Query psy11978
Match_columns 91
No_of_seqs 181 out of 1191
Neff 9.4
Searched_HMMs 46136
Date Fri Aug 16 15:29:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11978.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11978hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.8 1.7E-19 3.8E-24 107.7 10.1 66 24-89 31-97 (144)
2 KOG0149|consensus 99.8 4.2E-19 9E-24 111.4 6.8 65 25-89 10-75 (247)
3 TIGR01659 sex-lethal sex-letha 99.8 6.3E-18 1.4E-22 112.9 9.7 67 23-89 103-170 (346)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 4.2E-18 9.1E-23 113.3 8.7 63 27-89 3-66 (352)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 8.9E-18 1.9E-22 111.7 10.0 63 27-89 269-332 (352)
6 KOG0122|consensus 99.7 2.1E-17 4.6E-22 104.3 8.3 66 24-89 186-252 (270)
7 PF00076 RRM_1: RNA recognitio 99.7 5.2E-17 1.1E-21 85.2 8.0 59 30-89 1-60 (70)
8 TIGR01659 sex-lethal sex-letha 99.7 6.6E-17 1.4E-21 108.1 9.0 65 26-90 192-257 (346)
9 TIGR01645 half-pint poly-U bin 99.7 1.4E-16 3.1E-21 112.2 8.5 65 25-89 105-170 (612)
10 TIGR01648 hnRNP-R-Q heterogene 99.7 2.1E-16 4.6E-21 110.9 9.1 65 24-89 55-120 (578)
11 KOG0117|consensus 99.7 3.3E-16 7.2E-21 105.6 8.2 68 23-90 79-147 (506)
12 KOG0144|consensus 99.7 3.8E-16 8.2E-21 105.1 7.6 75 15-89 22-97 (510)
13 TIGR01645 half-pint poly-U bin 99.7 5.2E-16 1.1E-20 109.4 8.6 64 26-89 203-267 (612)
14 PF14259 RRM_6: RNA recognitio 99.6 2.1E-15 4.5E-20 79.6 8.3 59 30-89 1-60 (70)
15 TIGR01628 PABP-1234 polyadenyl 99.6 1.2E-15 2.7E-20 107.0 8.8 62 29-90 2-64 (562)
16 TIGR01622 SF-CC1 splicing fact 99.6 2.8E-15 6E-20 102.8 10.2 63 25-87 87-150 (457)
17 TIGR01642 U2AF_lg U2 snRNP aux 99.6 2.8E-15 6E-20 103.9 9.6 64 26-89 294-358 (509)
18 KOG0113|consensus 99.6 4.5E-15 9.8E-20 96.1 8.0 63 24-86 98-161 (335)
19 KOG0121|consensus 99.6 2.2E-15 4.7E-20 87.4 5.7 66 24-89 33-99 (153)
20 TIGR01622 SF-CC1 splicing fact 99.6 6.9E-15 1.5E-19 100.9 9.1 63 27-89 186-249 (457)
21 KOG0126|consensus 99.6 7.5E-17 1.6E-21 98.3 -0.5 65 23-87 31-96 (219)
22 KOG0148|consensus 99.6 3.7E-15 8E-20 95.6 6.8 63 27-89 62-125 (321)
23 PLN03213 repressor of silencin 99.6 3.9E-15 8.5E-20 102.1 7.3 61 25-89 8-71 (759)
24 KOG0107|consensus 99.6 2.5E-15 5.4E-20 91.0 5.6 58 27-89 10-68 (195)
25 PLN03120 nucleic acid binding 99.6 8.2E-15 1.8E-19 94.0 7.9 59 27-89 4-63 (260)
26 KOG4207|consensus 99.6 6.4E-15 1.4E-19 91.5 6.3 65 25-89 11-76 (256)
27 TIGR01628 PABP-1234 polyadenyl 99.6 2E-14 4.4E-19 100.9 8.7 64 25-89 283-347 (562)
28 KOG0144|consensus 99.6 3.4E-15 7.3E-20 100.6 3.9 63 26-89 123-186 (510)
29 COG0724 RNA-binding proteins ( 99.5 3.6E-14 7.9E-19 89.6 8.2 63 27-89 115-178 (306)
30 KOG0130|consensus 99.5 2.8E-14 6.2E-19 83.5 6.6 69 21-89 66-135 (170)
31 KOG0111|consensus 99.5 4.9E-15 1.1E-19 92.9 3.3 68 23-90 6-74 (298)
32 smart00362 RRM_2 RNA recogniti 99.5 1E-13 2.2E-18 72.0 7.9 59 29-89 1-60 (72)
33 KOG0148|consensus 99.5 4.6E-14 9.9E-19 90.6 7.4 63 22-90 159-222 (321)
34 KOG0145|consensus 99.5 8.1E-15 1.8E-19 93.9 4.0 70 20-89 120-190 (360)
35 PLN03121 nucleic acid binding 99.5 6.8E-14 1.5E-18 88.8 7.9 59 25-86 3-62 (243)
36 KOG0125|consensus 99.5 4.7E-14 1E-18 92.4 7.1 63 25-89 94-157 (376)
37 smart00360 RRM RNA recognition 99.5 1.8E-13 3.9E-18 70.8 7.2 58 32-89 1-59 (71)
38 KOG0108|consensus 99.5 1E-13 2.2E-18 94.8 6.4 62 28-89 19-81 (435)
39 KOG0145|consensus 99.5 1.4E-13 3E-18 88.3 6.5 63 27-89 41-104 (360)
40 KOG0127|consensus 99.5 2.3E-13 4.9E-18 94.1 7.9 64 25-88 290-354 (678)
41 KOG0131|consensus 99.5 1.3E-13 2.8E-18 84.1 5.0 65 25-89 7-72 (203)
42 KOG0114|consensus 99.5 8.8E-13 1.9E-17 74.1 7.8 64 23-89 14-78 (124)
43 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 9.5E-13 2.1E-17 91.4 8.6 60 25-89 273-334 (481)
44 KOG0124|consensus 99.4 1.3E-13 2.9E-18 91.9 4.0 63 27-89 113-176 (544)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 6.4E-13 1.4E-17 92.2 7.4 56 27-88 2-58 (481)
46 KOG0146|consensus 99.4 4.2E-13 9.2E-18 86.4 5.8 69 21-89 279-348 (371)
47 KOG0147|consensus 99.4 2.4E-13 5.2E-18 93.6 4.5 61 29-89 280-341 (549)
48 cd00590 RRM RRM (RNA recogniti 99.4 4.3E-12 9.4E-17 66.1 8.2 60 29-89 1-61 (74)
49 KOG0105|consensus 99.4 7.2E-13 1.6E-17 81.4 4.8 62 25-89 4-66 (241)
50 KOG0127|consensus 99.4 1.8E-12 3.9E-17 89.8 6.4 63 27-89 5-68 (678)
51 TIGR01648 hnRNP-R-Q heterogene 99.3 8.7E-12 1.9E-16 88.0 8.4 56 26-89 232-290 (578)
52 KOG0146|consensus 99.3 4.3E-12 9.4E-17 81.8 5.3 63 26-89 18-81 (371)
53 smart00361 RRM_1 RNA recogniti 99.3 2.8E-11 6.1E-16 64.0 6.5 49 41-89 2-58 (70)
54 KOG4205|consensus 99.3 5.3E-12 1.1E-16 83.3 4.4 61 26-86 5-66 (311)
55 KOG0124|consensus 99.3 1.1E-11 2.5E-16 82.8 6.0 64 26-89 209-273 (544)
56 KOG0123|consensus 99.3 2.1E-11 4.6E-16 82.3 6.9 58 30-90 79-137 (369)
57 TIGR01642 U2AF_lg U2 snRNP aux 99.2 5.6E-11 1.2E-15 82.6 8.4 58 23-86 171-241 (509)
58 KOG0131|consensus 99.2 1.4E-11 3E-16 75.3 4.3 64 26-89 95-160 (203)
59 KOG4212|consensus 99.2 1.4E-10 3E-15 79.0 8.1 65 25-90 42-108 (608)
60 KOG4208|consensus 99.2 1.4E-10 3E-15 72.1 7.4 64 27-90 49-114 (214)
61 KOG0415|consensus 99.2 3.9E-11 8.5E-16 79.8 5.1 65 25-89 237-302 (479)
62 KOG0117|consensus 99.1 1.6E-10 3.4E-15 78.6 6.6 54 28-89 260-314 (506)
63 KOG0132|consensus 99.1 1.6E-10 3.5E-15 82.7 5.9 57 27-89 421-478 (894)
64 KOG0109|consensus 99.1 1.5E-10 3.2E-15 75.3 3.8 53 29-89 4-57 (346)
65 KOG4205|consensus 99.0 6E-10 1.3E-14 73.7 5.9 54 27-80 97-150 (311)
66 KOG0110|consensus 99.0 4.5E-10 9.7E-15 79.7 4.4 63 27-89 613-676 (725)
67 KOG0123|consensus 99.0 1.5E-09 3.3E-14 73.5 6.6 56 29-90 3-59 (369)
68 KOG0116|consensus 99.0 1.3E-09 2.9E-14 74.5 5.7 62 27-88 288-350 (419)
69 KOG0533|consensus 99.0 2.5E-09 5.4E-14 68.6 6.5 65 24-89 80-145 (243)
70 KOG4206|consensus 99.0 3.7E-09 8E-14 66.5 6.8 59 28-89 10-73 (221)
71 KOG0153|consensus 98.9 4.7E-09 1E-13 69.7 6.5 59 23-87 224-283 (377)
72 KOG4660|consensus 98.9 2.7E-09 5.9E-14 74.1 4.9 61 24-89 72-133 (549)
73 PF13893 RRM_5: RNA recognitio 98.9 9.3E-09 2E-13 51.9 5.5 41 44-89 1-42 (56)
74 KOG4661|consensus 98.9 5.8E-09 1.3E-13 73.4 6.1 65 25-89 403-468 (940)
75 KOG0226|consensus 98.8 5.5E-09 1.2E-13 66.9 4.4 65 25-89 188-253 (290)
76 KOG0109|consensus 98.8 5.3E-09 1.1E-13 68.2 3.9 59 24-90 75-134 (346)
77 KOG4209|consensus 98.8 9.7E-09 2.1E-13 65.7 4.5 64 23-86 97-161 (231)
78 KOG0110|consensus 98.7 4.1E-08 8.8E-13 70.0 5.9 61 29-89 517-581 (725)
79 KOG0151|consensus 98.7 4.9E-08 1.1E-12 69.9 5.9 67 24-90 171-241 (877)
80 KOG0106|consensus 98.6 2.5E-08 5.4E-13 63.0 3.0 55 28-90 2-57 (216)
81 KOG4212|consensus 98.6 9.5E-08 2E-12 65.5 5.3 62 23-89 532-594 (608)
82 PF04059 RRM_2: RNA recognitio 98.6 7.1E-07 1.5E-11 50.0 7.5 59 28-86 2-63 (97)
83 KOG1457|consensus 98.6 5.9E-07 1.3E-11 57.0 7.5 65 25-89 32-98 (284)
84 KOG4454|consensus 98.4 1.4E-07 3E-12 59.7 2.4 63 25-89 7-70 (267)
85 KOG4849|consensus 98.4 1.3E-07 2.9E-12 63.3 1.9 51 29-79 82-134 (498)
86 KOG0120|consensus 98.4 3.6E-07 7.8E-12 63.8 3.2 63 27-89 289-352 (500)
87 KOG0147|consensus 98.3 1.7E-07 3.8E-12 65.3 1.3 63 23-85 175-238 (549)
88 KOG1548|consensus 98.3 9.2E-06 2E-10 54.3 7.9 63 26-89 133-204 (382)
89 KOG0129|consensus 98.3 5.3E-06 1.1E-10 57.8 7.0 66 22-87 365-432 (520)
90 KOG4211|consensus 98.2 8.3E-06 1.8E-10 56.6 7.5 61 25-88 8-69 (510)
91 PF08777 RRM_3: RNA binding mo 98.1 1.2E-05 2.7E-10 45.7 5.6 55 28-88 2-57 (105)
92 KOG4206|consensus 98.0 3.1E-05 6.7E-10 49.1 6.5 61 23-88 142-203 (221)
93 KOG0129|consensus 98.0 1.6E-05 3.5E-10 55.4 5.5 57 27-84 259-321 (520)
94 KOG4210|consensus 98.0 3.9E-06 8.5E-11 55.3 2.4 60 27-86 184-245 (285)
95 KOG1457|consensus 98.0 1.2E-05 2.6E-10 51.2 4.3 58 26-87 209-267 (284)
96 KOG1995|consensus 97.9 2.8E-05 6.1E-10 52.1 5.0 66 24-89 63-137 (351)
97 KOG4211|consensus 97.9 0.00012 2.6E-09 51.0 7.9 60 27-87 103-164 (510)
98 PF14605 Nup35_RRM_2: Nup53/35 97.5 0.00047 1E-08 34.5 5.1 51 28-85 2-53 (53)
99 KOG1855|consensus 97.4 0.00035 7.7E-09 48.2 5.0 65 25-89 229-307 (484)
100 PF08675 RNA_bind: RNA binding 97.4 0.0018 3.8E-08 35.4 6.6 53 28-89 10-63 (87)
101 KOG2314|consensus 97.4 0.00037 7.9E-09 49.6 4.7 61 28-89 59-126 (698)
102 KOG3152|consensus 97.3 0.00041 8.8E-09 45.0 4.2 62 28-89 75-149 (278)
103 KOG0106|consensus 97.3 0.00024 5.2E-09 45.1 2.5 60 23-90 95-155 (216)
104 KOG0128|consensus 97.2 1.7E-05 3.6E-10 58.1 -3.5 61 27-87 667-728 (881)
105 KOG1365|consensus 97.1 0.0034 7.3E-08 43.1 6.8 59 28-87 162-225 (508)
106 KOG0128|consensus 96.8 0.0006 1.3E-08 50.4 1.7 57 28-85 737-794 (881)
107 KOG0115|consensus 96.8 0.0021 4.5E-08 41.8 3.5 59 28-87 32-91 (275)
108 COG5175 MOT2 Transcriptional r 96.7 0.0052 1.1E-07 41.7 5.2 61 29-89 116-186 (480)
109 KOG1190|consensus 96.6 0.0019 4.2E-08 44.5 2.9 48 26-79 27-74 (492)
110 KOG0105|consensus 96.6 0.011 2.3E-07 37.1 5.8 55 28-89 116-171 (241)
111 KOG2193|consensus 96.5 0.0035 7.5E-08 43.6 3.3 55 29-89 3-58 (584)
112 KOG2416|consensus 96.4 0.0043 9.3E-08 44.6 3.6 61 23-89 440-502 (718)
113 KOG1190|consensus 96.3 0.017 3.7E-07 40.0 6.0 58 27-89 297-356 (492)
114 PF11608 Limkain-b1: Limkain b 96.3 0.023 4.9E-07 31.2 5.3 51 29-89 4-60 (90)
115 PF10309 DUF2414: Protein of u 96.1 0.07 1.5E-06 27.5 6.4 53 28-88 6-62 (62)
116 KOG4307|consensus 96.1 0.03 6.5E-07 41.3 6.4 62 28-89 868-930 (944)
117 KOG1456|consensus 96.0 0.06 1.3E-06 37.1 7.3 63 23-90 283-347 (494)
118 KOG1365|consensus 96.0 0.013 2.7E-07 40.4 4.1 57 29-86 282-342 (508)
119 PF05172 Nup35_RRM: Nup53/35/4 95.5 0.094 2E-06 29.6 5.6 60 27-87 6-73 (100)
120 KOG0120|consensus 95.5 0.051 1.1E-06 38.7 5.4 47 43-89 425-475 (500)
121 KOG0112|consensus 95.4 0.0036 7.8E-08 46.7 -0.4 52 24-76 369-420 (975)
122 KOG0112|consensus 95.2 0.037 8.1E-07 41.7 4.2 58 24-87 452-510 (975)
123 KOG2202|consensus 94.7 0.012 2.6E-07 38.3 0.7 41 50-91 92-133 (260)
124 KOG4307|consensus 94.5 0.033 7.1E-07 41.1 2.4 61 24-85 431-493 (944)
125 KOG2253|consensus 94.3 0.07 1.5E-06 39.0 3.7 62 17-87 30-92 (668)
126 KOG1548|consensus 94.0 0.22 4.7E-06 34.0 5.4 62 24-89 262-335 (382)
127 KOG4676|consensus 93.6 0.067 1.4E-06 37.1 2.5 50 29-78 9-61 (479)
128 KOG4210|consensus 93.4 0.07 1.5E-06 35.4 2.3 61 26-86 87-148 (285)
129 PF03467 Smg4_UPF3: Smg-4/UPF3 93.3 0.23 5E-06 30.7 4.4 61 25-85 5-72 (176)
130 KOG1456|consensus 93.2 0.98 2.1E-05 31.4 7.5 52 33-89 128-180 (494)
131 KOG2068|consensus 93.1 0.12 2.6E-06 34.9 3.1 62 28-89 78-146 (327)
132 KOG2591|consensus 93.1 0.75 1.6E-05 33.5 7.0 60 22-88 170-232 (684)
133 PF15023 DUF4523: Protein of u 92.4 0.7 1.5E-05 28.0 5.3 58 24-88 83-145 (166)
134 KOG4660|consensus 88.7 0.97 2.1E-05 32.6 4.2 39 51-89 413-452 (549)
135 KOG4676|consensus 87.0 0.12 2.7E-06 35.8 -0.9 58 28-89 152-210 (479)
136 KOG1996|consensus 86.4 2.7 6E-05 28.4 5.1 48 42-89 301-350 (378)
137 KOG2891|consensus 84.6 1.9 4E-05 29.0 3.7 35 27-61 149-195 (445)
138 PF07576 BRAP2: BRCA1-associat 84.2 5.9 0.00013 22.7 8.9 60 28-89 13-75 (110)
139 PF15513 DUF4651: Domain of un 77.9 7.5 0.00016 20.0 3.8 18 42-59 9-26 (62)
140 KOG4410|consensus 77.9 16 0.00034 24.9 6.1 43 28-76 331-374 (396)
141 KOG4285|consensus 76.3 22 0.00047 24.3 7.1 53 28-87 198-251 (350)
142 PF09707 Cas_Cas2CT1978: CRISP 74.7 7.3 0.00016 21.4 3.4 45 29-76 27-71 (86)
143 PF08952 DUF1866: Domain of un 74.5 13 0.00028 22.5 4.7 37 43-87 52-89 (146)
144 PRK01178 rps24e 30S ribosomal 73.6 13 0.00028 20.9 4.4 44 38-82 30-78 (99)
145 KOG4454|consensus 72.0 0.86 1.9E-05 29.5 -0.7 49 26-75 79-131 (267)
146 COG0724 RNA-binding proteins ( 69.3 17 0.00037 22.5 4.8 51 23-73 221-271 (306)
147 PF07292 NID: Nmi/IFP 35 domai 68.0 3.4 7.3E-05 22.8 1.2 26 24-49 49-74 (88)
148 PF10567 Nab6_mRNP_bdg: RNA-re 68.0 6.8 0.00015 26.4 2.8 37 27-63 15-51 (309)
149 KOG4365|consensus 67.1 1.7 3.8E-05 30.9 -0.1 60 29-88 5-64 (572)
150 PRK11558 putative ssRNA endonu 65.6 16 0.00035 20.5 3.6 45 29-76 29-73 (97)
151 PF11411 DNA_ligase_IV: DNA li 62.3 7.1 0.00015 17.9 1.5 16 37-52 19-34 (36)
152 PTZ00071 40S ribosomal protein 62.1 26 0.00056 20.9 4.2 43 38-81 35-83 (132)
153 KOG4008|consensus 62.1 8.3 0.00018 25.3 2.3 33 24-56 37-69 (261)
154 KOG0804|consensus 61.9 54 0.0012 23.7 6.3 61 27-89 74-136 (493)
155 PF01282 Ribosomal_S24e: Ribos 61.0 25 0.00054 19.0 5.0 45 37-82 11-60 (84)
156 COG0030 KsgA Dimethyladenosine 60.8 12 0.00026 24.7 2.9 35 28-62 96-130 (259)
157 PRK11901 hypothetical protein; 60.4 40 0.00086 23.2 5.3 53 34-88 249-304 (327)
158 KOG4483|consensus 59.0 54 0.0012 23.5 5.8 52 27-85 391-444 (528)
159 PF03439 Spt5-NGN: Early trans 56.0 20 0.00043 19.3 2.9 21 68-88 43-64 (84)
160 PRK15464 cold shock-like prote 53.1 18 0.0004 18.9 2.4 8 68-75 15-22 (70)
161 PRK09937 stationary phase/star 52.0 20 0.00044 18.9 2.4 8 68-75 12-19 (74)
162 KOG2318|consensus 51.6 36 0.00079 25.3 4.2 39 24-62 171-214 (650)
163 KOG3424|consensus 51.3 49 0.0011 19.4 4.3 44 38-81 34-82 (132)
164 KOG4574|consensus 50.6 9.9 0.00021 29.4 1.4 54 29-88 300-354 (1007)
165 PF00398 RrnaAD: Ribosomal RNA 50.2 24 0.00053 22.9 3.1 23 27-49 97-119 (262)
166 PRK15463 cold shock-like prote 49.9 23 0.0005 18.4 2.4 8 68-75 15-22 (70)
167 PRK09507 cspE cold shock prote 49.8 22 0.00047 18.4 2.3 8 68-75 14-21 (69)
168 PF04026 SpoVG: SpoVG; InterP 49.5 43 0.00092 18.2 3.6 24 54-77 3-26 (84)
169 PRK10943 cold shock-like prote 48.8 23 0.00049 18.3 2.3 8 68-75 14-21 (69)
170 TIGR02381 cspD cold shock doma 48.2 26 0.00057 18.0 2.5 8 68-75 12-19 (68)
171 PRK14998 cold shock-like prote 48.0 26 0.00056 18.4 2.4 8 68-75 12-19 (73)
172 KOG2295|consensus 47.6 2 4.4E-05 31.3 -2.3 50 27-76 231-280 (648)
173 PRK00274 ksgA 16S ribosomal RN 46.9 31 0.00066 22.6 3.2 22 29-50 107-128 (272)
174 PF10999 DUF2839: Protein of u 46.8 20 0.00043 18.8 1.8 36 1-45 1-36 (68)
175 COG0481 LepA Membrane GTPase L 46.7 27 0.00058 25.7 3.0 47 28-75 298-345 (603)
176 PHA01632 hypothetical protein 46.5 25 0.00055 17.7 2.1 21 30-50 19-39 (64)
177 PF05189 RTC_insert: RNA 3'-te 45.5 53 0.0011 18.1 3.8 46 29-74 12-62 (103)
178 PF04847 Calcipressin: Calcipr 45.2 59 0.0013 20.4 4.1 43 41-89 9-52 (184)
179 PRK13259 regulatory protein Sp 44.9 50 0.0011 18.5 3.3 23 54-76 3-25 (94)
180 PRK10354 RNA chaperone/anti-te 43.6 31 0.00067 17.8 2.3 7 69-75 16-22 (70)
181 PF03880 DbpA: DbpA RNA bindin 42.5 20 0.00043 18.6 1.5 46 37-90 11-61 (74)
182 PRK09890 cold shock protein Cs 41.7 14 0.00031 19.2 0.9 8 68-75 15-22 (70)
183 TIGR02542 B_forsyth_147 Bacter 41.6 21 0.00046 20.9 1.6 41 36-76 83-126 (145)
184 PF03468 XS: XS domain; Inter 40.9 72 0.0016 18.4 4.8 35 39-76 29-63 (116)
185 TIGR00755 ksgA dimethyladenosi 40.5 53 0.0011 21.2 3.5 24 29-52 96-119 (253)
186 PF12157 DUF3591: Protein of u 39.8 43 0.00094 24.1 3.2 43 30-75 356-398 (457)
187 cd00027 BRCT Breast Cancer Sup 39.5 46 0.001 15.7 3.2 27 28-54 2-28 (72)
188 PF15407 Spo7_2_N: Sporulation 39.4 22 0.00048 18.5 1.3 22 24-45 24-45 (67)
189 PTZ00338 dimethyladenosine tra 38.8 40 0.00087 22.6 2.8 30 29-58 103-132 (294)
190 PF08206 OB_RNB: Ribonuclease 38.3 20 0.00043 17.8 1.0 9 68-76 7-15 (58)
191 PHA02531 20 portal vertex prot 37.5 30 0.00065 25.2 2.1 24 28-51 282-305 (514)
192 COG2004 RPS24A Ribosomal prote 37.4 83 0.0018 18.1 5.0 45 37-81 30-79 (107)
193 TIGR01873 cas_CT1978 CRISPR-as 37.2 75 0.0016 17.5 3.5 45 29-76 27-72 (87)
194 COG5638 Uncharacterized conser 35.6 59 0.0013 23.4 3.2 37 24-60 143-184 (622)
195 PF00313 CSD: 'Cold-shock' DNA 35.2 25 0.00054 17.6 1.1 9 68-76 11-19 (66)
196 cd04458 CSP_CDS Cold-Shock Pro 35.2 24 0.00053 17.6 1.1 7 69-75 12-18 (65)
197 smart00650 rADc Ribosomal RNA 33.3 91 0.002 18.6 3.6 22 29-50 79-100 (169)
198 COG1278 CspC Cold shock protei 32.2 35 0.00076 17.8 1.4 8 68-75 12-19 (67)
199 PF09902 DUF2129: Uncharacteri 31.1 88 0.0019 16.5 4.1 35 47-89 16-50 (71)
200 PF14893 PNMA: PNMA 30.9 45 0.00097 23.0 2.1 22 28-49 19-40 (331)
201 PRK14548 50S ribosomal protein 30.8 97 0.0021 16.9 5.4 53 29-84 22-77 (84)
202 PF13046 DUF3906: Protein of u 30.6 87 0.0019 16.2 2.6 33 40-74 31-63 (64)
203 PF00054 Laminin_G_1: Laminin 29.8 10 0.00022 21.9 -1.0 9 28-36 93-101 (131)
204 PF07230 Peptidase_S80: Bacter 28.4 64 0.0014 23.5 2.5 22 30-51 281-302 (501)
205 cd00874 RNA_Cyclase_Class_II R 27.8 89 0.0019 21.4 3.1 45 29-75 188-236 (326)
206 PRK10905 cell division protein 27.7 2.1E+02 0.0046 19.8 5.9 53 34-88 251-306 (328)
207 KOG2944|consensus 27.6 38 0.00083 20.9 1.2 23 66-88 111-136 (170)
