Query 017037
Match_columns 378
No_of_seqs 270 out of 1747
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:03:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017037.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017037hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.5 6.9E-15 1.5E-19 146.6 6.0 76 298-375 205-281 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 4.5E-14 9.8E-19 100.8 2.0 44 324-368 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.2 5.6E-12 1.2E-16 120.6 4.4 76 297-372 147-227 (238)
4 COG5540 RING-finger-containing 99.2 8E-12 1.7E-16 122.1 3.8 52 322-374 322-374 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.3E-11 2.7E-16 98.0 3.9 48 321-368 17-73 (73)
6 KOG0317 Predicted E3 ubiquitin 99.0 1.6E-10 3.6E-15 112.3 4.1 52 320-375 236-287 (293)
7 COG5243 HRD1 HRD ubiquitin lig 98.9 5.4E-10 1.2E-14 111.9 3.9 53 320-373 284-346 (491)
8 KOG0823 Predicted E3 ubiquitin 98.9 5.6E-10 1.2E-14 105.8 3.1 52 320-375 44-98 (230)
9 PLN03208 E3 ubiquitin-protein 98.9 1.1E-09 2.3E-14 101.9 4.4 50 321-374 16-81 (193)
10 cd00162 RING RING-finger (Real 98.9 1.4E-09 3E-14 74.9 3.5 44 325-371 1-45 (45)
11 PF13920 zf-C3HC4_3: Zinc fing 98.8 1.6E-09 3.4E-14 79.4 2.7 46 323-372 2-48 (50)
12 PF12861 zf-Apc11: Anaphase-pr 98.8 2.7E-09 5.9E-14 87.4 3.7 52 321-372 19-82 (85)
13 PF13923 zf-C3HC4_2: Zinc fing 98.8 3.4E-09 7.4E-14 73.9 3.1 39 326-367 1-39 (39)
14 PHA02926 zinc finger-like prot 98.8 3.8E-09 8.3E-14 99.9 3.4 53 320-372 167-230 (242)
15 KOG0320 Predicted E3 ubiquitin 98.8 4.7E-09 1E-13 96.2 3.2 51 321-373 129-179 (187)
16 KOG0802 E3 ubiquitin ligase [P 98.7 5.2E-09 1.1E-13 110.5 2.4 50 322-372 290-341 (543)
17 smart00504 Ubox Modified RING 98.7 2.1E-08 4.5E-13 75.6 4.0 48 324-375 2-49 (63)
18 PF14634 zf-RING_5: zinc-RING 98.6 2.6E-08 5.6E-13 71.4 3.1 44 325-369 1-44 (44)
19 PF00097 zf-C3HC4: Zinc finger 98.6 3.7E-08 8E-13 68.8 2.4 39 326-367 1-41 (41)
20 PF15227 zf-C3HC4_4: zinc fing 98.5 4.3E-08 9.4E-13 70.1 2.6 38 326-367 1-42 (42)
21 TIGR00599 rad18 DNA repair pro 98.5 5.4E-08 1.2E-12 99.4 4.1 51 320-374 23-73 (397)
22 COG5194 APC11 Component of SCF 98.5 4.6E-08 1E-12 79.2 2.7 48 325-372 33-81 (88)
23 smart00184 RING Ring finger. E 98.5 9.3E-08 2E-12 63.5 3.4 38 326-367 1-39 (39)
24 KOG1493 Anaphase-promoting com 98.3 1.3E-07 2.9E-12 75.9 0.7 52 321-372 18-81 (84)
25 COG5574 PEX10 RING-finger-cont 98.3 3.8E-07 8.3E-12 88.2 2.8 51 321-375 213-265 (271)
26 PF13445 zf-RING_UBOX: RING-ty 98.3 4.6E-07 1E-11 65.4 2.5 39 326-365 1-43 (43)
27 KOG2164 Predicted E3 ubiquitin 98.2 4.8E-07 1E-11 94.1 2.9 49 323-375 186-239 (513)
28 KOG0828 Predicted E3 ubiquitin 98.2 5.1E-07 1.1E-11 93.5 2.6 52 322-373 570-635 (636)
29 KOG0287 Postreplication repair 98.2 4.3E-07 9.3E-12 90.5 0.9 51 322-376 22-72 (442)
30 smart00744 RINGv The RING-vari 98.2 1.7E-06 3.7E-11 63.9 3.3 42 325-368 1-49 (49)
31 KOG2177 Predicted E3 ubiquitin 98.1 1.2E-06 2.7E-11 79.9 1.8 45 321-369 11-55 (386)
32 KOG2930 SCF ubiquitin ligase, 98.1 2.5E-06 5.3E-11 72.3 2.8 36 336-371 72-107 (114)
33 PF04564 U-box: U-box domain; 98.0 2.5E-06 5.3E-11 67.5 1.9 48 323-374 4-52 (73)
34 KOG4265 Predicted E3 ubiquitin 97.9 5.3E-06 1.2E-10 83.2 3.1 46 323-372 290-336 (349)
35 COG5219 Uncharacterized conser 97.9 2.4E-06 5.2E-11 93.8 0.4 54 319-372 1465-1523(1525)
36 COG5432 RAD18 RING-finger-cont 97.9 4.6E-06 1E-10 81.9 1.7 47 323-373 25-71 (391)
37 PF11793 FANCL_C: FANCL C-term 97.9 2.9E-06 6.2E-11 67.0 0.1 50 323-372 2-66 (70)
38 KOG1734 Predicted RING-contain 97.9 4E-06 8.7E-11 81.6 1.1 52 320-372 221-281 (328)
39 KOG4445 Uncharacterized conser 97.8 4.9E-06 1.1E-10 82.0 1.1 55 320-375 112-189 (368)
40 KOG0311 Predicted E3 ubiquitin 97.8 3.3E-06 7.2E-11 84.6 -1.3 51 321-374 41-92 (381)
41 KOG1039 Predicted E3 ubiquitin 97.8 1.2E-05 2.6E-10 81.1 2.5 51 321-371 159-220 (344)
42 KOG0804 Cytoplasmic Zn-finger 97.5 3.4E-05 7.4E-10 79.5 1.9 50 321-372 173-222 (493)
43 KOG0825 PHD Zn-finger protein 97.5 1.8E-05 3.8E-10 85.9 -0.6 51 322-373 122-172 (1134)
44 KOG4172 Predicted E3 ubiquitin 97.5 4.2E-05 9.1E-10 58.2 1.0 46 323-372 7-54 (62)
45 PF14835 zf-RING_6: zf-RING of 97.4 5.2E-05 1.1E-09 59.3 0.4 50 323-377 7-56 (65)
46 KOG0978 E3 ubiquitin ligase in 97.0 0.00026 5.6E-09 76.9 1.4 50 322-375 642-692 (698)
47 KOG1785 Tyrosine kinase negati 96.9 0.00033 7.1E-09 71.7 1.4 47 324-374 370-418 (563)
48 KOG0297 TNF receptor-associate 96.7 0.00073 1.6E-08 69.3 2.3 53 320-375 18-70 (391)
49 KOG4159 Predicted E3 ubiquitin 96.7 0.00088 1.9E-08 69.0 2.8 49 321-373 82-130 (398)
50 KOG3970 Predicted E3 ubiquitin 96.6 0.001 2.2E-08 63.8 1.9 53 321-375 48-108 (299)
51 PF11789 zf-Nse: Zinc-finger o 96.6 0.0011 2.3E-08 50.6 1.5 42 322-366 10-53 (57)
52 KOG2660 Locus-specific chromos 96.4 0.0009 2E-08 66.9 0.2 48 321-371 13-60 (331)
53 KOG4275 Predicted E3 ubiquitin 96.3 0.0012 2.6E-08 65.3 0.4 90 275-372 246-342 (350)
54 KOG0801 Predicted E3 ubiquitin 96.2 0.0016 3.6E-08 59.6 1.0 31 320-351 174-204 (205)
55 KOG1941 Acetylcholine receptor 96.1 0.002 4.3E-08 65.9 1.0 47 323-369 365-413 (518)
56 KOG3039 Uncharacterized conser 96.1 0.0051 1.1E-07 59.7 3.6 53 323-375 221-273 (303)
57 KOG4692 Predicted E3 ubiquitin 95.9 0.006 1.3E-07 61.9 3.2 50 320-373 419-468 (489)
58 PHA02862 5L protein; Provision 95.8 0.0082 1.8E-07 54.1 3.2 45 323-372 2-53 (156)
59 KOG2879 Predicted E3 ubiquitin 95.7 0.0084 1.8E-07 59.0 3.4 52 318-372 234-287 (298)
60 KOG1952 Transcription factor N 95.6 0.005 1.1E-07 68.0 1.7 49 322-370 190-245 (950)
61 PF12906 RINGv: RING-variant d 95.6 0.0078 1.7E-07 44.1 1.9 40 326-367 1-47 (47)
62 PHA02825 LAP/PHD finger-like p 95.5 0.013 2.9E-07 53.4 3.6 47 321-372 6-59 (162)
63 KOG1428 Inhibitor of type V ad 95.5 0.0099 2.2E-07 68.7 3.2 50 322-372 3485-3544(3738)
64 COG5152 Uncharacterized conser 95.5 0.0057 1.2E-07 57.8 1.1 43 324-370 197-239 (259)
65 PF05883 Baculo_RING: Baculovi 95.4 0.0082 1.8E-07 53.4 1.9 36 323-359 26-67 (134)
66 PHA03096 p28-like protein; Pro 95.3 0.0092 2E-07 59.1 1.9 45 324-368 179-230 (284)
67 KOG1571 Predicted E3 ubiquitin 95.1 0.013 2.7E-07 59.5 2.2 44 322-372 304-347 (355)
68 KOG1814 Predicted E3 ubiquitin 95.0 0.013 2.7E-07 60.5 2.1 46 323-369 184-237 (445)
69 PF04641 Rtf2: Rtf2 RING-finge 94.9 0.026 5.7E-07 54.7 3.9 53 321-374 111-163 (260)
70 KOG1002 Nucleotide excision re 94.7 0.015 3.3E-07 61.6 1.8 51 320-374 533-588 (791)
71 PF14570 zf-RING_4: RING/Ubox 94.4 0.027 5.9E-07 41.8 2.0 44 326-370 1-46 (48)
72 KOG1645 RING-finger-containing 94.3 0.027 5.9E-07 58.1 2.6 33 340-372 22-56 (463)
73 KOG1813 Predicted E3 ubiquitin 94.3 0.016 3.4E-07 57.6 0.8 44 324-371 242-285 (313)
74 PF10367 Vps39_2: Vacuolar sor 94.2 0.021 4.6E-07 46.8 1.1 34 320-355 75-108 (109)
75 KOG0827 Predicted E3 ubiquitin 94.1 0.0035 7.6E-08 64.1 -4.3 51 322-373 195-246 (465)
76 COG5236 Uncharacterized conser 94.0 0.052 1.1E-06 55.2 3.7 50 318-371 56-107 (493)
77 KOG1940 Zn-finger protein [Gen 93.4 0.039 8.5E-07 54.5 1.7 46 324-369 159-204 (276)
78 KOG0826 Predicted E3 ubiquitin 93.4 0.067 1.5E-06 53.9 3.4 47 322-371 299-345 (357)
79 COG5175 MOT2 Transcriptional r 93.0 0.067 1.4E-06 54.3 2.6 54 322-375 13-67 (480)
80 COG5222 Uncharacterized conser 92.9 0.062 1.3E-06 53.7 2.2 47 324-373 275-323 (427)
81 KOG2114 Vacuolar assembly/sort 92.4 0.072 1.6E-06 59.2 2.1 44 322-371 839-882 (933)
82 PF10272 Tmpp129: Putative tra 92.3 0.16 3.5E-06 51.9 4.4 29 345-373 311-352 (358)
83 KOG2932 E3 ubiquitin ligase in 91.8 0.073 1.6E-06 53.4 1.2 43 324-371 91-133 (389)
84 PF08746 zf-RING-like: RING-li 91.7 0.093 2E-06 37.8 1.3 41 326-367 1-43 (43)
85 KOG3161 Predicted E3 ubiquitin 91.3 0.059 1.3E-06 58.4 0.1 44 323-369 11-54 (861)
86 PF14447 Prok-RING_4: Prokaryo 91.1 0.13 2.9E-06 39.2 1.8 47 323-375 7-53 (55)
87 KOG1001 Helicase-like transcri 91.1 0.088 1.9E-06 57.9 1.1 45 324-373 455-501 (674)
88 KOG1609 Protein involved in mR 90.9 0.14 2.9E-06 49.6 2.1 52 323-374 78-136 (323)
89 KOG0298 DEAD box-containing he 90.1 0.088 1.9E-06 60.8 0.0 45 323-370 1153-1197(1394)
90 KOG3268 Predicted E3 ubiquitin 89.9 0.21 4.6E-06 46.7 2.3 51 323-373 165-229 (234)
91 KOG3002 Zn finger protein [Gen 89.8 0.19 4.2E-06 50.2 2.1 44 321-372 46-91 (299)
92 KOG3053 Uncharacterized conser 89.5 0.19 4E-06 49.4 1.7 50 322-371 19-81 (293)
93 KOG4362 Transcriptional regula 88.1 0.14 3E-06 56.1 -0.2 53 321-377 19-74 (684)
94 KOG1100 Predicted E3 ubiquitin 87.7 0.26 5.5E-06 46.8 1.3 40 325-372 160-200 (207)
95 PF14446 Prok-RING_1: Prokaryo 87.3 0.69 1.5E-05 35.3 3.2 44 323-370 5-50 (54)
96 COG5220 TFB3 Cdk activating ki 87.1 0.33 7.3E-06 47.3 1.7 48 322-369 9-61 (314)
97 KOG0825 PHD Zn-finger protein 86.3 0.4 8.8E-06 53.3 2.0 50 323-372 96-154 (1134)
98 KOG2034 Vacuolar sorting prote 86.1 0.31 6.8E-06 54.6 1.1 37 320-358 814-850 (911)
99 KOG3899 Uncharacterized conser 85.8 0.43 9.3E-06 47.8 1.8 29 345-373 325-366 (381)
100 PF03854 zf-P11: P-11 zinc fin 84.6 0.36 7.9E-06 36.0 0.5 31 344-374 17-48 (50)
101 PF07800 DUF1644: Protein of u 84.3 1.1 2.3E-05 41.2 3.5 35 322-359 1-47 (162)
102 KOG0309 Conserved WD40 repeat- 83.6 0.68 1.5E-05 51.4 2.2 25 342-366 1045-1069(1081)
103 KOG1812 Predicted E3 ubiquitin 83.4 0.49 1.1E-05 48.7 1.0 39 322-361 145-184 (384)
104 PF05290 Baculo_IE-1: Baculovi 83.2 0.98 2.1E-05 40.4 2.7 54 322-375 79-135 (140)
105 COG5183 SSM4 Protein involved 81.1 1.1 2.4E-05 50.2 2.6 50 321-372 10-66 (1175)
106 KOG4185 Predicted E3 ubiquitin 79.7 1.1 2.3E-05 43.8 1.8 35 337-371 19-54 (296)
107 KOG1829 Uncharacterized conser 79.2 0.77 1.7E-05 49.8 0.8 40 324-367 512-556 (580)
108 KOG0802 E3 ubiquitin ligase [P 75.7 1.4 3E-05 47.2 1.4 47 322-376 478-524 (543)
109 KOG0269 WD40 repeat-containing 73.1 3 6.5E-05 46.5 3.2 41 324-366 780-820 (839)
110 PF02891 zf-MIZ: MIZ/SP-RING z 73.0 0.94 2E-05 33.6 -0.4 43 324-370 3-50 (50)
111 KOG4718 Non-SMC (structural ma 70.9 2.3 4.9E-05 40.9 1.5 42 324-368 182-223 (235)
112 KOG3842 Adaptor protein Pellin 69.9 4.6 0.0001 41.1 3.5 54 320-373 338-415 (429)
113 PF06906 DUF1272: Protein of u 68.8 7 0.00015 30.1 3.5 47 324-374 6-54 (57)
114 KOG2817 Predicted E3 ubiquitin 66.8 4.9 0.00011 41.7 3.0 49 324-373 335-386 (394)
115 KOG2068 MOT2 transcription fac 65.9 5 0.00011 40.8 2.8 50 324-373 250-299 (327)
116 KOG2066 Vacuolar assembly/sort 65.4 2.6 5.7E-05 47.1 0.8 44 323-368 784-831 (846)
117 KOG1812 Predicted E3 ubiquitin 64.8 5.5 0.00012 41.1 3.0 43 324-367 307-351 (384)
