385 Sum_probs=49.9
Q ss_pred HHHHHhhc-cCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 23 RDIKRHFE-PYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 23 ~~L~~~F~-~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
++|...|+ +||+|+++.| ..|-++|.|...++|++|++.||+-.|.|++|..++..-.
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT 148 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVT 148 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcC
Confidence 45556666 8999999877 4678999999999999999999999999999999987643
No 116
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.70 E-value=2e-05 Score=61.04 Aligned_cols=65 Identities=17% Similarity=0.312 Sum_probs=57.1
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee------------C--------CeEEEEeCCHHHHHHHHHhcCCC
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR------------R--------NFAFVQFETQEEATKALESTDRS 65 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~------------~--------g~afV~f~~~~~a~~A~~~l~g~ 65 (173)
....||+++| |..+...-|.++|+.||+|-.|.|. + --|+|+|.+...|..+...||+.
T Consensus 73 k~GVvylS~I-Pp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~ 151 (278)
T KOG3152|consen 73 KTGVVYLSNI-PPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNT 151 (278)
T ss_pred cceEEEeccC-CCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCC
Confidence 3468999999 7889999999999999999999981 1 13889999999999999999999
Q ss_pred eecCce
Q 030662 66 KLVDRV 71 (173)
Q Consensus 66 ~i~g~~ 71 (173)
.|.|..
T Consensus 152 ~Iggkk 157 (278)
T KOG3152|consen 152 PIGGKK 157 (278)
T ss_pred ccCCCC
Confidence 998864
No 117
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.66 E-value=0.00016 Score=63.10 Aligned_cols=71 Identities=34% Similarity=0.460 Sum_probs=60.0
Q ss_pred CCCC-EEEEcCCCCCCCCHHHHHHhhccCCCeE-EEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 5 RPTK-TLFVINFDPIRTRERDIKRHFEPYGNVL-HVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 5 ~~~~-~l~V~nL~p~~~~e~~L~~~F~~~G~i~-~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
.+.+ +|-|-|+ |++++-+||.+||..|-.+- .|.+ +.|-|.|.|++.++|..|...|++.+|..+.|.|.
T Consensus 864 ~pGp~V~~~~n~-Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~ 942 (944)
T KOG4307|consen 864 SPGPRVLSCNNF-PFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLR 942 (944)
T ss_pred CCCCeEEEecCC-CccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEE
Confidence 3455 7778899 99999999999999996543 2333 57899999999999999999999999999998886
Q ss_pred E
Q 030662 76 Y 76 (173)
Q Consensus 76 ~ 76 (173)
+
T Consensus 943 i 943 (944)
T KOG4307|consen 943 I 943 (944)
T ss_pred e
Confidence 5
No 118
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.62 E-value=6.1e-05 Score=62.29 Aligned_cols=74 Identities=20% Similarity=0.292 Sum_probs=61.8
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccC--CCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCC-eecCceEEEEEeecCCC
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPY--GNVLHVRIRRNFAFVQFETQEEATKALESTDRS-KLVDRVISVEYALKDDS 82 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~--G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~-~i~g~~l~v~~a~~~~~ 82 (173)
..|||+|| ...++..+|..+|... +.-..+.|..||+||.+.+...|.+|++.|+|+ ++.|..+.|+..-+++.
T Consensus 2 nklyignL-~p~~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkq 78 (584)
T KOG2193|consen 2 NKLYIGNL-SPQVTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQ 78 (584)
T ss_pred Cccccccc-CCCCChHHHHHHhccccCCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHH
Confidence 46899999 5689999999999753 333455567899999999999999999999985 67999999998876654
No 119
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.61 E-value=0.00025 Score=59.95 Aligned_cols=55 Identities=22% Similarity=0.454 Sum_probs=46.0
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-----------eCC---eEEEEeCCHHHHHHHHHhcC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-----------RRN---FAFVQFETQEEATKALESTD 63 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-----------~~g---~afV~f~~~~~a~~A~~~l~ 63 (173)
..+||||+| |++++|++|...|..||.|.- .. ++| |+|+.|+++..+.+-|.++.
T Consensus 259 S~KVFvGGl-p~dise~~i~~~F~~FGs~~V-dWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 259 SRKVFVGGL-PWDITEAQINASFGQFGSVKV-DWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred ccceeecCC-CccccHHHHHhhcccccceEe-ecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 578999999 899999999999999997642 22 467 99999999998888776543
No 120
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.60 E-value=0.00044 Score=44.92 Aligned_cols=56 Identities=21% Similarity=0.468 Sum_probs=46.2
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDR 64 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g 64 (173)
...++|+ + |.+....||.++|+.||.|.-..|...-|||...+.+.|..|+..+..
T Consensus 9 dHVFhlt-F-PkeWK~~DI~qlFspfG~I~VsWi~dTSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLT-F-PKEWKTSDIYQLFSPFGQIYVSWINDTSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE----TT--HHHHHHHCCCCCCEEEEEECTTEEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEe-C-chHhhhhhHHHHhccCCcEEEEEEcCCcEEEEeecHHHHHHHHHHhcc
Confidence 4566676 7 788999999999999999998889999999999999999999988754
No 121
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.58 E-value=0.0001 Score=60.39 Aligned_cols=72 Identities=18% Similarity=0.295 Sum_probs=56.3
Q ss_pred CCCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-----------CCeEEEEeCCHHHHHHHHHhcCCCeecCc
Q 030662 2 ANQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-----------RNFAFVQFETQEEATKALESTDRSKLVDR 70 (173)
Q Consensus 2 ~~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-----------~g~afV~f~~~~~a~~A~~~l~g~~i~g~ 70 (173)
........|.|.||+ ..++.+++..||...|+|.++.|. .-.|||.|.+.+.+..|.. |.++.|-+.
T Consensus 2 ~gg~~~~vIqvanis-psat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdr 79 (479)
T KOG4676|consen 2 VGGSSLGVIQVANIS-PSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDR 79 (479)
T ss_pred CCCCCCceeeecccC-chhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeee
Confidence 334455689999995 589999999999999999998871 3479999999999998865 666666555
Q ss_pred eEEEE
Q 030662 71 VISVE 75 (173)
Q Consensus 71 ~l~v~ 75 (173)
.|.|-
T Consensus 80 aliv~ 84 (479)
T KOG4676|consen 80 ALIVR 84 (479)
T ss_pred eEEEE
Confidence 54443
No 122
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.52 E-value=9.8e-05 Score=60.42 Aligned_cols=73 Identities=19% Similarity=0.268 Sum_probs=60.8
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCC-eEE--EEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGN-VLH--VRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~-i~~--~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
.+..+|-+.+| |+..+.++|.++|..|.. |.. |+| +.|-|||+|.+.+.|.+|....+++....+.|.|
T Consensus 278 ~~kdcvRLRGL-Py~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 278 RSKDCVRLRGL-PYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEV 356 (508)
T ss_pred CCCCeeEecCC-ChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEE
Confidence 34668889999 999999999999999863 332 444 4689999999999999999998888888888888
Q ss_pred EEee
Q 030662 75 EYAL 78 (173)
Q Consensus 75 ~~a~ 78 (173)
-.+.
T Consensus 357 fp~S 360 (508)
T KOG1365|consen 357 FPCS 360 (508)
T ss_pred eecc
Confidence 7665
No 123
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.38 E-value=0.00043 Score=54.90 Aligned_cols=58 Identities=33% Similarity=0.342 Sum_probs=49.5
Q ss_pred HHHHHHhhccCCCeEEEEee---------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeec
Q 030662 22 ERDIKRHFEPYGNVLHVRIR---------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALK 79 (173)
Q Consensus 22 e~~L~~~F~~~G~i~~~~~~---------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~ 79 (173)
+.++++..++||.|..|.|. .--.||+|+..++|.+|+-.|||..|.|+.+...|..-
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ 366 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNL 366 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccH
Confidence 35678889999999988871 22479999999999999999999999999999888653
No 124
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.23 E-value=0.0021 Score=39.57 Aligned_cols=53 Identities=25% Similarity=0.387 Sum_probs=42.6
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccC----CCeEEEEe-eCCeEEEEeCCHHHHHHHHHhc
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPY----GNVLHVRI-RRNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~----G~i~~~~~-~~g~afV~f~~~~~a~~A~~~l 62 (173)
...|+|.+++ +++.++|+.+|..| +. ..|.+ .-.-|-|.|.+.+.|.+||.+|
T Consensus 5 peavhirGvd--~lsT~dI~~y~~~y~~~~~~-~~IEWIdDtScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD--ELSTDDIKAYFSEYFDEEGP-FRIEWIDDTSCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCC--CCCHHHHHHHHHHhcccCCC-ceEEEecCCcEEEEECCHHHHHHHHHcC
Confidence 3579999994 78999999999998 43 34444 4556889999999999999875
No 125
>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=97.12 E-value=0.002 Score=41.04 Aligned_cols=59 Identities=29% Similarity=0.330 Sum_probs=39.1
Q ss_pred CCCCHHHHHHhhccCC-----CeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 18 IRTRERDIKRHFEPYG-----NVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 18 ~~~~e~~L~~~F~~~G-----~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
..++..+|..+|...+ .|-.+.|...|+||+... +.|+.++..|++..+.|+.|.|+.|
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 DGLTPRDIVGAICNEAGIPGRDIGRIDIFDNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEeeeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 5788999999998764 466788899999999985 4788999999999999999999875
No 126
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=97.11 E-value=0.0024 Score=50.84 Aligned_cols=71 Identities=20% Similarity=0.298 Sum_probs=54.4
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--CCeEEEEeCCHHHHHHHHHhcCCCeecCce-EEEEEeecC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--RNFAFVQFETQEEATKALESTDRSKLVDRV-ISVEYALKD 80 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--~g~afV~f~~~~~a~~A~~~l~g~~i~g~~-l~v~~a~~~ 80 (173)
...|-|-++ | ...-..|..+|++||+|++.... -.|-+|.|.+..+|++||.. ||+.|+|.. |-|.-+..+
T Consensus 197 D~WVTVfGF-p-pg~~s~vL~~F~~cG~Vvkhv~~~ngNwMhirYssr~~A~KALsk-ng~ii~g~vmiGVkpCtDk 270 (350)
T KOG4285|consen 197 DTWVTVFGF-P-PGQVSIVLNLFSRCGEVVKHVTPSNGNWMHIRYSSRTHAQKALSK-NGTIIDGDVMIGVKPCTDK 270 (350)
T ss_pred cceEEEecc-C-ccchhHHHHHHHhhCeeeeeecCCCCceEEEEecchhHHHHhhhh-cCeeeccceEEeeeecCCH
Confidence 445666777 4 35567899999999999887763 45889999999999999985 999998754 455554444
No 127
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.96 E-value=0.00037 Score=62.03 Aligned_cols=74 Identities=18% Similarity=0.251 Sum_probs=64.4
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeec
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALK 79 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~ 79 (173)
...|||.|+ |+..|.++|+.++.++|.++.+.+ ++|.|||.|.+..+|..++..++...+.-..+.|.++.+
T Consensus 736 K~~v~i~g~-pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 736 KISVAISGP-PFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhhheeCC-CCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 457899999 899999999999999999988766 589999999999999999988888888877888887665
Q ss_pred CC
Q 030662 80 DD 81 (173)
Q Consensus 80 ~~ 81 (173)
..
T Consensus 815 ~~ 816 (881)
T KOG0128|consen 815 ER 816 (881)
T ss_pred cc
Confidence 33
No 128
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.92 E-value=0.0065 Score=43.51 Aligned_cols=73 Identities=18% Similarity=0.293 Sum_probs=55.4
Q ss_pred CCCCCEEEEcCCCCCCCCH-HH---HHHhhccCCCeEEEEe-eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 4 QRPTKTLFVINFDPIRTRE-RD---IKRHFEPYGNVLHVRI-RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e-~~---L~~~F~~~G~i~~~~~-~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
.+|-.||.|.=| ..++.. ++ |...++.||+|..|.+ -+.-|.|.|.+...|-.|+.+++. ..-|..+...|-.
T Consensus 83 epPMsTIVVRWl-kknm~~~edl~sV~~~Ls~fGpI~SVT~cGrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWqq 160 (166)
T PF15023_consen 83 EPPMSTIVVRWL-KKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQQ 160 (166)
T ss_pred CCCceeEEeehh-hhcCChHHHHHHHHHHHHhcCCcceeeecCCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeeccc
Confidence 567788888877 555543 34 4455678999999987 577899999999999999999876 4566666666643
No 129
>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=96.87 E-value=0.0029 Score=47.56 Aligned_cols=60 Identities=17% Similarity=0.273 Sum_probs=45.2
Q ss_pred CHHHHHHhhccCCCeEEEEeeCCe--EEEEeCCHHHHHHHHHhcC--CCeecCceEEEEEeecC
Q 030662 21 RERDIKRHFEPYGNVLHVRIRRNF--AFVQFETQEEATKALESTD--RSKLVDRVISVEYALKD 80 (173)
Q Consensus 21 ~e~~L~~~F~~~G~i~~~~~~~g~--afV~f~~~~~a~~A~~~l~--g~~i~g~~l~v~~a~~~ 80 (173)
..+.|+++|..|+.+..+.+.+.| ..|.|.+.+.|..|...|+ +..+.|..|+|.|+...
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 458899999999988877775554 7899999999999999999 99999999999999644
No 130
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.84 E-value=0.00061 Score=59.64 Aligned_cols=71 Identities=21% Similarity=0.224 Sum_probs=58.4
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEE-EEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLH-VRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~-~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
.+.+|||..| |..+++.++.++|.+.-.|++ |.| ..+.|||+|..++++..|+..-+.+.+..+.|.|.-.
T Consensus 433 ag~~lyv~~l-P~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si 511 (944)
T KOG4307|consen 433 AGGALYVFQL-PVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI 511 (944)
T ss_pred ccceEEeccC-CccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence 4678999999 999999999999998777766 666 2578999999999988888766666677788888743
No 131
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.74 E-value=0.00022 Score=63.73 Aligned_cols=72 Identities=24% Similarity=0.355 Sum_probs=60.4
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
..+.+||++|| ...+++.+|...|..+|.|..|.|. ..||||.|.+...+..|+..|.+..|..-.+.+-+.
T Consensus 370 ~atrTLf~Gnl-~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG 448 (975)
T KOG0112|consen 370 RATRTLFLGNL-DSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG 448 (975)
T ss_pred hhhhhhhhcCc-ccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence 35789999999 6799999999999999999999882 359999999999999999999888775444444444
No 132
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.70 E-value=0.002 Score=55.10 Aligned_cols=57 Identities=16% Similarity=0.246 Sum_probs=46.7
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhcc--CCCeEEEEe-eCCeEEEEeCCHHHHHHHHHhcC
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEP--YGNVLHVRI-RRNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~--~G~i~~~~~-~~g~afV~f~~~~~a~~A~~~l~ 63 (173)
.-|.|+|..| |.++..++|+.||.. +-++..|.+ .+.-=||+|++..+|+.|.+.|.
T Consensus 174 kRcIvilREI-pettp~e~Vk~lf~~encPk~iscefa~N~nWyITfesd~DAQqAykylr 233 (684)
T KOG2591|consen 174 KRCIVILREI-PETTPIEVVKALFKGENCPKVISCEFAHNDNWYITFESDTDAQQAYKYLR 233 (684)
T ss_pred ceeEEEEeec-CCCChHHHHHHHhccCCCCCceeeeeeecCceEEEeecchhHHHHHHHHH
Confidence 3467788999 888999999999974 778888887 34556899999999999977654
No 133
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.57 E-value=0.072 Score=47.39 Aligned_cols=62 Identities=8% Similarity=0.199 Sum_probs=50.9
Q ss_pred CCCCHHHHHHhhccCCCe-----EEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 18 IRTRERDIKRHFEPYGNV-----LHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 18 ~~~~e~~L~~~F~~~G~i-----~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
..++..+|..++..-+.| -.|.|...|.||+.. ...|...++.|++..+.|+.|.|+.+...
T Consensus 497 ~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~~~s~v~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 563 (629)
T PRK11634 497 DGVEVRHIVGAIANEGDISSRYIGNIKLFASHSTIELP-KGMPGEVLQHFTRTRILNKPMNMQLLGDA 563 (629)
T ss_pred cCCCHHHHHHHHHhhcCCChhhCCcEEEeCCceEEEcC-hhhHHHHHHHhccccccCCceEEEECCCC
Confidence 578889999888876544 456778899999998 45688899999999999999999988543
No 134
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=96.57 E-value=0.0013 Score=57.27 Aligned_cols=73 Identities=18% Similarity=0.167 Sum_probs=63.1
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
..++.-+|||+|| ...+..+-+..++..+|.|..+...+ |+|++|.....+..|+..|+...++|..|.+...
T Consensus 36 ~~~~~~~vfv~~~-~~~~s~~~~~~il~~~g~v~s~kr~~-fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d 108 (668)
T KOG2253|consen 36 PLPPRDTVFVGNI-SYLVSQEFWKSILAKSGFVPSWKRDK-FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD 108 (668)
T ss_pred CCCCCceeEecch-hhhhhHHHHHHHHhhCCcchhhhhhh-hcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence 3567789999999 78888888999999999988776555 9999999999999999999999998888777663
No 135
>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=96.55 E-value=0.0053 Score=45.80 Aligned_cols=78 Identities=17% Similarity=0.264 Sum_probs=49.5
Q ss_pred CCCCCCCCEEEEcCCCCCCCCHHHHHHhhcc-CCCe---EEEE--e--------eCCeEEEEeCCHHHHHHHHHhcCCCe
Q 030662 1 MANQRPTKTLFVINFDPIRTRERDIKRHFEP-YGNV---LHVR--I--------RRNFAFVQFETQEEATKALESTDRSK 66 (173)
Q Consensus 1 s~~~~~~~~l~V~nL~p~~~~e~~L~~~F~~-~G~i---~~~~--~--------~~g~afV~f~~~~~a~~A~~~l~g~~ 66 (173)
|.......+|.|.+| |.++||+++.+.+.. ++.. ..+. + .-.-|+|.|.+.+++...+..++|+.
T Consensus 1 ~~~~~~~~KvVIR~L-PP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~ 79 (176)
T PF03467_consen 1 MKKEKEGTKVVIRRL-PPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHV 79 (176)
T ss_dssp --------EEEEEEE--TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEE
T ss_pred CCCcccCceEEEeCC-CCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcE
Confidence 455667789999999 889999999998886 6654 2222 1 12359999999999999999999988
Q ss_pred ecC-----ceEEEEEeec
Q 030662 67 LVD-----RVISVEYALK 79 (173)
Q Consensus 67 i~g-----~~l~v~~a~~ 79 (173)
|.+ ....|++|--
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 732 2456666654
No 136
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.54 E-value=0.0014 Score=54.96 Aligned_cols=59 Identities=24% Similarity=0.413 Sum_probs=51.3
Q ss_pred CHHHHHHhhccCCCeEEEEe--eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 21 RERDIKRHFEPYGNVLHVRI--RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 21 ~e~~L~~~F~~~G~i~~~~~--~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
+-++|..+|.+||+|..|.| ..-.|.|+|.+..+|-.|.. .++..|+++.|+|.|-.+.
T Consensus 386 t~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnps 446 (526)
T KOG2135|consen 386 TIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNPS 446 (526)
T ss_pred hHhhhhhhhhhcCccccccccCchhhheeeeeccccccchhc-cccceecCceeEEEEecCC
Confidence 45789999999999999988 44679999999999977764 6999999999999998873
No 137
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.33 E-value=0.013 Score=48.25 Aligned_cols=57 Identities=25% Similarity=0.326 Sum_probs=41.7
Q ss_pred EEEcCCCCCCCCHHHHHHhhcc-----CCCeEEEEe------eCCeEEEEeCCHHHHHHHHHhcCCCeec
Q 030662 10 LFVINFDPIRTRERDIKRHFEP-----YGNVLHVRI------RRNFAFVQFETQEEATKALESTDRSKLV 68 (173)
Q Consensus 10 l~V~nL~p~~~~e~~L~~~F~~-----~G~i~~~~~------~~g~afV~f~~~~~a~~A~~~l~g~~i~ 68 (173)
|-+.+| |+++++.++.++|.. -|...-+.| +.|-|||.|..+++|+.||.+ |...|.
T Consensus 164 vRmRGL-Pfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iG 231 (508)
T KOG1365|consen 164 VRMRGL-PFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRK-HRQNIG 231 (508)
T ss_pred EEecCC-CCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHH-HHHHHh
Confidence 445799 999999999999962 232222233 358999999999999999975 444433
No 138
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.30 E-value=0.0014 Score=52.83 Aligned_cols=72 Identities=14% Similarity=0.302 Sum_probs=54.8
Q ss_pred CEEEEcCCCCCCCCHHHHH--HhhccCCCeEEEEeeC-----------CeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 8 KTLFVINFDPIRTRERDIK--RHFEPYGNVLHVRIRR-----------NFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~--~~F~~~G~i~~~~~~~-----------g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
.-+||-+|++.-..+..|+ +.|.+||.|..|.+.+ .-++|+|...++|..||...+|..++|+.|+.
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka 157 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA 157 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence 4567778843334455553 6788999999988732 23799999999999999999999999988777
Q ss_pred EEeec
Q 030662 75 EYALK 79 (173)
Q Consensus 75 ~~a~~ 79 (173)
.+...