208 PF15063 TC1: Thyroid cancer p 27.1 64 0.0014 17.3 1.8 31 24-54 22-52 (79)
209 PF10281 Ish1: Putative stress 26.8 66 0.0014 14.4 1.7 17 38-54 3-19 (38)
210 PF01984 dsDNA_bind: Double-st 24.3 54 0.0012 18.7 1.4 20 33-52 75-94 (107)
211 PF14401 RLAN: RimK-like ATPgr 24.2 1.7E+02 0.0038 17.6 4.8 49 27-75 87-136 (153)
212 cd06257 DnaJ DnaJ domain or J- 23.9 81 0.0018 14.7 1.8 19 33-51 6-24 (55)
213 PF14581 SseB_C: SseB protein 23.6 67 0.0015 17.8 1.7 48 28-75 6-55 (108)
214 PF14112 DUF4284: Domain of un 23.6 1E+02 0.0022 17.8 2.5 18 29-49 3-20 (122)
215 smart00596 PRE_C2HC PRE_C2HC d 22.9 1.3E+02 0.0029 15.8 4.1 34 42-75 2-36 (69)
216 COG5193 LHP1 La protein, small 22.8 47 0.001 23.6 1.0 59 28-86 175-244 (438)
217 KOG2135|consensus 22.6 67 0.0015 23.4 1.8 37 26-62 371-408 (526)
218 PF00276 Ribosomal_L23: Riboso 22.5 1.5E+02 0.0032 16.2 2.9 34 29-62 21-56 (91)
219 PF11004 Kdo_hydroxy: 3-deoxy- 22.3 2E+02 0.0043 19.5 3.8 45 25-70 19-64 (281)
220 PF03672 UPF0154: Uncharacteri 22.1 97 0.0021 16.0 1.9 18 36-53 29-46 (64)
221 PF09702 Cas_Csa5: CRISPR-asso 21.7 1.4E+02 0.0031 17.0 2.7 22 24-48 61-82 (105)
222 TIGR03636 L23_arch archaeal ri 21.7 1.5E+02 0.0032 15.8 5.6 52 29-83 15-69 (77)
223 COG0445 GidA Flavin-dependent 21.6 2.7E+02 0.0059 21.1 4.6 38 24-61 298-335 (621)
224 PRK04239 hypothetical protein; 21.3 99 0.0021 17.8 2.0 20 32-51 79-98 (110)
225 TIGR00006 S-adenosyl-methyltra 20.9 66 0.0014 21.9 1.4 19 38-56 140-158 (305)
226 PRK02302 hypothetical protein; 20.9 1.7E+02 0.0036 16.2 3.5 33 48-88 23-55 (89)
227 PRK00050 16S rRNA m(4)C1402 me 20.7 67 0.0015 21.7 1.4 19 38-56 138-156 (296)
228 KOG0156|consensus 20.3 2.7E+02 0.0058 20.3 4.4 51 29-88 34-88 (489)
229 COG0150 PurM Phosphoribosylami 20.1 23 0.0005 24.5 -0.8 43 43-89 277-320 (345)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.82 E-value=1.7e-19 Score=107.67 Aligned_cols=66 Identities=30% Similarity=0.405 Sum_probs=60.8
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
....++|||+|||+.+++++|+++|++||.|.++.++.++.+++++|||||+| +.++|++||+.+|
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~ln 97 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMD 97 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcC
Confidence 34456899999999999999999999999999999999999999999999998 5599999999876
No 2
>KOG0149|consensus
Probab=99.79 E-value=4.2e-19 Score=111.36 Aligned_cols=65 Identities=29% Similarity=0.444 Sum_probs=58.8
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
....+||||+|+|.+..+.|++.|++||+|++..++.|+.||++||||||+|.+ +.|.+|++--|
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~ 75 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN 75 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC
Confidence 345689999999999999999999999999999999999999999999999954 88999987543
No 3
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.76 E-value=6.3e-18 Score=112.94 Aligned_cols=67 Identities=22% Similarity=0.320 Sum_probs=61.6
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
.....++|||++||+++++++|+++|+.||.|.+|+|+.+..+++++|||||+| +.++|++||+.+|
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~Ln 170 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLN 170 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcC
Confidence 445567999999999999999999999999999999999999999999999999 5589999999876
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.76 E-value=4.2e-18 Score=113.25 Aligned_cols=63 Identities=27% Similarity=0.446 Sum_probs=59.2
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
..+|||+|||..+++++|+++|+.||+|.+|+|++++.+|+++|||||+|. .++|++||+.+|
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~ 66 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLN 66 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcc
Confidence 458999999999999999999999999999999999999999999999985 499999999876
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.76 E-value=8.9e-18 Score=111.68 Aligned_cols=63 Identities=30% Similarity=0.365 Sum_probs=59.3
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
+.+|||+|||+.+++++|+++|++||.|.+++|++++.||.++|||||.|. .++|.+||+++|
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~ln 332 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLN 332 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhC
Confidence 347999999999999999999999999999999999999999999999985 599999999887
No 6
>KOG0122|consensus
Probab=99.73 E-value=2.1e-17 Score=104.28 Aligned_cols=66 Identities=30% Similarity=0.368 Sum_probs=61.5
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..+..+|-|.||+.++++++|+++|.+||.|.++.|.+++.||.++|||||.| +.++|++||+.||
T Consensus 186 R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~Ln 252 (270)
T KOG0122|consen 186 RDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLN 252 (270)
T ss_pred CCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHcc
Confidence 34567899999999999999999999999999999999999999999999998 5599999999887
No 7
>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=99.73 E-value=5.2e-17 Score=85.25 Aligned_cols=59 Identities=32% Similarity=0.617 Sum_probs=54.8
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 30 MFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 30 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
|||+|||+++++++|+++|++||.+..+.+..+ .++..+|||||+| +.++|++|++.+|
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~ 60 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELN 60 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcC
Confidence 799999999999999999999999999999998 4899999999998 5599999999776
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=99.71 E-value=6.6e-17 Score=108.06 Aligned_cols=65 Identities=29% Similarity=0.553 Sum_probs=60.2
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
...+|||+|||+.+++++|+++|++||.|..+.|++++.+++++|||||+| +.++|++||+++|-
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng 257 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNN 257 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCC
Confidence 356899999999999999999999999999999999999999999999998 45999999998873
No 9
>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=99.69 E-value=1.4e-16 Score=112.17 Aligned_cols=65 Identities=26% Similarity=0.423 Sum_probs=60.5
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
...++|||||||+.+++++|+++|..||.|.+|+++.++.+|+++|||||+|. .++|+.||+.+|
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~ln 170 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMN 170 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcC
Confidence 44578999999999999999999999999999999999999999999999995 599999999876
No 10
>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=99.69 E-value=2.1e-16 Score=110.95 Aligned_cols=65 Identities=28% Similarity=0.500 Sum_probs=60.0
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+...++|||+|||+++++++|+++|++||.|.+++|++| .+|+++|||||+| +.++|++||+.+|
T Consensus 55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~ln 120 (578)
T TIGR01648 55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLN 120 (578)
T ss_pred CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcC
Confidence 344689999999999999999999999999999999999 6999999999998 4599999999887
No 11
>KOG0117|consensus
Probab=99.67 E-value=3.3e-16 Score=105.63 Aligned_cols=68 Identities=29% Similarity=0.579 Sum_probs=63.7
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
..+.++.||||.||.++.|++|..+|++.|+|-+++|+.|+.+|.+||||||.| +.++|+.||+.+|.
T Consensus 79 ~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn 147 (506)
T KOG0117|consen 79 PPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNN 147 (506)
T ss_pred CCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhC
Confidence 446688999999999999999999999999999999999999999999999998 56999999999884
No 12
>KOG0144|consensus
Probab=99.66 E-value=3.8e-16 Score=105.10 Aligned_cols=75 Identities=45% Similarity=0.718 Sum_probs=65.9
Q ss_pred cCCCCCCCCCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 15 RSMSLPEQPDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 15 ~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
++....+.++.+..++|||.+|+.++|.||+++|++||.|..|.|++|+.|+.++|||||.| +.++|.+|+.++.
T Consensus 22 ~~~~~~d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alh 97 (510)
T KOG0144|consen 22 GSLDHTDNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALH 97 (510)
T ss_pred CCCCCCCCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhh
Confidence 34445556667778999999999999999999999999999999999999999999999997 6688888888764
No 13
>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=99.66 E-value=5.2e-16 Score=109.41 Aligned_cols=64 Identities=20% Similarity=0.378 Sum_probs=60.0
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
..++|||+|||+++++++|+++|+.||.|.++++++++.+|+++|||||+|. .++|.+||+++|
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amN 267 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 267 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhC
Confidence 3468999999999999999999999999999999999989999999999984 589999999988
No 14
>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=99.65 E-value=2.1e-15 Score=79.56 Aligned_cols=59 Identities=31% Similarity=0.527 Sum_probs=52.9
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 30 MFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 30 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
|||+|||+++++++|+++|+.||.|..+.+..++. +..+|+|||+| +.++|+.|++..+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCC
Confidence 79999999999999999999999999999999986 99999999998 5599999998765
No 15
>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=99.64 E-value=1.2e-15 Score=107.03 Aligned_cols=62 Identities=29% Similarity=0.413 Sum_probs=58.6
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
+|||||||.++|+++|+++|+.||.|.+|++.++..|++++|||||+| +.++|++||+.+|.
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~ 64 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNF 64 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCC
Confidence 699999999999999999999999999999999998999999999998 55999999998874
No 16
>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=99.64 E-value=2.8e-15 Score=102.84 Aligned_cols=63 Identities=25% Similarity=0.351 Sum_probs=58.1
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhh
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEP 87 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~ 87 (91)
.+.++|||+|||+.+++++|+++|+.||.|..|.++.++.+|+++|||||+| +.++|++||..
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l 150 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALAL 150 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHh
Confidence 3467899999999999999999999999999999999999999999999998 55999999963
No 17
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.63 E-value=2.8e-15 Score=103.94 Aligned_cols=64 Identities=22% Similarity=0.442 Sum_probs=59.5
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
...+|||+|||+.+++++|+++|+.||.|..+.++.+..+|.++|||||+|. .+.|+.||+.+|
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~ 358 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALN 358 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcC
Confidence 3468999999999999999999999999999999999989999999999985 589999999886
No 18
>KOG0113|consensus
Probab=99.61 E-value=4.5e-15 Score=96.07 Aligned_cols=63 Identities=32% Similarity=0.511 Sum_probs=55.5
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHh
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIE 86 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~ 86 (91)
.++-+||||+.|+++++|..|+..|+.||.|+.|+|+++..||+++|||||+|.+ .+..+|.+
T Consensus 98 gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK 161 (335)
T KOG0113|consen 98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYK 161 (335)
T ss_pred CCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHH
Confidence 4567899999999999999999999999999999999999999999999999865 44444443
No 19
>KOG0121|consensus
Probab=99.60 E-value=2.2e-15 Score=87.41 Aligned_cols=66 Identities=18% Similarity=0.175 Sum_probs=60.1
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
...+++||||||++.++|+++.++|+.+|.|..|.+-.|+.+...-|||||+| +.++|+.|+.-+|
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryis 99 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYIS 99 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhc
Confidence 44568999999999999999999999999999999999999999999999996 5599999998765
No 20
>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=99.60 E-value=6.9e-15 Score=100.89 Aligned_cols=63 Identities=30% Similarity=0.530 Sum_probs=59.3
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..+|||+|||..+++++|+++|+.||.|..|.++.+..+|+++|||||+| +.++|..|++.+|
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~ 249 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMN 249 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcC
Confidence 57899999999999999999999999999999999998999999999998 5599999999887
No 21
>KOG0126|consensus
Probab=99.60 E-value=7.5e-17 Score=98.27 Aligned_cols=65 Identities=32% Similarity=0.532 Sum_probs=55.2
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhh
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEP 87 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~ 87 (91)
.-.++..|||||||+..||.+|--+|++||++++|.+++|+.||+++||||+.+.+ ...--|+..
T Consensus 31 ~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN 96 (219)
T KOG0126|consen 31 EYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDN 96 (219)
T ss_pred hcccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEec
Confidence 44566789999999999999999999999999999999999999999999998754 443334433
No 22
>KOG0148|consensus
Probab=99.60 E-value=3.7e-15 Score=95.55 Aligned_cols=63 Identities=32% Similarity=0.499 Sum_probs=59.4
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..-+|||.|...++.++|++.|.+||+|.++++++|..|+++||||||.| ..++|+.||+.+|
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~Mn 125 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMN 125 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhC
Confidence 34699999999999999999999999999999999999999999999997 5599999999987
No 23
>PLN03213 repressor of silencing 3; Provisional
Probab=99.60 E-value=3.9e-15 Score=102.12 Aligned_cols=61 Identities=18% Similarity=0.276 Sum_probs=53.6
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-H--HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-L--KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~--~~a~~Ai~~~n 89 (91)
....+||||||++.+++++|+..|..||.|.+|.|+ +.+| ||||||+|. . .++.+||.++|
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLN 71 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYN 71 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhc
Confidence 345689999999999999999999999999999999 4467 899999973 3 57899999887
No 24
>KOG0107|consensus
Probab=99.59 E-value=2.5e-15 Score=91.04 Aligned_cols=58 Identities=24% Similarity=0.340 Sum_probs=52.9
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
.++||||||+..+++.+|+.+|..||.|..|.|...+ .|||||+|.+ .+|+.|+..|+
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LD 68 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLD 68 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcC
Confidence 5689999999999999999999999999999987765 8999999965 89999998886
No 25
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.59 E-value=8.2e-15 Score=94.05 Aligned_cols=59 Identities=14% Similarity=0.126 Sum_probs=52.4
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
.++|||+|||+.+++++|+++|+.||.|.+|.|+.++. .+|||||+|. .++|+.||. +|
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-Ln 63 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LS 63 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hc
Confidence 46899999999999999999999999999999998863 4799999995 488999995 54
No 26
>KOG4207|consensus
Probab=99.58 E-value=6.4e-15 Score=91.51 Aligned_cols=65 Identities=26% Similarity=0.404 Sum_probs=59.1
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
.....|-|-||.+-++.++|+.+|++||.|-+|.|++|+.|+.++|||||.|.+ .+|+.|++++.