118 PF13901 DUF4206: Domain of un 64.3 4.6 9.9E-05 38.0 2.1 41 323-369 152-197 (202)
119 KOG1815 Predicted E3 ubiquitin 64.0 4.3 9.2E-05 42.4 2.0 37 321-360 68-104 (444)
120 KOG2169 Zn-finger transcriptio 61.4 9.1 0.0002 42.1 4.1 88 280-375 259-359 (636)
121 smart00249 PHD PHD zinc finger 60.7 5.9 0.00013 26.8 1.7 31 325-356 1-31 (47)
122 KOG3113 Uncharacterized conser 53.5 12 0.00026 37.0 3.0 50 324-375 112-161 (293)
123 smart00132 LIM Zinc-binding do 52.9 11 0.00024 24.6 1.9 38 325-372 1-38 (39)
124 KOG4185 Predicted E3 ubiquitin 51.6 2.9 6.4E-05 40.7 -1.5 48 323-370 207-265 (296)
125 KOG3005 GIY-YIG type nuclease 50.7 8.5 0.00018 38.2 1.5 48 324-371 183-242 (276)
126 KOG3039 Uncharacterized conser 50.0 12 0.00027 36.9 2.5 34 322-359 42-75 (303)
127 PF00628 PHD: PHD-finger; Int 48.3 9.4 0.0002 27.3 1.1 44 325-369 1-50 (51)
128 PF00412 LIM: LIM domain; Int 42.7 14 0.00031 26.7 1.3 39 326-374 1-39 (58)
129 PF06844 DUF1244: Protein of u 39.7 17 0.00037 29.0 1.4 11 349-359 12-22 (68)
130 KOG0824 Predicted E3 ubiquitin 39.2 11 0.00024 38.0 0.3 49 321-372 103-151 (324)
131 PLN02189 cellulose synthase 39.0 24 0.00052 41.0 2.9 50 323-372 34-87 (1040)
132 PF07975 C1_4: TFIIH C1-like d 38.2 21 0.00046 26.9 1.6 42 326-368 2-50 (51)
133 PF04710 Pellino: Pellino; In 38.0 11 0.00023 39.4 0.0 51 323-373 328-402 (416)
134 smart00064 FYVE Protein presen 37.5 8.3 0.00018 29.4 -0.7 37 323-359 10-46 (68)
135 KOG3579 Predicted E3 ubiquitin 36.8 20 0.00042 36.2 1.6 39 322-361 267-306 (352)
136 TIGR00622 ssl1 transcription f 36.4 37 0.00081 29.6 3.1 45 324-368 56-110 (112)
137 PF07853 DUF1648: Protein of u 35.5 17 0.00037 26.5 0.8 17 43-59 21-37 (51)
138 KOG4577 Transcription factor L 34.6 11 0.00024 38.0 -0.5 43 323-375 92-134 (383)
139 PF01363 FYVE: FYVE zinc finge 33.7 19 0.00041 27.4 0.8 39 321-359 7-45 (69)
140 PRK11827 hypothetical protein; 33.2 17 0.00037 28.3 0.4 20 355-374 2-21 (60)
141 PF13719 zinc_ribbon_5: zinc-r 33.0 23 0.00051 24.5 1.1 27 324-350 3-36 (37)
142 KOG1074 Transcriptional repres 31.0 27 0.00059 39.7 1.7 53 320-372 602-679 (958)
143 KOG4430 Topoisomerase I-bindin 30.9 13 0.00029 40.2 -0.6 52 322-373 259-310 (553)
144 PF14569 zf-UDP: Zinc-binding 30.0 53 0.0012 27.0 2.8 50 322-371 8-61 (80)
145 cd00065 FYVE FYVE domain; Zinc 29.2 37 0.0008 24.7 1.7 36 324-359 3-38 (57)
146 PLN02436 cellulose synthase A 29.1 44 0.00096 39.1 3.0 50 323-372 36-89 (1094)
147 PF04423 Rad50_zn_hook: Rad50 27.9 20 0.00043 26.5 0.0 12 362-373 21-32 (54)
148 KOG2071 mRNA cleavage and poly 27.7 29 0.00062 38.0 1.1 35 321-357 511-556 (579)
149 PF07191 zinc-ribbons_6: zinc- 27.6 20 0.00043 28.8 -0.1 39 324-371 2-40 (70)
150 KOG1356 Putative transcription 27.1 22 0.00048 40.4 0.2 47 321-369 227-279 (889)
151 PF04710 Pellino: Pellino; In 26.7 21 0.00047 37.3 0.0 28 341-371 305-338 (416)
152 PF11023 DUF2614: Protein of u 26.7 53 0.0012 28.7 2.4 22 355-376 79-100 (114)
153 COG5109 Uncharacterized conser 26.3 45 0.00097 34.2 2.2 45 324-369 337-384 (396)
154 KOG2113 Predicted RNA binding 26.1 45 0.00097 34.2 2.1 43 322-370 342-385 (394)
155 KOG1512 PHD Zn-finger protein 26.0 36 0.00077 34.5 1.4 37 320-356 255-296 (381)
156 PF07649 C1_3: C1-like domain; 25.5 48 0.001 21.6 1.5 29 325-354 2-30 (30)
157 KOG2041 WD40 repeat protein [G 25.4 23 0.00051 39.9 -0.0 45 323-371 1131-1184(1189)
158 KOG2807 RNA polymerase II tran 25.0 62 0.0013 33.3 2.8 45 323-369 330-375 (378)
159 PF06750 DiS_P_DiS: Bacterial 24.6 48 0.001 27.5 1.7 39 322-373 32-70 (92)
160 PF04216 FdhE: Protein involve 24.5 10 0.00022 37.2 -2.7 46 323-369 172-219 (290)
161 PF10571 UPF0547: Uncharacteri 24.2 36 0.00078 22.1 0.7 23 325-349 2-24 (26)
162 KOG1729 FYVE finger containing 23.9 14 0.00029 37.1 -2.0 37 324-361 215-251 (288)
163 KOG4451 Uncharacterized conser 23.4 60 0.0013 31.9 2.3 28 349-376 251-278 (286)
164 KOG3842 Adaptor protein Pellin 23.4 36 0.00077 34.9 0.8 25 341-370 318-350 (429)
165 KOG3726 Uncharacterized conser 22.8 43 0.00094 37.3 1.4 42 324-368 655-696 (717)
166 PF05605 zf-Di19: Drought indu 22.7 33 0.00071 25.3 0.3 38 323-371 2-41 (54)
167 COG2835 Uncharacterized conser 21.6 41 0.0009 26.3 0.7 16 362-377 9-24 (60)
168 PLN02638 cellulose synthase A 21.3 83 0.0018 37.0 3.3 50 323-372 17-70 (1079)
169 PF13717 zinc_ribbon_4: zinc-r 21.1 54 0.0012 22.6 1.1 25 325-349 4-35 (36)
170 KOG4323 Polycomb-like PHD Zn-f 21.1 33 0.00072 36.6 0.1 47 323-369 168-223 (464)
171 COG3813 Uncharacterized protei 20.9 1.1E+02 0.0025 25.0 3.1 47 326-374 8-54 (84)
172 COG3492 Uncharacterized protei 20.7 51 0.0011 28.0 1.1 13 348-360 42-54 (104)
173 PF10146 zf-C4H2: Zinc finger- 20.6 79 0.0017 30.6 2.6 28 349-376 196-223 (230)
174 PLN02248 cellulose synthase-li 20.3 78 0.0017 37.3 2.8 36 337-373 143-178 (1135)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=6.9e-15 Score=146.59 Aligned_cols=76 Identities=33% Similarity=0.779 Sum_probs=59.2
Q ss_pred CCCCHHHHHhhccceeeecccccCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCC-CCCccCcccCCCC
Q 017037 298 TGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN-VCPICKASVMADS 375 (378)
Q Consensus 298 tGlSee~I~~ll~~~~~~~~~~~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~-sCPICR~~l~~~~ 375 (378)
..+.+..+++++........+... ...|+||||+|+.||+++.| ||+|.||..||++||.+.. .||+||+++..+.
T Consensus 205 ~r~~k~~l~~~p~~~f~~~~~~~~-~~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 205 NRLIKRLLKKLPVRTFTKGDDEDA-TDTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhHHHHHhhCCcEEeccccccCC-CceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 456777777766655432222222 26899999999999999998 8999999999999999875 5999999887654
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.43 E-value=4.5e-14 Score=100.77 Aligned_cols=44 Identities=48% Similarity=1.199 Sum_probs=39.6
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 368 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR 368 (378)
+.|+||+++|..++.+..+ +|+|.||.+||.+|++.+++||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHhCCcCCccC
Confidence 3799999999988888888 6999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.23 E-value=5.6e-12 Score=120.59 Aligned_cols=76 Identities=21% Similarity=0.544 Sum_probs=55.9
Q ss_pred CCCCCHHHHHhhccceeeec-ccccCCCCccceecccccCCC----ceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 297 STGLSEDLISRCLTESIYCS-ADQMQEEGNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 297 ~tGlSee~I~~ll~~~~~~~-~~~~~ed~~C~ICLeef~~ge----~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
+.+.++..+..++......+ ......+..|+||++.+.+++ .++++++|+|.||..||.+|++.+.+||+||..+
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 35557777777665432211 112335688999999987643 2456778999999999999999999999999987
Q ss_pred C
Q 017037 372 M 372 (378)
Q Consensus 372 ~ 372 (378)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 4
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=8e-12 Score=122.11 Aligned_cols=52 Identities=33% Similarity=0.933 Sum_probs=47.1
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHh-cCCCCCccCcccCCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMAD 374 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk-~k~sCPICR~~l~~~ 374 (378)
...+|+||++.|..+++++++ ||.|.||..||++|+. .++.||+||.++++.
T Consensus 322 ~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 347899999999999998888 8999999999999998 689999999999863
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.19 E-value=1.3e-11 Score=97.96 Aligned_cols=48 Identities=35% Similarity=0.915 Sum_probs=37.6
Q ss_pred CCCCccceecccccCC---------CceeeecccCCcccHHHHHHHHhcCCCCCccC
Q 017037 321 QEEGNCVICLEEYKNM---------DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 368 (378)
Q Consensus 321 ~ed~~C~ICLeef~~g---------e~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR 368 (378)
..++.|+||++.+.+. +....+.+|+|.||..||.+||+.+++||+||
T Consensus 17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3455699999999432 23445558999999999999999999999998
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=1.6e-10 Score=112.30 Aligned_cols=52 Identities=31% Similarity=0.772 Sum_probs=45.0
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCC
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 375 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~ 375 (378)
.....+|.|||+....+ ..+||||+||+.||..|...+..||+||..+.+.+
T Consensus 236 ~~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 34567899999998765 45599999999999999999999999999987754
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=5.4e-10 Score=111.90 Aligned_cols=53 Identities=36% Similarity=0.956 Sum_probs=42.8
Q ss_pred cCCCCccceeccc-ccCC--------C-ceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 320 MQEEGNCVICLEE-YKNM--------D-DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 320 ~~ed~~C~ICLee-f~~g--------e-~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
...+..|.||+|+ +..+ + +..+| ||||.+|.+|++.|+.++.+|||||.++.-
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~if 346 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPVIF 346 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCcccc
Confidence 3467889999999 4443 1 23455 899999999999999999999999999543
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=5.6e-10 Score=105.76 Aligned_cols=52 Identities=37% Similarity=0.768 Sum_probs=41.5
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhc---CCCCCccCcccCCCC
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVMADS 375 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~---k~sCPICR~~l~~~~ 375 (378)
....-.|.||||.-+++ | ++.|||.||+.||.+||.. ++.||+||..|..+.
T Consensus 44 ~~~~FdCNICLd~akdP--V--vTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP--V--VTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeeccccCCC--E--EeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 34556899999998764 4 3359999999999999986 456999999886553
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.90 E-value=1.1e-09 Score=101.91 Aligned_cols=50 Identities=32% Similarity=0.802 Sum_probs=40.2
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhc----------------CCCCCccCcccCCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM----------------KNVCPICKASVMAD 374 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~----------------k~sCPICR~~l~~~ 374 (378)
.++..|+||++.++++ ++++|+|.||..||.+|+.. +..||+||..+...