T Consensus 158 ~~gtt 162 (327)
T KOG2068|consen 158 SLGTT 162 (327)
T ss_pred hhCCC
Confidence 66653
No 139
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.18 E-value=0.0071 Score=51.75 Aligned_cols=75 Identities=19% Similarity=0.307 Sum_probs=52.4
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhc-cCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeec----Cce
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFE-PYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLV----DRV 71 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~-~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~----g~~ 71 (173)
.+-+++.|.|+ +...|...|.+.-. ..|....+.| ..|||||.|.+.+++..+.+++||+.+. .+.
T Consensus 386 ~~rtt~~ikni-pNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Ki 464 (549)
T KOG4660|consen 386 CPRTTLMIKNI-PNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKI 464 (549)
T ss_pred CchhhhHhhcc-CchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceee
Confidence 44566777777 66656565554433 3455555555 3689999999999999999999998762 456
Q ss_pred EEEEEeecC
Q 030662 72 ISVEYALKD 80 (173)
Q Consensus 72 l~v~~a~~~ 80 (173)
+.|.||.-+
T Consensus 465 a~itYArIQ 473 (549)
T KOG4660|consen 465 ASITYARIQ 473 (549)
T ss_pred eeeehhhhh
Confidence 677777633
No 140
>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=96.10 E-value=0.11 Score=35.77 Aligned_cols=61 Identities=20% Similarity=0.252 Sum_probs=44.1
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCC-CeEEEEee------CCeEEEEeCCHHHHHHHHHhcCCCeec
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYG-NVLHVRIR------RNFAFVQFETQEEATKALESTDRSKLV 68 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G-~i~~~~~~------~g~afV~f~~~~~a~~A~~~l~g~~i~ 68 (173)
+..+.+... |+.++..+|..+.+.+- .|..+.|. +-.++|.|.+.++|++..+.+||+.++
T Consensus 13 ~~~~~l~vp-~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 13 STLCCLAVP-PYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred ceEEEEEeC-cccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 334444555 66666677776666664 56667662 336899999999999999999999874
No 141
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=96.00 E-value=0.0046 Score=55.34 Aligned_cols=72 Identities=21% Similarity=0.231 Sum_probs=59.1
Q ss_pred EEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeC--CeEEEEeCCHHHHHHHHHhcCCCee--cCceEEEEEeecCCC
Q 030662 10 LFVINFDPIRTRERDIKRHFEPYGNVLHVRIRR--NFAFVQFETQEEATKALESTDRSKL--VDRVISVEYALKDDS 82 (173)
Q Consensus 10 l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~--g~afV~f~~~~~a~~A~~~l~g~~i--~g~~l~v~~a~~~~~ 82 (173)
.++.|. +-.++...|..+|.+||.|...+..+ ..|.|+|...+.|..|+++|+|+++ .|-..+|.+|+.-.-
T Consensus 301 ~~~~nn-~v~~tSssL~~l~s~yg~v~s~wtlr~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~ 376 (1007)
T KOG4574|consen 301 QSLENN-AVNLTSSSLATLCSDYGSVASAWTLRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPM 376 (1007)
T ss_pred hhhhcc-cccchHHHHHHHHHhhcchhhheecccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccccc
Confidence 334444 45567778999999999999998844 5799999999999999999999876 688899999986543
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=95.94 E-value=0.061 Score=33.51 Aligned_cols=55 Identities=16% Similarity=0.285 Sum_probs=44.8
Q ss_pred CCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 19 RTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 19 ~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
.++-++|+..|.+|+- ..|...+---||.|.+..+|+++....++..+.+..|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~~d~tGfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIRDDRTGFYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEEecCCEEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 5788999999999973 444444545689999999999999999999988877765
No 143
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=95.86 E-value=0.01 Score=46.28 Aligned_cols=67 Identities=19% Similarity=0.298 Sum_probs=51.9
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCC----eecCceEEEE
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRS----KLVDRVISVE 75 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~----~i~g~~l~v~ 75 (173)
..|+|.|| ..-++.+.|+..|..||+|....+ ..+-++|+|.+.-.|.+|+..+.-. .+.+..+.|.
T Consensus 32 a~l~V~nl-~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~Ve 109 (275)
T KOG0115|consen 32 AELYVVNL-MQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVE 109 (275)
T ss_pred ceEEEEec-chhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCC
Confidence 68999999 678999999999999998865433 3568999999999999999877432 3344444443
No 144
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=95.57 E-value=0.00093 Score=59.57 Aligned_cols=61 Identities=30% Similarity=0.410 Sum_probs=50.6
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeec
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLV 68 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~ 68 (173)
..++||.|| +..+.+.+|...|..+|.|..+.+ .+|.|+|+|...+.|.+||.....+.+.
T Consensus 667 ~~~~fvsnl-~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 667 LIKIFVSNL-SPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHhhc-chhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 357899999 788999999999999998776655 4799999999999999999865554443
No 145
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.49 E-value=0.07 Score=46.22 Aligned_cols=75 Identities=27% Similarity=0.422 Sum_probs=58.2
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccC----CCeEEEEe-----------------e---------------------
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPY----GNVLHVRI-----------------R--------------------- 41 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~----G~i~~~~~-----------------~--------------------- 41 (173)
..+++.|-|.||+=..+...+|..+|..| |.|..|.| +
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 34678999999963347788999988876 58888887 1
Q ss_pred --------C---------CeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 42 --------R---------NFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 42 --------~---------g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
+ =||.|+|.+.+.|.+..+.|+|++|....+.+.+-.
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRF 304 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRF 304 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeee
Confidence 0 179999999999999999999999965555554443
No 146
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=94.21 E-value=0.59 Score=35.78 Aligned_cols=23 Identities=26% Similarity=0.355 Sum_probs=17.7
Q ss_pred EEEEeCCHHHHHHHHH--hcCCCee
Q 030662 45 AFVQFETQEEATKALE--STDRSKL 67 (173)
Q Consensus 45 afV~f~~~~~a~~A~~--~l~g~~i 67 (173)
-|-+=.+.++|.+||. .|+|.+|
T Consensus 61 rf~~k~daedA~damDG~~ldgRel 85 (256)
T KOG4207|consen 61 RFHDKRDAEDALDAMDGAVLDGREL 85 (256)
T ss_pred EeeecchHHHHHHhhcceeecccee
Confidence 3555678999999986 5788877
No 147
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.79 E-value=0.17 Score=42.61 Aligned_cols=64 Identities=17% Similarity=0.348 Sum_probs=53.3
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCC-CeEEEEee------CCeEEEEeCCHHHHHHHHHhcCCCeecC
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYG-NVLHVRIR------RNFAFVQFETQEEATKALESTDRSKLVD 69 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G-~i~~~~~~------~g~afV~f~~~~~a~~A~~~l~g~~i~g 69 (173)
.++..|+|-.+ |..++--||..|+..|- .|..+.|. +=.++|.|.+.++|....+.+||..|..
T Consensus 72 ~~~~mLcilaV-P~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 72 SSSTMLCILAV-PAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CCCcEEEEEec-cccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 34789999999 89999999999998764 67777772 2358899999999999999999998753
No 148
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=93.63 E-value=0.033 Score=44.74 Aligned_cols=74 Identities=16% Similarity=0.126 Sum_probs=57.5
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
..+++||+++ .+.+.+.++..+|..+|.+..+.+ .++++.|.|...+.+..|+.......+.+..+...+.
T Consensus 87 ~~~~~f~g~~-s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 87 SSSTFFVGEL-SENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLN 165 (285)
T ss_pred cccccccccc-ccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccc
Confidence 3678999999 788888888899999997766554 4899999999999999999854445666666655555
Q ss_pred ecC
Q 030662 78 LKD 80 (173)
Q Consensus 78 ~~~ 80 (173)
...
T Consensus 166 ~~~ 168 (285)
T KOG4210|consen 166 TRR 168 (285)
T ss_pred ccc
Confidence 443
No 149
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=89.93 E-value=0.41 Score=35.72 Aligned_cols=73 Identities=10% Similarity=0.128 Sum_probs=51.3
Q ss_pred CEEEEcCCCCCCC-CH----HHHHHhhccCCCeEEEEeeC--CeEEEEeCCHHHHHHHHHhcCCCeecCc-eEEEEEeec
Q 030662 8 KTLFVINFDPIRT-RE----RDIKRHFEPYGNVLHVRIRR--NFAFVQFETQEEATKALESTDRSKLVDR-VISVEYALK 79 (173)
Q Consensus 8 ~~l~V~nL~p~~~-~e----~~L~~~F~~~G~i~~~~~~~--g~afV~f~~~~~a~~A~~~l~g~~i~g~-~l~v~~a~~ 79 (173)
.+++++++ ...+ ++ ...+.+|..|-+.....+.+ +..-|.|.+.+.|..|...++...|.|. .|+..++.+
T Consensus 11 ~~~~~c~i-~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~ 89 (193)
T KOG4019|consen 11 TAIIACDI-HEEVFVNREDKALFENLFRQINEDATFQLLRSFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQP 89 (193)
T ss_pred ceeeeecc-cHHhhccHHHHHHHHhHHhhhCcchHHHHHHhhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccC
Confidence 45777777 3332 22 23456666666655555544 4566899999999999999999999887 888888876
Q ss_pred CC
Q 030662 80 DD 81 (173)
Q Consensus 80 ~~ 81 (173)
..
T Consensus 90 ~~ 91 (193)
T KOG4019|consen 90 GH 91 (193)
T ss_pred CC
Confidence 54
No 150
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=89.58 E-value=1.6 Score=36.65 Aligned_cols=73 Identities=27% Similarity=0.485 Sum_probs=54.8
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccC----CCeEEEEe------------------e--------------------
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPY----GNVLHVRI------------------R-------------------- 41 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~----G~i~~~~~------------------~-------------------- 41 (173)
.++++.|-|-||+=..+...+|..+|+.| |+|..|.| +
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iypsefGkeRm~~e~vqGpprdif~~~d~~~ssqk~~~dn 222 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYPSEFGKERMAAEHVQGPPRDIFTPADNQPSSQKFGDDN 222 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEechhhhhHHHHhHhhccCCchhhccccccCcchhccCCcc
Confidence 46788999999953347778898888765 57777766 0
Q ss_pred ----------------CC-------------------eEEEEeCCHHHHHHHHHhcCCCeecC--ceEEEEE
Q 030662 42 ----------------RN-------------------FAFVQFETQEEATKALESTDRSKLVD--RVISVEY 76 (173)
Q Consensus 42 ----------------~g-------------------~afV~f~~~~~a~~A~~~l~g~~i~g--~~l~v~~ 76 (173)
.| ||+|++.+.+.+.....+++|.++.. ..+.+.|
T Consensus 223 ~~sd~d~g~d~~~Egd~g~e~d~~~lrqyqlerlryYyAvvec~d~~tsK~iY~~CDG~Eye~san~~DLRf 294 (622)
T COG5638 223 VFSDRDAGEDALIEGDRGNEFDMVKLRQYQLERLRYYYAVVECEDIETSKNIYSACDGVEYENSANVLDLRF 294 (622)
T ss_pred chhhhhcchhhhhhcccccchhHHHHHHHHhhhheeEEEEEEeccchhhHHHHhccCccccccccceeeeee
Confidence 11 68999999999999999999998854 3444444
No 151
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=88.52 E-value=0.026 Score=47.15 Aligned_cols=73 Identities=15% Similarity=0.291 Sum_probs=59.7
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee-----CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR-----RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~-----~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
...+-|.|+ |....|+.|..++..||.|..|.+. ....-|+|.+.+.+..||.+|+|..+....++|.+--..
T Consensus 80 srk~Qirni-ppql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiPde 157 (584)
T KOG2193|consen 80 SRKIQIRNI-PPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIPDE 157 (584)
T ss_pred hhhhhHhcC-CHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCchh
Confidence 345778899 7789999999999999999888662 223447888999999999999999999988888775443
No 152
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=86.01 E-value=0.26 Score=39.31 Aligned_cols=33 Identities=24% Similarity=0.611 Sum_probs=25.4
Q ss_pred CCEEEEcCCCCCC------------CCHHHHHHhhccCCCeEEEEe
Q 030662 7 TKTLFVINFDPIR------------TRERDIKRHFEPYGNVLHVRI 40 (173)
Q Consensus 7 ~~~l~V~nL~p~~------------~~e~~L~~~F~~~G~i~~~~~ 40 (173)
..|||+.+| |.. -++.-|...|..||.|..|.|
T Consensus 149 pdti~la~i-p~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdi 193 (445)
T KOG2891|consen 149 PDTIHLAGI-PCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDI 193 (445)
T ss_pred CCceeecCC-cceeeeecccccccCChHHHHHHHHHHhccceecCC
Confidence 457888777 521 346779999999999998887
No 153
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=84.66 E-value=6.8 Score=29.29 Aligned_cols=8 Identities=38% Similarity=0.542 Sum_probs=3.2
Q ss_pred HHHHHHHH
Q 030662 52 QEEATKAL 59 (173)
Q Consensus 52 ~~~a~~A~ 59 (173)
.++|..+|
T Consensus 60 A~DAvr~L 67 (195)
T KOG0107|consen 60 AEDAVRYL 67 (195)
T ss_pred HHHHHhhc
Confidence 33444443
No 154
>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=84.11 E-value=1.6 Score=30.27 Aligned_cols=50 Identities=14% Similarity=0.341 Sum_probs=25.8
Q ss_pred EEEEcCCCCCC---------CCHHHHHHhhccCCCeEEEEe-----eCCeEEEEeCCH-HHHHHHH
Q 030662 9 TLFVINFDPIR---------TRERDIKRHFEPYGNVLHVRI-----RRNFAFVQFETQ-EEATKAL 59 (173)
Q Consensus 9 ~l~V~nL~p~~---------~~e~~L~~~F~~~G~i~~~~~-----~~g~afV~f~~~-~~a~~A~ 59 (173)
+++|.|+ +.. ++.++|.+.|..|..+....+ ..|+++|+|... .--..|+
T Consensus 10 mgIi~N~-~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 10 MGIIVNI-PTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp EEEEE-----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHH
T ss_pred EEEEEcC-ccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHH
Confidence 5667777 433 345789999999987654444 368999999964 3333443
No 155
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=84.10 E-value=3.4 Score=33.20 Aligned_cols=47 Identities=13% Similarity=0.257 Sum_probs=36.8
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCe-EEEEe--eCCeEEEEeCCHH
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNV-LHVRI--RRNFAFVQFETQE 53 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i-~~~~~--~~g~afV~f~~~~ 53 (173)
...-|+|+|| +.++.-.+|+..+.+.+.+ ..+.+ ..+-||+.|.+..
T Consensus 329 ~~~di~~~nl-~rd~rv~dlk~~lr~~~~~pm~iswkg~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 329 AKTDIKLTNL-SRDIRVKDLKSELRKRECTPMSISWKGHFGKCFLHFGNRK 378 (396)
T ss_pred cccceeeccC-ccccchHHHHHHHHhcCCCceeEeeecCCcceeEecCCcc
Confidence 3456999999 8999999999999987743 34444 5678999998753
No 156
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=81.16 E-value=13 Score=26.19 Aligned_cols=72 Identities=15% Similarity=0.207 Sum_probs=51.7
Q ss_pred CCCEEEEcCCCCCC---CCHHHHHHhhccCC-CeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 6 PTKTLFVINFDPIR---TRERDIKRHFEPYG-NVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 6 ~~~~l~V~nL~p~~---~~e~~L~~~F~~~G-~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
+...|.|... ... .+...+..++.+-| .++.+....+-..|.|.+.++..+|.+.|....-.+-.|.+.++.
T Consensus 34 edpavQIs~~-~~g~~~~~~~~v~~~L~~~gI~~ksi~~~~~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAlnl~p 109 (127)
T PRK10629 34 QESTLAIRAV-HQGASLPDGFYVYQHLDANGIHIKSITPENDSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQQDDN 109 (127)
T ss_pred CCceEEEecC-CCCCccchHHHHHHHHHHCCCCcceEEeeCCEEEEEECCHHHHHHHHHHHHHHcCCCCEEEEecCC
Confidence 3456777665 223 45567888888877 667777778889999999999999988876655455566655554
No 157
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.75 E-value=3.8 Score=34.41 Aligned_cols=54 Identities=24% Similarity=0.439 Sum_probs=43.6
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCe-EEE-EeeCCeEEEEeCCHHHHHHHHHh
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNV-LHV-RIRRNFAFVQFETQEEATKALES 61 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i-~~~-~~~~g~afV~f~~~~~a~~A~~~ 61 (173)
.++|-|.++ |.....++|..+|+.|++- ..| +|-.-.||..|.+...|..||..
T Consensus 391 pHVlEIydf-p~efkteDll~~f~~yq~kgfdIkWvDdthalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 391 PHVLEIYDF-PDEFKTEDLLKAFETYQNKGFDIKWVDDTHALAVFSSVNRAAEALTL 446 (528)
T ss_pred cceeEeccC-chhhccHHHHHHHHHhhcCCceeEEeecceeEEeecchHHHHHHhhc
Confidence 468889999 8888889999999999742 233 33567899999999999999874
No 158
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=75.69 E-value=4.7 Score=33.55 Aligned_cols=63 Identities=14% Similarity=0.267 Sum_probs=46.4
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCC-eEEEEe----------eCCeEEEEeCCHHHHHHHHHhcCCCeec
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGN-VLHVRI----------RRNFAFVQFETQEEATKALESTDRSKLV 68 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~-i~~~~~----------~~g~afV~f~~~~~a~~A~~~l~g~~i~ 68 (173)
.....|.|..| |..+++++|.+-+..|-. |....+ .-+.|+|.|...++.......++|+++.
T Consensus 5 ~~~~Kvv~rrl-pp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 5 EAKVKVVVRRL-PPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred ccceeeeeecC-CCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 34567889999 778899888877776542 222222 2457899999999999999999998763
No 159
>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=72.69 E-value=4.2 Score=32.85 Aligned_cols=34 Identities=29% Similarity=0.257 Sum_probs=24.8
Q ss_pred EEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 45 AFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 45 afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
|||+|++.++|+.|++.+..... ..+.|+.|-.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~--~~~~v~~APeP 34 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRP--NSWRVSPAPEP 34 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCC--CCceEeeCCCc
Confidence 79999999999999996554432 44566666543
No 160
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=72.49 E-value=0.54 Score=40.79 Aligned_cols=65 Identities=14% Similarity=0.130 Sum_probs=51.7
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCce
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRV 71 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~ 71 (173)
..++|||.|+ +.+++-++|+.++..+-.+..+.+. .-+++|+|.-......|+.+||++.+....
T Consensus 230 ke~sll~rni-~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~~ 302 (648)
T KOG2295|consen 230 KECSLLVRNI-LPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSNF 302 (648)
T ss_pred HHHHHHHhcc-CCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhccccccc
Confidence 4678999999 5689999999999998777777663 346889999888888888888887765443
No 161
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=72.06 E-value=13 Score=29.24 Aligned_cols=72 Identities=13% Similarity=0.200 Sum_probs=41.6
Q ss_pred CCCCEEEEcCCCCCCCC----HHHHHHhhccCC-CeEEEEee---CCeEEEEe-CCHHHHHHHHHhcCCCeecCceEEEE
Q 030662 5 RPTKTLFVINFDPIRTR----ERDIKRHFEPYG-NVLHVRIR---RNFAFVQF-ETQEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~----e~~L~~~F~~~G-~i~~~~~~---~g~afV~f-~~~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
.....||||+| ....- -++|...+.+.+ .++.+.+. .||+.-.. .+.++.+++|+++.+..+.-..+.|-
T Consensus 35 ~~~~vvfiGGL-gdgLl~~~y~~~L~~~lde~~wslVq~q~~Ssy~G~Gt~slk~D~edl~~l~~Hi~~~~fSt~vVL~G 113 (299)
T KOG4840|consen 35 ESVKVVFIGGL-GDGLLICLYTTMLNRYLDENSWSLVQPQLRSSYNGYGTFSLKDDVEDLKCLLEHIQLCGFSTDVVLVG 113 (299)
T ss_pred eEEEEEEEccc-CCCccccccHHHHHHHHhhccceeeeeeccccccccccccccccHHHHHHHHHHhhccCcccceEEEe
Confidence 34678999998 44432 355655555544 45555552 45554333 36778888888776665544444443
Q ss_pred Ee
Q 030662 76 YA 77 (173)
Q Consensus 76 ~a 77 (173)
.+
T Consensus 114 hS 115 (299)
T KOG4840|consen 114 HS 115 (299)
T ss_pred cC
Confidence 33
No 162
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=71.95 E-value=18 Score=21.32 Aligned_cols=52 Identities=15% Similarity=0.275 Sum_probs=37.7
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--eCCeEEEEeCCH----HHHHHHHHh
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--RRNFAFVQFETQ----EEATKALES 61 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~~g~afV~f~~~----~~a~~A~~~ 61 (173)
||.|.|+ .-..-...|++.+...-.|..+.+ ..+-+-|+|... ++..++|+.