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damD 76 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMD 76 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhc
Confidence 334679999999999999999999999999999999999999999999999854 88999988874
No 27
>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=99.56 E-value=2e-14 Score=100.95 Aligned_cols=64 Identities=22% Similarity=0.367 Sum_probs=58.7
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
....+|||+||++++++++|+++|+.||.|.+++++.+. +|.++|||||+|. .++|.+|+.++|
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~-~g~~~g~gfV~f~~~~~A~~A~~~~~ 347 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDE-KGVSRGFGFVCFSNPEEANRAVTEMH 347 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECC-CCCcCCeEEEEeCCHHHHHHHHHHhc
Confidence 345689999999999999999999999999999999994 9999999999984 599999999876
No 28
>KOG0144|consensus
Probab=99.55 E-value=3.4e-15 Score=100.60 Aligned_cols=63 Identities=30% Similarity=0.517 Sum_probs=59.0
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+.++||||.|+..++|.+++++|++||.|++|.|.++. .+.+||||||.|+. +.|..||+++|
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~n 186 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALN 186 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhc
Confidence 35789999999999999999999999999999999998 89999999999854 89999999987
No 29
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.55 E-value=3.6e-14 Score=89.62 Aligned_cols=63 Identities=33% Similarity=0.551 Sum_probs=59.3
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
..+|||+|||+.+++++|.++|..||.+..+.+..++.+|.++|||||+|. .+++..|++.+|
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~ 178 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELN 178 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcC
Confidence 579999999999999999999999999999999999889999999999984 589999999887
No 30
>KOG0130|consensus
Probab=99.54 E-value=2.8e-14 Score=83.55 Aligned_cols=69 Identities=30% Similarity=0.398 Sum_probs=63.2
Q ss_pred CCCCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 21 EQPDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 21 ~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
++.+.++--|||.++...++++++.+.|..||+|+.+++-.|+.||..+|||.|++ +.++|++||.++|
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~N 135 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALN 135 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhcc
Confidence 44555666799999999999999999999999999999999999999999999997 5699999999998
No 31
>KOG0111|consensus
Probab=99.54 E-value=4.9e-15 Score=92.92 Aligned_cols=68 Identities=21% Similarity=0.239 Sum_probs=62.2
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcCC
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQKA 90 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n~ 90 (91)
.....++||||+|...+++.-|...|-+||.|.+|.++.|..++++||||||+|.. ++|.+||..+|-
T Consensus 6 ~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMne 74 (298)
T KOG0111|consen 6 MANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNE 74 (298)
T ss_pred ccccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCch
Confidence 34455799999999999999999999999999999999999999999999999965 999999998873
No 32
>smart00362 RRM_2 RNA recognition motif.
Probab=99.53 E-value=1e-13 Score=72.00 Aligned_cols=59 Identities=34% Similarity=0.592 Sum_probs=53.4
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
+|||+|||..+++++|+++|..||.+..+.+..++ +.++|+|||+|. .++|+.|++.++
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~ 60 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALN 60 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhC
Confidence 58999999999999999999999999999988776 778999999984 589999998776
No 33
>KOG0148|consensus
Probab=99.53 E-value=4.6e-14 Score=90.60 Aligned_cols=63 Identities=27% Similarity=0.457 Sum_probs=57.5
Q ss_pred CCCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 22 QPDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 22 ~~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
+.+++.++|||||++..+++++|++.|+.||.|.+|++..++ ||+||.| +.|.|.+||..+|.
T Consensus 159 Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNn 222 (321)
T KOG0148|consen 159 QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNN 222 (321)
T ss_pred cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcC
Confidence 457778999999999999999999999999999999998886 9999998 55999999998884
No 34
>KOG0145|consensus
Probab=99.53 E-value=8.1e-15 Score=93.89 Aligned_cols=70 Identities=29% Similarity=0.452 Sum_probs=62.4
Q ss_pred CCCCCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 20 PEQPDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 20 ~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+.++.-...+|||.+||..+|..+|+++|++||.|..-+|..|..||.+||.|||.|+. .+|+.||..+|
T Consensus 120 PSs~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lN 190 (360)
T KOG0145|consen 120 PSSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLN 190 (360)
T ss_pred CChhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhcc
Confidence 33444455689999999999999999999999999888888898899999999999976 89999999987
No 35
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.52 E-value=6.8e-14 Score=88.84 Aligned_cols=59 Identities=15% Similarity=0.189 Sum_probs=51.7
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHh
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIE 86 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~ 86 (91)
+.+.+|||+||++.+|+++|+++|+.||.|.+|.|+++. ..+|||||+|.+ +.++.|+.
T Consensus 3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll 62 (243)
T PLN03121 3 PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVL 62 (243)
T ss_pred CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHh
Confidence 346799999999999999999999999999999999885 445899999955 78888874
No 36
>KOG0125|consensus
Probab=99.52 E-value=4.7e-14 Score=92.43 Aligned_cols=63 Identities=24% Similarity=0.337 Sum_probs=55.7
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
...++|+|+|||+...+-||+.+|.+||.|.+|.|+.+. .-+||||||+|+ .++|++|-++++
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LH 157 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELH 157 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhh
Confidence 334689999999999999999999999999999999886 447999999984 589999988875
No 37
>smart00360 RRM RNA recognition motif.
Probab=99.50 E-value=1.8e-13 Score=70.77 Aligned_cols=58 Identities=34% Similarity=0.592 Sum_probs=53.1
Q ss_pred EcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 32 VGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 32 V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
|+|||..+++++|+++|++||.+..+.+..++.++.++|+|||+| +.++|..|+..++
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC
Confidence 579999999999999999999999999999887899999999998 5589999998776
No 38
>KOG0108|consensus
Probab=99.48 E-value=1e-13 Score=94.76 Aligned_cols=62 Identities=32% Similarity=0.413 Sum_probs=59.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+.+||||+|+++++++|..+|+..|.|.+++++.|+.||+.+||||++|.+ +.++.|++.+|
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lN 81 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLN 81 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcC
Confidence 789999999999999999999999999999999999999999999999866 99999999887
No 39
>KOG0145|consensus
Probab=99.48 E-value=1.4e-13 Score=88.27 Aligned_cols=63 Identities=30% Similarity=0.437 Sum_probs=59.1
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..+|.|..||..+|+++++.+|...|+|++|++++|+-+|++.|||||-+ ..++|++||..+|
T Consensus 41 kTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlN 104 (360)
T KOG0145|consen 41 KTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLN 104 (360)
T ss_pred cceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhc
Confidence 35799999999999999999999999999999999999999999999986 6699999999877
No 40
>KOG0127|consensus
Probab=99.47 E-value=2.3e-13 Score=94.14 Aligned_cols=64 Identities=31% Similarity=0.445 Sum_probs=58.9
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhc
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQ 88 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~ 88 (91)
....+|||.|||+++++++|.+.|++||.|..+.++.++.|+.++|.|||.| +...++.||++-
T Consensus 290 ~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~A 354 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAA 354 (678)
T ss_pred cccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhc
Confidence 3457999999999999999999999999999999999999999999999998 568899999764
No 41
>KOG0131|consensus
Probab=99.46 E-value=1.3e-13 Score=84.12 Aligned_cols=65 Identities=25% Similarity=0.330 Sum_probs=59.8
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
....+||||||+..++++.|.++|-+.|+|..+++++++.+...+||||++| +.++|+=||+-+|
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHH
Confidence 3456999999999999999999999999999999999999999999999998 6699999998765
No 42
>KOG0114|consensus
Probab=99.45 E-value=8.8e-13 Score=74.13 Aligned_cols=64 Identities=17% Similarity=0.299 Sum_probs=54.6
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
++...+-|||.|||+.+|.+++.++|.+||.|..+++-..+. .+|-|||.+++ .+|.+|+..++
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhls 78 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHLS 78 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC---cCceEEEEehHhhhHHHHHHHhc
Confidence 344456799999999999999999999999999999866654 48999999866 89999998764
No 43
>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=99.43 E-value=9.5e-13 Score=91.36 Aligned_cols=60 Identities=17% Similarity=0.203 Sum_probs=53.7
Q ss_pred CCCceEEEcCCCC-CCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPR-SMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~-~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+.+.+|||+|||+ .+++++|+++|+.||.|.+|+++.++ +|||||+| +.++|+.||..+|
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~ln 334 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLN 334 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhC
Confidence 3567999999998 69999999999999999999998874 69999998 4599999999877
No 44
>KOG0124|consensus
Probab=99.43 E-value=1.3e-13 Score=91.85 Aligned_cols=63 Identities=27% Similarity=0.477 Sum_probs=59.6
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
.++||||.+.+.+.|+.|+..|..||+|+++.+..|+.|++++|||||++.. +.|+-|++.+|
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMN 176 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMN 176 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhc
Confidence 3689999999999999999999999999999999999999999999999865 89999999887
No 45
>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=99.42 E-value=6.4e-13 Score=92.23 Aligned_cols=56 Identities=21% Similarity=0.249 Sum_probs=50.3
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhc
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQ 88 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~ 88 (91)
++.|||+|||+.+++++|+++|++||.|.+|.++.+ +|||||+|. .++|++||+.+
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~ 58 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFA 58 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHh
Confidence 468999999999999999999999999999998853 589999985 59999999864
No 46
>KOG0146|consensus
Probab=99.42 E-value=4.2e-13 Score=86.37 Aligned_cols=69 Identities=28% Similarity=0.431 Sum_probs=64.8
Q ss_pred CCCCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 21 EQPDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 21 ~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
....+++|+|||=.||.+..+.+|.++|-.||.|.+.++..|+.|..+|+||||.|+. ..|++||.++|
T Consensus 279 qreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMN 348 (371)
T KOG0146|consen 279 QREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMN 348 (371)
T ss_pred hhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhc
Confidence 3467889999999999999999999999999999999999999999999999999865 89999999988
No 47
>KOG0147|consensus
Probab=99.41 E-value=2.4e-13 Score=93.63 Aligned_cols=61 Identities=30% Similarity=0.482 Sum_probs=57.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
.||||||++.+++++|+.+|+.||.|..|.++++..||.++|||||+| ..++|.+|++.+|
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~ln 341 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLN 341 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhc
Confidence 499999999999999999999999999999999999999999999998 4599999999887
No 48
>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=99.40 E-value=4.3e-12 Score=66.08 Aligned_cols=60 Identities=37% Similarity=0.602 Sum_probs=53.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+|+|++||..+++++|+++|..+|.+..+.+..++.+ ..+|+|||+| +.++|..|+..++
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~ 61 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALN 61 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhC
Confidence 4899999999999999999999999999999988744 7789999998 5689999998765
No 49
>KOG0105|consensus
Probab=99.38 E-value=7.2e-13 Score=81.37 Aligned_cols=62 Identities=21% Similarity=0.357 Sum_probs=52.9
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
...++|||||||.++.+.+++++|.+||.|..|.+...+ ...+||||+|.+ .+|+.||...|
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRd 66 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRD 66 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhccc
Confidence 345789999999999999999999999999999885544 346899999965 89999997654
No 50
>KOG0127|consensus
Probab=99.36 E-value=1.8e-12 Score=89.76 Aligned_cols=63 Identities=21% Similarity=0.291 Sum_probs=58.8
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+.+|||++||++++.++|.++|+.+|+|..+.++.+..++.++|||||.|.. ++++.|++..+
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~ 68 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETE 68 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhh
Confidence 3699999999999999999999999999999999999999999999999976 89999998654
No 51
>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=99.33 E-value=8.7e-12 Score=88.00 Aligned_cols=56 Identities=20% Similarity=0.269 Sum_probs=49.8
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcC--CCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEY--GRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~--G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..++|||+||++++++++|+++|++| |.|.+|.++ ++||||+| +.++|++||+++|
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~ln 290 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELN 290 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhC
Confidence 34689999999999999999999999 999998764 46999998 5599999999887
No 52
>KOG0146|consensus
Probab=99.31 E-value=4.3e-12 Score=81.78 Aligned_cols=63 Identities=33% Similarity=0.495 Sum_probs=57.8
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
+.++||||.|...-+|+|++.+|..||.|.+|.+.+.. .|.+||++||.|. ..+|++||.++.
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLH 81 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALH 81 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhc
Confidence 45789999999999999999999999999999999988 8999999999985 489999998764
No 53
>smart00361 RRM_1 RNA recognition motif.
Probab=99.27 E-value=2.8e-11 Score=64.03 Aligned_cols=49 Identities=27% Similarity=0.389 Sum_probs=42.2
Q ss_pred HHHHHHHhh----cCCCeeEEE-EeecCCC--CCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 41 EADLTKMFS----EYGRVYNIN-VLRDKVT--GQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 41 ~~~l~~~f~----~~G~i~~~~-~~~~~~t--g~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+++|+++|+ .||.|.++. ++.++.+ +.++|||||.| +.++|++|+..+|
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~ 58 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLN 58 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhC
Confidence 578888888 999999995 7777666 89999999998 5599999999887
No 54
>KOG4205|consensus
Probab=99.27 E-value=5.3e-12 Score=83.34 Aligned_cols=61 Identities=30% Similarity=0.440 Sum_probs=54.8
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHh
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIE 86 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~ 86 (91)
+.+++|||+|+|.++++.|++.|.+||++.+|.+++++.+++++||+||+|. ++...+++.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~ 66 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN 66 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec
Confidence 5679999999999999999999999999999999999999999999999986 455555543
No 55
>KOG0124|consensus
Probab=99.27 E-value=1.1e-11 Score=82.76 Aligned_cols=64 Identities=19% Similarity=0.342 Sum_probs=58.1
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
...+|||..++++.+++||+..|+.||+|.+|.+.+.+.++.++||||++|.. ...+.||..+|
T Consensus 209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMN 273 (544)
T KOG0124|consen 209 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 273 (544)
T ss_pred hhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcc
Confidence 34689999999999999999999999999999999999888999999999854 67788888877
No 56
>KOG0123|consensus
Probab=99.26 E-value=2.1e-11 Score=82.32 Aligned_cols=58 Identities=33% Similarity=0.517 Sum_probs=54.1
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 30 MFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 30 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
+||-||+++++..+|.++|+.||+|++|++..+. .| ++|| ||.| +.++|++||..+|-
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng 137 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNG 137 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999998 55 9999 9998 55899999999884
No 57
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.24 E-value=5.6e-11 Score=82.58 Aligned_cols=58 Identities=21% Similarity=0.330 Sum_probs=45.2
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcC------------CCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHh
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEY------------GRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIE 86 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~------------G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~ 86 (91)
.....++|||||||+.+++++|.++|..+ +.|..+. .++.+|||||+| +.++|+.||+
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~------~~~~kg~afVeF~~~e~A~~Al~ 241 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN------INKEKNFAFLEFRTVEEATFAMA 241 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE------ECCCCCEEEEEeCCHHHHhhhhc
Confidence 34456799999999999999999999875 2233333 245679999998 5699999994
No 58
>KOG0131|consensus
Probab=99.23 E-value=1.4e-11 Score=75.32 Aligned_cols=64 Identities=30% Similarity=0.372 Sum_probs=56.5
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeE-EEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYN-INVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~-~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
.+.++||+||.+.+++..|.+.|+.||.+.. -.++++..||.++|||||.+.. +.+.+||.++|
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~n 160 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMN 160 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhc
Confidence 3478999999999999999999999999765 4788999999999999998755 78888888876
No 59
>KOG4212|consensus
Probab=99.19 E-value=1.4e-10 Score=79.03 Aligned_cols=65 Identities=20% Similarity=0.279 Sum_probs=58.3
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhh-cCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcCC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFS-EYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQKA 90 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~-~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n~ 90 (91)
...+.+||.|||+++.+.+|+++|. +-|+|..|.+..|. +|+++|+|.|+|. .|.+++|++.+|.
T Consensus 42 ~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk 108 (608)
T KOG4212|consen 42 ARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNK 108 (608)
T ss_pred cccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhh
Confidence 3345699999999999999999997 57999999999998 9999999999994 5899999999884
No 60
>KOG4208|consensus
Probab=99.19 E-value=1.4e-10 Score=72.06 Aligned_cols=64 Identities=28% Similarity=0.414 Sum_probs=56.6
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcC-CCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcCC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEY-GRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQKA 90 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~-G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n~ 90 (91)
..-+||..+|....+.++...|.+| |.+...++.+++.||.++|||||+|. .+.|.-|-+.||.
T Consensus 49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNN 114 (214)
T KOG4208|consen 49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNN 114 (214)
T ss_pred ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhh
Confidence 3469999999999999999999988 77888899999999999999999995 4888888888874
No 61
>KOG0415|consensus
Probab=99.18 E-value=3.9e-11 Score=79.84 Aligned_cols=65 Identities=25% Similarity=0.328 Sum_probs=57.8
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
++..-|||..|.+.+++++|.-+|+.||.|..|.++++..||.+..||||+|.. ++.++|.-++.
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMd 302 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMD 302 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhc
Confidence 334579999999999999999999999999999999999999999999999955 77888876543
No 62
>KOG0117|consensus
Probab=99.14 E-value=1.6e-10 Score=78.61 Aligned_cols=54 Identities=24% Similarity=0.327 Sum_probs=48.6
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+-|||.||+.++|++.|++.|++||.|++|+.++ -||||.|.. ++|.+|++.+|
T Consensus 260 KvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~r--------DYaFVHf~eR~davkAm~~~n 314 (506)
T KOG0117|consen 260 KVLYVRNLMESTTEETLKKLFNEFGKVERVKKPR--------DYAFVHFAEREDAVKAMKETN 314 (506)
T ss_pred eeeeeeccchhhhHHHHHHHHHhccceEEeeccc--------ceeEEeecchHHHHHHHHHhc
Confidence 5699999999999999999999999999998664 499999854 99999999887
No 63
>KOG0132|consensus
Probab=99.11 E-value=1.6e-10 Score=82.74 Aligned_cols=57 Identities=26% Similarity=0.476 Sum_probs=51.5
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
++|||||+|+..+++.+|..+|+.||+|.+|.++.. +|||||.+ ...+|.+|+++++
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~ 478 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLS 478 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHh
Confidence 478999999999999999999999999999988665 49999995 6699999999876
No 64
>KOG0109|consensus
Probab=99.07 E-value=1.5e-10 Score=75.32 Aligned_cols=53 Identities=28% Similarity=0.560 Sum_probs=45.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+|||||||..+++.+|+.+|++||.|..|.|+++ ||||.. ++..++.||..|+
T Consensus 4 KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLh 57 (346)
T KOG0109|consen 4 KLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLH 57 (346)
T ss_pred chhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcc
Confidence 7999999999999999999999999999999775 677764 4467788888664
No 65
>KOG4205|consensus
Probab=99.04 E-value=6e-10 Score=73.70 Aligned_cols=54 Identities=28% Similarity=0.480 Sum_probs=50.2
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCHHH
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFLKI 80 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~~~ 80 (91)
..++|||+||.+++++++++.|.+||.|..+.++.|..+.+++||+||.|..++
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~ 150 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSED 150 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEecccc
Confidence 558999999999999999999999999999999999999999999999986643
No 66
>KOG0110|consensus
Probab=99.00 E-value=4.5e-10 Score=79.72 Aligned_cols=63 Identities=19% Similarity=0.325 Sum_probs=57.0
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..+|+|.|||+..+-.+++.+|..||.+.+|+|+.-...+.++|||||+| +..+|..|+.++.
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~ 676 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALG 676 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhc
Confidence 56899999999999999999999999999999988866788999999997 7788999987763
No 67
>KOG0123|consensus
Probab=99.00 E-value=1.5e-09 Score=73.46 Aligned_cols=56 Identities=32% Similarity=0.360 Sum_probs=52.4
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
.|||| +++|+.+|.++|+.+|.+.++++.+|. | +.|||||.| +..+|++||.++|.