T Consensus 16 ~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 16 GGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 4567899999998764 33479999999999999852 24799999988653
No 10
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.89 E-value=1.4e-09 Score=74.95 Aligned_cols=44 Identities=45% Similarity=1.156 Sum_probs=36.4
Q ss_pred ccceecccccCCCceeeecccCCcccHHHHHHHHhc-CCCCCccCccc
Q 017037 325 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASV 371 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l 371 (378)
.|+||++.+. ....+++|+|.||..|++.|++. ...||+||..+
T Consensus 1 ~C~iC~~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR---EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh---CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999983 23345479999999999999997 77899999864
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.85 E-value=1.6e-09 Score=79.41 Aligned_cols=46 Identities=35% Similarity=0.859 Sum_probs=38.2
Q ss_pred CCccceecccccCCCceeeecccCCc-ccHHHHHHHHhcCCCCCccCcccC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~-FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
+..|.||++.... +..+ ||+|. ||..|+.+|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5789999998664 4444 89999 999999999999999999999874
No 12
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.82 E-value=2.7e-09 Score=87.35 Aligned_cols=52 Identities=33% Similarity=0.765 Sum_probs=41.3
Q ss_pred CCCCccceecccccC--------CC-ceeeecccCCcccHHHHHHHHhc---CCCCCccCcccC
Q 017037 321 QEEGNCVICLEEYKN--------MD-DVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVM 372 (378)
Q Consensus 321 ~ed~~C~ICLeef~~--------ge-~v~~LlpCgH~FH~~CI~kWLk~---k~sCPICR~~l~ 372 (378)
..++.|.||...|+. ++ ...++..|+|.||..||.+||.. +..||+||++..
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 347889999999874 22 23345589999999999999975 568999999864
No 13
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.80 E-value=3.4e-09 Score=73.95 Aligned_cols=39 Identities=38% Similarity=1.049 Sum_probs=32.3
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCcc
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 367 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPIC 367 (378)
|+||++.+.+ ..++++|||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999886 33345899999999999999998899998
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=98.77 E-value=3.8e-09 Score=99.94 Aligned_cols=53 Identities=34% Similarity=0.787 Sum_probs=41.8
Q ss_pred cCCCCccceecccccCC-----CceeeecccCCcccHHHHHHHHhcC------CCCCccCcccC
Q 017037 320 MQEEGNCVICLEEYKNM-----DDVGTLKSCGHDYHVTCIKKWLSMK------NVCPICKASVM 372 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~g-----e~v~~LlpCgH~FH~~CI~kWLk~k------~sCPICR~~l~ 372 (378)
...+..|+||+|..-++ ...+.|.+|+|.||..||.+|.+.+ .+||+||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 34578999999987432 2356788999999999999999753 45999998753
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=4.7e-09 Score=96.23 Aligned_cols=51 Identities=31% Similarity=0.692 Sum_probs=42.6
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
.....|+|||+.+.+. +.+-++|||+||..||+.-|+....||+|++.|..
T Consensus 129 ~~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred ccccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 3447899999999864 43445899999999999999999999999987653
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=5.2e-09 Score=110.46 Aligned_cols=50 Identities=32% Similarity=0.934 Sum_probs=43.3
Q ss_pred CCCccceecccccCCCc--eeeecccCCcccHHHHHHHHhcCCCCCccCcccC
Q 017037 322 EEGNCVICLEEYKNMDD--VGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~--v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
.+..|+||+|++..+.+ ..+| +|+|.||..|+++|++++++||+||..+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 47889999999998654 4556 89999999999999999999999999543
No 17
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.67 E-value=2.1e-08 Score=75.61 Aligned_cols=48 Identities=25% Similarity=0.441 Sum_probs=41.0
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 375 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~ 375 (378)
..|+||++.+.++ ++.+|||+|+..||.+|++.+..||+|+..+..++
T Consensus 2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 4799999999875 34489999999999999998889999999885443
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.62 E-value=2.6e-08 Score=71.39 Aligned_cols=44 Identities=39% Similarity=0.899 Sum_probs=36.3
Q ss_pred ccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCc
Q 017037 325 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 369 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~ 369 (378)
.|.||++.|.. +....+++|+|.||..||.++......||+||+
T Consensus 1 ~C~~C~~~~~~-~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSE-ERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccC-CCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999943 344556699999999999999866678999985
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.55 E-value=3.7e-08 Score=68.78 Aligned_cols=39 Identities=41% Similarity=1.095 Sum_probs=33.0
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHh--cCCCCCcc
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS--MKNVCPIC 367 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk--~k~sCPIC 367 (378)
|+||++.+.... .+++|+|.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988642 3558999999999999998 45679998
No 20
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.54 E-value=4.3e-08 Score=70.06 Aligned_cols=38 Identities=34% Similarity=0.927 Sum_probs=28.9
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHhcC----CCCCcc
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCPIC 367 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k----~sCPIC 367 (378)
|+||++.|.++ ..| +|||.|+..||.+|.+.. ..||+|
T Consensus 1 CpiC~~~~~~P---v~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---ccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999975 334 899999999999999763 359998
No 21
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.54 E-value=5.4e-08 Score=99.45 Aligned_cols=51 Identities=29% Similarity=0.694 Sum_probs=43.3
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCC
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 374 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~ 374 (378)
......|+||++.|..+ ++++|+|.||..||..|+.....||+||..+...
T Consensus 23 Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 44567899999999865 2458999999999999999888999999987654
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.53 E-value=4.6e-08 Score=79.19 Aligned_cols=48 Identities=29% Similarity=0.627 Sum_probs=35.4
Q ss_pred ccceecccccCCC-ceeeecccCCcccHHHHHHHHhcCCCCCccCcccC
Q 017037 325 NCVICLEEYKNMD-DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 325 ~C~ICLeef~~ge-~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
.|+-|+.....++ ...+...|.|.||..||.+||..++.||+||++..
T Consensus 33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 3444444333333 44455579999999999999999999999999864
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.51 E-value=9.3e-08 Score=63.48 Aligned_cols=38 Identities=58% Similarity=1.282 Sum_probs=31.3
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHh-cCCCCCcc
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPIC 367 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk-~k~sCPIC 367 (378)
|+||++... .+..+ +|+|.||..||+.|++ .+..||+|
T Consensus 1 C~iC~~~~~---~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 889999833 34445 8999999999999998 56779998
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=1.3e-07 Score=75.94 Aligned_cols=52 Identities=29% Similarity=0.692 Sum_probs=40.6
Q ss_pred CCCCccceecccccC---------CCceeeecccCCcccHHHHHHHHhc---CCCCCccCcccC
Q 017037 321 QEEGNCVICLEEYKN---------MDDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVM 372 (378)
Q Consensus 321 ~ed~~C~ICLeef~~---------ge~v~~LlpCgH~FH~~CI~kWLk~---k~sCPICR~~l~ 372 (378)
..++.|.||.-.|.. .+...++..|.|.||..||.+||.. +..||+||++..
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 455689999998865 2334455579999999999999965 457999999864
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=3.8e-07 Score=88.18 Aligned_cols=51 Identities=31% Similarity=0.787 Sum_probs=42.3
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHH-HHhcCCC-CCccCcccCCCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WLSMKNV-CPICKASVMADS 375 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~k-WLk~k~s-CPICR~~l~~~~ 375 (378)
..+.+|.||++..... ..++|||+||..||.. |-+++.. ||+||+.+.+++
T Consensus 213 ~~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 4578899999997754 4458999999999999 9888766 999999887654
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.28 E-value=4.6e-07 Score=65.39 Aligned_cols=39 Identities=28% Similarity=0.718 Sum_probs=23.2
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHhcC----CCCC
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCP 365 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k----~sCP 365 (378)
|+||.+ |...+...++++|||+|+.+||+++++.. -.||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 87766555555899999999999999853 2476
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=4.8e-07 Score=94.07 Aligned_cols=49 Identities=29% Similarity=0.699 Sum_probs=39.6
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcC-----CCCCccCcccCCCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-----NVCPICKASVMADS 375 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k-----~sCPICR~~l~~~~ 375 (378)
+..|+|||+..... .++.|||+||..||.+++... ..||+|+..|...+
T Consensus 186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 67899999997654 444699999999999988653 46999999886644
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=5.1e-07 Score=93.47 Aligned_cols=52 Identities=27% Similarity=0.759 Sum_probs=40.9
Q ss_pred CCCccceecccccCCC-----c--------eeeecccCCcccHHHHHHHHh-cCCCCCccCcccCC
Q 017037 322 EEGNCVICLEEYKNMD-----D--------VGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMA 373 (378)
Q Consensus 322 ed~~C~ICLeef~~ge-----~--------v~~LlpCgH~FH~~CI~kWLk-~k~sCPICR~~l~~ 373 (378)
....|+||+.++..-. . -..++||.|+||..|+.+|.. .|-.||+||..+++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4457999999875411 1 134569999999999999998 56799999999875
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.19 E-value=4.3e-07 Score=90.54 Aligned_cols=51 Identities=31% Similarity=0.698 Sum_probs=44.4
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 376 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~e 376 (378)
.-..|.||.+-|..+ +++||+|.||.-||.+.|..+..||.|+.++.....
T Consensus 22 ~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 346899999999865 666999999999999999999999999998876554
No 30
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.15 E-value=1.7e-06 Score=63.92 Aligned_cols=42 Identities=31% Similarity=0.785 Sum_probs=31.9
Q ss_pred ccceecccccCCCceeeecccC-----CcccHHHHHHHHhcC--CCCCccC
Q 017037 325 NCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSMK--NVCPICK 368 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCg-----H~FH~~CI~kWLk~k--~sCPICR 368 (378)
.|.||++. .+++...+. ||. |.+|..||.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999993 333444455 785 889999999999654 5899995
No 31
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.2e-06 Score=79.89 Aligned_cols=45 Identities=36% Similarity=0.854 Sum_probs=38.8
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCc
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 369 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~ 369 (378)
.+...|+||++.|..+ ++++|+|.||..||..++...-.||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 4567899999999987 44589999999999999985567999993
No 32
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=2.5e-06 Score=72.31 Aligned_cols=36 Identities=31% Similarity=0.769 Sum_probs=30.9
Q ss_pred CCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 336 MDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 336 ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
.+.+.....|.|.||..||.+||++++.||+|.++-
T Consensus 72 ~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 72 EECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred CceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 445556668999999999999999999999998764
No 33
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.01 E-value=2.5e-06 Score=67.47 Aligned_cols=48 Identities=23% Similarity=0.436 Sum_probs=36.4
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhc-CCCCCccCcccCCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD 374 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l~~~ 374 (378)
...|+||.+.+.++ ++++|||.|...||.+||+. ...||+|+..+...
T Consensus 4 ~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 46799999999975 33489999999999999998 78999999887654
No 34
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=5.3e-06 Score=83.20 Aligned_cols=46 Identities=35% Similarity=0.717 Sum_probs=39.2
Q ss_pred CCccceecccccCCCceeeecccCCc-ccHHHHHHHHhcCCCCCccCcccC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~-FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
..+|.|||.+-++ +.+| ||.|. .|..|.+..--+.+.|||||+.+.
T Consensus 290 gkeCVIClse~rd---t~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSESRD---TVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCeeEEEecCCcc---eEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 5689999999774 4455 99999 999999997777899999999874
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.92 E-value=2.4e-06 Score=93.82 Aligned_cols=54 Identities=22% Similarity=0.780 Sum_probs=40.9
Q ss_pred ccCCCCccceecccccCCC-c--eeeecccCCcccHHHHHHHHhc--CCCCCccCcccC
Q 017037 319 QMQEEGNCVICLEEYKNMD-D--VGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM 372 (378)
Q Consensus 319 ~~~ed~~C~ICLeef~~ge-~--v~~LlpCgH~FH~~CI~kWLk~--k~sCPICR~~l~ 372 (378)
.....++|+||...+..-+ + -.++..|+|.||..||.+|++. ++.||+||.++.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3456789999998876211 1 1245579999999999999987 467999998874
No 36
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.89 E-value=4.6e-06 Score=81.92 Aligned_cols=47 Identities=26% Similarity=0.633 Sum_probs=41.0
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
-..|-||-+.|..+ .+++|||.||.-||...|..+..||+||.+...
T Consensus 25 ~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 25 MLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred HHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence 46799999998854 566999999999999999999999999987543
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.88 E-value=2.9e-06 Score=66.98 Aligned_cols=50 Identities=28% Similarity=0.755 Sum_probs=23.9
Q ss_pred CCccceecccccCCCce--eee--cccCCcccHHHHHHHHhc--C---------CCCCccCcccC
Q 017037 323 EGNCVICLEEYKNMDDV--GTL--KSCGHDYHVTCIKKWLSM--K---------NVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v--~~L--lpCgH~FH~~CI~kWLk~--k---------~sCPICR~~l~ 372 (378)
+..|.||.+.+...+++ .+. ..|+..||..||.+||.. + ..||.|+++|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 46899999987633322 222 269999999999999963 1 13999999874
No 38
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=4e-06 Score=81.56 Aligned_cols=52 Identities=31% Similarity=0.688 Sum_probs=42.7
Q ss_pred cCCCCccceecccccCCC-------ceeeecccCCcccHHHHHHHHh--cCCCCCccCcccC
Q 017037 320 MQEEGNCVICLEEYKNMD-------DVGTLKSCGHDYHVTCIKKWLS--MKNVCPICKASVM 372 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge-------~v~~LlpCgH~FH~~CI~kWLk--~k~sCPICR~~l~ 372 (378)
..++..|+||-..+...+ ++.+| .|+|+||..||+-|-. +|.+||.||..+.
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 346788999998887654 66777 7999999999999964 5788999998764
No 39
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.84 E-value=4.9e-06 Score=81.99 Aligned_cols=55 Identities=27% Similarity=0.806 Sum_probs=44.3
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHHh-----------------------cCCCCCccCcccCCCC
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-----------------------MKNVCPICKASVMADS 375 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk-----------------------~k~sCPICR~~l~~~~ 375 (378)
......|+|||--|.+++.+.+. +|-|.||..|+.++|. .+..|||||..|..+.