T Consensus 1 t~~v~~m-~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGM-TCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEEST-TSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCc-ccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHH
Confidence 5778888 344556778999998888887777 568888888843 566666664
No 163
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=71.44 E-value=2.8 Score=32.70 Aligned_cols=36 Identities=25% Similarity=0.495 Sum_probs=29.9
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI 40 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~ 40 (173)
.+...+||+-|| |..++++.|..+.+.+|-+..+.+
T Consensus 37 ~~eKd~lfl~Nv-p~~~tee~lkr~vsqlg~vq~~~y 72 (261)
T KOG4008|consen 37 SNEKDCLFLVNV-PLLSTEEHLKRFVSQLGHVQELLY 72 (261)
T ss_pred cccccceeeecc-cccccHHHHHHHHHHhhhhhheec
Confidence 456789999999 889999999999999986655544
No 164
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=70.26 E-value=13 Score=24.23 Aligned_cols=45 Identities=24% Similarity=0.353 Sum_probs=32.1
Q ss_pred CCCCHHHHHHhhcc-CC-CeEEEEe---eCC--eEEEEeCCHHHHHHHHHhc
Q 030662 18 IRTRERDIKRHFEP-YG-NVLHVRI---RRN--FAFVQFETQEEATKALEST 62 (173)
Q Consensus 18 ~~~~e~~L~~~F~~-~G-~i~~~~~---~~g--~afV~f~~~~~a~~A~~~l 62 (173)
..++..+|+..+++ || .|..|.. +.+ =|||.+...++|......|
T Consensus 30 ~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 30 RRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred CCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCcHHHHHHhh
Confidence 46888888888886 66 5555544 334 4999999888888775543
No 165
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=69.60 E-value=6.4 Score=29.64 Aligned_cols=35 Identities=23% Similarity=0.589 Sum_probs=30.5
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI 40 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~ 40 (173)
.....+++.++ +..++..++..+|..+|.+..+.+
T Consensus 223 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 257 (306)
T COG0724 223 EKSDNLYVGNL-PLKTAEEELADLFKSRGDIVRASL 257 (306)
T ss_pred cccceeecccc-ccccchhHHHHhccccccceeeec
Confidence 45678999999 889999999999999999976666
No 166
>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=68.41 E-value=16 Score=23.39 Aligned_cols=51 Identities=22% Similarity=0.285 Sum_probs=34.3
Q ss_pred EEEcCCCCCCCCHHHHHHhhcc-CC-CeEEEEe---eCC--eEEEEeCCHHHHHHHHHh
Q 030662 10 LFVINFDPIRTRERDIKRHFEP-YG-NVLHVRI---RRN--FAFVQFETQEEATKALES 61 (173)
Q Consensus 10 l~V~nL~p~~~~e~~L~~~F~~-~G-~i~~~~~---~~g--~afV~f~~~~~a~~A~~~ 61 (173)
-|+-.+ ...++..+|+..++. |+ .|..|.. +.+ =|||++...+.|...-..
T Consensus 16 ~y~F~V-~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~a~~va~k 73 (77)
T TIGR03636 16 KLTFIV-DRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYAAEEIASR 73 (77)
T ss_pred EEEEEE-CCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCcHHHHHHh
Confidence 344445 347889999988886 66 4555544 333 499999988888776544
No 167
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=64.91 E-value=3.5 Score=29.24 Aligned_cols=69 Identities=14% Similarity=0.189 Sum_probs=45.2
Q ss_pred EEEEcCC-CCCCCCHHHHHHhhc----cCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 9 TLFVINF-DPIRTRERDIKRHFE----PYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 9 ~l~V~nL-~p~~~~e~~L~~~F~----~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
...|+.+ ++...+...|...+. ..+.+.-..+..++.++.|.+.++++.++.. ....+.+..|.++.-.
T Consensus 17 ~~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l~~~~fl~~F~~~~d~~~vl~~-~p~~~~~~~~~l~~W~ 90 (153)
T PF14111_consen 17 LCLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDLGDNLFLFQFESEEDRQRVLKG-GPWNFNGHFLILQRWS 90 (153)
T ss_pred eEEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEeCCCeEEEEEEeccceeEEEec-ccccccccchhhhhhc
Confidence 3445554 223355555555554 4566666677899999999999999998763 4556677666665444
No 168
>KOG4357 consensus Uncharacterized conserved protein (involved in mesoderm differentiation in humans) [General function prediction only]
Probab=64.23 E-value=37 Score=23.94 Aligned_cols=64 Identities=25% Similarity=0.269 Sum_probs=40.8
Q ss_pred CCCEEEEcCCCCCCCCHHHHH-------Hh-----hccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecC
Q 030662 6 PTKTLFVINFDPIRTRERDIK-------RH-----FEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVD 69 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~-------~~-----F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g 69 (173)
.+-.|||+-.+|..-++.++. .+ |...-.+....|--.-|+.-|.+.+.|-.|...|-|..++.
T Consensus 65 ktlmlfv~v~~psqp~~kd~rpftee~tqiwq~qlfn~~~dlq~fii~ddraifm~kdge~a~e~k~fll~qd~~a 140 (164)
T KOG4357|consen 65 KTLMLFVGVSDPSQPDEKDIRPFTEEITQIWQGQLFNAHVDLQRFIIDDDRAIFMFKDGEQAFEAKDFLLGQDFCA 140 (164)
T ss_pred ceEEEEEEecCCCCCChhhccchhHHHHHHHHHHhhccccceEEEEecCCeEEEEEeChhHHHHHHHHhhccchhe
Confidence 455688887766666665552 22 22222233333345568888999999999999888877653
No 169
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=63.33 E-value=13 Score=22.85 Aligned_cols=18 Identities=17% Similarity=0.514 Sum_probs=15.7
Q ss_pred HHHHHhhccCCCeEEEEe
Q 030662 23 RDIKRHFEPYGNVLHVRI 40 (173)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~ 40 (173)
++|.++|+..|+|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 579999999999987766
No 170
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=63.12 E-value=25 Score=20.30 Aligned_cols=46 Identities=11% Similarity=0.148 Sum_probs=31.1
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHH
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEE 54 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~ 54 (173)
..++|.+. ....+.++|.+++..+|.-....+.....+|.+.+...
T Consensus 2 ~~~~i~g~-~~~~~~~~l~~~i~~~Gg~v~~~~~~~~thvI~~~~~~ 47 (72)
T cd00027 2 LTFVITGD-LPSEERDELKELIEKLGGKVTSSVSKKTTHVIVGSDAG 47 (72)
T ss_pred CEEEEEec-CCCcCHHHHHHHHHHcCCEEeccccCCceEEEECCCCC
Confidence 46777777 44688899999999998644444454556666655443
No 171
>PRK02886 hypothetical protein; Provisional
Probab=62.76 E-value=23 Score=23.25 Aligned_cols=55 Identities=15% Similarity=0.277 Sum_probs=34.9
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCee
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKL 67 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i 67 (173)
...+-.||+-.| .. ..-+.+||.|..+.-...|++ .|-|.++|++.++.|....+
T Consensus 4 ~R~glIVyl~~~-k~-------~r~LrkyG~I~Y~Skr~kYvv-lYvn~~~~e~~~~kl~~l~f 58 (87)
T PRK02886 4 NRQGIIVWLHSL-KQ-------AKQLRKFGNVHYVSKRLKYAV-LYCDMEQVEDIMNKLSSLPF 58 (87)
T ss_pred CeeEEEEEEeec-Hh-------HHHHhhcCcEEEEeccccEEE-EEECHHHHHHHHHHHhcCCC
Confidence 334456677666 32 234568999887653444554 46678888888888776543
No 172
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.56 E-value=0.99 Score=38.22 Aligned_cols=71 Identities=4% Similarity=-0.066 Sum_probs=52.5
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeec
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALK 79 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~ 79 (173)
...|+..| |..+++.+|.-+|..||.|..+.+. .-.+||+.. ..+|..+|+.+.-..+.|..+.|.++..
T Consensus 4 ~~~~l~d~-~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~-~~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 4 MKKSLKDS-VASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAK-KANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred hhhhHhhc-ccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeee-ccCcccccCHHHHhhhhhhhhhhhcCch
Confidence 34567788 8889999999999999999888772 235666654 3456667766666677888888888764
Q ss_pred C
Q 030662 80 D 80 (173)
Q Consensus 80 ~ 80 (173)
.
T Consensus 82 s 82 (572)
T KOG4365|consen 82 S 82 (572)
T ss_pred h
Confidence 3
No 173
>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=60.51 E-value=17 Score=29.43 Aligned_cols=72 Identities=13% Similarity=0.211 Sum_probs=52.5
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee---------------CCeEEEEeCCHHHHHHHHH----hcCC--C
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR---------------RNFAFVQFETQEEATKALE----STDR--S 65 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~---------------~g~afV~f~~~~~a~~A~~----~l~g--~ 65 (173)
++.|.+.|| ...++--.+...|.+||.|+.|.|. .....+-|-+.+.|..... .|.. +
T Consensus 15 TRSLLfeNv-~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~ 93 (309)
T PF10567_consen 15 TRSLLFENV-NNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKT 93 (309)
T ss_pred eHHHHHhhc-cccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHH
Confidence 456778899 4678777888889999999999982 2457889999888776532 2322 3
Q ss_pred eecCceEEEEEeec
Q 030662 66 KLVDRVISVEYALK 79 (173)
Q Consensus 66 ~i~g~~l~v~~a~~ 79 (173)
.+....|.|.|..-
T Consensus 94 ~L~S~~L~lsFV~l 107 (309)
T PF10567_consen 94 KLKSESLTLSFVSL 107 (309)
T ss_pred hcCCcceeEEEEEE
Confidence 46677788887663
No 174
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=59.99 E-value=36 Score=27.48 Aligned_cols=12 Identities=33% Similarity=0.592 Sum_probs=5.6
Q ss_pred CCCCCCCCCCCC
Q 030662 132 PVYDQRRSPDHG 143 (173)
Q Consensus 132 ~~~~r~r~~~~~ 143 (173)
..++++++|.+.
T Consensus 216 rs~sRsrsp~r~ 227 (354)
T KOG2146|consen 216 RSYSRSRSPPRE 227 (354)
T ss_pred cccccccCCccc
Confidence 334455555433
No 175
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=58.99 E-value=32 Score=22.10 Aligned_cols=34 Identities=12% Similarity=0.301 Sum_probs=24.6
Q ss_pred CeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCCee
Q 030662 34 NVLHVRI---RRNFAFVQFETQEEATKALESTDRSKL 67 (173)
Q Consensus 34 ~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~~i 67 (173)
.|..+.. .+||-|||=.+..++..|++.+.+...
T Consensus 33 ~I~Si~~~~~lkGyIyVEA~~~~~V~~ai~gi~~i~~ 69 (84)
T PF03439_consen 33 NIYSIFAPDSLKGYIYVEAERESDVKEAIRGIRHIRG 69 (84)
T ss_dssp ---EEEE-TTSTSEEEEEESSHHHHHHHHTT-TTEEE
T ss_pred ceEEEEEeCCCceEEEEEeCCHHHHHHHHhcccceee
Confidence 4555544 489999999999999999988776543
No 176
>PF14893 PNMA: PNMA
Probab=58.97 E-value=8.7 Score=31.61 Aligned_cols=50 Identities=20% Similarity=0.400 Sum_probs=34.0
Q ss_pred CCCCCCEEEEcCCCCCCCCHHHHHHhhcc-CCCeEEEEe---------eCCeEEEEeCCHH
Q 030662 3 NQRPTKTLFVINFDPIRTRERDIKRHFEP-YGNVLHVRI---------RRNFAFVQFETQE 53 (173)
Q Consensus 3 ~~~~~~~l~V~nL~p~~~~e~~L~~~F~~-~G~i~~~~~---------~~g~afV~f~~~~ 53 (173)
..++-+.|.|.+| |.++++++|++.+.. +-.+-...| ...-|+|+|....
T Consensus 14 ~~~~~r~lLv~gi-P~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~~~aalve~~e~~ 73 (331)
T PF14893_consen 14 GVDPQRALLVLGI-PEDCEEAEIEEALQAALSPLGRYRVLGKMFRREENAKAALVEFAEDV 73 (331)
T ss_pred CcChhhhheeecC-CCCCCHHHHHHHHHHhhcccccceehhhHhhhhcccceeeeeccccc
Confidence 3466778999999 999999998887764 333333333 2346788887543
No 177
>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=58.44 E-value=7.7 Score=25.55 Aligned_cols=25 Identities=20% Similarity=0.385 Sum_probs=20.9
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhc
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFE 30 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~ 30 (173)
...++|.|.|| |..+.+++|++.++
T Consensus 50 vs~rtVlvsgi-p~~l~ee~l~D~Le 74 (88)
T PF07292_consen 50 VSKRTVLVSGI-PDVLDEEELRDKLE 74 (88)
T ss_pred ccCCEEEEeCC-CCCCChhhheeeEE
Confidence 35678999999 88899999988764
No 178
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=57.47 E-value=41 Score=22.01 Aligned_cols=40 Identities=15% Similarity=0.154 Sum_probs=29.2
Q ss_pred HHHHHhhccCC-CeEEEEeeCC----eEEEEeCCHHHHHHHHHhc
Q 030662 23 RDIKRHFEPYG-NVLHVRIRRN----FAFVQFETQEEATKALEST 62 (173)
Q Consensus 23 ~~L~~~F~~~G-~i~~~~~~~g----~afV~f~~~~~a~~A~~~l 62 (173)
+.+.++++++| +|..+.+..| +.++++.+.+.|.++.-.+
T Consensus 23 ~a~~~~~e~~Gg~l~~~y~t~G~yD~v~i~eaPD~~~a~~~~l~i 67 (91)
T PF08734_consen 23 EAVRALIEALGGKLKSFYWTLGEYDFVVIVEAPDDETAAAASLAI 67 (91)
T ss_pred HHHHHHHHHcCCEEEEEEEecCCCCEEEEEEcCCHHHHHHHHHHH
Confidence 55777888776 7887877544 5778999998888765443
No 179
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.65 E-value=9.1 Score=29.43 Aligned_cols=31 Identities=29% Similarity=0.642 Sum_probs=21.1
Q ss_pred HHHHHhhc-cCCCeEEEEeeCCeEEEEeCCHH
Q 030662 23 RDIKRHFE-PYGNVLHVRIRRNFAFVQFETQE 53 (173)
Q Consensus 23 ~~L~~~F~-~~G~i~~~~~~~g~afV~f~~~~ 53 (173)
++|...|. .||.-..-.+.+.|+||+|++.-
T Consensus 89 edL~~EF~~~~~~~~~~~~~RPY~FieFD~~I 120 (216)
T KOG0862|consen 89 EDLAQEFDKSYGKNIIQPASRPYAFIEFDTFI 120 (216)
T ss_pred HHHHHHHHHhcccccCCccCCCeeEEehhHHH
Confidence 55666665 46754444457899999999753
No 180
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=56.49 E-value=26 Score=22.06 Aligned_cols=39 Identities=13% Similarity=0.424 Sum_probs=27.6
Q ss_pred hhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCee
Q 030662 28 HFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKL 67 (173)
Q Consensus 28 ~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i 67 (173)
-+.+||.|..+.=...|+++ |-+.+++++.++.|....+
T Consensus 16 ~L~kfG~i~Y~Skk~kYvvl-Yvn~~~~e~~~~kl~~l~f 54 (71)
T PF09902_consen 16 QLRKFGDIHYVSKKMKYVVL-YVNEEDVEEIIEKLKKLKF 54 (71)
T ss_pred hHhhcccEEEEECCccEEEE-EECHHHHHHHHHHHhcCCC
Confidence 45689998877544455544 6678888888888776543
No 181
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=55.64 E-value=37 Score=21.11 Aligned_cols=39 Identities=18% Similarity=0.327 Sum_probs=28.6
Q ss_pred HHHHHhhccCCCeEEEEe--e--CCeEEEEeCCHHHHHHHHHhc
Q 030662 23 RDIKRHFEPYGNVLHVRI--R--RNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~--~--~g~afV~f~~~~~a~~A~~~l 62 (173)
.+|.+++.++| +.-+.| . -++.|+.+.+.+.++++++.|
T Consensus 37 ~~~~~~~~~~G-a~~~~~sGsG~G~~v~~l~~~~~~~~~v~~~l 79 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSGSGGGPTVFALCKDEDDAERVAEAL 79 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEETTSSSSEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCCCCCCCeEEEEECCHHHHHHHHHHH
Confidence 45677778888 445555 3 568888888999988888765
No 182
>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=53.83 E-value=22 Score=23.41 Aligned_cols=32 Identities=25% Similarity=0.429 Sum_probs=22.3
Q ss_pred EEEEeCCHHHHHHHHHhcCCC--eecCceEEEEEe
Q 030662 45 AFVQFETQEEATKALESTDRS--KLVDRVISVEYA 77 (173)
Q Consensus 45 afV~f~~~~~a~~A~~~l~g~--~i~g~~l~v~~a 77 (173)
|+|+|.+..-|+..++. ..+ .+.+..+.|...
T Consensus 1 AlITF~e~~VA~~i~~~-~~~~v~l~~~~~~V~v~ 34 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKK-KKHPVPLEDCCVRVKVS 34 (88)
T ss_pred CEEEeCcHHHHHHHHhC-CEEEEEECCEEEEEEEE
Confidence 78999999999998874 333 345566655543
No 183
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=53.76 E-value=13 Score=23.25 Aligned_cols=53 Identities=17% Similarity=0.212 Sum_probs=34.0
Q ss_pred HHHHHhhccCC-CeEEEEee--------CCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 23 RDIKRHFEPYG-NVLHVRIR--------RNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 23 ~~L~~~F~~~G-~i~~~~~~--------~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
++|++.|.+.| .+..+.-+ -.+-||+.....+... .|+-+.|++..+.|+-..
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~ 63 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPH 63 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCc
Confidence 46788888888 56666542 2456777765543333 456677889888887543
No 184
>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=53.01 E-value=21 Score=22.20 Aligned_cols=55 Identities=24% Similarity=0.301 Sum_probs=34.9
Q ss_pred HHHHHhhccCC-CeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 23 RDIKRHFEPYG-NVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 23 ~~L~~~F~~~G-~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
++|.+.|...| +|..+.- +-..-||++....+ ..+.++-..|++..|+|+.....
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 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPN---NKEIYKIKTLCGQRVKVERPRKR 65 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcc---ccceeehHhhCCeEEEEecCCCC
Confidence 45777777777 5555543 12467777776544 33446667788888888866543
No 185
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=51.77 E-value=47 Score=23.95 Aligned_cols=56 Identities=11% Similarity=0.246 Sum_probs=35.0
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhcc----CC-CeEEEEe---eCCeEEEEeCCHHHHHHHHHhcCCC
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEP----YG-NVLHVRI---RRNFAFVQFETQEEATKALESTDRS 65 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~----~G-~i~~~~~---~~g~afV~f~~~~~a~~A~~~l~g~ 65 (173)
+..||-.. ..-.|+.+...+.+ .+ .|..|.+ ..||.||+....+++..++..+.+.
T Consensus 6 ~~WYvv~t--~sG~E~~V~~~L~~~~~~~~~~i~~i~vp~~fpGYVfVe~~~~~~~~~~i~~v~~v 69 (153)
T PRK08559 6 SMIFAVKT--TAGQERNVALMLAMRAKKENLPIYAILAPPELKGYVLVEAESKGAVEEAIRGIPHV 69 (153)
T ss_pred CcEEEEEe--ECChHHHHHHHHHHHHHhCCCcEEEEEccCCCCcEEEEEEEChHHHHHHHhcCCCE
Confidence 34666444 12335444433332 22 2556666 3799999999888999999887763
No 186
>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=51.71 E-value=19 Score=22.40 Aligned_cols=25 Identities=16% Similarity=0.376 Sum_probs=18.9
Q ss_pred CeEEEEeCCHHHHHHHHHhcCCCee
Q 030662 43 NFAFVQFETQEEATKALESTDRSKL 67 (173)
Q Consensus 43 g~afV~f~~~~~a~~A~~~l~g~~i 67 (173)
.+.+|.|.+..+|.+|-+.|....|
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCC
Confidence 3678999999998888777765433
No 187
>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=51.35 E-value=9.4 Score=20.72 Aligned_cols=17 Identities=24% Similarity=0.386 Sum_probs=10.4
Q ss_pred CCCCHHHHHHhhccCCC
Q 030662 18 IRTRERDIKRHFEPYGN 34 (173)
Q Consensus 18 ~~~~e~~L~~~F~~~G~ 34 (173)
..+++++|+++|.+...
T Consensus 19 ~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp S---HHHHHHHHHCS--
T ss_pred ccCCHHHHHHHHHHhcc
Confidence 46889999999987653
No 188
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=51.01 E-value=3.7 Score=31.82 Aligned_cols=64 Identities=30% Similarity=0.367 Sum_probs=47.2
Q ss_pred CCEEEEcC----CCCCCCCHHHHHHhhccCCCeEEEEe-------eCCeEEEEeCCHHHHHHHHHhcCCCeecCce
Q 030662 7 TKTLFVIN----FDPIRTRERDIKRHFEPYGNVLHVRI-------RRNFAFVQFETQEEATKALESTDRSKLVDRV 71 (173)
Q Consensus 7 ~~~l~V~n----L~p~~~~e~~L~~~F~~~G~i~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~ 71 (173)
..+++.|+ |+ ..++++.+..+|+.-|.+..+.+ +..++|+++.-....-.|+....+..+.-.+
T Consensus 80 q~~~r~G~shapld-~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~~~~ 154 (267)
T KOG4454|consen 80 QRTLRCGNSHAPLD-ERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAVPFALDLYQGLELFQKK 154 (267)
T ss_pred hcccccCCCcchhh-hhcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhcCcHHhhhhcccCcCCCC
Confidence 44566666 63 56788888899998888887776 3578999998888888888777666544333
No 189
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=49.56 E-value=9.2 Score=31.51 Aligned_cols=45 Identities=22% Similarity=0.245 Sum_probs=36.8
Q ss_pred CHHHHHHhhccCCCeEEEEe----eCCeEEEEeCCHHHHHHHHHhcCCC
Q 030662 21 RERDIKRHFEPYGNVLHVRI----RRNFAFVQFETQEEATKALESTDRS 65 (173)
Q Consensus 21 ~e~~L~~~F~~~G~i~~~~~----~~g~afV~f~~~~~a~~A~~~l~g~ 65 (173)
+...|.+++.+.|+|..-.| +-|.+||..-.+++++++++.|.+.