T Consensus 3 sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~ 59 (369)
T KOG0123|consen 3 SLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNF 59 (369)
T ss_pred ceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCC
Confidence 68999 999999999999999999999999998 6 999999998 55999999999985
No 68
>KOG0116|consensus
Probab=98.97 E-value=1.3e-09 Score=74.49 Aligned_cols=62 Identities=19% Similarity=0.276 Sum_probs=50.7
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhc
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQ 88 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~ 88 (91)
..+|||.|||.+++.++|+++|..||.|+...|....-.+++.+||||+| +..+++.||++-
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As 350 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS 350 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC
Confidence 45699999999999999999999999999887754432455559999987 558889998763
No 69
>KOG0533|consensus
Probab=98.97 E-value=2.5e-09 Score=68.57 Aligned_cols=65 Identities=25% Similarity=0.358 Sum_probs=58.0
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+....+|+|.|||+.+++++|+++|..||.+..+.+..++ +|.+.|.|-|.|.. ++|.+|++.+|
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~ 145 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYN 145 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhc
Confidence 3344689999999999999999999999999999888888 99999999999866 69999998776
No 70
>KOG4206|consensus
Probab=98.96 E-value=3.7e-09 Score=66.48 Aligned_cols=59 Identities=19% Similarity=0.482 Sum_probs=50.7
Q ss_pred ceEEEcCCCCCCcHHHHHH----HhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTK----MFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~----~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
.+|||.||+..+..++|+. +|++||.|.+|.... +.+.+|=|||.|.. +.|..|+.+++
T Consensus 10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~ 73 (221)
T KOG4206|consen 10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQ 73 (221)
T ss_pred ceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhc
Confidence 4999999999999999887 999999999887644 66899999999855 88888888765
No 71
>KOG0153|consensus
Probab=98.92 E-value=4.7e-09 Score=69.65 Aligned_cols=59 Identities=25% Similarity=0.432 Sum_probs=49.9
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhh
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEP 87 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~ 87 (91)
.+....+|||++|-..+++.+|++.|.+||+|.++.+.... |+|||.|. .+.|+.|.++
T Consensus 224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~ 283 (377)
T KOG0153|consen 224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEK 283 (377)
T ss_pred cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHh
Confidence 34445789999999999999999999999999999987654 79999985 4788887764
No 72
>KOG4660|consensus
Probab=98.89 E-value=2.7e-09 Score=74.09 Aligned_cols=61 Identities=25% Similarity=0.401 Sum_probs=52.3
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
.....+|+|-|||.++++++|..+|+.||+|..++. |-..+|..||+| +..+|++|++++|
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~-----t~~~~~~~~v~FyDvR~A~~Alk~l~ 133 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE-----TPNKRGIVFVEFYDVRDAERALKALN 133 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc-----ccccCceEEEEEeehHhHHHHHHHHH
Confidence 344578999999999999999999999999988654 445689999997 4599999999987
No 73
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.88 E-value=9.3e-09 Score=51.87 Aligned_cols=41 Identities=34% Similarity=0.536 Sum_probs=34.4
Q ss_pred HHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 44 LTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 44 l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
|.++|++||.|..+.+..+. +++|||+| +.++|+.|++.+|
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~ 42 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLN 42 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHT
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhC
Confidence 67899999999999886654 69999998 5699999999876
No 74
>KOG4661|consensus
Probab=98.88 E-value=5.8e-09 Score=73.38 Aligned_cols=65 Identities=20% Similarity=0.256 Sum_probs=57.5
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
.-+++|||.+|+-.+...+|+.+|++||.|.-.+++.+..+.-.++|+||++ +..+|.++|+.|.
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLH 468 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLH 468 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhh
Confidence 3357899999999999999999999999999999999987888899999998 4589999998663
No 75
>KOG0226|consensus
Probab=98.83 E-value=5.5e-09 Score=66.95 Aligned_cols=65 Identities=25% Similarity=0.358 Sum_probs=58.5
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
.+..+||+|.|-.+++++.|...|.+|-.....++++++.||+++||+||.|. ..++..|+.++|
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~ 253 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMN 253 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhc
Confidence 34468999999999999999999999988888899999999999999999984 489999998876
No 76
>KOG0109|consensus
Probab=98.81 E-value=5.3e-09 Score=68.21 Aligned_cols=59 Identities=22% Similarity=0.287 Sum_probs=51.9
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcCC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQKA 90 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n~ 90 (91)
+....+|+||||.+.++..+|+..|++||.+..|.|++ +|+||.|+. ++|..||..+|.
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk--------dy~fvh~d~~eda~~air~l~~ 134 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK--------DYAFVHFDRAEDAVEAIRGLDN 134 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeec--------ceeEEEEeeccchHHHHhcccc
Confidence 34556899999999999999999999999999999865 589999876 899999988764
No 77
>KOG4209|consensus
Probab=98.79 E-value=9.7e-09 Score=65.66 Aligned_cols=64 Identities=19% Similarity=0.311 Sum_probs=57.5
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHh
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIE 86 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~ 86 (91)
...+...+||||+.+.++.++++..|+.||.+..+.++.++.+|.++||+||+|.. +.++.|+.
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~ 161 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK 161 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh
Confidence 44556789999999999999999999999999999999999999999999999855 88888887
No 78
>KOG0110|consensus
Probab=98.70 E-value=4.1e-08 Score=70.04 Aligned_cols=61 Identities=28% Similarity=0.332 Sum_probs=51.8
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCC---CcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTG---QSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg---~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+|||.||+++++.++|...|...|.|.++.|...+... .+.|||||+| +.+.|++|+++++
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lq 581 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQ 581 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhc
Confidence 39999999999999999999999999999876655221 3559999998 5599999999876
No 79
>KOG0151|consensus
Probab=98.68 E-value=4.9e-08 Score=69.92 Aligned_cols=67 Identities=21% Similarity=0.355 Sum_probs=56.2
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecC---CCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDK---VTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~---~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
++..+++||+||++.+++..|-..|..||+|..++++..+ +....+-+|||.| ...+|++|++.+|.
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg 241 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQG 241 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcc
Confidence 4556789999999999999999999999999999887765 2245667899986 77899999998763
No 80
>KOG0106|consensus
Probab=98.64 E-value=2.5e-08 Score=62.95 Aligned_cols=55 Identities=20% Similarity=0.398 Sum_probs=47.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcCC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQKA 90 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n~ 90 (91)
..+|||+||+.+.+.+|+.+|..||.+.++.+. .||+||+|.+ .+|..||..+|.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~ 57 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDG 57 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcC
Confidence 369999999999999999999999999988762 3789999865 899999988775
No 81
>KOG4212|consensus
Probab=98.60 E-value=9.5e-08 Score=65.53 Aligned_cols=62 Identities=19% Similarity=0.241 Sum_probs=52.3
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..+..++|||.|||++.|+..|++-|..||.+.+..|+. .|+++| .|.| +.++|+.|+..+|
T Consensus 532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mn 594 (608)
T KOG4212|consen 532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMN 594 (608)
T ss_pred ccccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhc
Confidence 345668899999999999999999999999999988733 577887 4555 6799999999876
No 82
>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=98.58 E-value=7.1e-07 Score=50.04 Aligned_cols=59 Identities=15% Similarity=0.126 Sum_probs=49.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhc--CCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHh
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSE--YGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIE 86 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~--~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~ 86 (91)
++|.|.|||...|.++|.+++.. .|....+.++.|..++-+.|||||-|. .+.+..-.+
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~ 63 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYK 63 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHH
Confidence 58999999999999999988865 377788999999989999999999984 455554443
No 83
>KOG1457|consensus
Probab=98.56 E-value=5.9e-07 Score=57.03 Aligned_cols=65 Identities=14% Similarity=0.168 Sum_probs=51.0
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecC-CCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDK-VTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~-~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
..-++|||.+||.++..-+|..+|..|-..+.+.+.... ...-.+-+||++|++ ..|++|+.++|
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLN 98 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALN 98 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhc
Confidence 346899999999999999999999998666666654432 222355799999955 89999999887
No 84
>KOG4454|consensus
Probab=98.44 E-value=1.4e-07 Score=59.66 Aligned_cols=63 Identities=14% Similarity=0.147 Sum_probs=52.2
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+..++|||+|+...++++.|.++|-+.|+|..+.|..++ .++.+ ||||.|.. -...-|++-+|
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~n 70 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLEN 70 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcc
Confidence 345799999999999999999999999999999998887 55666 99998865 45666776554
No 85
>KOG4849|consensus
Probab=98.40 E-value=1.3e-07 Score=63.27 Aligned_cols=51 Identities=24% Similarity=0.362 Sum_probs=43.8
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCC--CeeEEEEeecCCCCCcceEEEEEeCHH
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYG--RVYNINVLRDKVTGQSKGKIFEAAFLK 79 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G--~i~~~~~~~~~~tg~~~g~afv~~~~~ 79 (91)
.+|||||-|++|++||.+.+...| .+.++++..++.+|++||||.|....+
T Consensus 82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~Sd 134 (498)
T KOG4849|consen 82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSD 134 (498)
T ss_pred EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecch
Confidence 499999999999999998887766 567788888998999999999986443
No 86
>KOG0120|consensus
Probab=98.36 E-value=3.6e-07 Score=63.78 Aligned_cols=63 Identities=25% Similarity=0.442 Sum_probs=56.6
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
..++||++||...++.++.++...||.+....++.+..+|.++||||.+|- ......||+.+|
T Consensus 289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLn 352 (500)
T KOG0120|consen 289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLN 352 (500)
T ss_pred cchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccc
Confidence 458999999999999999999999999999999999999999999999974 366778888776
No 87
>KOG0147|consensus
Probab=98.33 E-value=1.7e-07 Score=65.27 Aligned_cols=63 Identities=25% Similarity=0.357 Sum_probs=55.8
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHH
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAI 85 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai 85 (91)
++.+.+++|+-.|+..+++-+|.++|+.+|.|.+|.++.|+.++.++|.+||+|.+ +....||
T Consensus 175 eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai 238 (549)
T KOG0147|consen 175 EERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI 238 (549)
T ss_pred hHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh
Confidence 45566899999999999999999999999999999999999999999999999865 5555555
No 88
>KOG1548|consensus
Probab=98.26 E-value=9.2e-06 Score=54.35 Aligned_cols=63 Identities=17% Similarity=0.310 Sum_probs=51.9
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCee--------EEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVY--------NINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~--------~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
....|||.|||.++|-+++.++|+++|.|. .|.+-++. .|+.+|=|.+.| ..++.+-||.-++
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilD 204 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILD 204 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhC
Confidence 345699999999999999999999999775 36777777 699999999986 4477788887654
No 89
>KOG0129|consensus
Probab=98.25 E-value=5.3e-06 Score=57.78 Aligned_cols=66 Identities=23% Similarity=0.262 Sum_probs=57.5
Q ss_pred CCCCCCceEEEcCCCCCCcHHHHHHHhh-cCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhh
Q psy11978 22 QPDPDFIKMFVGQIPRSMDEADLTKMFS-EYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEP 87 (91)
Q Consensus 22 ~~~~~~~~l~V~~L~~~~t~~~l~~~f~-~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~ 87 (91)
++-++.+|||||+||.-++.++|..+|. -||.|..+-|=.|++-+..+|-|-|+|+. ..--+||.+
T Consensus 365 q~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 365 QPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 4455668999999999999999999999 69999999999998889999999999965 566777765
No 90
>KOG4211|consensus
Probab=98.23 E-value=8.3e-06 Score=56.59 Aligned_cols=61 Identities=16% Similarity=0.335 Sum_probs=49.2
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhc
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQ 88 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~ 88 (91)
....-|-+.+|||++|+++|.++|+-++ |..+.+ .+.+|+..|=|||+| +.++++.|++..
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~--~r~~Gr~sGeA~Ve~~seedv~~Alkkd 69 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSNCG-IENLEI--PRRNGRPSGEAYVEFTSEEDVEKALKKD 69 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhcCc-eeEEEE--eccCCCcCcceEEEeechHHHHHHHHhh
Confidence 3345688899999999999999999875 666444 444799999999997 569999999864
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=98.12 E-value=1.2e-05 Score=45.68 Aligned_cols=55 Identities=16% Similarity=0.234 Sum_probs=34.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhc
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQ 88 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~ 88 (91)
+-|.+.+++..++.++|++.|+.||.|..|.+.... --|||.|. .+.|+.|++++
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~ 57 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKL 57 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHH
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHH
Confidence 457888899999999999999999999998875543 36889884 47888888765
No 92
>KOG4206|consensus
Probab=98.02 E-value=3.1e-05 Score=49.05 Aligned_cols=61 Identities=20% Similarity=0.326 Sum_probs=50.1
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhc
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQ 88 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~ 88 (91)
..++...+|+.|||..++.+.|..+|.+|.....++++... ++.|||+|.. ..|..|..++
T Consensus 142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~l 203 (221)
T KOG4206|consen 142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQAL 203 (221)
T ss_pred CCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhh
Confidence 35566789999999999999999999999999999987765 6899999854 4556666554
No 93
>KOG0129|consensus
Probab=98.01 E-value=1.6e-05 Score=55.44 Aligned_cols=57 Identities=23% Similarity=0.357 Sum_probs=42.2
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCC---CCcce---EEEEEeCHHHHHHH
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVT---GQSKG---KIFEAAFLKIARAA 84 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~t---g~~~g---~afv~~~~~~a~~A 84 (91)
.++||||+||++++|+.|...|..||.+. +.++..... --.+| |.|+.|.+|.+..+
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~ 321 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQS 321 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHH
Confidence 46899999999999999999999999864 566532211 12556 99998877544433
No 94
>KOG4210|consensus
Probab=98.00 E-value=3.9e-06 Score=55.30 Aligned_cols=60 Identities=23% Similarity=0.375 Sum_probs=51.5
Q ss_pred CceEE-EcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHh
Q psy11978 27 FIKMF-VGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIE 86 (91)
Q Consensus 27 ~~~l~-V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~ 86 (91)
..++| |++|++.+++++|+..|..+|.|..++++.++.++.++|||+|.|.. ..+..++.
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~ 245 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALN 245 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhh
Confidence 34566 99999999999999999999999999999999999999999998744 55555554
No 95
>KOG1457|consensus
Probab=98.00 E-value=1.2e-05 Score=51.24 Aligned_cols=58 Identities=16% Similarity=0.238 Sum_probs=43.3
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhh
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEP 87 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~ 87 (91)
...+|||.||...++|++|+.+|+.|.....++|.. + .| -..||++|++ +.|..|+..
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~-~-~g--~~vaf~~~~~~~~at~am~~ 267 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA-R-GG--MPVAFADFEEIEQATDAMNH 267 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec-C-CC--cceEeecHHHHHHHHHHHHH
Confidence 345899999999999999999999997766555432 2 22 3578888865 667776654
No 96
>KOG1995|consensus
Probab=97.90 E-value=2.8e-05 Score=52.13 Aligned_cols=66 Identities=32% Similarity=0.320 Sum_probs=55.8
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCee--------EEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVY--------NINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~--------~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
.....+|||..||..++++++.++|.++|.|. .+.+-++++|++.||=|.|.+.+ ..|++||.-++
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~a 137 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFA 137 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhc
Confidence 44456899999999999999999999999775 36677888999999999999855 88899987554
No 97
>KOG4211|consensus
Probab=97.89 E-value=0.00012 Score=51.04 Aligned_cols=60 Identities=22% Similarity=0.224 Sum_probs=48.6
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeE-EEEeecCCCCCcceEEEEEe-CHHHHHHHHhh
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYN-INVLRDKVTGQSKGKIFEAA-FLKIARAAIEP 87 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~-~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~ 87 (91)
...|-+.+||+.++++++.++|+..--+.. +.++.++ .+++.|=|||.| +.+.|+.|+..
T Consensus 103 d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r 164 (510)
T KOG4211|consen 103 DGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR 164 (510)
T ss_pred CceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH
Confidence 456889999999999999999997644444 4566666 677899999998 66999999875
No 98
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.54 E-value=0.00047 Score=34.46 Aligned_cols=51 Identities=22% Similarity=0.297 Sum_probs=36.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHH
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAI 85 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai 85 (91)
+.|-|.+.+.+..+. +...|..||+|.++.+.. ..-+.+|.| +..+|++|+
T Consensus 2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~~------~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEE-VLEHFASFGEIVDIYVPE------STNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHH-HHHHHHhcCCEEEEEcCC------CCcEEEEEECCHHHHHhhC
Confidence 467788888776655 445888999999988752 235788887 568888875
No 99
>KOG1855|consensus
Probab=97.43 E-value=0.00035 Score=48.16 Aligned_cols=65 Identities=18% Similarity=0.181 Sum_probs=51.1
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeec---CCC--CCc--------ceEEEEEeCH-HHHHHHHhhcC
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRD---KVT--GQS--------KGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~---~~t--g~~--------~g~afv~~~~-~~a~~Ai~~~n 89 (91)
-.+++|.+-|||.+-.-+.|.++|+.+|.|..|+|... +.. +.. +-+|+|+|.. +.|.+|.+.+|
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~ 307 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN 307 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence 36789999999999999999999999999999998666 222 222 4578888754 78888887664
No 100
>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=97.41 E-value=0.0018 Score=35.38 Aligned_cols=53 Identities=21% Similarity=0.472 Sum_probs=35.3
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+-+|| ..|..+...||.++|+.||.|. |.++.+. -|||.... +.+..++..++
T Consensus 10 HVFhl-tFPkeWK~~DI~qlFspfG~I~-VsWi~dT-------SAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 10 HVFHL-TFPKEWKTSDIYQLFSPFGQIY-VSWINDT-------SAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CEEEE-E--TT--HHHHHHHCCCCCCEE-EEEECTT-------EEEEEECCCHHHHHHHHHHT
T ss_pred eEEEE-eCchHhhhhhHHHHhccCCcEE-EEEEcCC-------cEEEEeecHHHHHHHHHHhc
Confidence 34555 4999999999999999999974 6666664 58998643 66666665543
No 101
>KOG2314|consensus
Probab=97.38 E-value=0.00037 Score=49.63 Aligned_cols=61 Identities=26% Similarity=0.336 Sum_probs=49.2
Q ss_pred ceEEEcCCCCCCcH------HHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDE------ADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~------~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
.-|+|.|+|---.. .-|..+|+++|++....++.+..+| .+||.|+++ +...|+.|++.+|
T Consensus 59 ~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~ 126 (698)
T KOG2314|consen 59 SVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLN 126 (698)
T ss_pred eEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcc
Confidence 46888898765332 2356789999999999999888555 999999997 5699999999887
No 102
>KOG3152|consensus
Probab=97.33 E-value=0.00041 Score=44.98 Aligned_cols=62 Identities=21% Similarity=0.375 Sum_probs=46.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCC--------CCcceEEE----EEeCH-HHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVT--------GQSKGKIF----EAAFL-KIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~t--------g~~~g~af----v~~~~-~~a~~Ai~~~n 89 (91)
.-||+++||+.+....|+++|+.||.|-+|.+.....+ |.+++.-| |+|-. ..|....+.+|
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln 149 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN 149 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC
Confidence 46999999999999999999999999999998766545 44444433 55644 56666555555
No 103
>KOG0106|consensus
Probab=97.26 E-value=0.00024 Score=45.13 Aligned_cols=60 Identities=18% Similarity=0.258 Sum_probs=48.6
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcCC
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQKA 90 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n~ 90 (91)
+....+.+.|.+++..+.+.+|.+.|..+|++....+ ..+++||.|.. +++..|+..++.
T Consensus 95 p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~ 155 (216)
T KOG0106|consen 95 PSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDG 155 (216)
T ss_pred cccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccc
Confidence 3444567999999999999999999999999844332 46899999855 899999988764
No 104
>KOG0128|consensus
Probab=97.20 E-value=1.7e-05 Score=58.14 Aligned_cols=61 Identities=28% Similarity=0.394 Sum_probs=52.6
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhh
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEP 87 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~ 87 (91)
..++||.||+..+.+.+|...|..+|.+..+++......++.+|+||++| ..+.+.+||..
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f 728 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAF 728 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhh
Confidence 46799999999999999999999999888887775666799999999998 55788888864
No 105
>KOG1365|consensus
Probab=97.09 E-value=0.0034 Score=43.13 Aligned_cols=59 Identities=15% Similarity=0.222 Sum_probs=46.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcC----CCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhh
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEY----GRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEP 87 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~----G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~ 87 (91)
--|...+||+++++.++.++|..- |..+.+..++.+ .|+..|=|||.| ..++|+.|+.+
T Consensus 162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH
Confidence 357778999999999999999632 345566666665 788899999997 66899999864
No 106
>KOG0128|consensus
Probab=96.84 E-value=0.0006 Score=50.35 Aligned_cols=57 Identities=19% Similarity=0.224 Sum_probs=49.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHH
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAI 85 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai 85 (91)
..++|.|.|+..|.+.|+.++..+|.+.+++++..+ .|+.+|.+||.+. ..++..++
T Consensus 737 ~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~ 794 (881)
T KOG0128|consen 737 ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKV 794 (881)
T ss_pred hhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhc
Confidence 469999999999999999999999999999988887 8999999999874 35555554
No 107
>KOG0115|consensus
Probab=96.76 E-value=0.0021 Score=41.78 Aligned_cols=59 Identities=15% Similarity=0.173 Sum_probs=47.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhh
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEP 87 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~ 87 (91)
..|||.||+.-++.+.|...|+.||+|....+..|. .++..+=++|.|.. ..+.+|...