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 44668899999999999878776 8999999999987761 1235999999886554
No 40
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.78 E-value=3.3e-06 Score=84.61 Aligned_cols=51 Identities=33% Similarity=0.630 Sum_probs=41.7
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhc-CCCCCccCcccCCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD 374 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l~~~ 374 (378)
..+..|+|||+-++. .+..+.|.|.||.+||.+-|+. .+.||.||+.+...
T Consensus 41 ~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 346789999999885 2334479999999999999976 67899999988654
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=1.2e-05 Score=81.05 Aligned_cols=51 Identities=31% Similarity=0.884 Sum_probs=40.5
Q ss_pred CCCCccceecccccCCC----ceeeecccCCcccHHHHHHHH--hc-----CCCCCccCccc
Q 017037 321 QEEGNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWL--SM-----KNVCPICKASV 371 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge----~v~~LlpCgH~FH~~CI~kWL--k~-----k~sCPICR~~l 371 (378)
..+..|.||++...+.. ..+.|++|.|.||..||.+|- ++ .+.||+||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 45788999999987642 135667899999999999998 33 46799999854
No 42
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.54 E-value=3.4e-05 Score=79.47 Aligned_cols=50 Identities=28% Similarity=0.731 Sum_probs=39.0
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
.+-..|+||||.......-.+...|.|.||..|+.+|- ..+||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 45678999999998754322223699999999999995 478999998665
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.52 E-value=1.8e-05 Score=85.91 Aligned_cols=51 Identities=18% Similarity=0.470 Sum_probs=43.0
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
....|+|||..+.++...... +|+|.||..||..|-+.-.+||+||.++..
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 346799999999886544444 899999999999999999999999997643
No 44
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=4.2e-05 Score=58.20 Aligned_cols=46 Identities=30% Similarity=0.733 Sum_probs=36.1
Q ss_pred CCccceecccccCCCceeeecccCCc-ccHHHHHHHHh-cCCCCCccCcccC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLS-MKNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~-FH~~CI~kWLk-~k~sCPICR~~l~ 372 (378)
+.+|.||+|.-.+. +|-.|||. .|.+|-.+.++ .+..||+||+++.
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 47899999886542 33369998 89999766555 6899999999874
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.35 E-value=5.2e-05 Score=59.32 Aligned_cols=50 Identities=24% Similarity=0.622 Sum_probs=25.3
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCCCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEK 377 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~er 377 (378)
-..|++|.+.++++ ..+..|.|.||..||..-+. ..||+|+.++-..+.|
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence 46899999998865 23458999999999988554 4599999988666543
No 46
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00026 Score=76.94 Aligned_cols=50 Identities=26% Similarity=0.688 Sum_probs=39.7
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhc-CCCCCccCcccCCCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADS 375 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l~~~~ 375 (378)
.-..|+.|-..+++. +++.|+|+||..||..-+.. ...||.|-+.+-+.+
T Consensus 642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 346899999777642 34479999999999999965 678999998876554
No 47
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.93 E-value=0.00033 Score=71.66 Aligned_cols=47 Identities=32% Similarity=0.791 Sum_probs=37.4
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhc--CCCCCccCcccCCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVMAD 374 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~--k~sCPICR~~l~~~ 374 (378)
.-|-||-|.=+ .|.+- ||||..|..|+..|-.. .+.||.||.+|...
T Consensus 370 eLCKICaendK---dvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAENDK---DVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccCC---Ccccc-cccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 46999987744 34444 89999999999999854 57899999998654
No 48
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.75 E-value=0.00073 Score=69.30 Aligned_cols=53 Identities=25% Similarity=0.672 Sum_probs=43.9
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCC
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 375 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~ 375 (378)
..++..|+||...+.++-.. ..|+|.||..||.+|+..+..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~---~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT---TTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccCCCCC---CCCCCcccccccchhhccCcCCcccccccchhh
Confidence 35568999999999976332 279999999999999999999999998875543
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.00088 Score=68.98 Aligned_cols=49 Identities=22% Similarity=0.699 Sum_probs=41.1
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
..+..|.||...+..+ .++ ||||.||..||.+-+.....||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~p---v~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVT-PCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---ccc-cccccccHHHHHHHhccCCCCccccccccc
Confidence 4567899999888864 234 899999999999988888899999998863
No 50
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.001 Score=63.83 Aligned_cols=53 Identities=23% Similarity=0.528 Sum_probs=43.9
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhc--------CCCCCccCcccCCCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--------KNVCPICKASVMADS 375 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~--------k~sCPICR~~l~~~~ 375 (378)
..+.-|.+|--.+..+|+++ | .|-|+||.+|+..|-.. ...||.|.++|++..
T Consensus 48 DY~pNC~LC~t~La~gdt~R-L-vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-L-VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCCCceeCCccccCccee-e-hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 34567999999999998885 4 59999999999999854 235999999998764
No 51
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.57 E-value=0.0011 Score=50.63 Aligned_cols=42 Identities=24% Similarity=0.623 Sum_probs=28.0
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhc--CCCCCc
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPI 366 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~--k~sCPI 366 (378)
....|+|.+..|+++ |... .|+|.|-++.|.+||+. ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 457899999999964 4444 79999999999999954 346998
No 52
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.38 E-value=0.0009 Score=66.90 Aligned_cols=48 Identities=23% Similarity=0.596 Sum_probs=40.7
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
..-..|.+|-.-|.+..++. -|-|.||+.||.+.|...+.||+|...|
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceec
Confidence 34578999998888765442 6999999999999999999999998765
No 53
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.29 E-value=0.0012 Score=65.31 Aligned_cols=90 Identities=23% Similarity=0.388 Sum_probs=52.6
Q ss_pred cCCCCCCCHHHHHHhhhhcCCCCCCCC--HHHHHhhccceeeec----ccccCCCCccceecccccCCCceeeecccCCc
Q 017037 275 RLDIDNMTYEELLALGERIGSVSTGLS--EDLISRCLTESIYCS----ADQMQEEGNCVICLEEYKNMDDVGTLKSCGHD 348 (378)
Q Consensus 275 rlDiDnmsyEeLlaL~Erig~v~tGlS--ee~I~~ll~~~~~~~----~~~~~ed~~C~ICLeef~~ge~v~~LlpCgH~ 348 (378)
-+|+++++-.+|+++..+-...-.|-. .+.+.+....-+... ......+.-|.||++.-.+ ...| +|||.
T Consensus 246 l~d~Eg~~v~qLke~l~~d~vsy~gCcek~el~d~vtrl~k~~~g~~~~~s~~~~~LC~ICmDaP~D---CvfL-eCGHm 321 (350)
T KOG4275|consen 246 LLDEEGLTVRQLKEILDDDFVSYKGCCEKYELDDRVTRLYKGNDGEQHSRSLATRRLCAICMDAPRD---CVFL-ECGHM 321 (350)
T ss_pred ccccccchHHHhhhhhhccCCcccchhHHHHHHHHHHHHHhcccccccccchhHHHHHHHHhcCCcc---eEEe-ecCcE
Confidence 356777888888877766443334433 223322211111100 1111225679999998664 4344 89997
Q ss_pred -ccHHHHHHHHhcCCCCCccCcccC
Q 017037 349 -YHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 349 -FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
-|.+|-+. -+.|||||+.|.
T Consensus 322 VtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 322 VTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred Eeehhhccc----cccCchHHHHHH
Confidence 68888644 458999998764
No 54
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.0016 Score=59.61 Aligned_cols=31 Identities=39% Similarity=0.813 Sum_probs=27.5
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccH
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHV 351 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~ 351 (378)
..+..+|.||||++..++++.+| ||..+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARL-PCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARL-PCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence 34567899999999999999999 89999996
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.11 E-value=0.002 Score=65.94 Aligned_cols=47 Identities=26% Similarity=0.591 Sum_probs=37.8
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcC--CCCCccCc
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPICKA 369 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k--~sCPICR~ 369 (378)
+..|..|=+.+-..++-..-+||.|+||..|+...|.++ .+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 457999999987765444444999999999999999764 57999993
No 56
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.09 E-value=0.0051 Score=59.74 Aligned_cols=53 Identities=17% Similarity=0.329 Sum_probs=47.1
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 375 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~ 375 (378)
-..|+||.+.+.+...+.+|-||||+|+.+|+.+.+..-..||+|-.++...+
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 35699999999998888888899999999999999998899999988876554
No 57
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.89 E-value=0.006 Score=61.91 Aligned_cols=50 Identities=28% Similarity=0.550 Sum_probs=40.8
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
..++..|+||...-.. .+..||+|.-|..||.+-|...+.|=.||+.+..
T Consensus 419 ~sEd~lCpICyA~pi~----Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPIN----AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceecccch----hhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 3567889999765332 2445999999999999999999999999998763
No 58
>PHA02862 5L protein; Provisional
Probab=95.76 E-value=0.0082 Score=54.08 Aligned_cols=45 Identities=27% Similarity=0.731 Sum_probs=34.0
Q ss_pred CCccceecccccCCCceeeecccC-----CcccHHHHHHHHhc--CCCCCccCcccC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--k~sCPICR~~l~ 372 (378)
...|-||+++-++ .+ -||. -.-|.+|+.+|+.. +..|++|+.+..
T Consensus 2 ~diCWIC~~~~~e--~~---~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDE--RN---NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCC--Cc---ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 3579999998543 23 2564 46899999999975 567999998754
No 59
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.74 E-value=0.0084 Score=58.97 Aligned_cols=52 Identities=25% Similarity=0.494 Sum_probs=39.9
Q ss_pred cccCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhc--CCCCCccCcccC
Q 017037 318 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM 372 (378)
Q Consensus 318 ~~~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~--k~sCPICR~~l~ 372 (378)
.....+.+|++|-+.-..+ -+..+|+|+||.-||..-+.- .-+||.|-.++.
T Consensus 234 s~~t~~~~C~~Cg~~PtiP---~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP---HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCC---eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3445678899999886654 334479999999999887654 368999988776
No 60
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.64 E-value=0.005 Score=67.97 Aligned_cols=49 Identities=39% Similarity=0.839 Sum_probs=40.0
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcC-C------CCCccCcc
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-N------VCPICKAS 370 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k-~------sCPICR~~ 370 (378)
...+|.||++.+.....+-....|-|+||..||++|-+.. + .||.|+..
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 4568999999999877776777899999999999998641 1 39999843
No 61
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.57 E-value=0.0078 Score=44.06 Aligned_cols=40 Identities=30% Similarity=0.844 Sum_probs=27.2
Q ss_pred cceecccccCCCceeeecccC-----CcccHHHHHHHHhc--CCCCCcc
Q 017037 326 CVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPIC 367 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--k~sCPIC 367 (378)
|-||++.-...+.+ +. ||. -..|..||.+|+.. +..|++|
T Consensus 1 CrIC~~~~~~~~~l-i~-pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL-IS-PCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E-E--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce-ec-ccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 78999997776533 23 664 36899999999975 4679998
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.49 E-value=0.013 Score=53.40 Aligned_cols=47 Identities=26% Similarity=0.687 Sum_probs=34.3
Q ss_pred CCCCccceecccccCCCceeeecccC--C---cccHHHHHHHHhcC--CCCCccCcccC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCG--H---DYHVTCIKKWLSMK--NVCPICKASVM 372 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCg--H---~FH~~CI~kWLk~k--~sCPICR~~l~ 372 (378)
..+..|-||.++.. +... ||. . ..|.+|+.+|+..+ ..|++|+++..
T Consensus 6 ~~~~~CRIC~~~~~--~~~~---PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYD--VVTN---YCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCC--CccC---CcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 45678999998854 2222 554 3 46999999999764 57999998753
No 63
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.48 E-value=0.0099 Score=68.73 Aligned_cols=50 Identities=30% Similarity=0.729 Sum_probs=37.7
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcC----------CCCCccCcccC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----------NVCPICKASVM 372 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k----------~sCPICR~~l~ 372 (378)
.++.|.||..+--......+| .|+|+||..|...-|... -+||+|+.+|-
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 467799998876555555666 799999999997766432 25999998763
No 64
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.46 E-value=0.0057 Score=57.78 Aligned_cols=43 Identities=23% Similarity=0.643 Sum_probs=36.4
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS 370 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~ 370 (378)
..|.||-++|+.+ +...|||.||..|...-.+....|-+|-+.
T Consensus 197 F~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccch----hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 4699999999975 344799999999998888878899999764
No 65
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=95.42 E-value=0.0082 Score=53.36 Aligned_cols=36 Identities=28% Similarity=0.613 Sum_probs=29.1
Q ss_pred CCccceecccccCCCceeeecccC------CcccHHHHHHHHh
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCG------HDYHVTCIKKWLS 359 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCg------H~FH~~CI~kWLk 359 (378)
..+|.||++.+.+.+-|..+ +|+ |.||.+|+++|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~v-t~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYV-TDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEE-ecCCeehHHHHHHHHHHHHHHh
Confidence 56899999999984456556 576 8999999999943
No 66
>PHA03096 p28-like protein; Provisional
Probab=95.27 E-value=0.0092 Score=59.06 Aligned_cols=45 Identities=33% Similarity=0.640 Sum_probs=33.6
Q ss_pred CccceecccccCCC----ceeeecccCCcccHHHHHHHHhc---CCCCCccC
Q 017037 324 GNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLSM---KNVCPICK 368 (378)
Q Consensus 324 ~~C~ICLeef~~ge----~v~~LlpCgH~FH~~CI~kWLk~---k~sCPICR 368 (378)
..|.||++...... .-+.|..|.|.||..||..|-.. +..||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 67999999876532 34567789999999999999865 23444444
No 67
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.06 E-value=0.013 Score=59.47 Aligned_cols=44 Identities=30% Similarity=0.671 Sum_probs=30.6
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
....|.||+++.++ ..-+ ||||+-| |+.--.. ..+||+||+.|.
T Consensus 304 ~p~lcVVcl~e~~~---~~fv-pcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFV-PCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeee-cCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 45679999999886 3334 8999855 5544322 345999998763
No 68
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.03 E-value=0.013 Score=60.51 Aligned_cols=46 Identities=28% Similarity=0.582 Sum_probs=35.7
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhc--------CCCCCccCc
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--------KNVCPICKA 369 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~--------k~sCPICR~ 369 (378)
.-.|.||.++......+..+ ||+|+||+.|++.++.. .-.||-|+.