T Consensus 274 ~~p~iF~~i~~~G~v~~~EM~rtFNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 274 PPPPIFKWLQKAGNVEREEMYRTFNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CCcHHHHHHHHhcCCCHHHHHHHhcCccceEEEEcHHHHHHHHHHHHhc
Confidence 34678888888998776554 6789999999999999999988764
No 190
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=48.81 E-value=54 Score=20.22 Aligned_cols=43 Identities=21% Similarity=0.291 Sum_probs=31.3
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--eCCeEEEEeCC
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--RRNFAFVQFET 51 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--~~g~afV~f~~ 51 (173)
.+|.|.++ .-.--...+...+.....|..+.+ ..+-++|+|++
T Consensus 4 ~~l~v~~M-tC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~ 48 (71)
T COG2608 4 TTLKVEGM-TCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDS 48 (71)
T ss_pred EEEEECCc-CcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcC
Confidence 46777777 334445678888888877776666 57779999998
No 191
>PRK02302 hypothetical protein; Provisional
Probab=45.23 E-value=45 Score=22.01 Aligned_cols=39 Identities=18% Similarity=0.427 Sum_probs=27.0
Q ss_pred hhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCee
Q 030662 28 HFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKL 67 (173)
Q Consensus 28 ~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i 67 (173)
-+.+||.|..+.-...|++ -|-+.++|++.++.|....+
T Consensus 22 ~LrkfG~I~Y~Skk~kYvv-lYvn~~~~e~~~~kl~~l~f 60 (89)
T PRK02302 22 KLSKYGDIVYHSKRSRYLV-LYVNKEDVEQKLEELSKLKF 60 (89)
T ss_pred HHhhcCcEEEEeccccEEE-EEECHHHHHHHHHHHhcCCC
Confidence 4568999887653444554 46678888888888766543
No 192
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=45.20 E-value=42 Score=25.27 Aligned_cols=42 Identities=17% Similarity=0.177 Sum_probs=29.9
Q ss_pred CCHHHHHHhhccC-CCeEEEEe---------eCCeEEEEeCCHHHHHHHHHh
Q 030662 20 TRERDIKRHFEPY-GNVLHVRI---------RRNFAFVQFETQEEATKALES 61 (173)
Q Consensus 20 ~~e~~L~~~F~~~-G~i~~~~~---------~~g~afV~f~~~~~a~~A~~~ 61 (173)
.++++|.++...- |++..|.+ -+|-.||+|.+.+.|.++++.
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhh
Confidence 4455555554422 68888877 157789999999999998764
No 193
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, f
Probab=44.60 E-value=82 Score=20.12 Aligned_cols=59 Identities=17% Similarity=0.356 Sum_probs=42.6
Q ss_pred CCCCCHHHHHHhh-ccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEE
Q 030662 17 PIRTRERDIKRHF-EPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 17 p~~~~e~~L~~~F-~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
|..+.-+||.... ..||.-..+.....--.|-..+.++.++||+.++. ....+.|+|-+
T Consensus 17 ~RPvkf~dl~~kv~~afGq~mdl~ytn~eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRilL 76 (79)
T cd06405 17 PRPVKFKDLQQKVTTAFGQPMDLHYTNNELLIPLKNQEDLDRAIELLDR-SPHMKSLRILL 76 (79)
T ss_pred CCCccHHHHHHHHHHHhCCeeeEEEecccEEEeccCHHHHHHHHHHHcc-CccccceeEeE
Confidence 4556667765444 57998888888777788999999999999998776 33334455443
No 194
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=43.24 E-value=26 Score=31.89 Aligned_cols=9 Identities=11% Similarity=0.482 Sum_probs=4.1
Q ss_pred EEEEeCCHH
Q 030662 45 AFVQFETQE 53 (173)
Q Consensus 45 afV~f~~~~ 53 (173)
+||.|.++.
T Consensus 695 ~~~k~~de~ 703 (877)
T KOG0151|consen 695 NPVKYDDED 703 (877)
T ss_pred cccccchhh
Confidence 455554433
No 195
>PRK11901 hypothetical protein; Reviewed
Probab=43.03 E-value=46 Score=27.33 Aligned_cols=46 Identities=15% Similarity=0.338 Sum_probs=30.6
Q ss_pred CCHHHHHHhhccCCCeEEEEe----eCC---eEEE--EeCCHHHHHHHHHhcCCCe
Q 030662 20 TRERDIKRHFEPYGNVLHVRI----RRN---FAFV--QFETQEEATKALESTDRSK 66 (173)
Q Consensus 20 ~~e~~L~~~F~~~G~i~~~~~----~~g---~afV--~f~~~~~a~~A~~~l~g~~ 66 (173)
..++.|..|..+++ +..++| ..| |.+| .|.+.++|..|+..|....
T Consensus 254 s~~~~L~~f~~~~~-L~~~~VYqT~RnGkpWYVVvyG~Y~Sr~eAk~Ai~sLPa~l 308 (327)
T PRK11901 254 SRSDTLNAYAKKQN-LSHYHVYETKRDGKPWYVLVSGNYASSAEAKRAIATLPAEV 308 (327)
T ss_pred CCHHHHHHHHHHcC-cCceEEEEEEECCceEEEEEecCcCCHHHHHHHHHhCCHHH
Confidence 45777888877765 333333 222 4333 7899999999999886543
No 196
>PF01782 RimM: RimM N-terminal domain; InterPro: IPR002676 The RimM protein is essential for efficient processing of 16S rRNA []. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes [].; GO: 0006364 rRNA processing; PDB: 2QGG_A 3A1P_C 2DOG_A 2DYI_A 3H9N_A 2F1L_A.
Probab=42.42 E-value=55 Score=20.64 Aligned_cols=29 Identities=24% Similarity=0.255 Sum_probs=19.6
Q ss_pred EEeeCCeEEEEeCCHHHHHHHHHhcCCCee
Q 030662 38 VRIRRNFAFVQFETQEEATKALESTDRSKL 67 (173)
Q Consensus 38 ~~~~~g~afV~f~~~~~a~~A~~~l~g~~i 67 (173)
+.+..+..+|.|+..++-++|.. |.|..|
T Consensus 50 ~~~~~~~~i~~~~gi~~r~~Ae~-l~g~~l 78 (84)
T PF01782_consen 50 VRPHGKSLIVKFEGIDDREAAEA-LRGCEL 78 (84)
T ss_dssp EEEETTEEEEEETT--SHHHHHT-TTT-EE
T ss_pred EEEeCCEEEEEEcCCCCHHHHHh-hCCCEE
Confidence 33367899999999999888864 666654
No 197
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=41.85 E-value=7.7 Score=24.06 Aligned_cols=39 Identities=18% Similarity=0.320 Sum_probs=26.3
Q ss_pred HHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcC
Q 030662 23 RDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~ 63 (173)
++|.+.|..+.....+ .+-.+|..|.+.++|..++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~--vkL~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKI--VKLKAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhh--hhhhhccCCCCHHHHHHHHHHhh
Confidence 5777777654433222 23459999999999988877653
No 198
>PF14268 YoaP: YoaP-like
Probab=41.29 E-value=21 Score=20.26 Aligned_cols=34 Identities=24% Similarity=0.279 Sum_probs=25.4
Q ss_pred eEEEEeCCHHHHHHHHHhcCCCee--cCceEEEEEe
Q 030662 44 FAFVQFETQEEATKALESTDRSKL--VDRVISVEYA 77 (173)
Q Consensus 44 ~afV~f~~~~~a~~A~~~l~g~~i--~g~~l~v~~a 77 (173)
+-+|.+++.++|+.|-.-++...| +|.-|.+++-
T Consensus 2 ~~~i~i~t~e~Aq~~P~pft~yalFYnGkfiT~eil 37 (44)
T PF14268_consen 2 FKLIKIDTLEKAQNAPCPFTTYALFYNGKFITNEIL 37 (44)
T ss_pred cEEEEeccHHHHhcCCCceeEEEEEECCEEEEeecc
Confidence 457889999999998776666443 7888887763
No 199
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=40.49 E-value=86 Score=27.29 Aligned_cols=42 Identities=21% Similarity=0.238 Sum_probs=30.5
Q ss_pred HHHHHHhhc----cCCCeEEEEe-----e--CCeEEEEeCCHHHHHHHHHhcC
Q 030662 22 ERDIKRHFE----PYGNVLHVRI-----R--RNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 22 e~~L~~~F~----~~G~i~~~~~-----~--~g~afV~f~~~~~a~~A~~~l~ 63 (173)
.-+|..+|. .+|-|+++.| + ....++.|.+.++|..|+..+.
T Consensus 203 g~dl~~l~~Gs~GtlGIIt~atlkl~p~p~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 203 GFDLLALFTGSEGMLGVVTEVTVKLLPKPPVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred ccchHhhhccCCCccEEEEEEEEEEEcCCcceEEEEEECCCHHHHHHHHHHHH
Confidence 346777665 4677888777 1 3456789999999999887754
No 200
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=40.39 E-value=19 Score=29.73 Aligned_cols=15 Identities=27% Similarity=0.536 Sum_probs=9.4
Q ss_pred CCCCHHHHHHhhccC
Q 030662 18 IRTRERDIKRHFEPY 32 (173)
Q Consensus 18 ~~~~e~~L~~~F~~~ 32 (173)
++....+|.+.|+.|
T Consensus 167 Ytqpp~dLw~WyEpy 181 (453)
T KOG2888|consen 167 YTQPPADLWDWYEPY 181 (453)
T ss_pred ecCChhHHHHHhhhh
Confidence 344556677777766
No 201
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=38.73 E-value=28 Score=20.90 Aligned_cols=46 Identities=13% Similarity=0.169 Sum_probs=24.7
Q ss_pred CCeEEEEeeCCeEEEEeCCHHH-HHHHHHhcCCC---ee-cCceEEEEEee
Q 030662 33 GNVLHVRIRRNFAFVQFETQEE-ATKALESTDRS---KL-VDRVISVEYAL 78 (173)
Q Consensus 33 G~i~~~~~~~g~afV~f~~~~~-a~~A~~~l~g~---~i-~g~~l~v~~a~ 78 (173)
|.|+.....+||+||+-.+... .=-=+..+.+. .+ .|..|...+..
T Consensus 3 G~V~~~~~~kgyGFI~~~~~~~diFfh~s~~~~~~~~~l~~G~~V~F~~~~ 53 (66)
T PF00313_consen 3 GTVKWFDDEKGYGFITSDDGGEDIFFHISDLSGNGFRSLKEGDRVEFEVEE 53 (66)
T ss_dssp EEEEEEETTTTEEEEEETTSSSEEEEEGGGBCSSSSTS--TTSEEEEEEEE
T ss_pred EEEEEEECCCCceEEEEcccceeEEeccccccccccccCCCCCEEEEEEEE
Confidence 5565555578999999886541 00001122222 22 56677666665
No 202
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=38.43 E-value=61 Score=30.56 Aligned_cols=36 Identities=14% Similarity=0.302 Sum_probs=28.4
Q ss_pred eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 41 RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 41 ~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
.+||.|||-.....++.||+.|-+..+. +.|.|-+.
T Consensus 209 lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lVPik 244 (1024)
T KOG1999|consen 209 LKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLVPIK 244 (1024)
T ss_pred cceeEEEEechhHHHHHHHhhhhhheec-cEEEEehh
Confidence 5899999999999999999988877665 44444443
No 203
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=37.58 E-value=57 Score=20.08 Aligned_cols=28 Identities=32% Similarity=0.579 Sum_probs=21.4
Q ss_pred CCHHHHHHhhccCCCeEEEEe------eCCeEEE
Q 030662 20 TRERDIKRHFEPYGNVLHVRI------RRNFAFV 47 (173)
Q Consensus 20 ~~e~~L~~~F~~~G~i~~~~~------~~g~afV 47 (173)
.-+.+|+.+|-+-.+|.++.| .+|-|||
T Consensus 30 ~~e~eler~fl~~P~v~e~~l~EKKri~~G~gyV 63 (64)
T PF13046_consen 30 LVEVELERHFLPLPEVKEVALYEKKRIRKGAGYV 63 (64)
T ss_pred HHHHHhhhhccCCCCceEEEEEEEEeeeCCceeE
Confidence 345678889988888988877 3677776
No 204
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=36.88 E-value=2.1e+02 Score=25.60 Aligned_cols=62 Identities=18% Similarity=0.222 Sum_probs=39.3
Q ss_pred HHHHHhhccCCCeEEEEeeC-CeEEEEeCCHHHHHHHHHhcC--CC-----ee-cCceEEEEEeecCCCCC
Q 030662 23 RDIKRHFEPYGNVLHVRIRR-NFAFVQFETQEEATKALESTD--RS-----KL-VDRVISVEYALKDDSER 84 (173)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~~~-g~afV~f~~~~~a~~A~~~l~--g~-----~i-~g~~l~v~~a~~~~~~~ 84 (173)
++|.+.|..-+.|..|.+.. ||-++.+....-++..++.+. +. .+ .|++|.|+++-+...++
T Consensus 61 ~~i~~~l~~~~~~~~veiaGpgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSaNptkp 131 (577)
T COG0018 61 EEIAEKLDTDEIIEKVEIAGPGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSANPTGP 131 (577)
T ss_pred HHHHHhccccCcEeEEEEcCCCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCCCCCCC
Confidence 45666666555677887754 777777775555554444443 22 22 57899999998876543
No 205
>PF03254 XG_FTase: Xyloglucan fucosyltransferase; InterPro: IPR004938 Plant cell walls are crucial for development, signal transduction, and disease resistance in plants. Cell walls are made of cellulose, hemicelluloses, and pectins. Xyloglucan (XG), the principal load-bearing hemicellulose of dicotyledonous plants, has a terminal fucosyl residue. This fucosyltransferase adds this residue []. ; GO: 0008107 galactoside 2-alpha-L-fucosyltransferase activity, 0042546 cell wall biogenesis, 0016020 membrane
Probab=36.63 E-value=31 Score=29.87 Aligned_cols=67 Identities=18% Similarity=0.235 Sum_probs=42.3
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHHhhccC----CCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEE
Q 030662 5 RPTKTLFVINFDPIRTRERDIKRHFEPY----GNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVIS 73 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~~F~~~----G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~ 73 (173)
...+.|+|..|. ..--+.|++++.+. |+++.|..+..-..-.|.+....++|+..|--..+.+.-|+
T Consensus 352 ~~~kaVlVtSL~--~~yye~lr~~Y~~~~t~tGe~V~V~QpShe~~Q~~~~~~h~~kAlaEmyLLS~sD~LVT 422 (476)
T PF03254_consen 352 QKSKAVLVTSLY--SEYYEKLRNMYWEHPTVTGEVVGVHQPSHEEYQQFGDNMHNQKALAEMYLLSLSDVLVT 422 (476)
T ss_pred CceEEEEEEeCC--HHHHHHHHHHHhcCCCcCCcEEEEECCCCcccccccccchHHHHHHHHHHHHhccceEe
Confidence 456789999993 33456788888765 56677766655555566666666777766544334443333
No 206
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=36.60 E-value=75 Score=27.63 Aligned_cols=64 Identities=20% Similarity=0.291 Sum_probs=43.6
Q ss_pred CCCEEEEcCCCCCCCC---HHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceE
Q 030662 6 PTKTLFVINFDPIRTR---ERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVI 72 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~---e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l 72 (173)
|..-=+|||| +.-.. ...|.++-.+||.|-.++|-. .-.|...+.+.|++|+.. |+..+.++..
T Consensus 31 P~~lPiIGnl-~~l~~~~~h~~~~~ls~~yGpi~tl~lG~-~~~Vviss~~~akE~l~~-~d~~fa~Rp~ 97 (489)
T KOG0156|consen 31 PPPLPIIGNL-HQLGSLPPHRSFRKLSKKYGPVFTLRLGS-VPVVVISSYEAAKEVLVK-QDLEFADRPD 97 (489)
T ss_pred CCCCCccccH-HHcCCCchhHHHHHHHHHhCCeEEEEecC-ceEEEECCHHHHHHHHHh-CCccccCCCC
Confidence 3444568998 43222 244556666899999776632 246777888999999985 7888887765
No 207
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=35.91 E-value=1.3e+02 Score=20.04 Aligned_cols=59 Identities=8% Similarity=0.191 Sum_probs=40.6
Q ss_pred CCCEEEEcCCCCCC--C-CHHHHHHhhccCC-CeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCC
Q 030662 6 PTKTLFVINFDPIR--T-RERDIKRHFEPYG-NVLHVRIRRNFAFVQFETQEEATKALESTDRS 65 (173)
Q Consensus 6 ~~~~l~V~nL~p~~--~-~e~~L~~~F~~~G-~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~ 65 (173)
+...|-|... ... + +...+...+..-| .++.+....+-..|.|.+.++-.+|.+.|...
T Consensus 30 e~pAvqIs~~-~~~~~~~~~~~v~~~L~~~~I~~k~i~~~~~~llirf~~~~~Ql~Ak~~L~~~ 92 (101)
T PF13721_consen 30 EDPAVQISAS-SAGVQLPDAFQVEQALKAAGIAVKSIEQEGDSLLIRFDSTDQQLKAKDVLSKA 92 (101)
T ss_pred CCCcEEEecC-CCCccCChHHHHHHHHHHCCCCcceEEeeCCEEEEEECCHHHHHHHHHHHHHH
Confidence 3445666654 111 1 1357888888877 56677777888999999998888887766543
No 208
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=34.18 E-value=31 Score=27.52 Aligned_cols=69 Identities=22% Similarity=0.335 Sum_probs=45.5
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhc--------CCCeecCceEEEEEeec
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALEST--------DRSKLVDRVISVEYALK 79 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l--------~g~~i~g~~l~v~~a~~ 79 (173)
-.|+|-+|| .++.+++.++|...-.+.. ..++.||.--+.+....|++.- ++..+..+.|.+.+.-+
T Consensus 174 iViiIDdLD--R~~~~~i~~~l~~ik~~~~---~~~i~~Il~~D~~~l~~ai~~~~~~~~~~~~~~~yLeKiiq~~~~lP 248 (325)
T PF07693_consen 174 IVIIIDDLD--RCSPEEIVELLEAIKLLLD---FPNIIFILAFDPEILEKAIEKNYGEGFDEIDGREYLEKIIQVPFSLP 248 (325)
T ss_pred EEEEEcchh--cCCcHHHHHHHHHHHHhcC---CCCeEEEEEecHHHHHHHHHhhcCcccccccHHHHHHhhcCeEEEeC
Confidence 356677884 5677767766665332222 2678888888888888888763 33455667788877776
Q ss_pred CC
Q 030662 80 DD 81 (173)
Q Consensus 80 ~~ 81 (173)
..
T Consensus 249 ~~ 250 (325)
T PF07693_consen 249 PP 250 (325)
T ss_pred CC
Confidence 54
No 209
>PF12871 PRP38_assoc: Pre-mRNA-splicing factor 38-associated hydrophilic C-term; InterPro: IPR024767 This entry represents a hydrophilic domain found mainly at the C terminus of plant and metazoan pre-mRNA-splicing factor 38 proteins. The function of the domain is not known.
Probab=33.73 E-value=58 Score=21.62 Aligned_cols=6 Identities=33% Similarity=0.318 Sum_probs=2.3
Q ss_pred CCCCCC
Q 030662 167 NFGRYR 172 (173)
Q Consensus 167 ~~~~~r 172 (173)
.+++++
T Consensus 91 dRdr~~ 96 (97)
T PF12871_consen 91 DRDRDR 96 (97)
T ss_pred cccccc
Confidence 334433
No 210
>PF07237 DUF1428: Protein of unknown function (DUF1428); InterPro: IPR009874 This family consists of several hypothetical bacterial and one archaeal sequence of around 120 residues in length. The function of this family is unknown.; PDB: 2OKQ_A.
Probab=33.65 E-value=1.1e+02 Score=20.76 Aligned_cols=39 Identities=13% Similarity=0.226 Sum_probs=27.0
Q ss_pred HHHHhhccCCCeEEEEe-----e--------------C----CeEEEEeCCHHHHHHHHHhc
Q 030662 24 DIKRHFEPYGNVLHVRI-----R--------------R----NFAFVQFETQEEATKALEST 62 (173)
Q Consensus 24 ~L~~~F~~~G~i~~~~~-----~--------------~----g~afV~f~~~~~a~~A~~~l 62 (173)
....+|..||.+.-+.. + . -|.+|+|.+.+..+++..++
T Consensus 24 ~a~~vf~e~GAl~~vE~wgdDvp~G~~TsF~~Av~a~~~E~VVFSWi~wpska~rD~~~~k~ 85 (103)
T PF07237_consen 24 KAAEVFKEHGALRVVECWGDDVPDGKVTSFPRAVKAKPDETVVFSWIEWPSKATRDAANAKM 85 (103)
T ss_dssp HHHHHHHHTT-SEEEEEEEEE----SS--HHHHTT--TTEEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHhCCEEEEEeecCcCCcCccCCHHHHhcCCCCCEEEEEEEEcCCHHHHHHHHHHh
Confidence 34678999996544332 1 1 28999999999998887654
No 211
>PF08538 DUF1749: Protein of unknown function (DUF1749); InterPro: IPR013744 This is a plant and fungal family of unknown function. This family contains many hypothetical proteins. ; PDB: 2Q0X_B.