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr 91 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARR 91 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHH
Confidence 579999999999999999999999999877666665 67778888888643 455555543
No 108
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.70 E-value=0.0052 Score=41.66 Aligned_cols=61 Identities=18% Similarity=0.322 Sum_probs=41.5
Q ss_pred eEEEcCCCCCCcHHH----H--HHHhhcCCCeeEEEEeecCCC-CCcceEE--EEEe-CHHHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEAD----L--TKMFSEYGRVYNINVLRDKVT-GQSKGKI--FEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~----l--~~~f~~~G~i~~~~~~~~~~t-g~~~g~a--fv~~-~~~~a~~Ai~~~n 89 (91)
-+||-+||+.+..++ | .++|.+||.|..|.+-+...+ ....+.+ ||+| +.++|..||++..
T Consensus 116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vD 186 (480)
T COG5175 116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVD 186 (480)
T ss_pred eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhc
Confidence 489999998876655 4 378999999988876443211 1112223 7777 5699999998753
No 109
>KOG1190|consensus
Probab=96.64 E-value=0.0019 Score=44.52 Aligned_cols=48 Identities=19% Similarity=0.291 Sum_probs=40.1
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCHH
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFLK 79 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~~ 79 (91)
.++-|.+++||++++|++|-.++.+||.|..+.+...+ .-||+++.++
T Consensus 27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGk------nQAflem~d~ 74 (492)
T KOG1190|consen 27 PSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGK------NQAFLEMADE 74 (492)
T ss_pred CcceeEeccCCccccHHHHHHhcccccceeeeeeeccc------hhhhhhhcch
Confidence 55689999999999999999999999999988775544 2689987553
No 110
>KOG0105|consensus
Probab=96.62 E-value=0.011 Score=37.14 Aligned_cols=55 Identities=24% Similarity=0.200 Sum_probs=45.6
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
..|.|.+||.+.++.+|++...+.|.+....+.+| |.+.|+| ..++-+=|+..+.
T Consensus 116 ~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld 171 (241)
T KOG0105|consen 116 YRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLD 171 (241)
T ss_pred eeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhc
Confidence 57999999999999999999999999988877665 4788887 4477777777653
No 111
>KOG2193|consensus
Probab=96.48 E-value=0.0035 Score=43.59 Aligned_cols=55 Identities=22% Similarity=0.282 Sum_probs=39.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
.+|+|||.+..+..+|+.+|...---..-.+.. -.||+||...+ ..|-+||+.+|
T Consensus 3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~------k~gyafvd~pdq~wa~kaie~~s 58 (584)
T KOG2193|consen 3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV------KSGYAFVDCPDQQWANKAIETLS 58 (584)
T ss_pred cccccccCCCCChHHHHHHhccccCCCCcceee------ecceeeccCCchhhhhhhHHhhc
Confidence 689999999999999999997531000111111 23899998755 78999998765
No 112
>KOG2416|consensus
Probab=96.43 E-value=0.0043 Score=44.65 Aligned_cols=61 Identities=16% Similarity=0.177 Sum_probs=47.0
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhc-CCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSE-YGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~-~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
....+..|||.||-.-.|.-+|+.++.. .|.|... +.|+ .+..|||.| +.++|.+-+.+|+
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDk----IKShCyV~yss~eEA~atr~Alh 502 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDK----IKSHCYVSYSSVEEAAATREALH 502 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHH----hhcceeEecccHHHHHHHHHHHh
Confidence 3444567999999999999999999995 5566655 4444 578899987 5588888777775
No 113
>KOG1190|consensus
Probab=96.34 E-value=0.017 Score=40.02 Aligned_cols=58 Identities=21% Similarity=0.312 Sum_probs=47.2
Q ss_pred CceEEEcCCCC-CCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPR-SMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~-~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
...|.|.||.. .+|.+-|.-+|+.||.|.+|.|..++ +--|.|-+.+ ..|+-|++.++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~ 356 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLE 356 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhh
Confidence 45788888865 57999999999999999999999887 3468888755 78888887764
No 114
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=96.32 E-value=0.023 Score=31.19 Aligned_cols=51 Identities=18% Similarity=0.331 Sum_probs=32.5
Q ss_pred eEEEcCCCCCCcHHH----HHHHhhcCC-CeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 29 KMFVGQIPRSMDEAD----LTKMFSEYG-RVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~----l~~~f~~~G-~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
.|||.|||-..+... |++++.-+| .+..|. .+-|+|.| +.+.|+.|...++
T Consensus 4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~~~A~RA~KRme 60 (90)
T PF11608_consen 4 LLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQEFAERAQKRME 60 (90)
T ss_dssp EEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHT
T ss_pred EEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhc
Confidence 599999999988755 556666665 455541 36789998 5688999987664
No 115
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.12 E-value=0.07 Score=27.51 Aligned_cols=53 Identities=17% Similarity=0.198 Sum_probs=39.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcC---CCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhc
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEY---GRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQ 88 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~---G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~ 88 (91)
..|+|.++. .++.++++.+|..| ....+|.++-|. .+-.| | +.+.|.+|+.++
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt------ScNvv-f~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT------SCNVV-FKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC------cEEEE-ECCHHHHHHHHHcC
Confidence 379999984 57888899999988 234578888886 23344 6 668899998764
No 116
>KOG4307|consensus
Probab=96.10 E-value=0.03 Score=41.32 Aligned_cols=62 Identities=19% Similarity=0.187 Sum_probs=49.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+-|-+.|+|++++-+|+-++|..|-.+-.-.+.+..+.|...|=|.|.| +.++|.+|...++
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~ 930 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLD 930 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccc
Confidence 3688899999999999999999997664433344445789999999988 5689999987665
No 117
>KOG1456|consensus
Probab=96.03 E-value=0.06 Score=37.14 Aligned_cols=63 Identities=16% Similarity=0.169 Sum_probs=51.1
Q ss_pred CCCCCceEEEcCCCCCC-cHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCC
Q psy11978 23 PDPDFIKMFVGQIPRSM-DEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKA 90 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~-t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~ 90 (91)
...+++-+.|-+|.... .-+.|-.+|..||.|++|+.++.+ .|-|.|++ +..+.+.|+.-+|.
T Consensus 283 g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn 347 (494)
T KOG1456|consen 283 GGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNN 347 (494)
T ss_pred CCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhcc
Confidence 34456778898997764 557789999999999999998887 57899998 55888999988774
No 118
>KOG1365|consensus
Probab=96.03 E-value=0.013 Score=40.45 Aligned_cols=57 Identities=16% Similarity=0.292 Sum_probs=46.0
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCC-eeE--EEEeecCCCCCcceEEEEEeCH-HHHHHHHh
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGR-VYN--INVLRDKVTGQSKGKIFEAAFL-KIARAAIE 86 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~-i~~--~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~ 86 (91)
-|...+||+..+-+++-++|..|.. |.. |+++.+. .|+..|=|||.|.. +.|.+|.+
T Consensus 282 cvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaq 342 (508)
T KOG1365|consen 282 CVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQ 342 (508)
T ss_pred eeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHH
Confidence 5888999999999999999988853 444 7888876 89999999999854 66666554
No 119
>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=95.45 E-value=0.094 Score=29.58 Aligned_cols=60 Identities=20% Similarity=0.144 Sum_probs=34.3
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEE-EeecC------CCCCcceEEEEEe-CHHHHHHHHhh
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNIN-VLRDK------VTGQSKGKIFEAA-FLKIARAAIEP 87 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~-~~~~~------~tg~~~g~afv~~-~~~~a~~Ai~~ 87 (91)
...|.|-+.|.. ....+-+.|++||.|.+.. +.++. ........-.|.| +..+|++|+..
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~ 73 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK 73 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh
Confidence 346888888888 5566778899999987664 11110 0011224556677 55889999875
No 120
>KOG0120|consensus
Probab=95.45 E-value=0.051 Score=38.69 Aligned_cols=47 Identities=19% Similarity=0.265 Sum_probs=35.0
Q ss_pred HHHHHhhcCCCeeEEEEeecCCC---CCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 43 DLTKMFSEYGRVYNINVLRDKVT---GQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 43 ~l~~~f~~~G~i~~~~~~~~~~t---g~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
+++.-+..||.|..|.++++... .-.-|--||+| +.++++.|.++|+
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~ 475 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELT 475 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHcc
Confidence 34455678999999999888212 33557789998 5599999999875
No 121
>KOG0112|consensus
Probab=95.35 E-value=0.0036 Score=46.75 Aligned_cols=52 Identities=15% Similarity=0.319 Sum_probs=42.0
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
...+.+||+|||+..+++.+++..|..+|.+..|.|-+.+ -+.-.-|+||.|
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~ 420 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSL 420 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhh
Confidence 3446789999999999999999999999999999886664 344445777754
No 122
>KOG0112|consensus
Probab=95.15 E-value=0.037 Score=41.66 Aligned_cols=58 Identities=16% Similarity=0.165 Sum_probs=45.5
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhh
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEP 87 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~ 87 (91)
....+.+|+++|..|+.-..|...|..||.|..|.+- .| .-|++|.+ +...+++|+..
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~----hg--q~yayi~yes~~~aq~a~~~ 510 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYR----HG--QPYAYIQYESPPAAQAATHD 510 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeecc----cC--CcceeeecccCccchhhHHH
Confidence 3445689999999999999999999999999886652 23 36999976 44777777763
No 123
>KOG2202|consensus
Probab=94.73 E-value=0.012 Score=38.29 Aligned_cols=41 Identities=22% Similarity=0.295 Sum_probs=31.8
Q ss_pred cCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcCCC
Q psy11978 50 EYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQKAP 91 (91)
Q Consensus 50 ~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n~p 91 (91)
+||+|+.+.+-.+. .-..+|=.+|.| ..++|++|++.+|.+
T Consensus 92 kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnR 133 (260)
T KOG2202|consen 92 KYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNR 133 (260)
T ss_pred Hhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCc
Confidence 89999888654443 445678888887 669999999999975
No 124
>KOG4307|consensus
Probab=94.47 E-value=0.033 Score=41.13 Aligned_cols=61 Identities=18% Similarity=0.052 Sum_probs=47.1
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeE-EEEeecCCCCCcceEEEEEeCH-HHHHHHH
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYN-INVLRDKVTGQSKGKIFEAAFL-KIARAAI 85 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~-~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai 85 (91)
...+..|||-.||..+++.++.++|...-.|++ |.|.+.+ +++.++-|||.|-. +++..|.
T Consensus 431 ~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~ 493 (944)
T KOG4307|consen 431 GGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTAS 493 (944)
T ss_pred CCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhh
Confidence 444567999999999999999999987666666 7777776 88889999998844 4444443
No 125
>KOG2253|consensus
Probab=94.26 E-value=0.07 Score=38.96 Aligned_cols=62 Identities=18% Similarity=0.023 Sum_probs=45.5
Q ss_pred CCCCCCCCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhh
Q psy11978 17 MSLPEQPDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEP 87 (91)
Q Consensus 17 ~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~ 87 (91)
..+..++-++..++||+|+...+..+-++.+...+|.|..+... -|||..|.. ..+..|+..
T Consensus 30 ~qp~~~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~---------~fgf~~f~~~~~~~ra~r~ 92 (668)
T KOG2253|consen 30 IQPVFQPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD---------KFGFCEFLKHIGDLRASRL 92 (668)
T ss_pred CcccccCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh---------hhcccchhhHHHHHHHHHH
Confidence 33444556666799999999999999999999999988765422 288988754 555566553
No 126
>KOG1548|consensus
Probab=93.99 E-value=0.22 Score=34.01 Aligned_cols=62 Identities=15% Similarity=0.172 Sum_probs=43.5
Q ss_pred CCCCceEEEcCCCC----CCc-------HHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 24 DPDFIKMFVGQIPR----SMD-------EADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 24 ~~~~~~l~V~~L~~----~~t-------~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
....++|.+.|+=- ..+ .++|++-.++||.+.+|.+.-. .+.|.+-|.| +.++|+.||+.++
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~----hPdGvvtV~f~n~eeA~~ciq~m~ 335 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR----HPDGVVTVSFRNNEEADQCIQTMD 335 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc----CCCceeEEEeCChHHHHHHHHHhc
Confidence 34456888888711 222 2456666789999998876433 2578999998 5599999999775
No 127
>KOG4676|consensus
Probab=93.62 E-value=0.067 Score=37.06 Aligned_cols=50 Identities=10% Similarity=0.179 Sum_probs=39.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCC---CCCcceEEEEEeCH
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKV---TGQSKGKIFEAAFL 78 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~---tg~~~g~afv~~~~ 78 (91)
-|-|.||.+.++.++++.+|.-.|.|..+.|.-+.. -....-.|||-|.+
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d 61 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLD 61 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccC
Confidence 789999999999999999999999999988755331 12345678887754
No 128
>KOG4210|consensus
Probab=93.41 E-value=0.07 Score=35.45 Aligned_cols=61 Identities=21% Similarity=0.146 Sum_probs=50.4
Q ss_pred CCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHh
Q psy11978 26 DFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIE 86 (91)
Q Consensus 26 ~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~ 86 (91)
...++|++++.+.+.+.+...++..+|......+.....+..++|++++.| ..+.+..|++
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~ 148 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALE 148 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHH
Confidence 457899999999999998888899999887777777666888999999987 4477777765
No 129
>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=93.33 E-value=0.23 Score=30.71 Aligned_cols=61 Identities=10% Similarity=0.052 Sum_probs=31.9
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhhc-CCCe---eEEEEeecC--CCCCcceEEEEEeCH-HHHHHHH
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFSE-YGRV---YNINVLRDK--VTGQSKGKIFEAAFL-KIARAAI 85 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~~-~G~i---~~~~~~~~~--~tg~~~g~afv~~~~-~~a~~Ai 85 (91)
....+|-|++||+.+|++++.+.++. ++.. ..+.-.... .......-|||.|.. ++...-+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~ 72 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFR 72 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHH
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHH
Confidence 34458999999999999999887776 5654 333311221 112234567887754 5444433
No 130
>KOG1456|consensus
Probab=93.18 E-value=0.98 Score=31.44 Aligned_cols=52 Identities=13% Similarity=0.119 Sum_probs=41.8
Q ss_pred cCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 33 GQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 33 ~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
-|--+.+|-+-|..+....|+|.+|.|.+.. | --|.|+|+. +.|++|-+++|
T Consensus 128 lNp~YpItvDVly~Icnp~GkVlRIvIfkkn--g---VQAmVEFdsv~~AqrAk~alN 180 (494)
T KOG1456|consen 128 LNPQYPITVDVLYTICNPQGKVLRIVIFKKN--G---VQAMVEFDSVEVAQRAKAALN 180 (494)
T ss_pred ecCccccchhhhhhhcCCCCceEEEEEEecc--c---eeeEEeechhHHHHHHHhhcc
Confidence 3445578889999999999999999887653 2 358899965 99999999988
No 131
>KOG2068|consensus
Probab=93.14 E-value=0.12 Score=34.93 Aligned_cols=62 Identities=16% Similarity=0.280 Sum_probs=42.1
Q ss_pred ceEEEcCCCCCCcH-HHHH--HHhhcCCCeeEEEEeecCC--CCC-cceEEEEEeC-HHHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDE-ADLT--KMFSEYGRVYNINVLRDKV--TGQ-SKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~-~~l~--~~f~~~G~i~~~~~~~~~~--tg~-~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
.-+||-+|+..... ..|+ +.|.+||.|..+.+..+.. ++. .-.-++|+|. +++|..||....
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~ 146 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVD 146 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhh
Confidence 45888899887654 4454 5899999999998877662 111 1112667774 488999887653
No 132
>KOG2591|consensus
Probab=93.08 E-value=0.75 Score=33.46 Aligned_cols=60 Identities=12% Similarity=0.135 Sum_probs=45.5
Q ss_pred CCCCCCceEEEcCCCCCCcHHHHHHHhhc--CCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhc
Q psy11978 22 QPDPDFIKMFVGQIPRSMDEADLTKMFSE--YGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQ 88 (91)
Q Consensus 22 ~~~~~~~~l~V~~L~~~~t~~~l~~~f~~--~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~ 88 (91)
.+....|-|.+..||..+..++++.+|.. +-.+.+|....+. -.||+| ++.+|+.|...+
T Consensus 170 rp~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykyl 232 (684)
T KOG2591|consen 170 RPNHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYL 232 (684)
T ss_pred ccCcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHH
Confidence 34555677888999999999999999974 5667777665543 257888 668999987654
No 133
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=92.38 E-value=0.7 Score=27.98 Aligned_cols=58 Identities=17% Similarity=0.283 Sum_probs=40.4
Q ss_pred CCCCceEEEcCCCCCCcH-HHHH---HHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhc
Q psy11978 24 DPDFIKMFVGQIPRSMDE-ADLT---KMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQ 88 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~-~~l~---~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~ 88 (91)
+++-.+|.|.=|...+.. +||+ ..++.||+|.+|.+ .| +.-|.|.|.+ ..|..|+.+.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~-----cG--rqsavVvF~d~~SAC~Av~Af 145 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTL-----CG--RQSAVVVFKDITSACKAVSAF 145 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeee-----cC--CceEEEEehhhHHHHHHHHhh
Confidence 445568888877777643 4554 45678999999865 33 3468888865 7888888764
No 134
>KOG4660|consensus
Probab=88.69 E-value=0.97 Score=32.63 Aligned_cols=39 Identities=10% Similarity=-0.104 Sum_probs=28.5
Q ss_pred CCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHhhcC
Q psy11978 51 YGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIEPQK 89 (91)
Q Consensus 51 ~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~~~n 89 (91)
.|.-..+.++.|-.+..+.|||||-|. .+.+..+.++.|
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFn 452 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFN 452 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHc
Confidence 455667888888878889999999874 466666655543
No 135
>KOG4676|consensus
Probab=86.95 E-value=0.12 Score=35.80 Aligned_cols=58 Identities=9% Similarity=-0.017 Sum_probs=42.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
++++|++|+..+...++-+.|..+|++...++.. |...-+|-++|.. .....|++.++
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~as----k~~s~~c~~sf~~qts~~halr~~g 210 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTAS----KSRSSSCSHSFRKQTSSKHALRSHG 210 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhhc----cCCCcchhhhHhhhhhHHHHHHhcc
Confidence 6799999999999999999999999988766533 3334556676633 55666666654
No 136
>KOG1996|consensus
Probab=86.37 E-value=2.7 Score=28.41 Aligned_cols=48 Identities=17% Similarity=0.200 Sum_probs=34.6
Q ss_pred HHHHHHhhcCCCeeEEEEeecCCCCCcce-EEEEEeCH-HHHHHHHhhcC
Q psy11978 42 ADLTKMFSEYGRVYNINVLRDKVTGQSKG-KIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 42 ~~l~~~f~~~G~i~~~~~~~~~~tg~~~g-~afv~~~~-~~a~~Ai~~~n 89 (91)
++.++..++||.|..|.|...+....... --||+|+. +.|.+|+--+|
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~Vdln 350 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLN 350 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcC
Confidence 45667788999999998887764433332 36888865 88888887665
No 137
>KOG2891|consensus
Probab=84.60 E-value=1.9 Score=29.04 Aligned_cols=35 Identities=23% Similarity=0.393 Sum_probs=27.6
Q ss_pred CceEEEcCCCCC------------CcHHHHHHHhhcCCCeeEEEEee
Q psy11978 27 FIKMFVGQIPRS------------MDEADLTKMFSEYGRVYNINVLR 61 (91)
Q Consensus 27 ~~~l~V~~L~~~------------~t~~~l~~~f~~~G~i~~~~~~~ 61 (91)
.-+||+.+||-. .+++-|+..|..||.|..|.|+.