T Consensus 184 lf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 45799999998765666555 99999999999999953 224877654
No 69
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.89 E-value=0.026 Score=54.72 Aligned_cols=53 Identities=17% Similarity=0.444 Sum_probs=42.5
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 374 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~ 374 (378)
.....|+|+..+|........+.+|||+|...||++- +....||+|-.++...
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence 3456799999999766677777799999999999996 3346799998887643
No 70
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.72 E-value=0.015 Score=61.65 Aligned_cols=51 Identities=25% Similarity=0.687 Sum_probs=37.9
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHHhc-----CCCCCccCcccCCC
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-----KNVCPICKASVMAD 374 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~-----k~sCPICR~~l~~~ 374 (378)
...+..|.+|-+.-++. + .. .|.|.||..||+.++.. +-+||+|-..+..+
T Consensus 533 nk~~~~C~lc~d~aed~--i-~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDY--I-ES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred ccCceeecccCChhhhh--H-hh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 34566899999886542 2 23 79999999999999843 45799998776544
No 71
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.40 E-value=0.027 Score=41.85 Aligned_cols=44 Identities=30% Similarity=0.635 Sum_probs=23.2
Q ss_pred cceecccccCCC-ceeeecccCCcccHHHHHHHHh-cCCCCCccCcc
Q 017037 326 CVICLEEYKNMD-DVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKAS 370 (378)
Q Consensus 326 C~ICLeef~~ge-~v~~LlpCgH~FH~~CI~kWLk-~k~sCPICR~~ 370 (378)
|++|.+++...+ .+.-. +|+..++..|...-+. ....||-||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999995544 44444 6899999999988876 47889999986
No 72
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.33 E-value=0.027 Score=58.07 Aligned_cols=33 Identities=36% Similarity=0.853 Sum_probs=26.5
Q ss_pred eeecccCCcccHHHHHHHHhc--CCCCCccCcccC
Q 017037 340 GTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM 372 (378)
Q Consensus 340 ~~LlpCgH~FH~~CI~kWLk~--k~sCPICR~~l~ 372 (378)
.+.+.|+|.|...||.+||.+ +..||.|+.+..
T Consensus 22 ~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 22 IVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred EeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 344489999999999999963 356999987654
No 73
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.33 E-value=0.016 Score=57.59 Aligned_cols=44 Identities=23% Similarity=0.545 Sum_probs=37.6
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
..|-||...|..+ +...|+|.||..|..+=++....|.+|-+..
T Consensus 242 f~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred ccccccccccccc----hhhcCCceeehhhhccccccCCcceeccccc
Confidence 4599999999975 3347999999999999888889999998765
No 74
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=94.15 E-value=0.021 Score=46.78 Aligned_cols=34 Identities=32% Similarity=0.686 Sum_probs=26.6
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHH
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIK 355 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~ 355 (378)
..++..|.||-..+..+ .. ...||+|+||..|++
T Consensus 75 i~~~~~C~vC~k~l~~~-~f-~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNS-VF-VVFPCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCCc-eE-EEeCCCeEEeccccc
Confidence 34567899999998873 34 444999999999985
No 75
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.08 E-value=0.0035 Score=64.10 Aligned_cols=51 Identities=33% Similarity=0.695 Sum_probs=43.8
Q ss_pred CCCccceecccccCC-CceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 322 EEGNCVICLEEYKNM-DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 322 ed~~C~ICLeef~~g-e~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
-...|+||.+.++.. +++-.+ -|+|.+|..||.+||..+..||.|+.++.-
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 356899999999875 566666 699999999999999999999999998854
No 76
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.97 E-value=0.052 Score=55.21 Aligned_cols=50 Identities=30% Similarity=0.662 Sum_probs=37.1
Q ss_pred cccCCCCccceecccccCCCceeeecccCCcccHHHHHHH--HhcCCCCCccCccc
Q 017037 318 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW--LSMKNVCPICKASV 371 (378)
Q Consensus 318 ~~~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kW--Lk~k~sCPICR~~l 371 (378)
+..++...|.||.+.+.- + .++||+|..|-.|.... |-.++.||+||.+-
T Consensus 56 dtDEen~~C~ICA~~~TY---s-~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---S-ARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccceeEEecCCceE---E-EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 344566779999987652 3 34499999999998654 34578999999863
No 77
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.43 E-value=0.039 Score=54.49 Aligned_cols=46 Identities=30% Similarity=0.594 Sum_probs=39.5
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 369 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~ 369 (378)
.-|+||.+.+-........++|+|.-|..|+.......-.||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3499999998887765555699999999999999888899999988
No 78
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.42 E-value=0.067 Score=53.91 Aligned_cols=47 Identities=21% Similarity=0.458 Sum_probs=37.2
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
+...|+||+....++ ++.. .-|-+||..||-+.+...+.||+=-.++
T Consensus 299 ~~~~CpvClk~r~Np-tvl~--vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNP-TVLE--VSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCC-ceEE--ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 456799999998875 3322 3699999999999999999999865443
No 79
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.98 E-value=0.067 Score=54.28 Aligned_cols=54 Identities=22% Similarity=0.473 Sum_probs=38.7
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHh-cCCCCCccCcccCCCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMADS 375 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk-~k~sCPICR~~l~~~~ 375 (378)
+++.|++|++++...++-..-.+||-..|.-|...--+ .+..||-||.....++
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 34559999999988775444348998888888655433 2678999998765544
No 80
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.86 E-value=0.062 Score=53.72 Aligned_cols=47 Identities=30% Similarity=0.566 Sum_probs=35.6
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhc-CCCCCccC-cccCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICK-ASVMA 373 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR-~~l~~ 373 (378)
..|+.|-.-+...-+ . +.|+|.||.+||..-|.. ...||.|. +.++-
T Consensus 275 LkCplc~~Llrnp~k--T-~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll 323 (427)
T COG5222 275 LKCPLCHCLLRNPMK--T-PCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL 323 (427)
T ss_pred ccCcchhhhhhCccc--C-ccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence 789999888776422 2 469999999999987765 57899994 44443
No 81
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.35 E-value=0.072 Score=59.25 Aligned_cols=44 Identities=27% Similarity=0.710 Sum_probs=33.3
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
....|.+|--.++.+ .| -- -|+|.||..|+. .....||.|+.++
T Consensus 839 q~skCs~C~~~LdlP-~V-hF-~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP-FV-HF-LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccc-ee-ee-ecccHHHHHhhc---cCcccCCccchhh
Confidence 446899998888765 22 22 599999999998 3456799999854
No 82
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=92.35 E-value=0.16 Score=51.93 Aligned_cols=29 Identities=31% Similarity=0.874 Sum_probs=22.8
Q ss_pred cCCcccHHHHHHHHhc-------------CCCCCccCcccCC
Q 017037 345 CGHDYHVTCIKKWLSM-------------KNVCPICKASVMA 373 (378)
Q Consensus 345 CgH~FH~~CI~kWLk~-------------k~sCPICR~~l~~ 373 (378)
|.-..|.+|+-+|+.. +..||+||+.+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 6677899999999943 2359999998754
No 83
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.80 E-value=0.073 Score=53.40 Aligned_cols=43 Identities=23% Similarity=0.621 Sum_probs=29.7
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
-.|.-|--.+.. -++|.||+|+||.+|... ..-+.||.|-..|
T Consensus 91 HfCd~Cd~PI~I---YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAI---YGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCccee---eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 346666544442 346679999999999754 3357899997655
No 84
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=91.68 E-value=0.093 Score=37.80 Aligned_cols=41 Identities=27% Similarity=0.659 Sum_probs=23.0
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHhcCC--CCCcc
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN--VCPIC 367 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~--sCPIC 367 (378)
|.+|-+....|...... .|.=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66777777666433322 4888899999999998754 69988
No 85
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.34 E-value=0.059 Score=58.40 Aligned_cols=44 Identities=25% Similarity=0.431 Sum_probs=33.4
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCc
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 369 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~ 369 (378)
...|.||+..|....-.-+.+.|||..|..|+..- .+.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 35799999888776544444579999999999874 467888 654
No 86
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=91.13 E-value=0.13 Score=39.23 Aligned_cols=47 Identities=32% Similarity=0.524 Sum_probs=33.2
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 375 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~ 375 (378)
...|..|...- .++.++||+|+.+..|..-+ +-+-||+|-+.+...+
T Consensus 7 ~~~~~~~~~~~----~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVG----TKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccc----cccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 34566665542 33456699999999997653 4578999998886554
No 87
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.10 E-value=0.088 Score=57.85 Aligned_cols=45 Identities=33% Similarity=0.828 Sum_probs=34.4
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcC--CCCCccCcccCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPICKASVMA 373 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k--~sCPICR~~l~~ 373 (378)
..|.||++ .+.+.. .+|+|.||.+|+.+-+... ..||+||..+..
T Consensus 455 ~~c~ic~~----~~~~~i-t~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFI-TRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc----ccccee-ecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 78999999 223333 3799999999999988653 359999987643
No 88
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.92 E-value=0.14 Score=49.63 Aligned_cols=52 Identities=29% Similarity=0.657 Sum_probs=36.8
Q ss_pred CCccceecccccCCCceeeecccC-----CcccHHHHHHHHhc--CCCCCccCcccCCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPICKASVMAD 374 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--k~sCPICR~~l~~~ 374 (378)
+..|-||.++.........+.||. ...|..|+.+|+.. +..|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 578999999876543211223664 55799999999985 56799998865443
No 89
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=90.12 E-value=0.088 Score=60.82 Aligned_cols=45 Identities=38% Similarity=0.816 Sum_probs=37.2
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcc
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS 370 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~ 370 (378)
-..|.||++..... -++. .|+|.+|..|+..|+..+..||+|+..
T Consensus 1153 ~~~c~ic~dil~~~--~~I~-~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQ--GGIA-GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred ccchHHHHHHHHhc--CCee-eechhHhhhHHHHHHHHhccCcchhhh
Confidence 34799999998843 1233 599999999999999999999999853
No 90
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.90 E-value=0.21 Score=46.74 Aligned_cols=51 Identities=27% Similarity=0.699 Sum_probs=34.6
Q ss_pred CCccceecccccCC---CceeeecccCCcccHHHHHHHHhc----C-------CCCCccCcccCC
Q 017037 323 EGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSM----K-------NVCPICKASVMA 373 (378)
Q Consensus 323 d~~C~ICLeef~~g---e~v~~LlpCgH~FH~~CI~kWLk~----k-------~sCPICR~~l~~ 373 (378)
...|.||..---+| +.+.--..|+--||.-|+..||+. . ..||.|..++.-
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 45688887543332 222223379999999999999953 1 249999988754
No 91
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=89.77 E-value=0.19 Score=50.18 Aligned_cols=44 Identities=23% Similarity=0.628 Sum_probs=35.1
Q ss_pred CCCCccceecccccCCCceeeeccc--CCcccHHHHHHHHhcCCCCCccCcccC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSC--GHDYHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpC--gH~FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
.+-..|+||.+.+..+ .. .| ||.-|..|-. +.++.||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~P----i~-QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IF-QCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCccc----ce-ecCCCcEehhhhhh---hhcccCCccccccc
Confidence 3457899999999875 33 56 7999999975 45788999999886
No 92
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.52 E-value=0.19 Score=49.39 Aligned_cols=50 Identities=24% Similarity=0.631 Sum_probs=34.9
Q ss_pred CCCccceecccccCCCceeeecccC-----CcccHHHHHHHHhcCC--------CCCccCccc
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSMKN--------VCPICKASV 371 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCg-----H~FH~~CI~kWLk~k~--------sCPICR~~l 371 (378)
.+..|=||+..=++.-.--..-||. |..|..||..|+..|. +||-|+++-
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 4456889998755533222333664 7899999999996543 499999864
No 93
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.12 E-value=0.14 Score=56.12 Aligned_cols=53 Identities=32% Similarity=0.644 Sum_probs=41.5
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcC---CCCCccCcccCCCCCC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK---NVCPICKASVMADSEK 377 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k---~sCPICR~~l~~~~er 377 (378)
....+|+||+.-+.++ .++.|-|.|+..|+..-|..+ ..||+|+..+...+.+
T Consensus 19 ~k~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~ 74 (684)
T KOG4362|consen 19 QKILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR 74 (684)
T ss_pred hhhccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence 3467899999999976 455899999999998877654 4699999877554443
No 94
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.75 E-value=0.26 Score=46.80 Aligned_cols=40 Identities=30% Similarity=0.624 Sum_probs=28.2
Q ss_pred ccceecccccCCCceeeecccCCc-ccHHHHHHHHhcCCCCCccCcccC
Q 017037 325 NCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCgH~-FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
.|-+|-+.=. .| .++||.|. +|..|-.. ...||+|+....
T Consensus 160 ~Cr~C~~~~~---~V-lllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGEREA---TV-LLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred cceecCcCCc---eE-EeecccceEeccccccc----CccCCCCcChhh
Confidence 3888866522 34 45599987 89999654 456999998654
No 95
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.34 E-value=0.69 Score=35.25 Aligned_cols=44 Identities=30% Similarity=0.692 Sum_probs=35.9
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCc--cCcc
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPI--CKAS 370 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPI--CR~~ 370 (378)
...|.+|-+.|+.++.+.+.+.|+=.||+.|..+ ...|-+ |...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 4679999999998889999999999999999755 556655 5543
No 96
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=87.10 E-value=0.33 Score=47.34 Aligned_cols=48 Identities=25% Similarity=0.557 Sum_probs=35.2
Q ss_pred CCCccceecccc-cCCC-ceeeecccCCcccHHHHHHHHhc-CCCCC--ccCc
Q 017037 322 EEGNCVICLEEY-KNMD-DVGTLKSCGHDYHVTCIKKWLSM-KNVCP--ICKA 369 (378)
Q Consensus 322 ed~~C~ICLeef-~~ge-~v~~LlpCgH~FH~~CI~kWLk~-k~sCP--ICR~ 369 (378)
.+..|+||..+. -.++ ++.+-+.|-|..|.+|++.-+.. ...|| -|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 356899999774 4444 33334349999999999999987 57899 6643
No 97
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=86.35 E-value=0.4 Score=53.29 Aligned_cols=50 Identities=14% Similarity=0.196 Sum_probs=33.4
Q ss_pred CCccceecccccCCCc-eeee--cccCCcccHHHHHHHHhc------CCCCCccCcccC
Q 017037 323 EGNCVICLEEYKNMDD-VGTL--KSCGHDYHVTCIKKWLSM------KNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~ge~-v~~L--lpCgH~FH~~CI~kWLk~------k~sCPICR~~l~ 372 (378)
...|.||.-++..++. ...+ -.|.|.||..||..|+.+ +-.|++|...|.