Probab=32.20 E-value=47 Score=27.07 Aligned_cols=57 Identities=18% Similarity=0.283 Sum_probs=27.8
Q ss_pred CCCCEEEEcCCCCCCCC----HHHHHHhhccCC-CeEEEEe---eCCeEEEEeC-CHHHHHHHHHhc
Q 030662 5 RPTKTLFVINFDPIRTR----ERDIKRHFEPYG-NVLHVRI---RRNFAFVQFE-TQEEATKALEST 62 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~----e~~L~~~F~~~G-~i~~~~~---~~g~afV~f~-~~~~a~~A~~~l 62 (173)
.++..||||+| ....- -.+|.+.+.+-+ .|..+.| -.||++-..+ +.++..++|+.|
T Consensus 32 ~~~~llfIGGL-tDGl~tvpY~~~La~aL~~~~wsl~q~~LsSSy~G~G~~SL~~D~~eI~~~v~yl 97 (303)
T PF08538_consen 32 APNALLFIGGL-TDGLLTVPYLPDLAEALEETGWSLFQVQLSSSYSGWGTSSLDRDVEEIAQLVEYL 97 (303)
T ss_dssp SSSEEEEE--T-T--TT-STCHHHHHHHHT-TT-EEEEE--GGGBTTS-S--HHHHHHHHHHHHHHH
T ss_pred CCcEEEEECCC-CCCCCCCchHHHHHHHhccCCeEEEEEEecCccCCcCcchhhhHHHHHHHHHHHH
Confidence 57789999999 44321 366777776544 4555555 2566655554 345555555543
No 212
>PRK12450 foldase protein PrsA; Reviewed
Probab=31.74 E-value=81 Score=25.53 Aligned_cols=39 Identities=26% Similarity=0.532 Sum_probs=30.2
Q ss_pred CCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcC
Q 030662 19 RTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 19 ~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~ 63 (173)
.+|+++|+.++..|.+ .+.+ .+|.+.+.+.|+.+++.|.
T Consensus 132 ~Vtd~evk~~y~~~~~--~~~~----~~I~~~~~~~A~~i~~~l~ 170 (309)
T PRK12450 132 TISKKDYRQAYDAYTP--TMTA----EIMQFEKEEDAKAALEAVK 170 (309)
T ss_pred CCCHHHHHHHHHHhCc--ccee----EEEEeCCHHHHHHHHHHHH
Confidence 4899999999998743 2222 3578899999999999885
No 213
>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1. The domain is an approximately 100 amino acid tandem repeat, which appears to act as a phospho-protein binding domain []. A chitin biosynthesis protein from yeast also seems to belong to this group. ; GO: 0005622 intracellular; PDB: 3L46_A 3AL3_A 3AL2_A 1WF6_A 3II6_X 2NTE_B 3FA2_A 2R1Z_A 2COK_A 2K7F_A ....
Probab=31.40 E-value=32 Score=20.79 Aligned_cols=43 Identities=9% Similarity=0.185 Sum_probs=28.3
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeC
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFE 50 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~ 50 (173)
.+.+++|.++ + ....++|..+...+|....-.+.....+|...
T Consensus 7 ~g~~f~i~~~-~-~~~~~~l~~~i~~~GG~v~~~~~~~~thvI~~ 49 (78)
T PF00533_consen 7 EGCTFCISGF-D-SDEREELEQLIKKHGGTVSNSFSKKTTHVIVG 49 (78)
T ss_dssp TTEEEEESST-S-SSHHHHHHHHHHHTTEEEESSSSTTSSEEEES
T ss_pred CCEEEEEccC-C-CCCHHHHHHHHHHcCCEEEeecccCcEEEEeC
Confidence 4678888777 3 67788999999999965543344433333333
No 214
>cd07052 BMC_like_1_repeat2 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2. BMC-like domains exist in cyanobacteria, proteobacteria, and actinobacteria and are homologs of the carboxysome shell proteins. They might be encoded from putative organelles involved in unknown metabolic process. Although it has been suggested that these carboxysome shell protein homologs form hexamers and further assemble into the flat facets of the polyhedral bacterial organelles shell at present no experimental evidence exists to directly support this view. Proteins in this CD contain two tandem BMC domains. This CD includes repeat 2 (the second BMC domain of BMC like 1 proteins).
Probab=31.32 E-value=1.4e+02 Score=19.20 Aligned_cols=27 Identities=19% Similarity=0.351 Sum_probs=18.9
Q ss_pred eEEEEeeCCeEEEEeC-CHHHHHHHHHh
Q 030662 35 VLHVRIRRNFAFVQFE-TQEEATKALES 61 (173)
Q Consensus 35 i~~~~~~~g~afV~f~-~~~~a~~A~~~ 61 (173)
+.++.+.-|++|+.+. +..+++.|++.
T Consensus 46 lv~v~~~Ggk~~~~ltGdva~V~~A~~a 73 (79)
T cd07052 46 LVDVRMVGAFGRLYLSGTEADVRAARDA 73 (79)
T ss_pred EEEEEEeccEEEEEEeecHHHHHHHHHH
Confidence 4566667889998887 56666666654
No 215
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=30.58 E-value=38 Score=20.25 Aligned_cols=47 Identities=23% Similarity=0.253 Sum_probs=25.9
Q ss_pred CCeEEEEeeCCeEEEEeCC-HHHH---HHHHHhc-CCCeecCceEEEEEeec
Q 030662 33 GNVLHVRIRRNFAFVQFET-QEEA---TKALEST-DRSKLVDRVISVEYALK 79 (173)
Q Consensus 33 G~i~~~~~~~g~afV~f~~-~~~a---~~A~~~l-~g~~i~g~~l~v~~a~~ 79 (173)
|.|+.....+||+||+-.+ .++. ..++... ......|..|..++...
T Consensus 3 G~Vk~~~~~kGfGFI~~~~~g~diffh~~~~~~~~~~~~~~G~~V~f~~~~~ 54 (65)
T cd04458 3 GTVKWFDDEKGFGFITPDDGGEDVFVHISALEGDGFRSLEEGDRVEFELEEG 54 (65)
T ss_pred EEEEEEECCCCeEEEecCCCCcCEEEEhhHhhccCCCcCCCCCEEEEEEEEC
Confidence 5566555568999998776 3222 1222221 12233577777766665
No 216
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=30.53 E-value=1.2e+02 Score=17.91 Aligned_cols=45 Identities=16% Similarity=0.173 Sum_probs=28.6
Q ss_pred CHHHHHHhhccCC-CeEEEEe----eCCeEEEEeCCHHHHHHHHHhcCCCe
Q 030662 21 RERDIKRHFEPYG-NVLHVRI----RRNFAFVQFETQEEATKALESTDRSK 66 (173)
Q Consensus 21 ~e~~L~~~F~~~G-~i~~~~~----~~g~afV~f~~~~~a~~A~~~l~g~~ 66 (173)
.-.+|.++|.+.| .|..+.+ .+++.-+.+.+.+.|.++++. +|.+
T Consensus 14 ~La~v~~~l~~~~inI~~i~~~~~~~~~~~rl~~~~~~~~~~~L~~-~G~~ 63 (66)
T cd04908 14 RLAAVTEILSEAGINIRALSIADTSEFGILRLIVSDPDKAKEALKE-AGFA 63 (66)
T ss_pred hHHHHHHHHHHCCCCEEEEEEEecCCCCEEEEEECCHHHHHHHHHH-CCCE
Confidence 4467788888776 6766655 234445566777777777765 4443
No 217
>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=30.39 E-value=20 Score=21.33 Aligned_cols=37 Identities=14% Similarity=0.163 Sum_probs=18.6
Q ss_pred eCCeEEEEeCC-HHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 41 RRNFAFVQFET-QEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 41 ~~g~afV~f~~-~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
.+|||||...+ .++.--+-..|+ ..++|-.+.|.+..
T Consensus 7 ~~GfGFv~~~~~~~DifIp~~~l~-~A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 7 PKGFGFVIPDDGGEDIFIPPRNLN-GAMDGDKVLVRITP 44 (58)
T ss_dssp SSS-EEEEECT-TEEEEE-HHHHT-TS-TT-EEEEEEEE
T ss_pred cCCCEEEEECCCCCCEEECHHHHC-CCCCCCEEEEEEec
Confidence 68999999987 111111222233 23456667777665
No 218
>PRK15464 cold shock-like protein CspH; Provisional
Probab=30.26 E-value=40 Score=21.04 Aligned_cols=48 Identities=10% Similarity=0.007 Sum_probs=28.0
Q ss_pred CCeEEEEeeCCeEEEEeCCH-HHH---HHHHHhcCCC--eecCceEEEEEeecCC
Q 030662 33 GNVLHVRIRRNFAFVQFETQ-EEA---TKALESTDRS--KLVDRVISVEYALKDD 81 (173)
Q Consensus 33 G~i~~~~~~~g~afV~f~~~-~~a---~~A~~~l~g~--~i~g~~l~v~~a~~~~ 81 (173)
|.|+...-.+||+||+=.+. +++ ..||+. ++. ...|..|..++....+
T Consensus 7 G~Vk~fn~~KGfGFI~~~~g~~DvFvH~s~l~~-~g~~~l~~G~~V~f~v~~~~k 60 (70)
T PRK15464 7 GIVKTFDRKSGKGFIIPSDGRKEVQVHISAFTP-RDAEVLIPGLRVEFCRVNGLR 60 (70)
T ss_pred EEEEEEECCCCeEEEccCCCCccEEEEehhehh-cCCCCCCCCCEEEEEEEECCC
Confidence 66666555799999976652 222 123332 232 3367788877776543
No 219
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=29.99 E-value=93 Score=20.32 Aligned_cols=44 Identities=27% Similarity=0.302 Sum_probs=24.2
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCC--CeEEEEe---eCCeEEEEeC
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYG--NVLHVRI---RRNFAFVQFE 50 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G--~i~~~~~---~~g~afV~f~ 50 (173)
...-|||+++ ...+-+.-...+.+..+ .+.-+.- ..||+|-++.
T Consensus 24 i~~GVyVg~~-s~rVRe~lW~~v~~~~~~G~a~m~~~~~neqG~~~~t~G 72 (86)
T PF09707_consen 24 IRPGVYVGNV-SARVRERLWERVTEWIGDGSAVMVWSDNNEQGFDFRTLG 72 (86)
T ss_pred cCCCcEEcCC-CHHHHHHHHHHHHhhCCCccEEEEEccCCCCCEEEEEeC
Confidence 4566999999 55555544444444333 2222211 3578877663
No 220
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=29.79 E-value=43 Score=20.71 Aligned_cols=47 Identities=17% Similarity=0.268 Sum_probs=25.9
Q ss_pred CCeEEEEeeCCeEEEEeCCHH-HH---HHHHHhcCC-Ce-ecCceEEEEEeecC
Q 030662 33 GNVLHVRIRRNFAFVQFETQE-EA---TKALESTDR-SK-LVDRVISVEYALKD 80 (173)
Q Consensus 33 G~i~~~~~~~g~afV~f~~~~-~a---~~A~~~l~g-~~-i~g~~l~v~~a~~~ 80 (173)
|.|+...-.+||+||+=.+.. ++ ..+|.. .+ .. -.|..|..++....
T Consensus 6 G~Vk~f~~~kGyGFI~~~~g~~dvfvH~s~l~~-~g~~~l~~G~~V~f~~~~~~ 58 (69)
T PRK09507 6 GNVKWFNESKGFGFITPEDGSKDVFVHFSAIQT-NGFKTLAEGQRVEFEITNGA 58 (69)
T ss_pred eEEEEEeCCCCcEEEecCCCCeeEEEEeecccc-cCCCCCCCCCEEEEEEEECC
Confidence 566665557999999766532 11 112221 22 22 35677777666654
No 221
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=29.78 E-value=45 Score=20.48 Aligned_cols=49 Identities=14% Similarity=0.148 Sum_probs=28.5
Q ss_pred CCCeEEEEeeCCeEEEEeCCH-HHH---HHHHHhcCC-C-eecCceEEEEEeecCC
Q 030662 32 YGNVLHVRIRRNFAFVQFETQ-EEA---TKALESTDR-S-KLVDRVISVEYALKDD 81 (173)
Q Consensus 32 ~G~i~~~~~~~g~afV~f~~~-~~a---~~A~~~l~g-~-~i~g~~l~v~~a~~~~ 81 (173)
.|.|+-....+||+||+=.+. +++ ..+|.. .+ . .-.|..|..++....+
T Consensus 3 ~G~Vk~f~~~kGfGFI~~~~g~~dvfvH~s~~~~-~g~~~l~~G~~V~f~~~~~~~ 57 (68)
T TIGR02381 3 IGIVKWFNNAKGFGFICPEGVDGDIFAHYSTIQM-DGYRTLKAGQKVQFEVVQGPK 57 (68)
T ss_pred CeEEEEEeCCCCeEEEecCCCCccEEEEHHHhhh-cCCCCCCCCCEEEEEEEECCC
Confidence 366666666799999977652 222 123332 23 2 2367777777766543
No 222
>TIGR00302 phosphoribosylformylglycinamidine synthase, purS protein. In species such as Bacillus subtilis in which FGAM synthetase is split into two ORFs purL and purQ, this small protein, previously called yexA, is required for FGAM synthetase activity. Although the article does not make it clear whether this is a subunit or an accessory protein, it is encoded as part of the operon, which suggests stochiometric amounts, = subunit.
Probab=29.64 E-value=95 Score=19.68 Aligned_cols=55 Identities=15% Similarity=0.236 Sum_probs=27.3
Q ss_pred EEEEcCCCCCCCCH--HHHHHhhc--cCCCeEEEEeeCCeEE-EEeCCHHHHHHHHHhcCC
Q 030662 9 TLFVINFDPIRTRE--RDIKRHFE--PYGNVLHVRIRRNFAF-VQFETQEEATKALESTDR 64 (173)
Q Consensus 9 ~l~V~nL~p~~~~e--~~L~~~F~--~~G~i~~~~~~~g~af-V~f~~~~~a~~A~~~l~g 64 (173)
.|.|+.. |.-++. +.+...+. .|+.|..+.+.+.|-| ++-.+.++|...++.+..
T Consensus 4 ~I~V~~k-~gV~Dp~G~ti~~~l~~lg~~~v~~Vr~~k~~~l~~~~~~~~~a~~~v~~i~~ 63 (80)
T TIGR00302 4 EVYIRLK-KGVLDPEGAAIQRALALLGYNEVKDVRTGKVIELTIEADSEEAVEREVEEMCE 63 (80)
T ss_pred EEEEEEC-CCCcChHHHHHHHHHHHcCCCCcceEEEEEEEEEEEcCCChhhHHHHHHHHHH
Confidence 5777766 432222 22333222 5556778877776655 222344444444444433
No 223
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=29.46 E-value=1.6e+02 Score=21.84 Aligned_cols=46 Identities=17% Similarity=0.136 Sum_probs=36.9
Q ss_pred CCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhc
Q 030662 14 NFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 14 nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l 62 (173)
+| +..+.++-|.++-+-+|.|.+. -...-.+.|.+.+..++|++.|
T Consensus 118 ~l-~~~i~~erl~ei~E~~gvI~Ef--ee~~~V~I~Gdke~Ik~aLKe~ 163 (169)
T PF09869_consen 118 KL-KKPIQEERLQEISEWHGVIFEF--EEDDKVVIEGDKERIKKALKEF 163 (169)
T ss_pred ec-CccchHHHHHHHHHHhceeEEe--cCCcEEEEeccHHHHHHHHHHH
Confidence 67 6788889999999999988766 3344577889999999999875
No 224
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=29.15 E-value=39 Score=27.87 Aligned_cols=20 Identities=20% Similarity=0.275 Sum_probs=17.0
Q ss_pred CCeEEEEeCCHHHHHHHHHh
Q 030662 42 RNFAFVQFETQEEATKALES 61 (173)
Q Consensus 42 ~g~afV~f~~~~~a~~A~~~ 61 (173)
-.|++|.|.|+++|.+..+.
T Consensus 212 ~~y~DiifgNe~EA~af~~~ 231 (343)
T KOG2854|consen 212 LPYADIIFGNEDEAAAFARA 231 (343)
T ss_pred cCcceEEEcCHHHHHHHHHh
Confidence 46899999999999987764
No 225
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=28.89 E-value=1.6e+02 Score=19.16 Aligned_cols=64 Identities=23% Similarity=0.258 Sum_probs=26.0
Q ss_pred EEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--CCeEEEEeCC----HHHHHHHHHhcCCCeecCceEEEE
Q 030662 10 LFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--RNFAFVQFET----QEEATKALESTDRSKLVDRVISVE 75 (173)
Q Consensus 10 l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--~g~afV~f~~----~~~a~~A~~~l~g~~i~g~~l~v~ 75 (173)
|-+++|+|..+ .+++-.+++-..|-.+.|+ ...|||.|+. .+....+++.|....+.-+.|+|+
T Consensus 3 lkfg~It~eeA--~~~QYeLsk~~~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le~~kpEVi~ek~lTve 72 (88)
T PF11491_consen 3 LKFGNITPEEA--MVKQYELSKNEAVYRVFINGYARNGFVIFDESKLSKEELLEMLEEFKPEVIEEKELTVE 72 (88)
T ss_dssp EE--S-TTTTT--HHHHHTTTTTTTB------TTSS--EEE--B-S-SHHHH---HHHTTT-SS-------S
T ss_pred cccCCCCHHHH--HHHHHHhhcccceeeeeecccccceEEEECcccCCHHHHHHHHHhcChhheeeccccHH
Confidence 45678855433 3455566777777777663 2358898884 577777888888887777777664
No 226
>PF01762 Galactosyl_T: Galactosyltransferase; InterPro: IPR002659 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 31 (GH31 from CAZY) comprises enzymes with a number of known activities; N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase (2.4.1.149 from EC); beta-1,3-galactosyltransferase (2.4.1 from EC); fucose-specific beta-1,3-N-acetylglucosaminyltransferase (2.4.1 from EC); globotriosylceramide beta-1,3-GalNAc transferase (2.4.1.79 from EC) [, ].; GO: 0008378 galactosyltransferase activity, 0006486 protein glycosylation, 0016020 membrane
Probab=28.81 E-value=60 Score=24.00 Aligned_cols=56 Identities=16% Similarity=0.243 Sum_probs=31.9
Q ss_pred CCCEEEEcCCCCC--C-CCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhc
Q 030662 6 PTKTLFVINFDPI--R-TRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 6 ~~~~l~V~nL~p~--~-~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l 62 (173)
.-..+||-+. +. + ...+.|.+...+||.|..+.+.-.|.-+++......+=+.+.+
T Consensus 20 ~~~~~FvvG~-~~~~~~~~~~~l~~E~~~y~Dil~~d~~D~y~nlt~K~~~~~~w~~~~c 78 (195)
T PF01762_consen 20 RVKVVFVVGE-SPNSDSDLQEALQEEAEKYGDILQGDFVDSYRNLTLKTLAGLKWASKHC 78 (195)
T ss_pred cEEEEEEEec-CCCCcHHHHHHhhhhhhhcCceEeeecccccchhhHHHHHHHHHHHhhC
Confidence 3467888777 43 2 2234578888899999887764443333333333333333333
No 227
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=28.73 E-value=1.5e+02 Score=24.92 Aligned_cols=43 Identities=21% Similarity=0.229 Sum_probs=30.2
Q ss_pred CCHHHHHHhhcc----CCCeEEEEe-----e--CCeEEEEeCCHHHHHHHHHhc
Q 030662 20 TRERDIKRHFEP----YGNVLHVRI-----R--RNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 20 ~~e~~L~~~F~~----~G~i~~~~~-----~--~g~afV~f~~~~~a~~A~~~l 62 (173)
...-+|..+|.. +|-|+++.| + ..+.++.|.+.++|.+|+..+
T Consensus 144 ~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p~~~~~~~~~f~~~~~~~~~~~~~ 197 (413)
T TIGR00387 144 VAGYDLTGLFVGSEGTLGIVTEATLKLLPKPENIVVALAFFDSIEKAMQAVYDI 197 (413)
T ss_pred CCCCChhhhcccCCccceEEEEEEEEeecCCCccEEEEEECCCHHHHHHHHHHH
Confidence 333467777753 677888777 1 345678999999999988554
No 228
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=28.65 E-value=1.8e+02 Score=19.21 Aligned_cols=54 Identities=11% Similarity=0.286 Sum_probs=30.6
Q ss_pred CCCCEEEEcCCCCCCCCHHHHHH-------hhccCC-CeEEEEe-------------eCC-eEEEEeCCHHHHHHHHHh
Q 030662 5 RPTKTLFVINFDPIRTRERDIKR-------HFEPYG-NVLHVRI-------------RRN-FAFVQFETQEEATKALES 61 (173)
Q Consensus 5 ~~~~~l~V~nL~p~~~~e~~L~~-------~F~~~G-~i~~~~~-------------~~g-~afV~f~~~~~a~~A~~~ 61 (173)
..-.++||-.- +++++++.. ++.+.| +|..+.. ..| |.++.|.-..++.+.++.
T Consensus 6 r~YE~~~Il~p---~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler 81 (97)
T CHL00123 6 NKYETMYLLKP---DLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEK 81 (97)
T ss_pred cceeEEEEECC---CCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHH
Confidence 33455666433 455555444 454444 6666653 134 678899876666666653
No 229
>PF13820 Nucleic_acid_bd: Putative nucleic acid-binding region
Probab=28.58 E-value=64 Score=23.42 Aligned_cols=56 Identities=18% Similarity=0.275 Sum_probs=32.0
Q ss_pred EEEEcCCCCCCCCHHHHHHhhcc-CCC-eEEEEe----eCCeEEEEeCCHHHHHHHHHhcCC
Q 030662 9 TLFVINFDPIRTRERDIKRHFEP-YGN-VLHVRI----RRNFAFVQFETQEEATKALESTDR 64 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~-~G~-i~~~~~----~~g~afV~f~~~~~a~~A~~~l~g 64 (173)
.+|+|+|.-+..+-++|+..+.. |+. +..+.+ +-+-+.|+|.-+.+|..-+..|-.