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence 348899888753 45678999999999998887754
No 138
>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=84.19 E-value=5.9 Score=22.69 Aligned_cols=60 Identities=12% Similarity=0.030 Sum_probs=37.7
Q ss_pred ceEEE-cCCCCCCcHHHHHHHhhcC-CCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 28 IKMFV-GQIPRSMDEADLTKMFSEY-GRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 28 ~~l~V-~~L~~~~t~~~l~~~f~~~-G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
..+.| ...|..++.++|..+.+.+ ..|..++++++. ..++-.+.+.|.+ ..|..-....|
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fN 75 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFN 75 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhC
Confidence 34444 4455555666776666655 457788888875 2356677777854 67776665555
No 139
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=77.91 E-value=7.5 Score=20.03 Aligned_cols=18 Identities=28% Similarity=0.597 Sum_probs=15.1
Q ss_pred HHHHHHhhcCCCeeEEEE
Q psy11978 42 ADLTKMFSEYGRVYNINV 59 (91)
Q Consensus 42 ~~l~~~f~~~G~i~~~~~ 59 (91)
.+|+++|+..|.|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 578999999999976664
No 140
>KOG4410|consensus
Probab=77.89 E-value=16 Score=24.87 Aligned_cols=43 Identities=16% Similarity=0.158 Sum_probs=31.3
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCe-eEEEEeecCCCCCcceEEEEEe
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRV-YNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i-~~~~~~~~~~tg~~~g~afv~~ 76 (91)
..||++||+.++.-.||+..+.+-|.+ .++.|. -+.|-||+.|
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk------g~~~k~flh~ 374 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK------GHFGKCFLHF 374 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCceeEeee------cCCcceeEec
Confidence 469999999999999999888876643 333331 2457788864
No 141
>KOG4285|consensus
Probab=76.28 E-value=22 Score=24.32 Aligned_cols=53 Identities=15% Similarity=0.038 Sum_probs=34.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhh
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEP 87 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~ 87 (91)
..|-|-+.|+.-. ..+-..|++||.|++.... ..-.+-+|.| ...+|++||..
T Consensus 198 ~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALsk 251 (350)
T KOG4285|consen 198 TWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALSK 251 (350)
T ss_pred ceEEEeccCccch-hHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhhh
Confidence 3455666666543 4466789999999775433 2224666766 45889999864
No 142
>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=74.67 E-value=7.3 Score=21.38 Aligned_cols=45 Identities=18% Similarity=0.254 Sum_probs=29.8
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
-+|||+++..+.+.--..+.+..+.-.-+.+..+. + ..||.|-..
T Consensus 27 GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~-n--eqG~~~~t~ 71 (86)
T PF09707_consen 27 GVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDN-N--EQGFDFRTL 71 (86)
T ss_pred CcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccC-C--CCCEEEEEe
Confidence 59999999888887666666655544434333333 2 568998754
No 143
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=74.50 E-value=13 Score=22.49 Aligned_cols=37 Identities=24% Similarity=0.354 Sum_probs=24.7
Q ss_pred HHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhh
Q psy11978 43 DLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEP 87 (91)
Q Consensus 43 ~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~ 87 (91)
+|-+.|..||.+.=++++.+. -+|+|.+ +.|-+|+..
T Consensus 52 ~ll~~~~~~GevvLvRfv~~~--------mwVTF~dg~sALaals~ 89 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVGDT--------MWVTFRDGQSALAALSL 89 (146)
T ss_dssp HHHHHHHCCS-ECEEEEETTC--------EEEEESSCHHHHHHHHG
T ss_pred HHHHHHHhCCceEEEEEeCCe--------EEEEECccHHHHHHHcc
Confidence 566778899987766665433 5677865 777777654
No 144
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=73.63 E-value=13 Score=20.92 Aligned_cols=44 Identities=20% Similarity=0.079 Sum_probs=23.5
Q ss_pred CCcHHHHHHHhh-cCCCeeEEEEeec----CCCCCcceEEEEEeCHHHHH
Q psy11978 38 SMDEADLTKMFS-EYGRVYNINVLRD----KVTGQSKGKIFEAAFLKIAR 82 (91)
Q Consensus 38 ~~t~~~l~~~f~-~~G~i~~~~~~~~----~~tg~~~g~afv~~~~~~a~ 82 (91)
..+..++++-+. .|+.=.+..++.. -..|++.|||.| +++.++.
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~ 78 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERA 78 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHH
Confidence 456777776554 3553222222222 234678889998 4443333
No 145
>KOG4454|consensus
Probab=71.98 E-value=0.86 Score=29.50 Aligned_cols=49 Identities=18% Similarity=0.328 Sum_probs=42.2
Q ss_pred CCceEEEcC----CCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE
Q psy11978 26 DFIKMFVGQ----IPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA 75 (91)
Q Consensus 26 ~~~~l~V~~----L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~ 75 (91)
...+++.|+ |...++++.+...|+.-|.+..+++.++. .|+++-++|++
T Consensus 79 ~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~ 131 (267)
T KOG4454|consen 79 EQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVT 131 (267)
T ss_pred hhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchh
Confidence 345788888 88888999999999999999999998888 48888899986
No 146
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=69.31 E-value=17 Score=22.45 Aligned_cols=51 Identities=20% Similarity=0.325 Sum_probs=38.3
Q ss_pred CCCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEE
Q psy11978 23 PDPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIF 73 (91)
Q Consensus 23 ~~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~af 73 (91)
.......+++++++..++...+...|..+|.+....+...........+.+
T Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 271 (306)
T COG0724 221 LLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSF 271 (306)
T ss_pred cccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccc
Confidence 345556899999999999999999999999997766655553333444444
No 147
>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=68.04 E-value=3.4 Score=22.79 Aligned_cols=26 Identities=23% Similarity=0.370 Sum_probs=21.3
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhh
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFS 49 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~ 49 (91)
....++|-|.|||..+++++|++.++
T Consensus 49 ~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred cccCCEEEEeCCCCCCChhhheeeEE
Confidence 34456899999999999999997654
No 148
>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=68.01 E-value=6.8 Score=26.45 Aligned_cols=37 Identities=14% Similarity=0.353 Sum_probs=32.8
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDK 63 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~ 63 (91)
.+.|...|+..+++-..+-.-|-.||+|++|.++.+.
T Consensus 15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~ 51 (309)
T PF10567_consen 15 TRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSN 51 (309)
T ss_pred eHHHHHhhccccccHHHHHHHhhccCceeEEEEecCC
Confidence 4568888999999988888999999999999998876
No 149
>KOG4365|consensus
Probab=67.14 E-value=1.7 Score=30.86 Aligned_cols=60 Identities=12% Similarity=-0.066 Sum_probs=45.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCHHHHHHHHhhc
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFLKIARAAIEPQ 88 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~~~a~~Ai~~~ 88 (91)
+.|+..+|-..+++++.-.|..||-|..+.+.+.-..|...-.+|+.....+++-+|..|
T Consensus 5 ~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~~~~~~~i~~~ 64 (572)
T KOG4365|consen 5 KKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKKANGPNYIQPQ 64 (572)
T ss_pred hhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeeccCcccccCHH
Confidence 456778888899999999999999998888766665667777888865445555555543
No 150
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=65.63 E-value=16 Score=20.51 Aligned_cols=45 Identities=13% Similarity=0.167 Sum_probs=26.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
-||||+++..+.+.--..+-+.++.-.-+.+..+. .-.||.|-+.
T Consensus 29 GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~~---~eqG~~~~t~ 73 (97)
T PRK11558 29 GVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWATN---TESGFEFQTF 73 (97)
T ss_pred CcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcCC---CCCCcEEEec
Confidence 59999988887776555555555443333333332 2338888753
No 151
>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=62.30 E-value=7.1 Score=17.85 Aligned_cols=16 Identities=25% Similarity=0.422 Sum_probs=10.1
Q ss_pred CCCcHHHHHHHhhcCC
Q psy11978 37 RSMDEADLTKMFSEYG 52 (91)
Q Consensus 37 ~~~t~~~l~~~f~~~G 52 (91)
.++++++|+++|.+.+
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 4678999999998754
No 152
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=62.13 E-value=26 Score=20.86 Aligned_cols=43 Identities=14% Similarity=0.127 Sum_probs=23.7
Q ss_pred CCcHHHHHHHhhc-CC----CeeEEEEee-cCCCCCcceEEEEEeCHHHH
Q psy11978 38 SMDEADLTKMFSE-YG----RVYNINVLR-DKVTGQSKGKIFEAAFLKIA 81 (91)
Q Consensus 38 ~~t~~~l~~~f~~-~G----~i~~~~~~~-~~~tg~~~g~afv~~~~~~a 81 (91)
..+..+|++-+.. |+ ....|.-+. .-..|.+.|||.| +++.++
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~ 83 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAA 83 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHH
Confidence 4567788766653 55 222222222 2345788899999 444333
No 153
>KOG4008|consensus
Probab=62.08 E-value=8.3 Score=25.28 Aligned_cols=33 Identities=21% Similarity=0.331 Sum_probs=27.2
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeE
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYN 56 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~ 56 (91)
......+|+-|+|...+++.|....++.|.+..
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~ 69 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQE 69 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhh
Confidence 344558999999999999999999998885543
No 154
>KOG0804|consensus
Probab=61.85 E-value=54 Score=23.70 Aligned_cols=61 Identities=15% Similarity=0.182 Sum_probs=44.0
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcC-CCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhcC
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEY-GRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQK 89 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~-G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~n 89 (91)
+..|.|-.+|-.++-.||-.+...+ -.|.+++++++. . -++=...|.|.+ .+|..--+..|
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~-~-pnrymvLIkFr~q~da~~Fy~efN 136 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG-M-PNRYMVLIKFRDQADADTFYEEFN 136 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC-C-CceEEEEEEeccchhHHHHHHHcC
Confidence 5679999999999999999888765 568899999964 2 233345566854 66666555544
No 155
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=61.04 E-value=25 Score=19.05 Aligned_cols=45 Identities=9% Similarity=0.005 Sum_probs=23.5
Q ss_pred CCCcHHHHHHHhhc-CC---CeeEE-EEeecCCCCCcceEEEEEeCHHHHH
Q psy11978 37 RSMDEADLTKMFSE-YG---RVYNI-NVLRDKVTGQSKGKIFEAAFLKIAR 82 (91)
Q Consensus 37 ~~~t~~~l~~~f~~-~G---~i~~~-~~~~~~~tg~~~g~afv~~~~~~a~ 82 (91)
...+..++++.+.. ++ ....+ .+...-..+.+.|||.| +++.++.
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv~~~~t~fG~~~s~g~a~I-Yd~~e~~ 60 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVVFGIKTEFGGGKSTGFAKI-YDSAEAL 60 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEEEEEEESSSSSEEEEEEEE-ESSHHHH
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEEeccEecCCCceEEEEEEE-eCCHHHH
Confidence 34566777766553 33 22222 33444455778899999 4443333
No 156
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=60.77 E-value=12 Score=24.74 Aligned_cols=35 Identities=14% Similarity=0.184 Sum_probs=25.3
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeec
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRD 62 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~ 62 (91)
....|+|||+.++..-+..++...-.+....++..
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~Q 130 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLMVQ 130 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEEeH
Confidence 36789999999999999988876544434444433
No 157
>PRK11901 hypothetical protein; Reviewed
Probab=60.44 E-value=40 Score=23.21 Aligned_cols=53 Identities=15% Similarity=0.116 Sum_probs=33.2
Q ss_pred CCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE--e-CHHHHHHHHhhc
Q psy11978 34 QIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA--A-FLKIARAAIEPQ 88 (91)
Q Consensus 34 ~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~--~-~~~~a~~Ai~~~ 88 (91)
.|--...++.|..+...++ +..+++......|+ ..|..|. | +.++|..||..|
T Consensus 249 QL~Aas~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sL 304 (327)
T PRK11901 249 QLSSASRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATL 304 (327)
T ss_pred EeecCCCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhC
Confidence 4444456788888887775 34455544443443 3566664 5 558999999876
No 158
>KOG4483|consensus
Probab=58.99 E-value=54 Score=23.45 Aligned_cols=52 Identities=19% Similarity=0.273 Sum_probs=37.7
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCC-eeEEEEeecCCCCCcceEEEEEeC-HHHHHHHH
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGR-VYNINVLRDKVTGQSKGKIFEAAF-LKIARAAI 85 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~-i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai 85 (91)
.+-|=|-++|.....+||-..|+.|++ --+|.|+-+. .+|-.|+ ...|..|+
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaL 444 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEAL 444 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHh
Confidence 456888899999988999999999864 4677777765 5665563 34555554
No 159
>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=55.95 E-value=20 Score=19.26 Aligned_cols=21 Identities=29% Similarity=0.186 Sum_probs=16.3
Q ss_pred cceEEEEEe-CHHHHHHHHhhc
Q psy11978 68 SKGKIFEAA-FLKIARAAIEPQ 88 (91)
Q Consensus 68 ~~g~afv~~-~~~~a~~Ai~~~ 88 (91)
.+||-||+. +..+...||+..
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi 64 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGI 64 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-
T ss_pred CceEEEEEeCCHHHHHHHHhcc
Confidence 689999995 567888888754
No 160
>PRK15464 cold shock-like protein CspH; Provisional
Probab=53.07 E-value=18 Score=18.86 Aligned_cols=8 Identities=38% Similarity=0.376 Sum_probs=6.5
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 15 ~KGfGFI~ 22 (70)
T PRK15464 15 KSGKGFII 22 (70)
T ss_pred CCCeEEEc
Confidence 37999995
No 161
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=52.00 E-value=20 Score=18.90 Aligned_cols=8 Identities=38% Similarity=0.330 Sum_probs=6.5
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.||||||.
T Consensus 12 ~KGfGFI~ 19 (74)
T PRK09937 12 AKGFGFIC 19 (74)
T ss_pred CCCeEEEe
Confidence 37999995
No 162
>KOG2318|consensus
Probab=51.58 E-value=36 Score=25.34 Aligned_cols=39 Identities=13% Similarity=0.362 Sum_probs=29.5
Q ss_pred CCCCceEEEcCCCCC-CcHHHHHHHhhcC----CCeeEEEEeec
Q psy11978 24 DPDFIKMFVGQIPRS-MDEADLTKMFSEY----GRVYNINVLRD 62 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~-~t~~~l~~~f~~~----G~i~~~~~~~~ 62 (91)
...+++|-|.|+.|+ +...+|.-+|+.| |.|.+|.|-..
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpS 214 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPS 214 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechh
Confidence 344678999999997 4678898888876 57888876443
No 163
>KOG3424|consensus
Probab=51.34 E-value=49 Score=19.45 Aligned_cols=44 Identities=14% Similarity=0.182 Sum_probs=24.6
Q ss_pred CCcHHHHHHHhhc-CC---CeeEEEEeec-CCCCCcceEEEEEeCHHHH
Q psy11978 38 SMDEADLTKMFSE-YG---RVYNINVLRD-KVTGQSKGKIFEAAFLKIA 81 (91)
Q Consensus 38 ~~t~~~l~~~f~~-~G---~i~~~~~~~~-~~tg~~~g~afv~~~~~~a 81 (91)
.++.++|++-+.+ |- ....+.-.+. -.+|++.|||.|.-+.+.|
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalIYdsve~a 82 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALIYDSVEYA 82 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeeeeehHHHH
Confidence 4567777765554 43 2222222222 3567899999994343443
No 164
>KOG4574|consensus
Probab=50.56 E-value=9.9 Score=29.39 Aligned_cols=54 Identities=20% Similarity=0.211 Sum_probs=37.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEeCH-HHHHHHHhhc
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAAFL-KIARAAIEPQ 88 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~Ai~~~ 88 (91)
+.++.|.+-..+...|..+++.||.+.+.+..++- -.|.|+|.. +.|-.|..++
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl 354 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDAL 354 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhh
Confidence 34555566677888899999999999988766664 467787643 6555555543
No 165
>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=50.25 E-value=24 Score=22.93 Aligned_cols=23 Identities=22% Similarity=0.400 Sum_probs=19.8
Q ss_pred CceEEEcCCCCCCcHHHHHHHhh
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFS 49 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~ 49 (91)
...+.|||||+.++..-|..++.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHH
T ss_pred CceEEEEEecccchHHHHHHHhh
Confidence 44689999999999999888876
No 166
>PRK15463 cold shock-like protein CspF; Provisional
Probab=49.91 E-value=23 Score=18.44 Aligned_cols=8 Identities=25% Similarity=0.227 Sum_probs=6.5
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 15 ~kGfGFI~ 22 (70)
T PRK15463 15 KSGKGLIT 22 (70)
T ss_pred CCceEEEe
Confidence 37999995
No 167
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=49.79 E-value=22 Score=18.41 Aligned_cols=8 Identities=50% Similarity=0.380 Sum_probs=6.4
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 14 ~kGyGFI~ 21 (69)
T PRK09507 14 SKGFGFIT 21 (69)
T ss_pred CCCcEEEe
Confidence 37999995
No 168
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=49.53 E-value=43 Score=18.22 Aligned_cols=24 Identities=8% Similarity=0.011 Sum_probs=14.6
Q ss_pred eeEEEEeecCCCCCcceEEEEEeC
Q psy11978 54 VYNINVLRDKVTGQSKGKIFEAAF 77 (91)
Q Consensus 54 i~~~~~~~~~~tg~~~g~afv~~~ 77 (91)
|.++++-.-...|+.+|||-|+|+
T Consensus 3 itdVri~~~~~~~~lka~asV~~d 26 (84)
T PF04026_consen 3 ITDVRIRKIEPEGKLKAFASVTFD 26 (84)
T ss_dssp EEEEEEEETTSSSSEEEEEEEEET
T ss_pred cEEEEEEEecCCCCEEEEEEEEEC
Confidence 455555444444777777777664
No 169
>PRK10943 cold shock-like protein CspC; Provisional
Probab=48.76 E-value=23 Score=18.34 Aligned_cols=8 Identities=50% Similarity=0.380 Sum_probs=6.5
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 14 ~kGfGFI~ 21 (69)
T PRK10943 14 SKGFGFIT 21 (69)
T ss_pred CCCcEEEe
Confidence 37999995
No 170
>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=48.15 E-value=26 Score=18.00 Aligned_cols=8 Identities=38% Similarity=0.330 Sum_probs=6.5
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 12 ~kGfGFI~ 19 (68)
T TIGR02381 12 AKGFGFIC 19 (68)
T ss_pred CCCeEEEe
Confidence 47999995
No 171
>PRK14998 cold shock-like protein CspD; Provisional
Probab=47.99 E-value=26 Score=18.43 Aligned_cols=8 Identities=38% Similarity=0.330 Sum_probs=6.5
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 12 ~kGfGFI~ 19 (73)
T PRK14998 12 AKGFGFIC 19 (73)
T ss_pred CCceEEEe
Confidence 47999995
No 172
>KOG2295|consensus
Probab=47.65 E-value=2 Score=31.30 Aligned_cols=50 Identities=6% Similarity=0.086 Sum_probs=34.4
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
.+++|+.|+++.++-++|..+...+-...++.+-.......-.-+++|.|
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~f 280 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTF 280 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhh
Confidence 36799999999999999999998875555554433322233445566665
No 173
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=46.93 E-value=31 Score=22.63 Aligned_cols=22 Identities=18% Similarity=0.310 Sum_probs=18.6
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSE 50 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~ 50 (91)
.+.|+|+|+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5789999999998888888754
No 174
>PF10999 DUF2839: Protein of unknown function (DUF2839); InterPro: IPR021262 This bacterial family of unknown function appear to be restricted to Cyanobacteria.
Probab=46.76 E-value=20 Score=18.81 Aligned_cols=36 Identities=22% Similarity=0.143 Sum_probs=20.8
Q ss_pred CCcccccccchhcccCCCCCCCCCCCCceEEEcCCCCCCcHHHHH
Q psy11978 1 MGREKRRECTYEYVRSMSLPEQPDPDFIKMFVGQIPRSMDEADLT 45 (91)
Q Consensus 1 m~r~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~ 45 (91)
||..||++.....++.... ..++.-||..-+..+..
T Consensus 1 MGEAKRRke~Gl~pr~~k~---------~~~~~wlP~tk~q~~~~ 36 (68)
T PF10999_consen 1 MGEAKRRKELGLPPRYKKE---------ERILPWLPITKSQAKQF 36 (68)
T ss_pred CcchhhhhhccCCCccCCc---------ccccccCcccHHHHHHH
Confidence 8999998876433332221 12666777666655543
No 175
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=46.66 E-value=27 Score=25.66 Aligned_cols=47 Identities=21% Similarity=0.336 Sum_probs=37.2
Q ss_pred ceEEEcCCCCCCcH-HHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE
Q psy11978 28 IKMFVGQIPRSMDE-ADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA 75 (91)
Q Consensus 28 ~~l~V~~L~~~~t~-~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~ 75 (91)
.-||.|-.|-+.++ ++|++.+++. .+.+..+...++|....||||-.