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 4456666666665332 2222 249999999999999954 235899987653
No 98
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.11 E-value=0.31 Score=54.63 Aligned_cols=37 Identities=19% Similarity=0.449 Sum_probs=28.5
Q ss_pred cCCCCccceecccccCCCceeeecccCCcccHHHHHHHH
Q 017037 320 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL 358 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWL 358 (378)
...++.|.||...+-.. .-.+.||||.||++||.+-.
T Consensus 814 ~ep~d~C~~C~~~ll~~--pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK--PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC--cceeeeccchHHHHHHHHHH
Confidence 45678999999888764 33344899999999997754
No 99
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.82 E-value=0.43 Score=47.75 Aligned_cols=29 Identities=17% Similarity=0.551 Sum_probs=23.5
Q ss_pred cCCcccHHHHHHHHh-------------cCCCCCccCcccCC
Q 017037 345 CGHDYHVTCIKKWLS-------------MKNVCPICKASVMA 373 (378)
Q Consensus 345 CgH~FH~~CI~kWLk-------------~k~sCPICR~~l~~ 373 (378)
|....|.+|+.+|+. .+.+||+||+.+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 778899999999983 34579999998754
No 100
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=84.56 E-value=0.36 Score=36.00 Aligned_cols=31 Identities=29% Similarity=0.713 Sum_probs=22.5
Q ss_pred ccC-CcccHHHHHHHHhcCCCCCccCcccCCC
Q 017037 344 SCG-HDYHVTCIKKWLSMKNVCPICKASVMAD 374 (378)
Q Consensus 344 pCg-H~FH~~CI~kWLk~k~sCPICR~~l~~~ 374 (378)
.|. |..|..|+...|.+...||||+.+++..
T Consensus 17 ~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 17 KCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp E-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred eecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 575 9999999999999999999999988753
No 101
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=84.32 E-value=1.1 Score=41.22 Aligned_cols=35 Identities=31% Similarity=0.656 Sum_probs=21.9
Q ss_pred CCCccceecccccCCCceeeec-----------ccCC-cccHHHHHHHHh
Q 017037 322 EEGNCVICLEEYKNMDDVGTLK-----------SCGH-DYHVTCIKKWLS 359 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~Ll-----------pCgH-~FH~~CI~kWLk 359 (378)
++..|+||||--.+. | .|+ =|.- .-|..||++.-+
T Consensus 1 ed~~CpICme~PHNA--V-LLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNA--V-LLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCce--E-EEEeccccCCccccccCCccchhHHHHHHHH
Confidence 357899999986653 1 111 0332 247889998763
No 102
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=83.60 E-value=0.68 Score=51.41 Aligned_cols=25 Identities=36% Similarity=0.994 Sum_probs=22.6
Q ss_pred ecccCCcccHHHHHHHHhcCCCCCc
Q 017037 342 LKSCGHDYHVTCIKKWLSMKNVCPI 366 (378)
Q Consensus 342 LlpCgH~FH~~CI~kWLk~k~sCPI 366 (378)
+..|+|+.|.+|...|+.....||.
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hccccccccHHHHHHHHhcCCcCCC
Confidence 4479999999999999999999985
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.39 E-value=0.49 Score=48.73 Aligned_cols=39 Identities=28% Similarity=0.677 Sum_probs=29.3
Q ss_pred CCCccceecccccCC-CceeeecccCCcccHHHHHHHHhcC
Q 017037 322 EEGNCVICLEEYKNM-DDVGTLKSCGHDYHVTCIKKWLSMK 361 (378)
Q Consensus 322 ed~~C~ICLeef~~g-e~v~~LlpCgH~FH~~CI~kWLk~k 361 (378)
....|.||..+.... +... ...|+|.||.+|+++.+..+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhhh
Confidence 457899999555544 3444 44799999999999998754
No 104
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=83.19 E-value=0.98 Score=40.45 Aligned_cols=54 Identities=26% Similarity=0.498 Sum_probs=37.0
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHh---cCCCCCccCcccCCCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS---MKNVCPICKASVMADS 375 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk---~k~sCPICR~~l~~~~ 375 (378)
.-.+|-||.|.-.+..=+.----||-..|.-|-....+ ....||+||..+...+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 45689999998765321111113898899887765544 3678999999987655
No 105
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=81.10 E-value=1.1 Score=50.21 Aligned_cols=50 Identities=24% Similarity=0.577 Sum_probs=37.6
Q ss_pred CCCCccceecccccCCCceeeecccCC-----cccHHHHHHHHhc--CCCCCccCcccC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGH-----DYHVTCIKKWLSM--KNVCPICKASVM 372 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH-----~FH~~CI~kWLk~--k~sCPICR~~l~ 372 (378)
.++..|-||..+=..++.+-- ||+. ..|.+|+..|+.- +..|-+|+.++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfh--PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFH--PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcc--cccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 455789999988666655532 5653 4899999999975 467999998764
No 106
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.66 E-value=1.1 Score=43.79 Aligned_cols=35 Identities=29% Similarity=0.740 Sum_probs=27.0
Q ss_pred CceeeecccCCcccHHHHHHHHhcC-CCCCccCccc
Q 017037 337 DDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASV 371 (378)
Q Consensus 337 e~v~~LlpCgH~FH~~CI~kWLk~k-~sCPICR~~l 371 (378)
+.+.+.+.|||.+|..|+.+-+... ..||.||...
T Consensus 19 ~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 19 DHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred ccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3333445799999999998877754 5699999983
No 107
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=79.24 E-value=0.77 Score=49.76 Aligned_cols=40 Identities=20% Similarity=0.673 Sum_probs=27.2
Q ss_pred Cccceeccc-----ccCCCceeeecccCCcccHHHHHHHHhcCCCCCcc
Q 017037 324 GNCVICLEE-----YKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 367 (378)
Q Consensus 324 ~~C~ICLee-----f~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPIC 367 (378)
..|.||... |+ .+++.++..|+++||..|+.. .+..||.|
T Consensus 512 fiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred eeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 357777432 33 445667778999999999744 23449999
No 108
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.66 E-value=1.4 Score=47.24 Aligned_cols=47 Identities=32% Similarity=0.875 Sum_probs=37.4
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 376 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~e 376 (378)
....|.||+++. ..+.. +|. |..|+.+|+..+..||.|++.+..++.
T Consensus 478 ~~~~~~~~~~~~----~~~~~-~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARIT-PCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH----Hhccc-ccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 456799999997 22233 688 899999999999999999988766553
No 109
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=73.06 E-value=3 Score=46.48 Aligned_cols=41 Identities=22% Similarity=0.468 Sum_probs=31.3
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPI 366 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPI 366 (378)
..|++|-..+.. ....+.-|+|.-|.+|+++|+.....||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 468888766553 22344479999999999999998887766
No 110
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=72.96 E-value=0.94 Score=33.56 Aligned_cols=43 Identities=21% Similarity=0.464 Sum_probs=20.3
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhc---C--CCCCccCcc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM---K--NVCPICKAS 370 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~---k--~sCPICR~~ 370 (378)
..|+|....+..+ ++.. .|.|.-|.+ +..||.. + -.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4688888777753 4444 799985544 4566643 2 249999863
No 111
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=70.95 E-value=2.3 Score=40.91 Aligned_cols=42 Identities=31% Similarity=0.697 Sum_probs=34.7
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 368 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR 368 (378)
..|.+|.+-.-.+ +++..|+=.||..|+...+++...||-|-
T Consensus 182 k~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 4699998877654 34457999999999999999999999993
No 112
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=69.87 E-value=4.6 Score=41.07 Aligned_cols=54 Identities=22% Similarity=0.516 Sum_probs=36.0
Q ss_pred cCCCCccceecccccC---------------CCceeeecccCCcccHHHHHHHHhc---------CCCCCccCcccCC
Q 017037 320 MQEEGNCVICLEEYKN---------------MDDVGTLKSCGHDYHVTCIKKWLSM---------KNVCPICKASVMA 373 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~---------------ge~v~~LlpCgH~FH~~CI~kWLk~---------k~sCPICR~~l~~ 373 (378)
...+.+|+||+..=.- +-..-...||||+--.+-.+-|-+. +..||.|-+.+..
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 3456789999976211 1111122389999888889999854 3469999877643
No 113
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=68.83 E-value=7 Score=30.14 Aligned_cols=47 Identities=21% Similarity=0.574 Sum_probs=33.6
Q ss_pred CccceecccccCCCceeeecccC--CcccHHHHHHHHhcCCCCCccCcccCCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCG--HDYHVTCIKKWLSMKNVCPICKASVMAD 374 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCg--H~FH~~CI~kWLk~k~sCPICR~~l~~~ 374 (378)
..|-.|-.++.....-..+ |. ..||.+|.+.-| ++.||.|-.+++..
T Consensus 6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 3577777777665422222 54 459999999977 78999999988754
No 114
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.78 E-value=4.9 Score=41.74 Aligned_cols=49 Identities=20% Similarity=0.346 Sum_probs=36.9
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcC---CCCCccCcccCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK---NVCPICKASVMA 373 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k---~sCPICR~~l~~ 373 (378)
-.|+|=.+.-.+.+...+| .|||+..++-|.+..+.. -.||.|=.+...
T Consensus 335 F~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~ 386 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPVEQLA 386 (394)
T ss_pred eecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCcccCH
Confidence 4699977776666566666 899999999999987653 369999655443
No 115
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=65.86 E-value=5 Score=40.76 Aligned_cols=50 Identities=24% Similarity=0.436 Sum_probs=38.4
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
..|+||-+.....+....-.+|++..|..|+..-......||.||++...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 67999999875555433333788988999998887888999999976543
No 116
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.41 E-value=2.6 Score=47.06 Aligned_cols=44 Identities=32% Similarity=0.579 Sum_probs=23.5
Q ss_pred CCccceecccccCC----CceeeecccCCcccHHHHHHHHhcCCCCCccC
Q 017037 323 EGNCVICLEEYKNM----DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 368 (378)
Q Consensus 323 d~~C~ICLeef~~g----e~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR 368 (378)
+..|.-|.+..... +.++++ .|+|.||..|+.--..+++ |-+|-
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhcc-cChhh
Confidence 34566666655421 244455 5777777777655444333 55543
No 117
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.78 E-value=5.5 Score=41.12 Aligned_cols=43 Identities=23% Similarity=0.539 Sum_probs=30.4
Q ss_pred CccceecccccCCC--ceeeecccCCcccHHHHHHHHhcCCCCCcc
Q 017037 324 GNCVICLEEYKNMD--DVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 367 (378)
Q Consensus 324 ~~C~ICLeef~~ge--~v~~LlpCgH~FH~~CI~kWLk~k~sCPIC 367 (378)
..|++|.-.++..+ .-... .|+|.||..|...|......|.-|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~C-rC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTC-RCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEe-eccccchhhcCcchhhCCccccCc
Confidence 46777776655433 33445 499999999999998877767544
No 118
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=64.33 E-value=4.6 Score=37.99 Aligned_cols=41 Identities=27% Similarity=0.676 Sum_probs=30.2
Q ss_pred CCccceeccc-----ccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCc
Q 017037 323 EGNCVICLEE-----YKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 369 (378)
Q Consensus 323 d~~C~ICLee-----f~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~ 369 (378)
...|-||-++ |.. +.+.+...|+-+||..|.. +..||-|..
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 4578888753 232 3566777899999999986 267999953
No 119
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.02 E-value=4.3 Score=42.44 Aligned_cols=37 Identities=30% Similarity=0.770 Sum_probs=29.9
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhc
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM 360 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~ 360 (378)
.....|.||.+.+.. .+..+ .|+|.||..|+...|.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~-~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGL-GCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhc-CCCcHHHHHHHHHHhhh
Confidence 345789999999886 34344 89999999999999865
No 120
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=61.45 E-value=9.1 Score=42.07 Aligned_cols=88 Identities=18% Similarity=0.289 Sum_probs=43.6
Q ss_pred CCCHHHHHHhhhhcCCCCC--CCCHHHHHhhccceeeecc--cccCCCCccceecccccCCCceeeecccCCcccH--HH
Q 017037 280 NMTYEELLALGERIGSVST--GLSEDLISRCLTESIYCSA--DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHV--TC 353 (378)
Q Consensus 280 nmsyEeLlaL~Erig~v~t--GlSee~I~~ll~~~~~~~~--~~~~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~--~C 353 (378)
..+.+.|++....+...+. ..+...+++.+..-...+. ....--..|+|+.... .+||.+..|+ .|
T Consensus 259 ~~t~~~llq~~~~~~~~~~~~~~s~~~~~~~l~~~~d~~i~tt~~~vSL~CPl~~~Rm--------~~P~r~~~CkHlQc 330 (636)
T KOG2169|consen 259 GLTSKDLLQRLKQNGKINRNLSQSDALIKKKLTAGPDSEIATTSLRVSLNCPLSKMRM--------SLPARGHTCKHLQC 330 (636)
T ss_pred ccCHHHHHHHHhccCCccCchhHhHHHhhcccccCCcccceeccceeEecCCccccee--------ecCCccccccccee
Confidence 5677888877776665544 3333333332211100000 0011224588775443 3356655555 67
Q ss_pred HHHH-Hhc----CC--CCCccCcccCCCC
Q 017037 354 IKKW-LSM----KN--VCPICKASVMADS 375 (378)
Q Consensus 354 I~kW-Lk~----k~--sCPICR~~l~~~~ 375 (378)
.+.- +.. +. .||+|.+.+.-++
T Consensus 331 FD~~~~lq~n~~~pTW~CPVC~~~~~~e~ 359 (636)
T KOG2169|consen 331 FDALSYLQMNEQKPTWRCPVCQKAAPFEG 359 (636)
T ss_pred cchhhhHHhccCCCeeeCccCCccccccc
Confidence 6543 322 11 3999988775543
No 121
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.50 E-value=12 Score=37.01 Aligned_cols=50 Identities=22% Similarity=0.390 Sum_probs=37.6
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 375 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~ 375 (378)
..|+|---++...-....+.+|||+|-..-+++- ....|++|-+....++
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 4688877777665566667799999998887763 2578999998776544
No 123
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=52.90 E-value=11 Score=24.61 Aligned_cols=38 Identities=21% Similarity=0.450 Sum_probs=25.5
Q ss_pred ccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccC
Q 017037 325 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
.|..|-+.+...+..... =+..||..|+ .|..|+..|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcCc
Confidence 477888887765333222 3678888885 6888877663
No 124
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.61 E-value=2.9 Score=40.71 Aligned_cols=48 Identities=31% Similarity=0.480 Sum_probs=36.8
Q ss_pred CCccceecccccC--CCceeeecc--------cCCcccHHHHHHHHhcC-CCCCccCcc
Q 017037 323 EGNCVICLEEYKN--MDDVGTLKS--------CGHDYHVTCIKKWLSMK-NVCPICKAS 370 (378)
Q Consensus 323 d~~C~ICLeef~~--ge~v~~Llp--------CgH~FH~~CI~kWLk~k-~sCPICR~~ 370 (378)
...|.||...|.. ...+..++. |+|..|..|++.-+... -.||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 3569999999984 223333336 99999999999998765 479999864
No 125
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=50.69 E-value=8.5 Score=38.22 Aligned_cols=48 Identities=25% Similarity=0.530 Sum_probs=34.1
Q ss_pred CccceecccccCCCceeee---cccCCcccHHHHHHHHhc---------CCCCCccCccc
Q 017037 324 GNCVICLEEYKNMDDVGTL---KSCGHDYHVTCIKKWLSM---------KNVCPICKASV 371 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~L---lpCgH~FH~~CI~kWLk~---------k~sCPICR~~l 371 (378)
..|-||.+++.+.+..+.. +.|.-.+|..|+..-+.. ...||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5899999999654444332 247888999999885432 34699998743
No 126
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.05 E-value=12 Score=36.89 Aligned_cols=34 Identities=12% Similarity=0.258 Sum_probs=28.0
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHh
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS 359 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk 359 (378)
+-..|+.||..+.++ ++.+=||+|+.+||.+.+.