T Consensus 6 la~~G~l~~~~~~ld~i~~~l~~L~~~~~~~l~~~~~~~~~sv~V~f~ipreaa~~Lr~LA~ 67 (149)
T PF13820_consen 6 LAYIGGLRMFQYKLDDIKNWLASLYKPRISDLKVRKVEPWNSVRVTFSIPREAATRLRQLAQ 67 (149)
T ss_pred EEEECChhhhHHHHHHHHHHHHHHHhcccccceeeccccCceEEEEEechHHHHHHHHHHhh
Confidence 45667883112222344444433 222 223333 356899999999999888876643
No 230
>PRK14998 cold shock-like protein CspD; Provisional
Probab=28.51 E-value=51 Score=20.70 Aligned_cols=48 Identities=15% Similarity=0.212 Sum_probs=26.9
Q ss_pred CCeEEEEeeCCeEEEEeCCH-HHHH---HHHHhcCC--CeecCceEEEEEeecCC
Q 030662 33 GNVLHVRIRRNFAFVQFETQ-EEAT---KALESTDR--SKLVDRVISVEYALKDD 81 (173)
Q Consensus 33 G~i~~~~~~~g~afV~f~~~-~~a~---~A~~~l~g--~~i~g~~l~v~~a~~~~ 81 (173)
|.|+-....+||+||+=.+. +++- .+|+. ++ ....|..|..++....+
T Consensus 4 G~Vkwfn~~kGfGFI~~~~g~~dVFvH~s~l~~-~g~~~l~~G~~V~f~~~~~~~ 57 (73)
T PRK14998 4 GTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQM-DGYRTLKAGQSVRFDVHQGPK 57 (73)
T ss_pred eEEEEEeCCCceEEEecCCCCccEEEEeeeecc-cCCCCCCCCCEEEEEEEECCC
Confidence 66666666799999976642 2211 12221 22 22357777777766543
No 231
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=28.43 E-value=50 Score=20.80 Aligned_cols=48 Identities=15% Similarity=0.215 Sum_probs=26.2
Q ss_pred CCeEEEEeeCCeEEEEeCCH-HHHH---HHHHhcCC--CeecCceEEEEEeecCC
Q 030662 33 GNVLHVRIRRNFAFVQFETQ-EEAT---KALESTDR--SKLVDRVISVEYALKDD 81 (173)
Q Consensus 33 G~i~~~~~~~g~afV~f~~~-~~a~---~A~~~l~g--~~i~g~~l~v~~a~~~~ 81 (173)
|.|+-....+||+||+=.+- +++- .+|+. .+ ....|..|..++....+
T Consensus 4 G~Vkwfn~~KGfGFI~~~~gg~dVFvH~s~i~~-~g~~~l~~G~~V~f~~~~~~~ 57 (74)
T PRK09937 4 GTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQM-DGYRTLKAGQSVQFDVHQGPK 57 (74)
T ss_pred eEEEEEeCCCCeEEEeeCCCCccEEEEEeeccc-cCCCCCCCCCEEEEEEEECCC
Confidence 55665555799999966542 2111 12221 22 23367777777766544
No 232
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=28.23 E-value=2e+02 Score=20.42 Aligned_cols=52 Identities=17% Similarity=0.177 Sum_probs=36.1
Q ss_pred HHHhhccCCCeEEEEeeC--------------------CeEEEEeCCH--HHHHHHHHhcCCCeecCceEEEEE
Q 030662 25 IKRHFEPYGNVLHVRIRR--------------------NFAFVQFETQ--EEATKALESTDRSKLVDRVISVEY 76 (173)
Q Consensus 25 L~~~F~~~G~i~~~~~~~--------------------g~afV~f~~~--~~a~~A~~~l~g~~i~g~~l~v~~ 76 (173)
..++|...|-|..+.+.. .-.+++|.+. +..+..+....|..+....|.|.-
T Consensus 61 ~L~~l~e~Glv~~~~~~~~~~~y~~~~~~~H~HliC~~CG~v~e~~~~~i~~~~~~~~~~~Gf~i~~~~l~~~G 134 (145)
T COG0735 61 TLKLLEEAGLVHRLEFEGGKTRYELNSEPHHHHLICLDCGKVIEFEDDEIEALQEEIAKKLGFKLKDHTLEIYG 134 (145)
T ss_pred HHHHHHHCCCEEEEEeCCCEEEEecCCCCcccEEEecCCCCEEEecchhHHHHHHHHHHhcCCeeeeeEEEEEE
Confidence 346677778777766521 1146778776 677777777789999988888764
No 233
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=28.09 E-value=1.5e+02 Score=20.97 Aligned_cols=46 Identities=24% Similarity=0.229 Sum_probs=28.0
Q ss_pred CCCeEEEEe---eCCeEEEEeCC--------HHHHHHHHHhcCCCeecCceEEEEEe
Q 030662 32 YGNVLHVRI---RRNFAFVQFET--------QEEATKALESTDRSKLVDRVISVEYA 77 (173)
Q Consensus 32 ~G~i~~~~~---~~g~afV~f~~--------~~~a~~A~~~l~g~~i~g~~l~v~~a 77 (173)
.|.+..-.| ..=-|||+|++ -+-|...++.+|.+.--|..+.|++-
T Consensus 5 vG~~l~GkItgI~~yGAFV~l~~g~tGLVHISEIa~~fVkdI~d~L~vG~eV~vKVl 61 (129)
T COG1098 5 VGSKLKGKITGITPYGAFVELEGGKTGLVHISEIADGFVKDIHDHLKVGQEVKVKVL 61 (129)
T ss_pred ccceEEEEEEeeEecceEEEecCCCcceEEehHhhhhhHHhHHHHhcCCCEEEEEEE
Confidence 455555444 22237888887 24566667766666556777777654
No 234
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=27.73 E-value=27 Score=28.38 Aligned_cols=51 Identities=16% Similarity=0.277 Sum_probs=33.1
Q ss_pred CCCCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHH
Q 030662 4 QRPTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEAT 56 (173)
Q Consensus 4 ~~~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~ 56 (173)
.+++..|+|.+= . ..--..+.++|++||.+.++.....+.+..|...+...
T Consensus 63 ~~~g~~i~v~g~-~-~~g~~s~~k~l~~~~~~~~~~~a~~~~~~~~~~~~~~~ 113 (300)
T COG2813 63 LPPGGEIVVVGE-K-RDGVRSAEKMLEKYGGPTKTDSARHCMRLHYYSENPPP 113 (300)
T ss_pred CCCCCeEEEEec-c-cchHHHHHHHHHHhcCccccchHhhcceeEeecCCCCc
Confidence 356677777766 2 33446678889999988887775555555555444333
No 235
>PRK15463 cold shock-like protein CspF; Provisional
Probab=27.70 E-value=48 Score=20.62 Aligned_cols=50 Identities=8% Similarity=-0.067 Sum_probs=28.2
Q ss_pred CCCeEEEEeeCCeEEEEeCCH-HHH---HHHHHhc-CCCeecCceEEEEEeecCC
Q 030662 32 YGNVLHVRIRRNFAFVQFETQ-EEA---TKALEST-DRSKLVDRVISVEYALKDD 81 (173)
Q Consensus 32 ~G~i~~~~~~~g~afV~f~~~-~~a---~~A~~~l-~g~~i~g~~l~v~~a~~~~ 81 (173)
.|.|+-..-.+||+||+=.+. +++ ..||... ....-.|..|..++....+
T Consensus 6 ~G~Vk~fn~~kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~~~~ 60 (70)
T PRK15463 6 TGIVKTFDGKSGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRINGLR 60 (70)
T ss_pred eEEEEEEeCCCceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEECCC
Confidence 366666555799999977652 221 1234322 1123367777777766543
No 236
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=27.66 E-value=1.6e+02 Score=20.03 Aligned_cols=27 Identities=15% Similarity=0.213 Sum_probs=15.8
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCCCeEEE
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYGNVLHV 38 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~ 38 (173)
.||||++ |...+.+.|++. .+..|..+
T Consensus 7 ~l~~G~~-~~~~~~~~l~~~--gi~~Vi~l 33 (138)
T smart00195 7 HLYLGSY-SSALNLALLKKL--GITHVINV 33 (138)
T ss_pred CeEECCh-hHcCCHHHHHHc--CCCEEEEc
Confidence 5999999 765554444432 34445444
No 237
>PF06804 Lipoprotein_18: NlpB/DapX lipoprotein; InterPro: IPR010653 This entry consists of a number of bacterial lipoproteins often known as NlpB or DapX. This lipoprotein is detected in outer membrane vesicles in Escherichia coli and appears to be non-essential [].; PDB: 2YH6_A 3TGO_D 2YH5_A 2LAF_A 2LAE_A 3SNS_A.
Probab=27.43 E-value=1.6e+02 Score=23.78 Aligned_cols=49 Identities=10% Similarity=0.250 Sum_probs=35.1
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCC-CeEEEEeeCCeEEEEeCCHHHH
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYG-NVLHVRIRRNFAFVQFETQEEA 55 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G-~i~~~~~~~g~afV~f~~~~~a 55 (173)
.+..++|-.. +++..|..|-.++.+.| .|.+..-..|.-||.|...++.
T Consensus 197 ~g~~~l~~~~-~fd~aW~rl~~aL~~~gf~V~d~drs~G~~~v~y~~~~~~ 246 (303)
T PF06804_consen 197 NGQPALILRA-PFDRAWRRLGLALDRLGFTVEDRDRSQGVYYVRYKPPDSE 246 (303)
T ss_dssp TS-EEEEEES--HHHHHHHHHHHHHHTTEEEEEEETTTTEEEEEE----HH
T ss_pred CCceEEEECC-cHHHHHHHHHHHHHhCCCEEEecccccEEEEEEEcCCChh
Confidence 3455667778 78899999999999999 5666666899999999876543
No 238
>PRK09890 cold shock protein CspG; Provisional
Probab=26.39 E-value=51 Score=20.42 Aligned_cols=48 Identities=15% Similarity=0.271 Sum_probs=26.4
Q ss_pred CCCeEEEEeeCCeEEEEeCCH-HHHH---HHHHhcCC-Cee-cCceEEEEEeecC
Q 030662 32 YGNVLHVRIRRNFAFVQFETQ-EEAT---KALESTDR-SKL-VDRVISVEYALKD 80 (173)
Q Consensus 32 ~G~i~~~~~~~g~afV~f~~~-~~a~---~A~~~l~g-~~i-~g~~l~v~~a~~~ 80 (173)
.|.|+...-.+||+||+=.+. +++- .|++. ++ ..+ .|..|...+....
T Consensus 6 ~G~Vk~f~~~kGfGFI~~~~g~~dvFvH~s~l~~-~~~~~l~~G~~V~f~~~~~~ 59 (70)
T PRK09890 6 TGLVKWFNADKGFGFITPDDGSKDVFVHFTAIQS-NEFRTLNENQKVEFSIEQGQ 59 (70)
T ss_pred eEEEEEEECCCCcEEEecCCCCceEEEEEeeecc-CCCCCCCCCCEEEEEEEECC
Confidence 466666655799999987653 2111 12221 22 222 5777777666544
No 239
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=26.37 E-value=39 Score=29.56 Aligned_cols=40 Identities=25% Similarity=0.385 Sum_probs=33.9
Q ss_pred eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEeecC
Q 030662 41 RRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYALKD 80 (173)
Q Consensus 41 ~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~~~ 80 (173)
...+++++|++...+.+|+..++|....+..+.+..+...
T Consensus 62 ~~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~~ 101 (534)
T KOG2187|consen 62 MPKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGATE 101 (534)
T ss_pred CCCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhcccc
Confidence 3579999999999999999999999888887777766543
No 240
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=26.33 E-value=1.6e+02 Score=21.93 Aligned_cols=53 Identities=15% Similarity=0.158 Sum_probs=34.9
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCCC-eEEEEe------eCCeEEEEeCCHHHHHHHHHhc
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYGN-VLHVRI------RRNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G~-i~~~~~------~~g~afV~f~~~~~a~~A~~~l 62 (173)
.=||+|. +....-..|-+.|...|- |.-+.= +.++-+|.+.+.++..+++..+
T Consensus 20 VR~ItN~-SSG~~G~~lA~~~~~~Ga~V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 20 VRFITNR-SSGKMGAALAEEAARRGAEVTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp SEEEEES---SHHHHHHHHHHHHTT-EEEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred ceEecCC-CcCHHHHHHHHHHHHCCCEEEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 3478888 566667788888887774 333221 4588899999999988887754
No 241
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=26.17 E-value=1.3e+02 Score=16.92 Aligned_cols=38 Identities=18% Similarity=0.263 Sum_probs=23.9
Q ss_pred HHHHHHhhccCC-CeEEEEe--e---CCeEEEEeCCHHHHHHHH
Q 030662 22 ERDIKRHFEPYG-NVLHVRI--R---RNFAFVQFETQEEATKAL 59 (173)
Q Consensus 22 e~~L~~~F~~~G-~i~~~~~--~---~g~afV~f~~~~~a~~A~ 59 (173)
-.+|..+|.+.| .|..+.+ . .+...+.+++.+.|.+++
T Consensus 12 l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v~~~~~a~~~l 55 (56)
T cd04889 12 LAEVTEILAEAGINIKAISIAETRGEFGILRLIFSDPERAKEVL 55 (56)
T ss_pred HHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEECCHHHHHHHh
Confidence 355667777766 6766655 1 245556777877776664
No 242
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=25.96 E-value=1.9e+02 Score=19.31 Aligned_cols=45 Identities=16% Similarity=0.305 Sum_probs=32.4
Q ss_pred CCHHHHHHhhccCCCeEEEEe-eCCe----EEEEeCCHHHHHHHHHhcCC
Q 030662 20 TRERDIKRHFEPYGNVLHVRI-RRNF----AFVQFETQEEATKALESTDR 64 (173)
Q Consensus 20 ~~e~~L~~~F~~~G~i~~~~~-~~g~----afV~f~~~~~a~~A~~~l~g 64 (173)
-.+++|.-+...-|.|..|.+ ...| +.+...+..+++.+++.|+.
T Consensus 9 ~~~~EL~~IVd~Gg~V~DV~veHp~YG~i~~~L~i~sr~Dv~~Fi~~l~~ 58 (98)
T PF02829_consen 9 EIEDELEIIVDNGGRVLDVIVEHPVYGEITGNLNISSRRDVDKFIEKLEK 58 (98)
T ss_dssp GHHHHHHHHHHTT-EEEEEEEEETTTEEEEEEEEE-SHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCEEEEEEEeCCCCcEEEEEEecCCHHHHHHHHHHHhc
Confidence 356778888776678888888 3444 56788899999999987753
No 243
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=25.90 E-value=3.7e+02 Score=22.03 Aligned_cols=31 Identities=23% Similarity=0.385 Sum_probs=15.6
Q ss_pred CHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHH
Q 030662 21 RERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEE 54 (173)
Q Consensus 21 ~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~ 54 (173)
.+.+++..|...+- +.|.---+||.++-...
T Consensus 152 ~erdm~~AYK~adG---~~Idgrri~VDvERgRT 182 (335)
T KOG0113|consen 152 HERDMKAAYKDADG---IKIDGRRILVDVERGRT 182 (335)
T ss_pred cHHHHHHHHHhccC---ceecCcEEEEEeccccc
Confidence 34556666655432 22333456676665443
No 244
>PRK10943 cold shock-like protein CspC; Provisional
Probab=25.70 E-value=61 Score=20.00 Aligned_cols=48 Identities=13% Similarity=0.174 Sum_probs=27.3
Q ss_pred CCCeEEEEeeCCeEEEEeCCHH-HH---HHHHHhcCC-C-eecCceEEEEEeecC
Q 030662 32 YGNVLHVRIRRNFAFVQFETQE-EA---TKALESTDR-S-KLVDRVISVEYALKD 80 (173)
Q Consensus 32 ~G~i~~~~~~~g~afV~f~~~~-~a---~~A~~~l~g-~-~i~g~~l~v~~a~~~ 80 (173)
-|.|+...-.+||+||+=.+.. ++ ..|++. .+ . ...|..|..++....
T Consensus 5 ~G~Vk~f~~~kGfGFI~~~~g~~dvFvH~s~l~~-~g~~~l~~G~~V~f~~~~~~ 58 (69)
T PRK10943 5 KGQVKWFNESKGFGFITPADGSKDVFVHFSAIQG-NGFKTLAEGQNVEFEIQDGQ 58 (69)
T ss_pred ceEEEEEeCCCCcEEEecCCCCeeEEEEhhHccc-cCCCCCCCCCEEEEEEEECC
Confidence 4666665557999999765422 21 123332 22 2 236777777776654
No 245
>PRK14887 KEOPS complex Pcc1-like subunit; Provisional
Probab=25.60 E-value=1.9e+02 Score=18.63 Aligned_cols=22 Identities=27% Similarity=0.166 Sum_probs=17.4
Q ss_pred CCeEEEEeCCHHHHHHHHHhcC
Q 030662 42 RNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 42 ~g~afV~f~~~~~a~~A~~~l~ 63 (173)
+..+-|+|.+.+.|+.+.+.+.
T Consensus 5 ~~~lei~f~s~~~A~iiy~sl~ 26 (84)
T PRK14887 5 KFTLEFEFETEERARIIYRSVL 26 (84)
T ss_pred eEEEEEEECCHHHHHHHHHHhC
Confidence 3456789999999998887664
No 246
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=25.55 E-value=1.7e+02 Score=21.13 Aligned_cols=51 Identities=20% Similarity=0.423 Sum_probs=31.2
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhcc-CC-CeEEEEe---eCC--eEEEEeCCHHHHHHHHH
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEP-YG-NVLHVRI---RRN--FAFVQFETQEEATKALE 60 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~-~G-~i~~~~~---~~g--~afV~f~~~~~a~~A~~ 60 (173)
+.-+|+-.+ .++..+|+..+++ |+ .|..|.. +.| =|||.+....+|.....
T Consensus 83 N~yvF~Vd~---kAnK~qIK~AVEklf~VkV~kVNTli~p~g~KKA~V~L~~~~~aidva~ 140 (145)
T PTZ00191 83 NTLVFIVDQ---RANKTQIKKAVEKLYDVKVVKVNTLITPDGLKKAYIRLSPDVDALDVAN 140 (145)
T ss_pred CEEEEEEcC---CCCHHHHHHHHHHHhCCeeEEEEeEEcCCCceEEEEEECCCCcHHHHHH
Confidence 344444444 5788888888876 55 4444433 344 48999977666554433
No 247
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=25.46 E-value=2.9e+02 Score=21.36 Aligned_cols=36 Identities=17% Similarity=0.296 Sum_probs=24.3
Q ss_pred CCCCCCCCEEEEcCCCCCC---------CCHHHHHHhhccCCCeEE
Q 030662 1 MANQRPTKTLFVINFDPIR---------TRERDIKRHFEPYGNVLH 37 (173)
Q Consensus 1 s~~~~~~~~l~V~nL~p~~---------~~e~~L~~~F~~~G~i~~ 37 (173)
|+..+....|.|+|. .+. .+.+.|.++|.++|--+.
T Consensus 3 m~~~p~g~alII~n~-~f~~~~~r~g~~~D~~~l~~~f~~lgF~V~ 47 (241)
T smart00115 3 MNSKPRGLALIINNE-NFHSLPRRNGTDVDAENLTELFQSLGYEVH 47 (241)
T ss_pred CCCCCCcEEEEEECc-cCCCCcCCCCcHHHHHHHHHHHHHCCCEEE
Confidence 556667777888886 331 245778999999885433
No 248
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=25.40 E-value=83 Score=21.23 Aligned_cols=20 Identities=10% Similarity=0.328 Sum_probs=17.1
Q ss_pred CeEEEEeCCHHHHHHHHHhc
Q 030662 43 NFAFVQFETQEEATKALEST 62 (173)
Q Consensus 43 g~afV~f~~~~~a~~A~~~l 62 (173)
-|++++|.+.+...+|...|
T Consensus 67 vFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 67 VFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEcCchhHHHHHHHHh
Confidence 38999999999999988765
No 249
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=25.39 E-value=54 Score=20.25 Aligned_cols=48 Identities=15% Similarity=0.203 Sum_probs=25.3
Q ss_pred CCCeEEEEeeCCeEEEEeCCH-HHH---HHHHHhcCC-Ce-ecCceEEEEEeecC
Q 030662 32 YGNVLHVRIRRNFAFVQFETQ-EEA---TKALESTDR-SK-LVDRVISVEYALKD 80 (173)
Q Consensus 32 ~G~i~~~~~~~g~afV~f~~~-~~a---~~A~~~l~g-~~-i~g~~l~v~~a~~~ 80 (173)
.|.|+...-.+||+||+=.+. +++ ..||.. .+ .. -.|..|..++....
T Consensus 6 ~G~Vk~f~~~kGfGFI~~~~g~~dvfvH~s~l~~-~g~~~l~~G~~V~f~~~~~~ 59 (70)
T PRK10354 6 TGIVKWFNADKGFGFITPDDGSKDVFVHFSAIQN-DGYKSLDEGQKVSFTIESGA 59 (70)
T ss_pred eEEEEEEeCCCCcEEEecCCCCccEEEEEeeccc-cCCCCCCCCCEEEEEEEECC
Confidence 366665555799999976542 111 112221 22 22 25667776666544
No 250
>PF15063 TC1: Thyroid cancer protein 1
Probab=25.37 E-value=36 Score=21.74 Aligned_cols=24 Identities=17% Similarity=0.182 Sum_probs=19.8
Q ss_pred EEcCCCCCCCCHHHHHHhhccCCCe
Q 030662 11 FVINFDPIRTRERDIKRHFEPYGNV 35 (173)
Q Consensus 11 ~V~nL~p~~~~e~~L~~~F~~~G~i 35 (173)
-+.|| -.+++...|..+|..-|..