T Consensus 298 P~Vf~GlyPid~~dye~LrdAleKL-~LNDasl~~E~EtS~ALGfGfRc 345 (603)
T COG0481 298 PMVFAGLYPVDSDDYEDLRDALEKL-QLNDASLTYEPETSQALGFGFRC 345 (603)
T ss_pred ceEEEeecccChhHHHHHHHHHHhc-ccccceeeeccccchhccCceee
Confidence 36999999988877 7889888876 35566777778888888999865
No 176
>PHA01632 hypothetical protein
Probab=46.52 E-value=25 Score=17.73 Aligned_cols=21 Identities=24% Similarity=0.602 Sum_probs=16.5
Q ss_pred EEEcCCCCCCcHHHHHHHhhc
Q psy11978 30 MFVGQIPRSMDEADLTKMFSE 50 (91)
Q Consensus 30 l~V~~L~~~~t~~~l~~~f~~ 50 (91)
+.|..+|...|+++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 445689999999999987643
No 177
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=45.46 E-value=53 Score=18.14 Aligned_cols=46 Identities=22% Similarity=0.251 Sum_probs=26.2
Q ss_pred eEEEcCCCCCCcHHHHH---HHhhcCCCeeEEEE--eecCCCCCcceEEEE
Q psy11978 29 KMFVGQIPRSMDEADLT---KMFSEYGRVYNINV--LRDKVTGQSKGKIFE 74 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~---~~f~~~G~i~~~~~--~~~~~tg~~~g~afv 74 (91)
..|+.+||..+.+.++. ..+..++.-..+.. ......+.+.|++.+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~ 62 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGIS 62 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEE
Confidence 46889999999886654 45555553333332 122345666776654
No 178
>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=45.22 E-value=59 Score=20.36 Aligned_cols=43 Identities=21% Similarity=0.176 Sum_probs=25.8
Q ss_pred HHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe-CHHHHHHHHhhcC
Q psy11978 41 EADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA-FLKIARAAIEPQK 89 (91)
Q Consensus 41 ~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~-~~~~a~~Ai~~~n 89 (91)
...|+++|..++.+........- +-..|.| +.+.|+.|...+.
T Consensus 9 ~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~ 52 (184)
T PF04847_consen 9 LAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLH 52 (184)
T ss_dssp HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST
T ss_pred HHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhc
Confidence 46789999999987766544332 2344446 4577887776643
No 179
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=44.85 E-value=50 Score=18.48 Aligned_cols=23 Identities=13% Similarity=0.167 Sum_probs=10.6
Q ss_pred eeEEEEeecCCCCCcceEEEEEe
Q psy11978 54 VYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 54 i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
|.++++-.-...|+.++||-|++
T Consensus 3 ITdVri~~~~~~g~lka~asit~ 25 (94)
T PRK13259 3 VTDVRLRKVNTEGRMKAIVSITF 25 (94)
T ss_pred EEEEEEEEeCCCCcEEEEEEEEE
Confidence 33444432222355566665554
No 180
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=43.64 E-value=31 Score=17.83 Aligned_cols=7 Identities=43% Similarity=0.330 Sum_probs=6.0
Q ss_pred ceEEEEE
Q psy11978 69 KGKIFEA 75 (91)
Q Consensus 69 ~g~afv~ 75 (91)
+|||||.
T Consensus 16 kGfGFI~ 22 (70)
T PRK10354 16 KGFGFIT 22 (70)
T ss_pred CCcEEEe
Confidence 7999995
No 181
>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=42.52 E-value=20 Score=18.63 Aligned_cols=46 Identities=11% Similarity=0.180 Sum_probs=26.8
Q ss_pred CCCcHHHHHHHhhcCCC-----eeEEEEeecCCCCCcceEEEEEeCHHHHHHHHhhcCC
Q psy11978 37 RSMDEADLTKMFSEYGR-----VYNINVLRDKVTGQSKGKIFEAAFLKIARAAIEPQKA 90 (91)
Q Consensus 37 ~~~t~~~l~~~f~~~G~-----i~~~~~~~~~~tg~~~g~afv~~~~~~a~~Ai~~~n~ 90 (91)
..++..+|..++...+. |-.+.+. .-|+||+...+.++.+++++|.
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~--------~~~S~vev~~~~a~~v~~~l~~ 61 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRDIGRIDIF--------DNFSFVEVPEEVAEKVLEALNG 61 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE---------SS-EEEEE-TT-HHHHHHHHTT
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEe--------eeEEEEEECHHHHHHHHHHhcC
Confidence 35677788887776543 3345542 2489998777778888887763
No 182
>PRK09890 cold shock protein CspG; Provisional
Probab=41.72 E-value=14 Score=19.16 Aligned_cols=8 Identities=38% Similarity=0.310 Sum_probs=6.6
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 15 ~kGfGFI~ 22 (70)
T PRK09890 15 DKGFGFIT 22 (70)
T ss_pred CCCcEEEe
Confidence 37999996
No 183
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=41.61 E-value=21 Score=20.92 Aligned_cols=41 Identities=24% Similarity=0.353 Sum_probs=25.1
Q ss_pred CCCCcHHHHHHHhhc---CCCeeEEEEeecCCCCCcceEEEEEe
Q psy11978 36 PRSMDEADLTKMFSE---YGRVYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 36 ~~~~t~~~l~~~f~~---~G~i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
|+.+|-.+|+++|.. |..|.+-.+.+|-.-.-+-..||..+
T Consensus 83 PYTlT~~e~r~iF~Epm~YQGITReQV~rdGLP~GsYRiCFrL~ 126 (145)
T TIGR02542 83 PYTLTYNELRQIFREPMVYQGITREQVQRDGLPEGSYRICFRLF 126 (145)
T ss_pred ceeeeHHHHHHHHhhhhhhccccHHHHhhcCCCCCceEEEEEEe
Confidence 667899999999984 45554444444432223344677765
No 184
>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=40.95 E-value=72 Score=18.37 Aligned_cols=35 Identities=17% Similarity=0.249 Sum_probs=21.6
Q ss_pred CcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEEe
Q psy11978 39 MDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 39 ~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
.+...|.+.|..|..+. ++...+. .-+.|++.|.|
T Consensus 29 ~~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F 63 (116)
T PF03468_consen 29 MSNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEF 63 (116)
T ss_dssp --SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE-
T ss_pred cCHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEE
Confidence 35578999999998765 5555555 25689999987
No 185
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=40.46 E-value=53 Score=21.17 Aligned_cols=24 Identities=13% Similarity=0.223 Sum_probs=20.1
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCC
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYG 52 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G 52 (91)
-+.|+|||+.++...+..++..+|
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 378999999999999999986444
No 186
>PF12157 DUF3591: Protein of unknown function (DUF3591); InterPro: IPR022591 This functionally uncharacterised domain is found centrally in the eukaryotic transcription initiation factor TFIID subunit 1.
Probab=39.82 E-value=43 Score=24.11 Aligned_cols=43 Identities=14% Similarity=0.123 Sum_probs=29.4
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE
Q psy11978 30 MFVGQIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA 75 (91)
Q Consensus 30 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~ 75 (91)
+-+.-.||.+|...|...=.+ ....+.=.-|+ ||...||.||.
T Consensus 356 ~E~~laPWn~T~nFi~A~qgk--a~L~l~G~gDP-TG~GeGfSfir 398 (457)
T PF12157_consen 356 DELQLAPWNTTKNFINATQGK--AMLQLHGEGDP-TGRGEGFSFIR 398 (457)
T ss_pred HHHhCCChHhHHHHHHHhccC--cEEEEecCCCC-CCCCCceEEEE
Confidence 444556788888877665222 24556556778 89999999995
No 187
>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=39.54 E-value=46 Score=15.74 Aligned_cols=27 Identities=11% Similarity=0.233 Sum_probs=21.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCe
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEYGRV 54 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~G~i 54 (91)
..+|+.+.....+...|.++...+|.-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 467777766578889999999988863
No 188
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=39.41 E-value=22 Score=18.53 Aligned_cols=22 Identities=18% Similarity=0.265 Sum_probs=15.6
Q ss_pred CCCCceEEEcCCCCCCcHHHHH
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLT 45 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~ 45 (91)
...++.+|||.+|..+-++.=.
T Consensus 24 s~tSr~vflG~IP~~W~~~~~~ 45 (67)
T PF15407_consen 24 SLTSRRVFLGPIPEIWLQDHRK 45 (67)
T ss_pred HHcCceEEECCCChHHHHcCcc
Confidence 3446789999999877654433
No 189
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=38.76 E-value=40 Score=22.56 Aligned_cols=30 Identities=10% Similarity=0.130 Sum_probs=21.6
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEE
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSEYGRVYNIN 58 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~ 58 (91)
.+.|+|||+.++...+..++.....+....
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~~~~~~v 132 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRPLFRCAV 132 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCCCCceee
Confidence 478899999999988888875433333333
No 190
>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=38.27 E-value=20 Score=17.77 Aligned_cols=9 Identities=33% Similarity=0.261 Sum_probs=6.2
Q ss_pred cceEEEEEe
Q psy11978 68 SKGKIFEAA 76 (91)
Q Consensus 68 ~~g~afv~~ 76 (91)
.+|||||..
T Consensus 7 ~~GfGFv~~ 15 (58)
T PF08206_consen 7 PKGFGFVIP 15 (58)
T ss_dssp SSS-EEEEE
T ss_pred cCCCEEEEE
Confidence 579999964
No 191
>PHA02531 20 portal vertex protein; Provisional
Probab=37.55 E-value=30 Score=25.18 Aligned_cols=24 Identities=25% Similarity=0.508 Sum_probs=20.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcC
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFSEY 51 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~~~ 51 (91)
..|=|||||..-.+..|+++..+|
T Consensus 282 FYiDVGNlPk~KAeqYlr~vm~~y 305 (514)
T PHA02531 282 FYIDVGNLPKRKAEEYLNNVMQRY 305 (514)
T ss_pred EEEEcCCCChhhHHHHHHHHHHHh
Confidence 345569999999999999998877
No 192
>COG2004 RPS24A Ribosomal protein S24E [Translation, ribosomal structure and biogenesis]
Probab=37.36 E-value=83 Score=18.06 Aligned_cols=45 Identities=16% Similarity=0.107 Sum_probs=25.8
Q ss_pred CCCcHHHHHHHhhc-CCCeeEEEEeecC----CCCCcceEEEEEeCHHHH
Q psy11978 37 RSMDEADLTKMFSE-YGRVYNINVLRDK----VTGQSKGKIFEAAFLKIA 81 (91)
Q Consensus 37 ~~~t~~~l~~~f~~-~G~i~~~~~~~~~----~tg~~~g~afv~~~~~~a 81 (91)
...+..++++-+.+ +|.=.++.++..- ..|.++||+-|.-+.+.+
T Consensus 30 ~TPSr~evrekla~~l~~d~e~VvV~~ikt~fG~~~s~g~akIY~s~e~~ 79 (107)
T COG2004 30 PTPSRKEVREKLAAMLGADKELVVVDYIKTEFGKGRSKGYAKIYDSVERA 79 (107)
T ss_pred CCCCHHHHHHHHHHHHCCCcceEEEEehhhhcCCcceeEEEEEECCHHHH
Confidence 44567888766654 5643333333332 346788999885444443
No 193
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=37.22 E-value=75 Score=17.49 Aligned_cols=45 Identities=13% Similarity=0.088 Sum_probs=24.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CCCeeEEEEeecCCCCCcceEEEEEe
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSE-YGRVYNINVLRDKVTGQSKGKIFEAA 76 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~-~G~i~~~~~~~~~~tg~~~g~afv~~ 76 (91)
-+|||+++..+.+.--..+-+. .++-.-+.+..+. ...||.|-+.
T Consensus 27 GVyVg~~s~rVRe~lW~~v~~~~~~~G~avm~~~~~---~e~G~~~~t~ 72 (87)
T TIGR01873 27 GVYVGGVSASVRERIWDYLAQHCPPKGSLVITWSSN---TCPGFEFFTL 72 (87)
T ss_pred CcEEcCCCHHHHHHHHHHHHHhCCCCccEEEEEeCC---CCCCcEEEec
Confidence 6999999887766543433333 2332222222222 2457888753
No 194
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=35.56 E-value=59 Score=23.38 Aligned_cols=37 Identities=22% Similarity=0.438 Sum_probs=27.3
Q ss_pred CCCCceEEEcCCCCC-CcHHHHHHHhhcC----CCeeEEEEe
Q psy11978 24 DPDFIKMFVGQIPRS-MDEADLTKMFSEY----GRVYNINVL 60 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~-~t~~~l~~~f~~~----G~i~~~~~~ 60 (91)
.....+|-|-|+.|+ +...+|..+|+.| |.+..|.|-
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iy 184 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIY 184 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEec
Confidence 445568999999997 5668888888865 567766653
No 195
>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=35.18 E-value=25 Score=17.60 Aligned_cols=9 Identities=33% Similarity=0.349 Sum_probs=7.0
Q ss_pred cceEEEEEe
Q psy11978 68 SKGKIFEAA 76 (91)
Q Consensus 68 ~~g~afv~~ 76 (91)
.+|||||.-
T Consensus 11 ~kgyGFI~~ 19 (66)
T PF00313_consen 11 EKGYGFITS 19 (66)
T ss_dssp TTTEEEEEE
T ss_pred CCCceEEEE
Confidence 369999964
No 196
>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=35.16 E-value=24 Score=17.58 Aligned_cols=7 Identities=43% Similarity=0.330 Sum_probs=6.1
Q ss_pred ceEEEEE
Q psy11978 69 KGKIFEA 75 (91)
Q Consensus 69 ~g~afv~ 75 (91)
+|||||.
T Consensus 12 kGfGFI~ 18 (65)
T cd04458 12 KGFGFIT 18 (65)
T ss_pred CCeEEEe
Confidence 7999995
No 197
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=33.30 E-value=91 Score=18.60 Aligned_cols=22 Identities=27% Similarity=0.452 Sum_probs=18.4
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSE 50 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~ 50 (91)
.+.++|+|+.++...+..++..
T Consensus 79 d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 79 YKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CEEEECCCcccHHHHHHHHHhc
Confidence 5778999999998888888764
No 198
>COG1278 CspC Cold shock proteins [Transcription]
Probab=32.20 E-value=35 Score=17.82 Aligned_cols=8 Identities=38% Similarity=0.351 Sum_probs=6.2
Q ss_pred cceEEEEE
Q psy11978 68 SKGKIFEA 75 (91)
Q Consensus 68 ~~g~afv~ 75 (91)
.+|||||.
T Consensus 12 ~KGfGFI~ 19 (67)
T COG1278 12 TKGFGFIT 19 (67)
T ss_pred CCcceEcC
Confidence 47899984
No 199
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=31.14 E-value=88 Score=16.49 Aligned_cols=35 Identities=11% Similarity=0.092 Sum_probs=22.5
Q ss_pred HhhcCCCeeEEEEeecCCCCCcceEEEEEeCHHHHHHHHhhcC
Q psy11978 47 MFSEYGRVYNINVLRDKVTGQSKGKIFEAAFLKIARAAIEPQK 89 (91)
Q Consensus 47 ~f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~~~a~~Ai~~~n 89 (91)
-+.+||.|..+. . -..|+.+..+.++++..++.++
T Consensus 16 ~L~kfG~i~Y~S-------k-k~kYvvlYvn~~~~e~~~~kl~ 50 (71)
T PF09902_consen 16 QLRKFGDIHYVS-------K-KMKYVVLYVNEEDVEEIIEKLK 50 (71)
T ss_pred hHhhcccEEEEE-------C-CccEEEEEECHHHHHHHHHHHh
Confidence 356899987652 1 2357777667777777776543
No 200
>PF14893 PNMA: PNMA
Probab=30.86 E-value=45 Score=22.96 Aligned_cols=22 Identities=23% Similarity=0.431 Sum_probs=19.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhh
Q psy11978 28 IKMFVGQIPRSMDEADLTKMFS 49 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~~l~~~f~ 49 (91)
+.|.|.+||.+++++++++.+.
T Consensus 19 r~lLv~giP~dc~~~ei~e~l~ 40 (331)
T PF14893_consen 19 RALLVLGIPEDCEEAEIEEALQ 40 (331)
T ss_pred hhheeecCCCCCCHHHHHHHHH
Confidence 5699999999999999887764
No 201
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=30.78 E-value=97 Score=16.85 Aligned_cols=53 Identities=17% Similarity=0.219 Sum_probs=35.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CC-CeeEEEEeecCCCCCcceEEEEEeCH-HHHHHH
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSE-YG-RVYNINVLRDKVTGQSKGKIFEAAFL-KIARAA 84 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~-~G-~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~A 84 (91)
+-|+-..+..++..++++.++. || .+.+|.....+ .+ .--|||.+.. ..|...
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~-~~--~KKA~V~L~~g~~A~~v 77 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP-KG--EKKAYVKLAEEYDAEEI 77 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CC--cEEEEEEeCCCCcHHHH
Confidence 4566667889999999988886 66 46777766555 22 2358888643 445443
No 202
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=30.59 E-value=87 Score=16.24 Aligned_cols=33 Identities=21% Similarity=0.278 Sum_probs=21.4
Q ss_pred cHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEE
Q psy11978 40 DEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFE 74 (91)
Q Consensus 40 t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv 74 (91)
-+.+|+..|-+-.++.++.+...+.-+ +|-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri~--~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRIR--KGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEeee--CCceeE
Confidence 345677777777788888876665333 355555
No 203
>PF00054 Laminin_G_1: Laminin G domain; InterPro: IPR012679 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, which includes a large number of extracellular proteins. The C terminus of laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions has been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each has five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012680 from INTERPRO).; PDB: 1OKQ_A 1DYK_A 2C5D_A 1H30_A 1LHW_A 1KDK_A 1LHU_A 1KDM_A 1LHO_A 1D2S_A ....
Probab=29.81 E-value=10 Score=21.87 Aligned_cols=9 Identities=33% Similarity=0.822 Sum_probs=7.8
Q ss_pred ceEEEcCCC
Q psy11978 28 IKMFVGQIP 36 (91)
Q Consensus 28 ~~l~V~~L~ 36 (91)
..||||++|
T Consensus 93 ~~lyvGG~p 101 (131)
T PF00054_consen 93 GPLYVGGLP 101 (131)
T ss_dssp SEEEESSSS
T ss_pred cCEEEccCC
Confidence 359999999
No 204
>PF07230 Peptidase_S80: Bacteriophage T4-like capsid assembly protein (Gp20); InterPro: IPR010823 This family of proteins is essential for capsid assembly in the T4-like bacteriophages []. Gp20 forms a unique 12 subunit portal vertex through which DNA enters during packaging and exits during infection. The Gp20 vertex acts as an initiator for the assembly of the major capsid protein and the scaffolding proteins into a prolate icosahedron of precise dimensions. The regulation of portal protein gene expression is an important regulator of prohead assembly in bacteriophage T4 [].
Probab=28.42 E-value=64 Score=23.55 Aligned_cols=22 Identities=27% Similarity=0.594 Sum_probs=19.0
Q ss_pred EEEcCCCCCCcHHHHHHHhhcC
Q psy11978 30 MFVGQIPRSMDEADLTKMFSEY 51 (91)
Q Consensus 30 l~V~~L~~~~t~~~l~~~f~~~ 51 (91)
|=|||||..-.++.|+++..+|
T Consensus 281 IDvGnlpk~KAeqyl~~iM~k~ 302 (501)
T PF07230_consen 281 IDVGNLPKQKAEQYLRDIMNKY 302 (501)
T ss_pred EECCCCChHhHHHHHHHHHHHh
Confidence 3459999999999999998877
No 205
>cd00874 RNA_Cyclase_Class_II RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in all members of this subfamily.
Probab=27.83 E-value=89 Score=21.40 Aligned_cols=45 Identities=11% Similarity=0.223 Sum_probs=29.2
Q ss_pred eEEEcCCCCCCcHHHHH---HHhhc-CCCeeEEEEeecCCCCCcceEEEEE
Q psy11978 29 KMFVGQIPRSMDEADLT---KMFSE-YGRVYNINVLRDKVTGQSKGKIFEA 75 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~---~~f~~-~G~i~~~~~~~~~~tg~~~g~afv~ 75 (91)
..|+.+||..+.+.+.. ..+.+ ++ .++.+..+...+.+.|++.+.