T Consensus 42 ~FdcCsLtLqPc~dP----vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP----VITPDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCC----ccCCCCeeeeHHHHHHHHH
Confidence 456799999999876 3447899999999999874
No 127
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=48.34 E-value=9.4 Score=27.32 Aligned_cols=44 Identities=25% Similarity=0.522 Sum_probs=29.6
Q ss_pred ccceecccccCCCceeeecccCCcccHHHHHHHHhc------CCCCCccCc
Q 017037 325 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM------KNVCPICKA 369 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~------k~sCPICR~ 369 (378)
.|.||...-. .+.+...-.|.-.||..|+..=+.. .-.||.|+.
T Consensus 1 ~C~vC~~~~~-~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDD-DGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCT-TSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCC-CCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3889988433 3455556689999999999655431 235888863
No 128
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=42.68 E-value=14 Score=26.70 Aligned_cols=39 Identities=21% Similarity=0.457 Sum_probs=21.8
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCC
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 374 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~ 374 (378)
|.-|...+...+.+.. .-+..||..|+ .|-.|+..|...
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEcccc--------ccCCCCCccCCC
Confidence 5556666665443322 24566777664 566776666443
No 129
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=39.74 E-value=17 Score=28.96 Aligned_cols=11 Identities=27% Similarity=1.026 Sum_probs=8.4
Q ss_pred ccHHHHHHHHh
Q 017037 349 YHVTCIKKWLS 359 (378)
Q Consensus 349 FH~~CI~kWLk 359 (378)
||+.||.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999985
No 130
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.16 E-value=11 Score=38.05 Aligned_cols=49 Identities=27% Similarity=0.642 Sum_probs=39.3
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccC
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 372 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~ 372 (378)
.....|-||...+...+.. ..|.|.|+..|...|....+.||.||..+.
T Consensus 103 ~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 3456799999888765433 259999999999999999999999987653
No 131
>PLN02189 cellulose synthase
Probab=39.04 E-value=24 Score=41.03 Aligned_cols=50 Identities=24% Similarity=0.367 Sum_probs=35.3
Q ss_pred CCccceecccccC---CCceeeecccCCcccHHHHHHHHhc-CCCCCccCcccC
Q 017037 323 EGNCVICLEEYKN---MDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~---ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l~ 372 (378)
...|.||-+++.. |+.-+.+-.|+--.|..|.+-=.+. ++.||-||+...
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4589999999753 4444455457777999999443333 567999998654
No 132
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=38.16 E-value=21 Score=26.90 Aligned_cols=42 Identities=17% Similarity=0.532 Sum_probs=21.2
Q ss_pred cceecccccCC------CceeeecccCCcccHHHHHHHHhc-CCCCCccC
Q 017037 326 CVICLEEYKNM------DDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICK 368 (378)
Q Consensus 326 C~ICLeef~~g------e~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR 368 (378)
|--|+..|..+ ....+.+.|++.||.+|= -.+.. --.||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD-~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCD-VFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHH-HTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcC-hhhhccccCCcCCC
Confidence 44566666654 245677789999999993 33322 34699884
No 133
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=37.97 E-value=11 Score=39.44 Aligned_cols=51 Identities=20% Similarity=0.511 Sum_probs=0.0
Q ss_pred CCccceecccccC---------------CCceeeecccCCcccHHHHHHHHhc---------CCCCCccCcccCC
Q 017037 323 EGNCVICLEEYKN---------------MDDVGTLKSCGHDYHVTCIKKWLSM---------KNVCPICKASVMA 373 (378)
Q Consensus 323 d~~C~ICLeef~~---------------ge~v~~LlpCgH~FH~~CI~kWLk~---------k~sCPICR~~l~~ 373 (378)
...|+||+..-.- +.-.-.--||||+-=.++.+-|-+. +..||.|-..|..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 6689999965211 0001112289999888899999854 2469999887753
No 134
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.78 E-value=20 Score=36.19 Aligned_cols=39 Identities=13% Similarity=0.340 Sum_probs=28.2
Q ss_pred CCCccceecccccCCCceeeec-ccCCcccHHHHHHHHhcC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLK-SCGHDYHVTCIKKWLSMK 361 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~Ll-pCgH~FH~~CI~kWLk~k 361 (378)
....|.+|.|.+++.. .+.++ -=.|.||..|-.+-+|..
T Consensus 267 apLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHhh
Confidence 3478999999998753 22221 016999999999999864
No 136
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=36.41 E-value=37 Score=29.57 Aligned_cols=45 Identities=18% Similarity=0.316 Sum_probs=33.9
Q ss_pred CccceecccccCC----------CceeeecccCCcccHHHHHHHHhcCCCCCccC
Q 017037 324 GNCVICLEEYKNM----------DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 368 (378)
Q Consensus 324 ~~C~ICLeef~~g----------e~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR 368 (378)
..|--|+..|... ....+...|++.||.+|=.-+-..-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 4699999988653 12345668999999999766666667799996
No 137
>PF07853 DUF1648: Protein of unknown function (DUF1648); InterPro: IPR012867 This entry contains hypothetical proteins expressed by either bacterial or archaeal species. Some of these are annotated as being transmembrane proteins, and many contain a high proportion of hydrophobic residues.
Probab=35.53 E-value=17 Score=26.53 Aligned_cols=17 Identities=24% Similarity=0.567 Sum_probs=15.5
Q ss_pred ccCCCCCCCCCCCCccC
Q 017037 43 HVAPHWNPAPSSSGFTS 59 (378)
Q Consensus 43 ~~~~~~~~~~~~~~~~~ 59 (378)
.+|+|||.+-..|+|++
T Consensus 21 ~ip~H~~~~G~~d~~~~ 37 (51)
T PF07853_consen 21 QIPTHFNANGEPDGWGS 37 (51)
T ss_pred hhceeeCCCCCcccccc
Confidence 36999999999999998
No 138
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=34.61 E-value=11 Score=38.00 Aligned_cols=43 Identities=26% Similarity=0.551 Sum_probs=31.6
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCCC
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 375 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~~ 375 (378)
..+|+-|.+.+....-|++ .=.|+||..|. .|-||+..+-.-+
T Consensus 92 GTKCsaC~~GIpPtqVVRk--Aqd~VYHl~CF--------~C~iC~R~L~TGd 134 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRK--AQDFVYHLHCF--------ACFICKRQLATGD 134 (383)
T ss_pred CCcchhhcCCCChHHHHHH--hhcceeehhhh--------hhHhhhcccccCC
Confidence 4579999998876544444 36899999996 5888887765443
No 139
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=33.71 E-value=19 Score=27.44 Aligned_cols=39 Identities=21% Similarity=0.539 Sum_probs=20.5
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHHh
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS 359 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk 359 (378)
.+...|.+|...|..-..---.-.||++||..|....+.
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 345789999999976443333446999999999876553
No 140
>PRK11827 hypothetical protein; Provisional
Probab=33.21 E-value=17 Score=28.31 Aligned_cols=20 Identities=20% Similarity=0.509 Sum_probs=12.5
Q ss_pred HHHHhcCCCCCccCcccCCC
Q 017037 355 KKWLSMKNVCPICKASVMAD 374 (378)
Q Consensus 355 ~kWLk~k~sCPICR~~l~~~ 374 (378)
++||..--.||+|+.++.-+
T Consensus 2 d~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred ChHHHhheECCCCCCcCeEc
Confidence 34555555688887776543
No 141
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=32.98 E-value=23 Score=24.45 Aligned_cols=27 Identities=26% Similarity=0.561 Sum_probs=16.7
Q ss_pred CccceecccccCCCc-------eeeecccCCccc
Q 017037 324 GNCVICLEEYKNMDD-------VGTLKSCGHDYH 350 (378)
Q Consensus 324 ~~C~ICLeef~~ge~-------v~~LlpCgH~FH 350 (378)
..|+-|...|..+++ ..+...|+|.|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 368888888776543 234446777664
No 142
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=31.00 E-value=27 Score=39.74 Aligned_cols=53 Identities=23% Similarity=0.499 Sum_probs=29.2
Q ss_pred cCCCCccceecccccC------------CCceeeecccCCcccHH-HHH---------HHHhcCCCCC---ccCcccC
Q 017037 320 MQEEGNCVICLEEYKN------------MDDVGTLKSCGHDYHVT-CIK---------KWLSMKNVCP---ICKASVM 372 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~------------ge~v~~LlpCgH~FH~~-CI~---------kWLk~k~sCP---ICR~~l~ 372 (378)
..+-..|+||+..+.- ||...++.-|+-.|=.+ =|+ .=++...+|| ||.+...
T Consensus 602 ~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kft 679 (958)
T KOG1074|consen 602 RTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFT 679 (958)
T ss_pred cCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccc
Confidence 3456789999987643 44444444466555322 111 1122344699 9977654
No 143
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=30.87 E-value=13 Score=40.18 Aligned_cols=52 Identities=19% Similarity=0.361 Sum_probs=45.0
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
....|.+|+......++.+.+-.|.+.++..|+..|-.....|+.|++.+..
T Consensus 259 ~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~ 310 (553)
T KOG4430|consen 259 NKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRT 310 (553)
T ss_pred cccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccccc
Confidence 4567999999998888777777789999999999999989999999987754
No 144
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=29.96 E-value=53 Score=27.03 Aligned_cols=50 Identities=20% Similarity=0.369 Sum_probs=21.7
Q ss_pred CCCccceecccccC---CCceeeecccCCcccHHHHHHHHhc-CCCCCccCccc
Q 017037 322 EEGNCVICLEEYKN---MDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASV 371 (378)
Q Consensus 322 ed~~C~ICLeef~~---ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l 371 (378)
....|-||=+++.. ++-....-.|+--.|+.|..-=.+. +..||-|++..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 34579999998754 4333334467777899998766655 56799999764
No 145
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=29.22 E-value=37 Score=24.69 Aligned_cols=36 Identities=14% Similarity=0.437 Sum_probs=26.7
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHh
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS 359 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk 359 (378)
..|.+|-..|..-..-.....||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 568999888876443334447999999999987654
No 146
>PLN02436 cellulose synthase A
Probab=29.07 E-value=44 Score=39.10 Aligned_cols=50 Identities=20% Similarity=0.426 Sum_probs=35.2
Q ss_pred CCccceeccccc---CCCceeeecccCCcccHHHHHHHHhc-CCCCCccCcccC
Q 017037 323 EGNCVICLEEYK---NMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~---~ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l~ 372 (378)
...|-||-+++. +|+--..+--|+--.|..|.+-=.+. ++.||-||+.-.
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 357999999973 35544555457777999999443333 567999998654
No 147
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=27.88 E-value=20 Score=26.50 Aligned_cols=12 Identities=25% Similarity=0.869 Sum_probs=6.1
Q ss_pred CCCCccCcccCC
Q 017037 362 NVCPICKASVMA 373 (378)
Q Consensus 362 ~sCPICR~~l~~ 373 (378)
..||+|..++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 379999988754
No 148
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=27.71 E-value=29 Score=37.97 Aligned_cols=35 Identities=29% Similarity=0.659 Sum_probs=24.6
Q ss_pred CCCCccceecccccC-----------CCceeeecccCCcccHHHHHHH
Q 017037 321 QEEGNCVICLEEYKN-----------MDDVGTLKSCGHDYHVTCIKKW 357 (378)
Q Consensus 321 ~ed~~C~ICLeef~~-----------ge~v~~LlpCgH~FH~~CI~kW 357 (378)
.....|+||.|.|+. .+.|. + .=|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~-l-e~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVY-L-EFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceee-e-ccCceeeccccchH
Confidence 456789999999975 22232 2 25788999998654
No 149
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=27.62 E-value=20 Score=28.83 Aligned_cols=39 Identities=26% Similarity=0.566 Sum_probs=18.2
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
..|+.|..++.-.. ++.+|..|-.. ++....||-|.+++
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHH
Confidence 46888877755321 45555566543 34455688887765
No 150
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=27.07 E-value=22 Score=40.35 Aligned_cols=47 Identities=19% Similarity=0.353 Sum_probs=32.2
Q ss_pred CCCCccceecccccCCCceeeecccCCcccHHHHHHHH-h-c----CCCCCccCc
Q 017037 321 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL-S-M----KNVCPICKA 369 (378)
Q Consensus 321 ~ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWL-k-~----k~sCPICR~ 369 (378)
.....|-.|....-. ..-++..|++.||..|++.|. + . -..|+.|+.