T Consensus 29 asaNI-Fe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 29 ASANI-FENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hhhhh-hhccCHHHHHHHHHHccch
Confidence 35678 6789999999999999863
No 251
>PRK05974 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed
Probab=24.91 E-value=1.2e+02 Score=19.13 Aligned_cols=37 Identities=22% Similarity=0.165 Sum_probs=19.2
Q ss_pred EEEEcCCCCCCCCH--HHHHHhhc--cCCCeEEEEeeCCeEE
Q 030662 9 TLFVINFDPIRTRE--RDIKRHFE--PYGNVLHVRIRRNFAF 46 (173)
Q Consensus 9 ~l~V~nL~p~~~~e--~~L~~~F~--~~G~i~~~~~~~g~af 46 (173)
.|.|+.. |.-++. +.+...+. .|+.|..+.+.+.|-|
T Consensus 4 ~V~V~~k-~gv~Dp~G~ai~~~l~~lg~~~v~~Vr~~k~~~l 44 (80)
T PRK05974 4 KVTVTLK-EGVLDPQGQAIKGALGSLGYDGVEDVRQGKYFEL 44 (80)
T ss_pred EEEEEEC-CCCcChHHHHHHHHHHHcCCCCcceEEEEEEEEE
Confidence 4667655 432222 23333333 4556777777766555
No 252
>cd00412 pyrophosphatase Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers.
Probab=24.80 E-value=68 Score=23.39 Aligned_cols=38 Identities=24% Similarity=0.450 Sum_probs=25.9
Q ss_pred HHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhc
Q 030662 22 ERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 22 e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l 62 (173)
-++|+.+|..|-.+.. .+-.-+..|.+.+.|.+.|+..
T Consensus 116 l~~I~~fF~~YK~le~---~k~~~~~g~~~~~~A~~~I~~~ 153 (155)
T cd00412 116 LDEIKHFFEHYKDLEG---KKEVKVAGWKDKEEALKIIKES 153 (155)
T ss_pred HHHHHHHHHHhcccCC---CCceEECcCcCHHHHHHHHHHH
Confidence 3678889988865432 1334456788888888888753
No 253
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=24.76 E-value=1.6e+02 Score=24.65 Aligned_cols=49 Identities=14% Similarity=0.057 Sum_probs=33.4
Q ss_pred HHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCc
Q 030662 22 ERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDR 70 (173)
Q Consensus 22 e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~ 70 (173)
-++|+.+|..-.-+..++.-..--||.|.+..+.++-|...++..+.+.
T Consensus 264 Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~~~~~~ 312 (493)
T COG5236 264 YEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHKVNARLS 312 (493)
T ss_pred HHHHHHHhhcCceEEEEEEEecCcEEEeccHHHHHHHHHHHhhcccccC
Confidence 3678888887665555544333457888988888888777777666554
No 254
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=24.14 E-value=1.8e+02 Score=17.63 Aligned_cols=44 Identities=25% Similarity=0.311 Sum_probs=27.2
Q ss_pred CHHHHHHhhccCC-CeEEEEe-e----C--CeEEEEeCC---HHHHHHHHHhcCC
Q 030662 21 RERDIKRHFEPYG-NVLHVRI-R----R--NFAFVQFET---QEEATKALESTDR 64 (173)
Q Consensus 21 ~e~~L~~~F~~~G-~i~~~~~-~----~--g~afV~f~~---~~~a~~A~~~l~g 64 (173)
.-.++.++|..+| .|..+.- + . -.-||++.. ....+.+++.|..
T Consensus 12 ~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 12 ALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred HHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 4567888888887 5666643 1 1 145677774 5556666666543
No 255
>PLN02373 soluble inorganic pyrophosphatase
Probab=23.97 E-value=79 Score=23.87 Aligned_cols=37 Identities=27% Similarity=0.410 Sum_probs=26.3
Q ss_pred HHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhc
Q 030662 22 ERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 22 e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l 62 (173)
-++|+.+|..|-.+. .+.+.+..|.+.+.|.++|+..
T Consensus 138 l~~I~~fF~~YK~le----gK~v~v~g~~~~~~A~~~I~~~ 174 (188)
T PLN02373 138 LAEIRRFFEDYKKNE----NKEVAVNDFLPAEAAIEAIQYS 174 (188)
T ss_pred HHHHHHHHHHhcccC----CCeEEeCCccCHHHHHHHHHHH
Confidence 367888898886433 3345567888899988888654
No 256
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=23.54 E-value=79 Score=20.93 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=29.5
Q ss_pred CCCHHHHHHhhccCCCe-EEEEe----eCCeEEEEeCCHHHHHHHHHhcC
Q 030662 19 RTRERDIKRHFEPYGNV-LHVRI----RRNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 19 ~~~e~~L~~~F~~~G~i-~~~~~----~~g~afV~f~~~~~a~~A~~~l~ 63 (173)
.+++..|..-|---|.- +...+ =+.+|.|+|.+.+.+..|.+.|-
T Consensus 23 ~l~~~~i~~Q~~~~gkk~~pp~lRkD~W~pm~vv~f~~~~~g~~~yq~Lr 72 (91)
T PF12829_consen 23 NLDNNQILKQFPFPGKKNKPPSLRKDYWRPMCVVNFPNYEVGVSAYQKLR 72 (91)
T ss_pred ccChhHHHHhccCCCcccCCchhccccceEeEEEECCChHHHHHHHHHHH
Confidence 46666666666554521 11222 15689999999999999887664
No 257
>COG1828 PurS Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]
Probab=23.44 E-value=1.1e+02 Score=19.83 Aligned_cols=47 Identities=17% Similarity=0.282 Sum_probs=30.1
Q ss_pred HHHHHhhccCC--CeEEEEeeCCeEEEEeC-CHHHHHHHHHhcCCCeecC
Q 030662 23 RDIKRHFEPYG--NVLHVRIRRNFAFVQFE-TQEEATKALESTDRSKLVD 69 (173)
Q Consensus 23 ~~L~~~F~~~G--~i~~~~~~~g~afV~f~-~~~~a~~A~~~l~g~~i~g 69 (173)
+.|+..+...| .|..+.+.+-|-|..=. +.+.|+..++.|....|.+
T Consensus 20 ~ti~~aL~~lg~~~V~~vR~gK~~el~ld~~~~e~a~~~v~~mcekLLaN 69 (83)
T COG1828 20 ETIEKALHRLGYNEVSDVRVGKVIELELDAESEEKAEEEVKEMCEKLLAN 69 (83)
T ss_pred HHHHHHHHHcCCcccceeeeeeEEEEEecCcchhHHHHHHHHHHHHHhCC
Confidence 44666666544 68898887766664333 5777777777666554444
No 258
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=23.28 E-value=70 Score=22.90 Aligned_cols=23 Identities=13% Similarity=0.211 Sum_probs=16.8
Q ss_pred CCeEEEEeCCHHHHHHHHHhcCC
Q 030662 42 RNFAFVQFETQEEATKALESTDR 64 (173)
Q Consensus 42 ~g~afV~f~~~~~a~~A~~~l~g 64 (173)
-|..+|-|.+.++|++.++...|
T Consensus 114 Mg~~~~aF~~~~~A~~F~~~~GG 136 (149)
T PF05573_consen 114 MGPDLIAFASKEDAEAFAKEHGG 136 (149)
T ss_dssp TS--EEEES-HHHHHHHHHHTEE
T ss_pred CCCcccccCCHHHHHHHHHHcCC
Confidence 46889999999999999987533
No 259
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=22.99 E-value=1.6e+02 Score=22.39 Aligned_cols=49 Identities=16% Similarity=0.171 Sum_probs=32.2
Q ss_pred CCHHHHHHhhccCCC---eEEEEee-----CCeEEEEeCCHHHHHHHHHhcCCCeec
Q 030662 20 TRERDIKRHFEPYGN---VLHVRIR-----RNFAFVQFETQEEATKALESTDRSKLV 68 (173)
Q Consensus 20 ~~e~~L~~~F~~~G~---i~~~~~~-----~g~afV~f~~~~~a~~A~~~l~g~~i~ 68 (173)
.+.+++.++..++|. |.+.++. ++-+...-.+.++|..+...|-|..|.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLAGGRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSSSTTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEeecCcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 456777777766553 5555552 333444456789999999988888875
No 260
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=22.99 E-value=1.1e+02 Score=24.23 Aligned_cols=27 Identities=15% Similarity=0.054 Sum_probs=21.7
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCe
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNV 35 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i 35 (173)
....|+|| |++++..-|..++...-.+
T Consensus 96 ~~~vVaNl-PY~Isspii~kll~~~~~~ 122 (259)
T COG0030 96 PYKVVANL-PYNISSPILFKLLEEKFII 122 (259)
T ss_pred CCEEEEcC-CCcccHHHHHHHHhccCcc
Confidence 45679999 9999999999888765443
No 261
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=22.94 E-value=64 Score=25.29 Aligned_cols=27 Identities=22% Similarity=0.394 Sum_probs=21.5
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhc--cCCC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFE--PYGN 34 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~--~~G~ 34 (173)
...++|+|| |+.++..-|..++. .||.
T Consensus 97 ~~~~vv~Nl-Py~is~~il~~ll~~~~~g~ 125 (262)
T PF00398_consen 97 QPLLVVGNL-PYNISSPILRKLLELYRFGR 125 (262)
T ss_dssp SEEEEEEEE-TGTGHHHHHHHHHHHGGGCE
T ss_pred CceEEEEEe-cccchHHHHHHHhhcccccc
Confidence 456889999 99999988888886 4553
No 262
>PRK10162 acetyl esterase; Provisional
Probab=22.73 E-value=2.1e+02 Score=22.91 Aligned_cols=57 Identities=18% Similarity=0.280 Sum_probs=35.2
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEee--CCeEEEEeC-CHHHHHHHHHhc
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIR--RNFAFVQFE-TQEEATKALEST 62 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~--~g~afV~f~-~~~~a~~A~~~l 62 (173)
|...|+++..|+.--....+.+.+.+.|.-..+.+- -..+|+.|. ..++|+.|++.+
T Consensus 249 Pp~~i~~g~~D~L~de~~~~~~~L~~aGv~v~~~~~~g~~H~f~~~~~~~~~a~~~~~~~ 308 (318)
T PRK10162 249 PPCFIAGAEFDPLLDDSRLLYQTLAAHQQPCEFKLYPGTLHAFLHYSRMMDTADDALRDG 308 (318)
T ss_pred CCeEEEecCCCcCcChHHHHHHHHHHcCCCEEEEEECCCceehhhccCchHHHHHHHHHH
Confidence 344566677766543446677888888865555553 346777775 356666666543
No 263
>PF02700 PurS: Phosphoribosylformylglycinamidine (FGAM) synthase; InterPro: IPR003850 Phosphoribosylformylglycinamidine(FGAM) synthetase, 6.3.5.3 from EC, catalyses the fourth step in the de novo purine biosynthetic pathway []. 5-phosphoribosylformylglycinamide (FGAR) + glutamine + ATP = FGAM + glutamate + ADP + Pi In eukaryotes and many bacterial systems (including Escherichia coli and Salmonella typhimurium), the FGAM synthetase is encoded by the large form of PurL (lgPurL), which contains an N-terminal ATPase domain and a C-terminal glutamine-binding domain. In archaeal and other bacterial systems, however, FGAM synthetase is encoded by separate genes, making it a multisubunit (rather than multidomain) enzyme. The protein is composed of the small form of PurL (smPurL), which is homologus to the ATPase domain of lgPurL, PurQ which is homologous to the glutamine-binding domain of of lgPurL, and PurS, whose function is not known. This entry represents the PurS subunit of the multisubunit FGAM synthetase. Recent studies showed that disruption of the purS gene in Bacillus subtilis resulted in a purine auxotrophic phenotype, due to defective FGAM synthetase activity. Therefore, the PurS protein appears to be required for the function of the PurL and PurQ subunits of the FGAM synthetase, but the molecular mechanism for the functional role of PurS is currently not known. For additional information please see [, ].; GO: 0016879 ligase activity, forming carbon-nitrogen bonds; PDB: 2ZW2_B 3D54_B 1VQ3_B 1GTD_A 2YX5_A 2CUW_A 1TWJ_B 1T4A_B 2DGB_B.
Probab=22.50 E-value=1.5e+02 Score=18.90 Aligned_cols=58 Identities=24% Similarity=0.293 Sum_probs=30.7
Q ss_pred EEEEcCCCCCCCCH--HHHHHhhcc--CCCeEEEEeeCCeEE-EEeCCHHHHHHHHHhcCCCee
Q 030662 9 TLFVINFDPIRTRE--RDIKRHFEP--YGNVLHVRIRRNFAF-VQFETQEEATKALESTDRSKL 67 (173)
Q Consensus 9 ~l~V~nL~p~~~~e--~~L~~~F~~--~G~i~~~~~~~g~af-V~f~~~~~a~~A~~~l~g~~i 67 (173)
.|+|..- +.-.+. +.++..+.. |..|..|.+-+-|-| ++-.+.+.|.+-++.|....|
T Consensus 4 ~V~V~~K-~gvlDPqG~ai~~al~~lG~~~v~~Vr~GK~~~l~~~~~~~e~a~~~v~~i~~~LL 66 (80)
T PF02700_consen 4 RVEVTLK-PGVLDPQGEAIKRALHRLGYDGVKDVRVGKYIELELEADDEEEAEEQVEEICEKLL 66 (80)
T ss_dssp EEEEEE--TTS--HHHHHHHHHHHHTT-TTEEEEEEEEEEEEEEE-SSHHHHHHHHHHHHHHTT
T ss_pred EEEEEEC-CCCcCcHHHHHHHHHHHcCCcccCcEEEEEEEEEEEeCCCHHHHHHHHHHHHHHhc
Confidence 4566554 322222 234444443 446899988766654 566677777776666544333
No 264
>COG4274 Uncharacterized conserved protein [Function unknown]
Probab=22.45 E-value=2.6e+02 Score=18.94 Aligned_cols=39 Identities=18% Similarity=0.143 Sum_probs=26.3
Q ss_pred HHHHHhhccCC-CeEEEEeeCC----eEEEEeCCHHHHHHHHHh
Q 030662 23 RDIKRHFEPYG-NVLHVRIRRN----FAFVQFETQEEATKALES 61 (173)
Q Consensus 23 ~~L~~~F~~~G-~i~~~~~~~g----~afV~f~~~~~a~~A~~~ 61 (173)
+.++.+|+++| +++.+.+..| .+++|-.+...+..+.-.
T Consensus 33 ~av~~~les~G~k~~~~y~T~GeYD~V~i~EapDda~~~~~~l~ 76 (104)
T COG4274 33 AAVRALLESMGGKVKEQYWTLGEYDVVAIVEAPDDAVATRFSLA 76 (104)
T ss_pred HHHHHHHHHcCcEEEEEEEeeccccEEEEEecCCHHHHHHHHHH
Confidence 56788999987 6677766554 456677776666655443
No 265
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.26 E-value=1.8e+02 Score=17.12 Aligned_cols=46 Identities=15% Similarity=0.265 Sum_probs=26.3
Q ss_pred CHHHHHHhhccCC-CeEEEEe----eCCeEE--EEeC--CHHHHHHHHHhcCCCee
Q 030662 21 RERDIKRHFEPYG-NVLHVRI----RRNFAF--VQFE--TQEEATKALESTDRSKL 67 (173)
Q Consensus 21 ~e~~L~~~F~~~G-~i~~~~~----~~g~af--V~f~--~~~~a~~A~~~l~g~~i 67 (173)
.-..|..+|.++| .|..+.. ..+.++ |.+. +.+.+.++|+. .|..+
T Consensus 14 ~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~-~G~~v 68 (72)
T cd04883 14 QLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRR-AGYEV 68 (72)
T ss_pred HHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHH-CCCee
Confidence 3467788888887 5666644 124543 4443 55566666654 45443
No 266
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=22.25 E-value=1.8e+02 Score=22.81 Aligned_cols=54 Identities=20% Similarity=0.305 Sum_probs=36.7
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCC-CeEEEEe----------eCCeEEEEeCCHHHHHHHHHhc
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYG-NVLHVRI----------RRNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G-~i~~~~~----------~~g~afV~f~~~~~a~~A~~~l 62 (173)
-+|-|.-| |....++-++.+|+..| .|.-..+ ...|..|+.....-...|+.+|
T Consensus 119 L~v~~p~l-p~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S~y~~l~L~g~~rl~daL~HL 183 (245)
T PF12623_consen 119 LEVRLPAL-PCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDSRYVDLTLTGTVRLADALNHL 183 (245)
T ss_pred eEEEeeee-ecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCCcceEEEEeeeEEHHHHHhhh
Confidence 35777888 77788999999999999 3332222 1346667777666666666543
No 267
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=22.09 E-value=1e+02 Score=21.68 Aligned_cols=25 Identities=12% Similarity=0.231 Sum_probs=20.6
Q ss_pred eCCeEEEEeCCHHHHHHHHHhcCCC
Q 030662 41 RRNFAFVQFETQEEATKALESTDRS 65 (173)
Q Consensus 41 ~~g~afV~f~~~~~a~~A~~~l~g~ 65 (173)
-+||-||++....+...++..+.|.
T Consensus 37 fpGYvFV~~~~~~~~~~~i~~~~gv 61 (145)
T TIGR00405 37 LKGYILVEAETKIDMRNPIIGVPHV 61 (145)
T ss_pred CCcEEEEEEECcHHHHHHHhCCCCE
Confidence 4899999999888888888777763
No 268
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=22.08 E-value=48 Score=29.83 Aligned_cols=63 Identities=21% Similarity=0.236 Sum_probs=44.3
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe--------eCCeEEEEeCCHHHHHHHHHhcCCCeecCceEE
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYGNVLHVRI--------RRNFAFVQFETQEEATKALESTDRSKLVDRVIS 73 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~ 73 (173)
+||+-|- ....+..-|..++..+++++...+ ...-++++|.....|+.|.. |.++.+....|.
T Consensus 513 ~i~~~~~-~~~s~~~s~s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~s-~p~k~fa~~~~k 583 (681)
T KOG3702|consen 513 TIFVANG-HGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAKS-LPNKKFASKCLK 583 (681)
T ss_pred ceecccc-cccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhhc-ccccccccccee
Confidence 6777776 556667778888888888776665 23468999998888877653 566666544443
No 269
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=22.03 E-value=1.3e+02 Score=20.30 Aligned_cols=21 Identities=19% Similarity=0.303 Sum_probs=16.3
Q ss_pred EEEEeCCHHHHHHHHHhcCCCe
Q 030662 45 AFVQFETQEEATKALESTDRSK 66 (173)
Q Consensus 45 afV~f~~~~~a~~A~~~l~g~~ 66 (173)
.-+.|.+.|+|.+..+. +|..
T Consensus 51 v~l~F~skE~Ai~yaer-~G~~ 71 (101)
T PF04800_consen 51 VRLKFDSKEDAIAYAER-NGWD 71 (101)
T ss_dssp CEEEESSHHHHHHHHHH-CT-E
T ss_pred eEeeeCCHHHHHHHHHH-cCCe
Confidence 34789999999998886 6654
No 270
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=21.99 E-value=1.2e+02 Score=25.10 Aligned_cols=50 Identities=18% Similarity=0.289 Sum_probs=32.3
Q ss_pred CCCEEEEcCCC-C--CCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHH
Q 030662 6 PTKTLFVINFD-P--IRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKA 58 (173)
Q Consensus 6 ~~~~l~V~nL~-p--~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A 58 (173)
....|||+|-| | ..++.++|..+...... .+.|.-..||++|.. +++...
T Consensus 145 ~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~--~~~vVvDEAY~eF~~-~~~~~l 197 (356)
T COG0079 145 KTKLVFLCNPNNPTGTLLPREELRALLEALPE--GGLVVIDEAYIEFSP-ESSLEL 197 (356)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC--CcEEEEeCchhhcCC-chhhhh
Confidence 46789998753 2 22677999999987654 222223469999998 433333
No 271
>PF09250 Prim-Pol: Bifunctional DNA primase/polymerase, N-terminal; InterPro: IPR015330 Members of this family adopt a structure consisting of a core of antiparallel beta sheets. They are found in various bacterial hypothetical proteins, and have been shown to harbour both primase and polymerase activities []. ; PDB: 1RO0_A 1RNI_A 1RO2_A 3M1M_A.
Probab=21.96 E-value=1.2e+02 Score=21.31 Aligned_cols=34 Identities=15% Similarity=0.442 Sum_probs=22.4
Q ss_pred CCHHHHHHhhccC-CCeEEEEe-eCCeEEEEeCCHH
Q 030662 20 TRERDIKRHFEPY-GNVLHVRI-RRNFAFVQFETQE 53 (173)
Q Consensus 20 ~~e~~L~~~F~~~-G~i~~~~~-~~g~afV~f~~~~ 53 (173)
++.++|..+|..+ +.-.-+.+ ..++..|.++...