T Consensus 188 ~~~~~~l~~~va~r~~~~a~~~L~~~~~--~dv~i~~~~~~~~s~G~~i~L 236 (326)
T cd00874 188 ISHAANLPPHVAERQAEAAAALLRKALG--LQIEIEPEDQSALGPGSGIVL 236 (326)
T ss_pred EEEEccCCHHHHHHHHHHHHHHHhhccC--CCeEEEEEecCCCCCCEEEEE
Confidence 46788999998876554 45555 43 344555555457888888753
No 206
>PRK10905 cell division protein DamX; Validated
Probab=27.66 E-value=2.1e+02 Score=19.81 Aligned_cols=53 Identities=17% Similarity=0.084 Sum_probs=30.6
Q ss_pred CCCCCCcHHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE--e-CHHHHHHHHhhc
Q psy11978 34 QIPRSMDEADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA--A-FLKIARAAIEPQ 88 (91)
Q Consensus 34 ~L~~~~t~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~--~-~~~~a~~Ai~~~ 88 (91)
.|--..+.+.|+.+-.++|- ....+......|+ ..|-.+. | +.++|++||..|
T Consensus 251 QL~A~Ss~~~l~~fakKlgL-~~y~vy~TtRnGk-pWYVV~yG~YaSraeAk~AiakL 306 (328)
T PRK10905 251 QLSSSSNYDNLNGWAKKENL-KNYVVYETTRNGQ-PWYVLVSGVYASKEEAKRAVSTL 306 (328)
T ss_pred EEEecCCHHHHHHHHHHcCC-CceEEEEeccCCc-eEEEEEecCCCCHHHHHHHHHHC
Confidence 33344567888888777753 3233333322333 2455554 6 569999999876
No 207
>KOG2944|consensus
Probab=27.59 E-value=38 Score=20.94 Aligned_cols=23 Identities=9% Similarity=0.015 Sum_probs=14.3
Q ss_pred CCcceEEEEEeCH---HHHHHHHhhc
Q psy11978 66 GQSKGKIFEAAFL---KIARAAIEPQ 88 (91)
Q Consensus 66 g~~~g~afv~~~~---~~a~~Ai~~~ 88 (91)
...|||+.|.++. ..|...++++
T Consensus 111 ~~prGfgHIci~V~di~sac~~lkek 136 (170)
T KOG2944|consen 111 KEPRGFGHICIEVDDINSACERLKEK 136 (170)
T ss_pred CCCCccceEEEEeCCHHHHHHHHHHh
Confidence 3457999998644 4555555444
No 208
>PF15063 TC1: Thyroid cancer protein 1
Probab=27.15 E-value=64 Score=17.35 Aligned_cols=31 Identities=19% Similarity=0.246 Sum_probs=24.8
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCe
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRV 54 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i 54 (91)
....++--+.||=.++....|+.+|..-|..
T Consensus 22 dt~~RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 22 DTASRKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred chHHhhhhhhhhhhccCHHHHHHHHHHccch
Confidence 3444566778888899999999999998864
No 209
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=26.78 E-value=66 Score=14.36 Aligned_cols=17 Identities=18% Similarity=0.300 Sum_probs=13.7
Q ss_pred CCcHHHHHHHhhcCCCe
Q psy11978 38 SMDEADLTKMFSEYGRV 54 (91)
Q Consensus 38 ~~t~~~l~~~f~~~G~i 54 (91)
..++++|+..+..+|-.
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 46789999999988854
No 210
>PF01984 dsDNA_bind: Double-stranded DNA-binding domain; InterPro: IPR002836 This protein family is found in archaea and eukaryota. The human TFAR19 (TF-1 cell apoptosis-related protein 19) encodes a protein which shares significant homology to the corresponding proteins of species ranging from yeast to mice. TFAR19 exhibits a ubiquitous expression pattern and its expression is up-regulated in the tumour cells undergoing apoptosis. TFAR19 may play a general role in the apoptotic process []. Also included in this family is a DNA-binding protein from the archaea, Methanobacterium thermoautotrophicum.; GO: 0003677 DNA binding; PDB: 1EIJ_A 2K6B_A 2CRU_A 1YYB_A 2JXN_A 2FH0_A.
Probab=24.29 E-value=54 Score=18.65 Aligned_cols=20 Identities=20% Similarity=0.542 Sum_probs=15.2
Q ss_pred cCCCCCCcHHHHHHHhhcCC
Q psy11978 33 GQIPRSMDEADLTKMFSEYG 52 (91)
Q Consensus 33 ~~L~~~~t~~~l~~~f~~~G 52 (91)
|.|...+++++|..++....
T Consensus 75 G~l~~kI~d~~L~~iL~~i~ 94 (107)
T PF01984_consen 75 GQLRGKIDDEQLKEILEQIS 94 (107)
T ss_dssp TSSSS-B-HHHHHHHHHHHC
T ss_pred CCCCCCcCHHHHHHHHHHHh
Confidence 77888999999999998754
No 211
>PF14401 RLAN: RimK-like ATPgrasp N-terminal domain
Probab=24.23 E-value=1.7e+02 Score=17.65 Aligned_cols=49 Identities=14% Similarity=0.215 Sum_probs=32.8
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCC-CeeEEEEeecCCCCCcceEEEEE
Q psy11978 27 FIKMFVGQIPRSMDEADLTKMFSEYG-RVYNINVLRDKVTGQSKGKIFEA 75 (91)
Q Consensus 27 ~~~l~V~~L~~~~t~~~l~~~f~~~G-~i~~~~~~~~~~tg~~~g~afv~ 75 (91)
..+||.|.-+..--+.--+.+|+.|- ++..+.+.+.......+...-+.
T Consensus 87 ~l~iyFG~~~~~~~~~lAr~lFe~F~~PlL~v~~~~~~~~w~i~~i~~~~ 136 (153)
T PF14401_consen 87 ELSIYFGQTPDPRLERLARQLFERFPCPLLEVEFVRDDGKWRISSIKPLS 136 (153)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHhCCCceEEEEEEecCCcEEEeeEeecC
Confidence 34688887755544555678999984 68888887776334555555554
No 212
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=23.87 E-value=81 Score=14.65 Aligned_cols=19 Identities=11% Similarity=0.380 Sum_probs=15.0
Q ss_pred cCCCCCCcHHHHHHHhhcC
Q psy11978 33 GQIPRSMDEADLTKMFSEY 51 (91)
Q Consensus 33 ~~L~~~~t~~~l~~~f~~~ 51 (91)
-+|+...+.++|+..|...
T Consensus 6 Lgl~~~~~~~~ik~~y~~l 24 (55)
T cd06257 6 LGVPPDASDEEIKKAYRKL 24 (55)
T ss_pred cCCCCCCCHHHHHHHHHHH
Confidence 4678889999998887643
No 213
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=23.61 E-value=67 Score=17.77 Aligned_cols=48 Identities=13% Similarity=0.118 Sum_probs=28.4
Q ss_pred ceEEEcCCCCCCc--HHHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE
Q psy11978 28 IKMFVGQIPRSMD--EADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA 75 (91)
Q Consensus 28 ~~l~V~~L~~~~t--~~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~ 75 (91)
..|-++-.....+ .+.|.++|++.+.|...++..-...+....|.++.
T Consensus 6 ~~v~l~~P~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~v 55 (108)
T PF14581_consen 6 EKVLLGEPEEEPTDLLAALSEYFKQHKNVRAAYLALMQDEDEQPSLLIGV 55 (108)
T ss_pred CEEEecCCccCHHHHHHHHHHHHhhCccHHHhHHHHhhccCCCceEEEEE
Confidence 3566664433323 25678889999988877654443334445566654
No 214
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=23.60 E-value=1e+02 Score=17.77 Aligned_cols=18 Identities=22% Similarity=0.660 Sum_probs=14.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhh
Q psy11978 29 KMFVGQIPRSMDEADLTKMFS 49 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~ 49 (91)
.||+|+.+ ++++|.+.|.
T Consensus 3 siWiG~f~---s~~el~~Y~e 20 (122)
T PF14112_consen 3 SIWIGNFK---SEDELEEYFE 20 (122)
T ss_pred EEEEecCC---CHHHHHHHhC
Confidence 68999764 8899998885
No 215
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=22.86 E-value=1.3e+02 Score=15.79 Aligned_cols=34 Identities=12% Similarity=0.189 Sum_probs=23.4
Q ss_pred HHHHHHhhcCC-CeeEEEEeecCCCCCcceEEEEE
Q psy11978 42 ADLTKMFSEYG-RVYNINVLRDKVTGQSKGKIFEA 75 (91)
Q Consensus 42 ~~l~~~f~~~G-~i~~~~~~~~~~tg~~~g~afv~ 75 (91)
+++++.|..+| .+..++-+..+.++..--.-+|+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~ve 36 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVE 36 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEE
Confidence 35677777777 57788878777666555566665
No 216
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=22.83 E-value=47 Score=23.63 Aligned_cols=59 Identities=15% Similarity=0.140 Sum_probs=41.9
Q ss_pred ceEEEcCCCCCCcHH--------HHHHHhhc--CCCeeEEEEeecCCCCCcceEEEEEeC-HHHHHHHHh
Q psy11978 28 IKMFVGQIPRSMDEA--------DLTKMFSE--YGRVYNINVLRDKVTGQSKGKIFEAAF-LKIARAAIE 86 (91)
Q Consensus 28 ~~l~V~~L~~~~t~~--------~l~~~f~~--~G~i~~~~~~~~~~tg~~~g~afv~~~-~~~a~~Ai~ 86 (91)
+.+|+.+.....+.+ ++...|.. ++....+..-++.....++|--|+.|. ...+++...
T Consensus 175 r~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 457777776655444 88889988 566677776666656678888888884 477777763
No 217
>KOG2135|consensus
Probab=22.62 E-value=67 Score=23.40 Aligned_cols=37 Identities=27% Similarity=0.424 Sum_probs=26.8
Q ss_pred CCceEEEcCCCCCC-cHHHHHHHhhcCCCeeEEEEeec
Q psy11978 26 DFIKMFVGQIPRSM-DEADLTKMFSEYGRVYNINVLRD 62 (91)
Q Consensus 26 ~~~~l~V~~L~~~~-t~~~l~~~f~~~G~i~~~~~~~~ 62 (91)
+.+.+-+.-.|+.+ +.++|...|.+||.|..|.+-..
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~ 408 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS 408 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCc
Confidence 33455555666665 56899999999999999876443
No 218
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=22.47 E-value=1.5e+02 Score=16.17 Aligned_cols=34 Identities=12% Similarity=0.381 Sum_probs=24.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CC-CeeEEEEeec
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSE-YG-RVYNINVLRD 62 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~-~G-~i~~~~~~~~ 62 (91)
+.|+-.++..++..++++.++. || .+.+|....-
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~ 56 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNY 56 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEe
Confidence 4666677899999999998886 66 3566654443
No 219
>PF11004 Kdo_hydroxy: 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; InterPro: IPR021266 This bacterial family of proteins has no known function.
Probab=22.32 E-value=2e+02 Score=19.49 Aligned_cols=45 Identities=11% Similarity=0.098 Sum_probs=29.4
Q ss_pred CCCceEEEcCCCCCCcHHHHHHHhh-cCCCeeEEEEeecCCCCCcce
Q psy11978 25 PDFIKMFVGQIPRSMDEADLTKMFS-EYGRVYNINVLRDKVTGQSKG 70 (91)
Q Consensus 25 ~~~~~l~V~~L~~~~t~~~l~~~f~-~~G~i~~~~~~~~~~tg~~~g 70 (91)
+.+.-||.-+|++..++++- .++. .+-....-.|..++.++..+|
T Consensus 19 E~G~VL~fP~l~F~l~~~E~-~fL~p~~~d~k~KNIs~~p~~~~l~G 64 (281)
T PF11004_consen 19 EQGKVLYFPQLRFPLSPEER-AFLDPAIVDPKRKNISYRPNTGSLRG 64 (281)
T ss_pred hCCCEEEeCCCCCCCChhHH-hhcChhhhCCCCCceeecCCCCceec
Confidence 34568999999999998876 3443 332333334555666777777
No 220
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=22.09 E-value=97 Score=16.04 Aligned_cols=18 Identities=22% Similarity=0.427 Sum_probs=14.7
Q ss_pred CCCCcHHHHHHHhhcCCC
Q psy11978 36 PRSMDEADLTKMFSEYGR 53 (91)
Q Consensus 36 ~~~~t~~~l~~~f~~~G~ 53 (91)
.+.++|+.++..+.+-|.
T Consensus 29 NPpine~mir~M~~QMG~ 46 (64)
T PF03672_consen 29 NPPINEKMIRAMMMQMGR 46 (64)
T ss_pred CCCCCHHHHHHHHHHhCC
Confidence 356899999999998875
No 221
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=21.71 E-value=1.4e+02 Score=17.00 Aligned_cols=22 Identities=14% Similarity=0.391 Sum_probs=14.3
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHh
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMF 48 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f 48 (91)
+.++..+++|.||.+ +++++++
T Consensus 61 ekeg~~i~~g~lPt~---~eVe~Fl 82 (105)
T PF09702_consen 61 EKEGNYIIVGYLPTD---EEVEDFL 82 (105)
T ss_pred cCCCCEEecCCCCCh---HHHHHHH
Confidence 455678999999854 4444443
No 222
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=21.69 E-value=1.5e+02 Score=15.84 Aligned_cols=52 Identities=15% Similarity=0.234 Sum_probs=34.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CC-CeeEEEEeecCCCCCcceEEEEEeCH-HHHHH
Q psy11978 29 KMFVGQIPRSMDEADLTKMFSE-YG-RVYNINVLRDKVTGQSKGKIFEAAFL-KIARA 83 (91)
Q Consensus 29 ~l~V~~L~~~~t~~~l~~~f~~-~G-~i~~~~~~~~~~tg~~~g~afv~~~~-~~a~~ 83 (91)
+-|+-.++..++..+++..++. || .+..|....-+ .+ .--|||.+.. ..|..
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~-~~--~KKA~VtL~~g~~a~~ 69 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP-RG--EKKAYVKLAEEYAAEE 69 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CC--ceEEEEEECCCCcHHH
Confidence 4666678899999999988886 66 46677665554 22 2358887633 44443
No 223
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=21.60 E-value=2.7e+02 Score=21.07 Aligned_cols=38 Identities=16% Similarity=0.217 Sum_probs=26.2
Q ss_pred CCCCceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEee
Q psy11978 24 DPDFIKMFVGQIPRSMDEADLTKMFSEYGRVYNINVLR 61 (91)
Q Consensus 24 ~~~~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~~~~ 61 (91)
.-+...+|+.+|+-++.++--.++....-.++.+.+.+
T Consensus 298 Gl~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~r 335 (621)
T COG0445 298 GLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILR 335 (621)
T ss_pred CCCCceEecCcccccCCHHHHHHHHHhCcccccceeec
Confidence 33445799999988888876666666655566666544
No 224
>PRK04239 hypothetical protein; Provisional
Probab=21.29 E-value=99 Score=17.82 Aligned_cols=20 Identities=20% Similarity=0.547 Sum_probs=17.2
Q ss_pred EcCCCCCCcHHHHHHHhhcC
Q psy11978 32 VGQIPRSMDEADLTKMFSEY 51 (91)
Q Consensus 32 V~~L~~~~t~~~l~~~f~~~ 51 (91)
-|.|+..+|+++|..++...
T Consensus 79 ~G~i~~ki~e~~L~~lL~~v 98 (110)
T PRK04239 79 SGRIQGPIDDEQLKEILEQL 98 (110)
T ss_pred cCCCCCCcCHHHHHHHHHHH
Confidence 37888999999999999864
No 225
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=20.94 E-value=66 Score=21.88 Aligned_cols=19 Identities=26% Similarity=0.531 Sum_probs=16.3
Q ss_pred CCcHHHHHHHhhcCCCeeE
Q psy11978 38 SMDEADLTKMFSEYGRVYN 56 (91)
Q Consensus 38 ~~t~~~l~~~f~~~G~i~~ 56 (91)
.+++++|.++|..||+...
T Consensus 140 ~~~e~~L~~i~~~yGEe~~ 158 (305)
T TIGR00006 140 TYSEEDLERILKKYGEEKF 158 (305)
T ss_pred hCCHHHHHHHHHHhcCcch
Confidence 5789999999999998754
No 226
>PRK02302 hypothetical protein; Provisional
Probab=20.86 E-value=1.7e+02 Score=16.22 Aligned_cols=33 Identities=12% Similarity=0.118 Sum_probs=21.5
Q ss_pred hhcCCCeeEEEEeecCCCCCcceEEEEEeCHHHHHHHHhhc
Q psy11978 48 FSEYGRVYNINVLRDKVTGQSKGKIFEAAFLKIARAAIEPQ 88 (91)
Q Consensus 48 f~~~G~i~~~~~~~~~~tg~~~g~afv~~~~~~a~~Ai~~~ 88 (91)
+.+||.|..+. +-.-|+.+..+.+++++.++.+
T Consensus 23 LrkfG~I~Y~S--------kk~kYvvlYvn~~~~e~~~~kl 55 (89)
T PRK02302 23 LSKYGDIVYHS--------KRSRYLVLYVNKEDVEQKLEEL 55 (89)
T ss_pred HhhcCcEEEEe--------ccccEEEEEECHHHHHHHHHHH
Confidence 46899987642 1234777766777777777654
No 227
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=20.74 E-value=67 Score=21.69 Aligned_cols=19 Identities=32% Similarity=0.642 Sum_probs=16.2
Q ss_pred CCcHHHHHHHhhcCCCeeE
Q psy11978 38 SMDEADLTKMFSEYGRVYN 56 (91)
Q Consensus 38 ~~t~~~l~~~f~~~G~i~~ 56 (91)
.+++++|..+|..||+...
T Consensus 138 ~~~~~~L~~i~~~yGee~~ 156 (296)
T PRK00050 138 TYSEEELARIFKEYGEERF 156 (296)
T ss_pred hCCHHHHHHHHHHhcCcch
Confidence 4688999999999998754
No 228
>KOG0156|consensus
Probab=20.32 E-value=2.7e+02 Score=20.25 Aligned_cols=51 Identities=14% Similarity=0.217 Sum_probs=32.5
Q ss_pred eEEEcCCCCCCcH---HHHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE-eCHHHHHHHHhhc
Q psy11978 29 KMFVGQIPRSMDE---ADLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA-AFLKIARAAIEPQ 88 (91)
Q Consensus 29 ~l~V~~L~~~~t~---~~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~-~~~~~a~~Ai~~~ 88 (91)
-=.||||+.-... ..+.++-.+||.|-.+++-..+ .|. .+.+.|..++..+
T Consensus 34 lPiIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~~---------~Vviss~~~akE~l~~~ 88 (489)
T KOG0156|consen 34 LPIIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSVP---------VVVISSYEAAKEVLVKQ 88 (489)
T ss_pred CCccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCce---------EEEECCHHHHHHHHHhC
Confidence 4578888775543 4566666789999877763222 233 4557777777653
No 229
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=20.07 E-value=23 Score=24.47 Aligned_cols=43 Identities=19% Similarity=0.069 Sum_probs=22.6
Q ss_pred HHHHHhhcCCCeeEEEEeecCCCCCcceEEEEE-eCHHHHHHHHhhcC
Q psy11978 43 DLTKMFSEYGRVYNINVLRDKVTGQSKGKIFEA-AFLKIARAAIEPQK 89 (91)
Q Consensus 43 ~l~~~f~~~G~i~~~~~~~~~~tg~~~g~afv~-~~~~~a~~Ai~~~n 89 (91)
.+.+...+.|++..-.+.+.- +-|.||+. ...++++++++.++
T Consensus 277 ~iF~~i~~~G~v~~~EM~rtF----NmGvG~v~iv~~e~~~~~~~~l~ 320 (345)
T COG0150 277 PIFKWLQKAGNVEREEMYRTF----NMGVGMVLIVPEEDAEKALALLK 320 (345)
T ss_pred HHHHHHHHhcCCCHHHHHHHh----cCccceEEEEcHHHHHHHHHHHH
Confidence 344444566766543333332 33556654 35566677776543
Done!