T Consensus 227 g~~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 227 GIREMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred Ccchhhhhhcccccc--eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 345678899766442 344566899999999999995 1 1 124777764
No 151
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=26.68 E-value=21 Score=37.28 Aligned_cols=28 Identities=25% Similarity=0.663 Sum_probs=0.0
Q ss_pred eecccCCcccHHHHHHHHhc------CCCCCccCccc
Q 017037 341 TLKSCGHDYHVTCIKKWLSM------KNVCPICKASV 371 (378)
Q Consensus 341 ~LlpCgH~FH~~CI~kWLk~------k~sCPICR~~l 371 (378)
+-+.|||++.. ..|-.. ...||+||+.-
T Consensus 305 VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 305 VYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp -------------------------------------
T ss_pred eeccccceeee---cccccccccccccccCCCccccC
Confidence 34489998763 367642 34699999753
No 152
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=26.67 E-value=53 Score=28.74 Aligned_cols=22 Identities=27% Similarity=0.499 Sum_probs=16.3
Q ss_pred HHHHhcCCCCCccCcccCCCCC
Q 017037 355 KKWLSMKNVCPICKASVMADSE 376 (378)
Q Consensus 355 ~kWLk~k~sCPICR~~l~~~~e 376 (378)
.+-|.+...|+.|++++.-+.+
T Consensus 79 TKmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 79 TKMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred HhhhchhhccCcCCCcCccCch
Confidence 3556666789999999876653
No 153
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=26.35 E-value=45 Score=34.18 Aligned_cols=45 Identities=18% Similarity=0.316 Sum_probs=30.4
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhc---CCCCCccCc
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKA 369 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~---k~sCPICR~ 369 (378)
..|++--+.-.+.+.. .++.|||+.-.+-+...-+. .-.||.|=.
T Consensus 337 FiCPVlKe~~t~ENpP-~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPP-VMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCC-eeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 4688765555444344 44489999999998886543 235999943
No 154
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=26.06 E-value=45 Score=34.16 Aligned_cols=43 Identities=5% Similarity=-0.104 Sum_probs=31.7
Q ss_pred CCCccceecccccCCCceeeecccCCc-ccHHHHHHHHhcCCCCCccCcc
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKAS 370 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~-FH~~CI~kWLk~k~sCPICR~~ 370 (378)
...+|..|-+.... . .+.+|+|. ||.+|.. +....+||+|-..
T Consensus 342 s~~~~~~~~~~~~s---t-~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS---T-IWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hhcccccccCceee---e-EeecCCcccChhhhhh--cccCCcccccccc
Confidence 44678888766542 2 34489987 9999987 6778899999764
No 155
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=26.02 E-value=36 Score=34.46 Aligned_cols=37 Identities=16% Similarity=0.152 Sum_probs=26.5
Q ss_pred cCCCCccceecccccC-----CCceeeecccCCcccHHHHHH
Q 017037 320 MQEEGNCVICLEEYKN-----MDDVGTLKSCGHDYHVTCIKK 356 (378)
Q Consensus 320 ~~ed~~C~ICLeef~~-----ge~v~~LlpCgH~FH~~CI~k 356 (378)
.+....|-||++.-+. .+....+.+|.-.+|..||.-
T Consensus 255 ~~~~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M 296 (381)
T KOG1512|consen 255 NQRRNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAM 296 (381)
T ss_pred CcchhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhc
Confidence 3556789999987543 224556668999999999853
No 156
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=25.54 E-value=48 Score=21.60 Aligned_cols=29 Identities=21% Similarity=0.422 Sum_probs=11.8
Q ss_pred ccceecccccCCCceeeecccCCcccHHHH
Q 017037 325 NCVICLEEYKNMDDVGTLKSCGHDYHVTCI 354 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCgH~FH~~CI 354 (378)
.|.+|...... ........|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47788877765 456677789999999986
No 157
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=25.42 E-value=23 Score=39.88 Aligned_cols=45 Identities=24% Similarity=0.474 Sum_probs=28.8
Q ss_pred CCccceecccccC---------CCceeeecccCCcccHHHHHHHHhcCCCCCccCccc
Q 017037 323 EGNCVICLEEYKN---------MDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 371 (378)
Q Consensus 323 d~~C~ICLeef~~---------ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l 371 (378)
+..|+-|...|.. ....-.++.|+|.-|..=|.+ .+.||+|...+
T Consensus 1131 ~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1131 DLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred CCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 4567777766643 112234456889888776644 68899997754
No 158
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=24.98 E-value=62 Score=33.32 Aligned_cols=45 Identities=20% Similarity=0.455 Sum_probs=30.7
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHh-cCCCCCccCc
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKA 369 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk-~k~sCPICR~ 369 (378)
...|-.|.++..... ..++..|++.||.+|=. .+. .-..||-|..
T Consensus 330 ~~~Cf~C~~~~~~~~-~y~C~~Ck~~FCldCDv-~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSG-RYRCESCKNVFCLDCDV-FIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCC-cEEchhccceeeccchH-HHHhhhhcCCCcCC
Confidence 345889977776653 44555799999999943 232 2356999964
No 159
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=24.59 E-value=48 Score=27.53 Aligned_cols=39 Identities=21% Similarity=0.426 Sum_probs=30.6
Q ss_pred CCCccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 322 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 322 ed~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
.-..|.-|...+.--|.+. |-.||..+..|..|++.+..
T Consensus 32 ~rS~C~~C~~~L~~~~lIP-------------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIP-------------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCcccccch-------------HHHHHHhCCCCcccCCCCCh
Confidence 3467999988887655443 66899999999999998753
No 160
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=24.52 E-value=10 Score=37.24 Aligned_cols=46 Identities=17% Similarity=0.291 Sum_probs=21.0
Q ss_pred CCccceecccccCCCceeeec--ccCCcccHHHHHHHHhcCCCCCccCc
Q 017037 323 EGNCVICLEEYKNMDDVGTLK--SCGHDYHVTCIKKWLSMKNVCPICKA 369 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~Ll--pCgH~FH~~CI~kWLk~k~sCPICR~ 369 (378)
...|+||=..-.... +..-. --.+.+|.-|-..|--....||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 468999976643221 10000 02466888999999888889999954
No 161
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=24.18 E-value=36 Score=22.11 Aligned_cols=23 Identities=26% Similarity=0.525 Sum_probs=12.3
Q ss_pred ccceecccccCCCceeeecccCCcc
Q 017037 325 NCVICLEEYKNMDDVGTLKSCGHDY 349 (378)
Q Consensus 325 ~C~ICLeef~~ge~v~~LlpCgH~F 349 (378)
.|+-|-..+... ....+-|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 466666665442 22343477766
No 162
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=23.94 E-value=14 Score=37.09 Aligned_cols=37 Identities=24% Similarity=0.459 Sum_probs=29.1
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK 361 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k 361 (378)
..|.||+++|..+...... .|.-+||..|+..|++..
T Consensus 215 rvC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchh-hccccccccccccccccc
Confidence 3799999999865444444 566699999999999764
No 163
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=23.41 E-value=60 Score=31.89 Aligned_cols=28 Identities=21% Similarity=0.554 Sum_probs=18.9
Q ss_pred ccHHHHHHHHhcCCCCCccCcccCCCCC
Q 017037 349 YHVTCIKKWLSMKNVCPICKASVMADSE 376 (378)
Q Consensus 349 FH~~CI~kWLk~k~sCPICR~~l~~~~e 376 (378)
.|..|-.+--+.-..||+||..-...+-
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrNP 278 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRNP 278 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCCC
Confidence 4566666655556789999987655543
No 164
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=23.38 E-value=36 Score=34.92 Aligned_cols=25 Identities=36% Similarity=1.015 Sum_probs=16.8
Q ss_pred eecccCCc--ccHHHHHHHHhc------CCCCCccCcc
Q 017037 341 TLKSCGHD--YHVTCIKKWLSM------KNVCPICKAS 370 (378)
Q Consensus 341 ~LlpCgH~--FH~~CI~kWLk~------k~sCPICR~~ 370 (378)
+-+.|||+ || .|=.+ ...||+||..
T Consensus 318 vYl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 318 VYLNCGHVHGYH-----NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred EEEecccccccc-----ccccccccCcccCcCCeeeee
Confidence 33489997 44 57543 3459999874
No 165
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.83 E-value=43 Score=37.30 Aligned_cols=42 Identities=24% Similarity=0.507 Sum_probs=29.0
Q ss_pred CccceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccC
Q 017037 324 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 368 (378)
Q Consensus 324 ~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR 368 (378)
..|.+|+..=...-.+..++.|+-.||..| |+...+.||+|-
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccC
Confidence 468899865442223444447999998888 555677899994
No 166
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=22.71 E-value=33 Score=25.29 Aligned_cols=38 Identities=32% Similarity=0.673 Sum_probs=21.1
Q ss_pred CCccceecccccCCCceeeecccCCcccHHHHHHHHh--cCCCCCccCccc
Q 017037 323 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS--MKNVCPICKASV 371 (378)
Q Consensus 323 d~~C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk--~k~sCPICR~~l 371 (378)
...|+.|-+++... .| +.| |.+.-.. ....||+|...+
T Consensus 2 ~f~CP~C~~~~~~~----~L--~~H-----~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----SL--VEH-----CEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHH----HH--HHH-----HHhHCcCCCCCccCCCchhhh
Confidence 35799998865532 23 334 2222222 134699997653
No 167
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=21.63 E-value=41 Score=26.28 Aligned_cols=16 Identities=44% Similarity=0.995 Sum_probs=11.0
Q ss_pred CCCCccCcccCCCCCC
Q 017037 362 NVCPICKASVMADSEK 377 (378)
Q Consensus 362 ~sCPICR~~l~~~~er 377 (378)
-.||+||..+.-..++
T Consensus 9 LaCP~~kg~L~~~~~~ 24 (60)
T COG2835 9 LACPVCKGPLVYDEEK 24 (60)
T ss_pred eeccCcCCcceEeccC
Confidence 3599999987554443
No 168
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=21.26 E-value=83 Score=36.99 Aligned_cols=50 Identities=18% Similarity=0.343 Sum_probs=34.2
Q ss_pred CCccceecccccC---CCceeeecccCCcccHHHHHHHHhc-CCCCCccCcccC
Q 017037 323 EGNCVICLEEYKN---MDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVM 372 (378)
Q Consensus 323 d~~C~ICLeef~~---ge~v~~LlpCgH~FH~~CI~kWLk~-k~sCPICR~~l~ 372 (378)
...|-||=+++.. |+-...+-.|+=-.|+.|.+-=.+. +..||-||+...
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3479999999754 4444444467777999999432222 567999998654
No 169
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=21.12 E-value=54 Score=22.62 Aligned_cols=25 Identities=28% Similarity=0.652 Sum_probs=14.8
Q ss_pred ccceecccccCCCce-------eeecccCCcc
Q 017037 325 NCVICLEEYKNMDDV-------GTLKSCGHDY 349 (378)
Q Consensus 325 ~C~ICLeef~~ge~v-------~~LlpCgH~F 349 (378)
.|+=|...|..+++. .+...|+|.|
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 577787777665431 2333566665
No 170
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=21.08 E-value=33 Score=36.55 Aligned_cols=47 Identities=17% Similarity=0.426 Sum_probs=31.4
Q ss_pred CCccceecccc-cCCCceeeecccCCcccHHHHHHHHhcC--------CCCCccCc
Q 017037 323 EGNCVICLEEY-KNMDDVGTLKSCGHDYHVTCIKKWLSMK--------NVCPICKA 369 (378)
Q Consensus 323 d~~C~ICLeef-~~ge~v~~LlpCgH~FH~~CI~kWLk~k--------~sCPICR~ 369 (378)
+..|++|+.-- -..+.+..+-.|.-.||..|-+...+.. -.|=+|..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 45599999543 3344566666788999999987654321 13888854
No 171
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.93 E-value=1.1e+02 Score=24.95 Aligned_cols=47 Identities=17% Similarity=0.468 Sum_probs=29.1
Q ss_pred cceecccccCCCceeeecccCCcccHHHHHHHHhcCCCCCccCcccCCC
Q 017037 326 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 374 (378)
Q Consensus 326 C~ICLeef~~ge~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~~ 374 (378)
|--|-.++..+..-..+-.=.+.||.+|...-| +..||.|-.+++..
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 555555554432221220234789999998744 68999998887643
No 172
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.69 E-value=51 Score=28.02 Aligned_cols=13 Identities=15% Similarity=0.759 Sum_probs=11.2
Q ss_pred cccHHHHHHHHhc
Q 017037 348 DYHVTCIKKWLSM 360 (378)
Q Consensus 348 ~FH~~CI~kWLk~ 360 (378)
-||..|+.+|.+.
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999964
No 173
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=20.64 E-value=79 Score=30.64 Aligned_cols=28 Identities=21% Similarity=0.506 Sum_probs=17.8
Q ss_pred ccHHHHHHHHhcCCCCCccCcccCCCCC
Q 017037 349 YHVTCIKKWLSMKNVCPICKASVMADSE 376 (378)
Q Consensus 349 FH~~CI~kWLk~k~sCPICR~~l~~~~e 376 (378)
-|..|-.+-=+.-..||+||+.--..+-
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrnp 223 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRNP 223 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCCC
Confidence 3456665543445789999987655543
No 174
>PLN02248 cellulose synthase-like protein
Probab=20.28 E-value=78 Score=37.31 Aligned_cols=36 Identities=22% Similarity=0.500 Sum_probs=29.0
Q ss_pred CceeeecccCCcccHHHHHHHHhcCCCCCccCcccCC
Q 017037 337 DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 373 (378)
Q Consensus 337 e~v~~LlpCgH~FH~~CI~kWLk~k~sCPICR~~l~~ 373 (378)
+++.-+ .|+...|.+|...-++....||-||.+...
T Consensus 143 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 143 EDLLPC-ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred ccCCcc-cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 344445 588889999999999988999999987644
Done!