T Consensus 32 ~~~~~i~~~~~~~~~~~igl~~~~~gl~viDiD~~~ 67 (163)
T PF09250_consen 32 TDPEQIERWWRRYPGANIGLVLGPSGLVVIDIDNKD 67 (163)
T ss_dssp THHHHHHHHHH--TT-EEEEESSGGGEEEEEES-HH
T ss_pred CCHHHHHHHHhhCCCceEEEEecCCceEEEECCCcc
Confidence 5678899999876 33334444 4789999999888
No 272
>PRK10536 hypothetical protein; Provisional
Probab=21.90 E-value=3.7e+02 Score=21.43 Aligned_cols=32 Identities=9% Similarity=0.146 Sum_probs=22.6
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI 40 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~ 40 (173)
+..|+|-.. .+++.++++.++...|+=..+.|
T Consensus 177 ~~~vIvDEa--qn~~~~~~k~~ltR~g~~sk~v~ 208 (262)
T PRK10536 177 NAVVILDEA--QNVTAAQMKMFLTRLGENVTVIV 208 (262)
T ss_pred CCEEEEech--hcCCHHHHHHHHhhcCCCCEEEE
Confidence 456666665 47888889999988886555544
No 273
>PHA01632 hypothetical protein
Probab=21.89 E-value=74 Score=19.05 Aligned_cols=19 Identities=11% Similarity=0.410 Sum_probs=15.0
Q ss_pred EcCCCCCCCCHHHHHHhhcc
Q 030662 12 VINFDPIRTRERDIKRHFEP 31 (173)
Q Consensus 12 V~nL~p~~~~e~~L~~~F~~ 31 (173)
|..+ |..-|+++|+.++.+
T Consensus 21 ieqv-p~kpteeelrkvlpk 39 (64)
T PHA01632 21 IEQV-PQKPTEEELRKVLPK 39 (64)
T ss_pred hhhc-CCCCCHHHHHHHHHH
Confidence 4577 888999999887755
No 274
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=21.62 E-value=5.2e+02 Score=23.36 Aligned_cols=73 Identities=8% Similarity=0.118 Sum_probs=49.0
Q ss_pred CCCEEEEcCCCCCCCCHHHHHHhhccCC-CeEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCeecCceEEEEEee
Q 030662 6 PTKTLFVINFDPIRTRERDIKRHFEPYG-NVLHVRIRRNFAFVQFETQEEATKALESTDRSKLVDRVISVEYAL 78 (173)
Q Consensus 6 ~~~~l~V~nL~p~~~~e~~L~~~F~~~G-~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~i~g~~l~v~~a~ 78 (173)
+...|.|.+......+.+.++.++.+-+ .+..+.+..+-..|.|.+.++..+|.+.|....-....+.+.++.
T Consensus 39 ~~pavqis~~~~~~~~~~~~~~~l~~~~i~~~~~~~~~~~~~~r~~~~~~q~~a~~~l~~~l~~~y~valnl~~ 112 (604)
T PRK12933 39 EDAAVQVSAKAGLLLNVVELRQLLQAQGINVKRIDQKEGKTLIVLDDDSQQSQAKTLLSSMVKEPKELTLSLAS 112 (604)
T ss_pred CCCeEEEecCCCCcchHHHHHHHHHHCCCCCceEEEeCCEEEEEECCHHHHHHHHHHHHHhcCCCcEEEEecCc
Confidence 3445666655223445677888888766 456666677889999999998888887776544444555555543
No 275
>KOG0524 consensus Pyruvate dehydrogenase E1, beta subunit [Energy production and conversion]
Probab=21.58 E-value=3.5e+02 Score=22.06 Aligned_cols=58 Identities=17% Similarity=0.289 Sum_probs=32.9
Q ss_pred CCCCEEEEcC-----CCCCCCCHHHHHHhhc-cCCCeEEEEeeCCeEEEEeC-CHHHHHHHHHhcC
Q 030662 5 RPTKTLFVIN-----FDPIRTRERDIKRHFE-PYGNVLHVRIRRNFAFVQFE-TQEEATKALESTD 63 (173)
Q Consensus 5 ~~~~~l~V~n-----L~p~~~~e~~L~~~F~-~~G~i~~~~~~~g~afV~f~-~~~~a~~A~~~l~ 63 (173)
+++..||+.| + ++.+.++.|-+-|- .+|+-+-..--....+|.|. ....+.+|.+.|.
T Consensus 195 d~NPVV~lEnelLYg~-~f~i~~E~ls~~fv~p~gkAkier~G~~iTivt~Sr~v~~~leAA~~L~ 259 (359)
T KOG0524|consen 195 DENPVVFLENELLYGL-SFEIPEEALSKDFVLPLGKAKIEREGTHITIVTYSRMVGHCLEAAETLV 259 (359)
T ss_pred CCCCeEEEechhhcCC-CccCChhhcCcceeeeccceeeeecCCceEEEEechhHHHHHHHHHHHH
Confidence 4566777664 5 56777777765553 56643322223456777777 3444455544443
No 276
>PF05711 TylF: Macrocin-O-methyltransferase (TylF); InterPro: IPR008884 This family consists of bacterial macrocin O-methyltransferase (TylF) proteins. TylF is responsible for the methylation of macrocin to produce tylosin. Tylosin is a macrolide antibiotic used in veterinary medicine to treat infections caused by Gram-positive bacteria and as an animal growth promoter in the Sus scrofa (Pig) industry. It is produced by several Streptomyces species. As with other macrolides, the antibiotic activity of tylosin is due to the inhibition of protein biosynthesis by a mechanism that involves the binding of tylosin to the ribosome, preventing the formation of the mRNA-aminoacyl-tRNA-ribosome complex [].; PDB: 3TOS_D 2WK1_A.
Probab=21.47 E-value=92 Score=24.55 Aligned_cols=55 Identities=20% Similarity=0.270 Sum_probs=32.0
Q ss_pred CCHHHHHHhhccCCCeE-EEEee-------------CCeEE--EEeCCHHHHHHHHHhcCCCeecCceEEE
Q 030662 20 TRERDIKRHFEPYGNVL-HVRIR-------------RNFAF--VQFETQEEATKALESTDRSKLVDRVISV 74 (173)
Q Consensus 20 ~~e~~L~~~F~~~G~i~-~~~~~-------------~g~af--V~f~~~~~a~~A~~~l~g~~i~g~~l~v 74 (173)
++.+++++.|.+||.+. .|.+. ..+|| |...--+....||+.|-.....|-.|.+
T Consensus 140 ~s~e~V~~n~~~~gl~~~~v~~vkG~F~dTLp~~p~~~IAll~lD~DlYesT~~aLe~lyprl~~GGiIi~ 210 (248)
T PF05711_consen 140 VSLEEVRENFARYGLLDDNVRFVKGWFPDTLPDAPIERIALLHLDCDLYESTKDALEFLYPRLSPGGIIIF 210 (248)
T ss_dssp HHHHHHHHCCCCTTTSSTTEEEEES-HHHHCCC-TT--EEEEEE---SHHHHHHHHHHHGGGEEEEEEEEE
T ss_pred cCHHHHHHHHHHcCCCcccEEEECCcchhhhccCCCccEEEEEEeccchHHHHHHHHHHHhhcCCCeEEEE
Confidence 45678899999998422 23331 22444 4555677788888877666655555544
No 277
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=21.42 E-value=1.9e+02 Score=17.08 Aligned_cols=40 Identities=10% Similarity=0.060 Sum_probs=33.2
Q ss_pred HHHHHHhhccCCCeEEEEeeCC----eEEEEeCCHHHHHHHHHh
Q 030662 22 ERDIKRHFEPYGNVLHVRIRRN----FAFVQFETQEEATKALES 61 (173)
Q Consensus 22 e~~L~~~F~~~G~i~~~~~~~g----~afV~f~~~~~a~~A~~~ 61 (173)
.+++.+.+...-+|..|...-| .+.|.+.+.++.+..+..
T Consensus 12 ~~~~~~~l~~~p~V~~~~~vtG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 12 YDEFAEALAEIPEVVECYSVTGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHTSTTEEEEEEESSSSSEEEEEEESSHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCEEEEEEEeCCCCEEEEEEECCHHHHHHHHHH
Confidence 6788899999999999988554 577899999999998544
No 278
>PF01329 Pterin_4a: Pterin 4 alpha carbinolamine dehydratase; InterPro: IPR001533 DCoH is the dimerisation cofactor of hepatocyte nuclear factor 1 (HNF-1) that functions as both a transcriptional coactivator and a pterin dehydratase []. X-ray crystallographic studies have shown that the ligand binds at four sites per tetrameric enzyme, with little apparent conformational change in the protein.; GO: 0008124 4-alpha-hydroxytetrahydrobiopterin dehydratase activity, 0006729 tetrahydrobiopterin biosynthetic process; PDB: 2V6T_B 2V6U_A 2V6S_B 2EBB_A 1USM_A 1F93_B 1DCP_C 1DCH_E 3HXA_E 1DCO_C ....
Probab=21.33 E-value=2.4e+02 Score=18.39 Aligned_cols=63 Identities=14% Similarity=0.048 Sum_probs=32.1
Q ss_pred CCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhc-------CC---CeecCceEEEEEeecC
Q 030662 18 IRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALEST-------DR---SKLVDRVISVEYALKD 80 (173)
Q Consensus 18 ~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l-------~g---~~i~g~~l~v~~a~~~ 80 (173)
..+++++|...+.....-....=..-..-+.|.+-..|...|..+ +. ..+....|.|.+....
T Consensus 3 ~~Ls~~ei~~~L~~l~~W~~~~~~~l~r~f~f~~f~~a~~f~~~Va~~ae~~~HHP~i~~~~~~V~v~l~Th~ 75 (95)
T PF01329_consen 3 PPLSEEEIAEALAELPGWKLDGGGRLERTFKFKDFAEAVEFVNRVAALAEEENHHPDISLGYNRVTVTLTTHD 75 (95)
T ss_dssp SB-THHHHHHHHHTSTTSEEETSSEEEEEEE-SSHHHHHHHHHHHHHHHHHHT---EEEEETTEEEEEE-BTT
T ss_pred CCCCHHHHHHhhhcCcCCEECCCCcEEEEEEeCCHHHHHHHHHHHHHHHHHhCCCCCeEecCCcEEEEEEeCC
Confidence 357788888888755322221100012335778877776544322 22 3456777888776543
No 279
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=21.22 E-value=2.6e+02 Score=23.47 Aligned_cols=44 Identities=18% Similarity=0.351 Sum_probs=30.1
Q ss_pred CCHHHHHHhhccCC-CeE----EEEe------eCCeEEEEeCCHHHHHHHHHhcC
Q 030662 20 TRERDIKRHFEPYG-NVL----HVRI------RRNFAFVQFETQEEATKALESTD 63 (173)
Q Consensus 20 ~~e~~L~~~F~~~G-~i~----~~~~------~~g~afV~f~~~~~a~~A~~~l~ 63 (173)
.+-.+++++|..-- .|. .+.| +.-+-||+..+.+++..||+.|.
T Consensus 3 ~~~~~~~~~~~~~~~~i~~~~~~l~~lDq~~lP~~~~~~~~~~~~~v~~aI~~M~ 57 (363)
T PRK05772 3 LTVKEVKELFKPKLLPIIWKDNTLTLLDQSLLPFETVYVDLKTVEEVALAIRNMQ 57 (363)
T ss_pred chHHHHHHHhCCCCceEEecCCEEEEEecCCCCCeEEEEEeCCHHHHHHHHHhCc
Confidence 45677888887421 111 1222 45689999999999999998874
No 280
>PHA03008 hypothetical protein; Provisional
Probab=21.15 E-value=1.7e+02 Score=22.53 Aligned_cols=44 Identities=14% Similarity=0.164 Sum_probs=31.3
Q ss_pred CCEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCC
Q 030662 7 TKTLFVINFDPIRTRERDIKRHFEPYGNVLHVRIRRNFAFVQFET 51 (173)
Q Consensus 7 ~~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~ 51 (173)
+..+||.|+ ..--+..-++.+|.+|..+.++.+..|--=|.|.+
T Consensus 21 ~d~~~~sni-t~~h~~n~i~~ff~~~d~~~~~ifvpg~~dilfd~ 64 (234)
T PHA03008 21 CDIAFISNI-THIHDHNIIKIFFDKFDDFDEIIFVPGDIDILFDD 64 (234)
T ss_pred ccEEEEecc-cccccccHHHHHHhhccccceEEEccCCcceEecC
Confidence 457889999 44566777888999999888887765544444443
No 281
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.09 E-value=1.8e+02 Score=16.60 Aligned_cols=43 Identities=19% Similarity=0.170 Sum_probs=24.1
Q ss_pred HHHHHHhhccCC-CeEEEEe--e--CCeEE--EEeCCHHHHHHHHHhcCCC
Q 030662 22 ERDIKRHFEPYG-NVLHVRI--R--RNFAF--VQFETQEEATKALESTDRS 65 (173)
Q Consensus 22 e~~L~~~F~~~G-~i~~~~~--~--~g~af--V~f~~~~~a~~A~~~l~g~ 65 (173)
-.+|..+|.++| .|..+.. . .+.+. +..++.+.+.++++. +|.
T Consensus 13 L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve~~~~~~~~L~~-~G~ 62 (65)
T cd04882 13 LHEILQILSEEGINIEYMYAFVEKKGGKALLIFRTEDIEKAIEVLQE-RGV 62 (65)
T ss_pred HHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeCCHHHHHHHHHH-CCc
Confidence 356677777776 5654443 1 24444 445566666666654 444
No 282
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=21.06 E-value=1.7e+02 Score=23.53 Aligned_cols=40 Identities=10% Similarity=0.299 Sum_probs=28.9
Q ss_pred CCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCC
Q 030662 19 RTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDR 64 (173)
Q Consensus 19 ~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g 64 (173)
.+|+++|+.+|..+.+ .+. ...|.+.+.+.|+++++.+..
T Consensus 128 ~Vtd~ei~~~y~~~~~--~~~----v~hIlv~~~~~A~~v~~~l~~ 167 (298)
T PRK04405 128 KVTNSQLKKAWKSYQP--KVT----VQHILVSKKSTAETVIKKLKD 167 (298)
T ss_pred CCCHHHHHHHHHHhhh--hEE----EEEEEecChHHHHHHHHHHHC
Confidence 5899999999987643 122 245667788889888887643
No 283
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=21.02 E-value=2.9e+02 Score=24.55 Aligned_cols=42 Identities=24% Similarity=0.309 Sum_probs=30.6
Q ss_pred CHHHHHHhhc----cCCCeEEEEee-------CCeEEEEeCCHHHHHHHHHhc
Q 030662 21 RERDIKRHFE----PYGNVLHVRIR-------RNFAFVQFETQEEATKALEST 62 (173)
Q Consensus 21 ~e~~L~~~F~----~~G~i~~~~~~-------~g~afV~f~~~~~a~~A~~~l 62 (173)
+.-+|..+|. .+|-|+++.|. ...+++.|.+.++|.+|+..+
T Consensus 279 ~g~dL~~l~~GseGtLGIIT~~tlrl~p~P~~~~~~~~~f~~~~~a~~av~~i 331 (555)
T PLN02805 279 AGYDLTRLVIGSEGTLGVITEVTLRLQKIPQHSVVAMCNFPTIKDAADVAIAT 331 (555)
T ss_pred CCccHHHHhccCCCceEEEEEEEEEeecCCcceEEEEEEcCCHHHHHHHHHHH
Confidence 3457777772 47788888771 346788999999998887664
No 284
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=20.96 E-value=1.1e+02 Score=23.61 Aligned_cols=24 Identities=21% Similarity=0.115 Sum_probs=19.9
Q ss_pred EEEEcCCCCCCCCHHHHHHhhccCC
Q 030662 9 TLFVINFDPIRTRERDIKRHFEPYG 33 (173)
Q Consensus 9 ~l~V~nL~p~~~~e~~L~~~F~~~G 33 (173)
.+.|+|| |+.++...|..++..++
T Consensus 96 ~~vvsNl-Py~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNL-PYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcC-ChhhHHHHHHHHhccCC
Confidence 3779999 99999999999997444
No 285
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=20.71 E-value=1.7e+02 Score=20.43 Aligned_cols=30 Identities=43% Similarity=0.478 Sum_probs=20.1
Q ss_pred CCCHHHHHHhhccCCCeEEEEeeCCeEEEEeCCHHHHHHHHHhcCC
Q 030662 19 RTRERDIKRHFEPYGNVLHVRIRRNFAFVQFETQEEATKALESTDR 64 (173)
Q Consensus 19 ~~~e~~L~~~F~~~G~i~~~~~~~g~afV~f~~~~~a~~A~~~l~g 64 (173)
.++++||+-+.++.|. +.++|.+||+..+|
T Consensus 82 ~i~eeDIkLV~eQa~V----------------sreeA~kAL~e~~G 111 (122)
T COG1308 82 DISEEDIKLVMEQAGV----------------SREEAIKALEEAGG 111 (122)
T ss_pred CCCHHHHHHHHHHhCC----------------CHHHHHHHHHHcCC
Confidence 3555666666655542 57889999988666
No 286
>KOG1635 consensus Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=20.27 E-value=2.6e+02 Score=21.03 Aligned_cols=68 Identities=15% Similarity=0.074 Sum_probs=39.8
Q ss_pred CEEEEcCCCCCCCCHHHHHHhhccCCCeEEEEe-----eCCe-EEEEeCCHHHHHHHHHhcCCCee-cCceEEEEE
Q 030662 8 KTLFVINFDPIRTRERDIKRHFEPYGNVLHVRI-----RRNF-AFVQFETQEEATKALESTDRSKL-VDRVISVEY 76 (173)
Q Consensus 8 ~~l~V~nL~p~~~~e~~L~~~F~~~G~i~~~~~-----~~g~-afV~f~~~~~a~~A~~~l~g~~i-~g~~l~v~~ 76 (173)
..|-|.-= |..++-++|.++|........+.- -..| .-|.|.+.++.+.|.+.|...+. .+..|..++
T Consensus 76 EvvrV~yd-pk~~sy~~Lld~Fw~~HdPtt~n~QG~D~GtQYRS~I~~~s~eq~k~A~~s~e~~Q~k~~~kI~T~I 150 (191)
T KOG1635|consen 76 EVVRVQYD-PKVISYEELLDFFWSRHDPTTLNRQGNDVGTQYRSGIYTYSPEQEKLARESKEREQKKWNGKIVTEI 150 (191)
T ss_pred eEEEEEeC-cccccHHHHHHHHHHcCCchhhhccCCcccceeeeeeeeCCHHHHHHHHHHHHHHHhccCCcceEEE
Confidence 34555444 788899999999987654433221 0112 23567778888888777655433 244444443
No 287
>KOG0829 consensus 60S ribosomal protein L18A [Translation, ribosomal structure and biogenesis]
Probab=20.17 E-value=1.4e+02 Score=21.87 Aligned_cols=50 Identities=14% Similarity=0.478 Sum_probs=30.1
Q ss_pred CCCCCCCEEEEcCCCCCCCCH-----------HHHHHhhccCCCeEEEEe--------eCCeE-EEEeCCHH
Q 030662 2 ANQRPTKTLFVINFDPIRTRE-----------RDIKRHFEPYGNVLHVRI--------RRNFA-FVQFETQE 53 (173)
Q Consensus 2 ~~~~~~~~l~V~nL~p~~~~e-----------~~L~~~F~~~G~i~~~~~--------~~g~a-fV~f~~~~ 53 (173)
++.+|...||.+-| +..++ +.|+.+=..-|+|+.|.- .+.|| ++.|.+..
T Consensus 12 Te~~p~p~l~~m~i--fa~N~V~AKsrfwyfl~~l~KvKks~Geiv~i~qi~E~~p~~vkNfGIwlrYdSRs 81 (169)
T KOG0829|consen 12 TEKEPTPKLYRMRI--FAPNHVVAKSRFWYFLSKLKKVKKSSGEIVAINQIFEKSPLKVKNFGIWLRYDSRS 81 (169)
T ss_pred CCCCCCCceEEEEE--eccceeehhHHHHHHHHHHHHHhhcCceEEEeceecCCCCceeeeeEEEEEEccCC
Confidence 45677788888877 33332 344455555688888754 25565 46666544
No 288
>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional
Probab=20.06 E-value=1.6e+02 Score=21.40 Aligned_cols=31 Identities=10% Similarity=-0.023 Sum_probs=21.2
Q ss_pred eEEEEeeCCeEEEEeCCHHHHHHHHHhcCCCe
Q 030662 35 VLHVRIRRNFAFVQFETQEEATKALESTDRSK 66 (173)
Q Consensus 35 i~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~ 66 (173)
|..+.+.++..+|.|....+.++|.. |.|..
T Consensus 34 v~~~r~~~~~~lv~f~gi~dr~~Ae~-L~g~~ 64 (161)
T PRK13828 34 VALARPAKDGLVARLKGVATREAAEA-LRGLE 64 (161)
T ss_pred EEEEEEECCEEEEEECCCCCHHHHHH-hcCCE
Confidence 34444467888999998888777754 55544
No 289
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=20.04 E-value=1.3e+02 Score=18.03 Aligned_cols=19 Identities=16% Similarity=0.282 Sum_probs=15.2
Q ss_pred CCeEEEEeCCHHHHHHHHH
Q 030662 42 RNFAFVQFETQEEATKALE 60 (173)
Q Consensus 42 ~g~afV~f~~~~~a~~A~~ 60 (173)
....+|+|.+.+.|.+...
T Consensus 39 ~~~viieFPs~~aa~~~~~ 57 (65)
T PF07045_consen 39 DRVVIIEFPSMEAAKAWYN 57 (65)
T ss_dssp SEEEEEEESSHHHHHHHHC
T ss_pred CeEEEEECCCHHHHHHHHC
Confidence 3478899999999888753
Done!