Query 010258
Match_columns 514
No_of_seqs 219 out of 1495
Neff 3.7
Searched_HMMs 46136
Date Thu Mar 28 22:25:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010258.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010258hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.6 7.7E-16 1.7E-20 158.4 8.0 80 429-510 204-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 6.3E-14 1.4E-18 103.5 2.8 43 458-501 2-44 (44)
3 PHA02929 N1R/p28-like protein; 99.2 1.2E-11 2.7E-16 122.1 4.2 72 433-505 151-227 (238)
4 COG5540 RING-finger-containing 99.2 1.9E-11 4E-16 124.3 4.3 54 454-507 321-374 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.1 3.3E-11 7.2E-16 98.9 3.8 45 456-501 19-73 (73)
6 COG5243 HRD1 HRD ubiquitin lig 98.9 1.6E-09 3.5E-14 112.8 7.0 66 435-505 270-345 (491)
7 cd00162 RING RING-finger (Real 98.9 1E-09 2.3E-14 77.5 3.9 45 458-504 1-45 (45)
8 PLN03208 E3 ubiquitin-protein 98.9 7.7E-10 1.7E-14 106.7 3.5 55 454-511 16-85 (193)
9 KOG0823 Predicted E3 ubiquitin 98.9 1.1E-09 2.3E-14 107.9 3.1 55 454-511 45-101 (230)
10 KOG0317 Predicted E3 ubiquitin 98.8 1.8E-09 3.9E-14 109.1 3.1 52 454-509 237-288 (293)
11 PF13920 zf-C3HC4_3: Zinc fing 98.8 3.9E-09 8.5E-14 80.0 3.5 46 456-505 2-48 (50)
12 PF13923 zf-C3HC4_2: Zinc fing 98.7 6.1E-09 1.3E-13 75.5 3.0 39 459-500 1-39 (39)
13 PF12861 zf-Apc11: Anaphase-pr 98.7 6.4E-09 1.4E-13 89.0 3.5 52 455-506 20-83 (85)
14 smart00504 Ubox Modified RING 98.7 9.7E-09 2.1E-13 79.6 4.2 52 457-512 2-53 (63)
15 KOG0320 Predicted E3 ubiquitin 98.7 9.1E-09 2E-13 98.3 3.1 56 453-510 128-183 (187)
16 smart00184 RING Ring finger. E 98.6 2.6E-08 5.7E-13 67.9 3.4 39 459-500 1-39 (39)
17 PF15227 zf-C3HC4_4: zinc fing 98.6 2E-08 4.4E-13 74.9 2.8 39 459-500 1-42 (42)
18 KOG0802 E3 ubiquitin ligase [P 98.6 1.4E-08 3.1E-13 109.8 2.4 51 454-505 289-341 (543)
19 PF00097 zf-C3HC4: Zinc finger 98.6 2.9E-08 6.3E-13 71.8 2.7 40 459-500 1-41 (41)
20 PHA02926 zinc finger-like prot 98.6 1.6E-08 3.5E-13 99.7 1.7 53 453-505 167-230 (242)
21 PF14634 zf-RING_5: zinc-RING 98.5 8.6E-08 1.9E-12 71.4 2.9 44 458-502 1-44 (44)
22 TIGR00599 rad18 DNA repair pro 98.5 8.7E-08 1.9E-12 101.1 3.6 54 454-511 24-77 (397)
23 PF04564 U-box: U-box domain; 98.3 2.4E-07 5.1E-12 75.8 1.7 55 455-512 3-57 (73)
24 COG5574 PEX10 RING-finger-cont 98.2 5.6E-07 1.2E-11 90.5 2.5 53 454-509 213-266 (271)
25 KOG2177 Predicted E3 ubiquitin 98.2 6.4E-07 1.4E-11 82.1 1.5 45 454-502 11-55 (386)
26 KOG2164 Predicted E3 ubiquitin 98.1 1E-06 2.3E-11 94.9 2.8 53 456-511 186-242 (513)
27 KOG1493 Anaphase-promoting com 98.1 6.2E-07 1.3E-11 76.0 0.4 50 456-505 20-81 (84)
28 PF13445 zf-RING_UBOX: RING-ty 98.1 2.7E-06 5.9E-11 64.3 3.0 39 459-498 1-43 (43)
29 COG5194 APC11 Component of SCF 98.1 2.9E-06 6.3E-11 72.5 3.3 51 456-507 20-83 (88)
30 COG5219 Uncharacterized conser 98.1 1.1E-06 2.4E-11 99.8 1.0 51 453-505 1466-1523(1525)
31 KOG0828 Predicted E3 ubiquitin 98.1 1.6E-06 3.4E-11 93.4 2.0 52 455-506 570-635 (636)
32 smart00744 RINGv The RING-vari 98.0 5.4E-06 1.2E-10 63.9 3.3 43 458-501 1-49 (49)
33 KOG2930 SCF ubiquitin ligase, 98.0 3.3E-06 7.3E-11 75.1 2.5 50 454-504 44-107 (114)
34 TIGR00570 cdk7 CDK-activating 98.0 4.8E-06 1E-10 85.7 4.0 53 456-508 3-57 (309)
35 PF11793 FANCL_C: FANCL C-term 97.9 2.3E-06 4.9E-11 70.2 0.1 50 456-505 2-66 (70)
36 KOG0287 Postreplication repair 97.9 5E-06 1.1E-10 86.5 1.4 53 454-510 21-73 (442)
37 KOG1734 Predicted RING-contain 97.8 3.9E-06 8.5E-11 85.1 -0.1 58 454-511 222-287 (328)
38 COG5432 RAD18 RING-finger-cont 97.7 1.9E-05 4.1E-10 81.0 2.0 51 455-509 24-74 (391)
39 KOG0827 Predicted E3 ubiquitin 97.7 1.9E-05 4.2E-10 83.3 2.0 51 456-506 4-57 (465)
40 KOG0824 Predicted E3 ubiquitin 97.6 2E-05 4.3E-10 80.9 1.8 50 456-508 7-56 (324)
41 KOG0311 Predicted E3 ubiquitin 97.6 1.3E-05 2.8E-10 83.7 -0.6 54 455-510 42-95 (381)
42 KOG1645 RING-finger-containing 97.5 4.3E-05 9.3E-10 81.1 1.8 53 455-507 3-58 (463)
43 KOG0804 Cytoplasmic Zn-finger 97.4 5.5E-05 1.2E-09 81.0 1.4 48 455-505 174-222 (493)
44 KOG4265 Predicted E3 ubiquitin 97.4 0.0001 2.2E-09 77.0 3.3 49 454-506 288-337 (349)
45 KOG0825 PHD Zn-finger protein 97.4 3.8E-05 8.3E-10 86.5 -0.1 52 456-508 123-174 (1134)
46 KOG4172 Predicted E3 ubiquitin 97.2 6.9E-05 1.5E-09 60.4 -0.4 47 456-505 7-54 (62)
47 KOG4445 Uncharacterized conser 97.1 0.00013 2.9E-09 75.1 0.6 50 456-505 115-186 (368)
48 KOG1039 Predicted E3 ubiquitin 97.1 0.00023 5.1E-09 74.4 2.3 51 455-505 160-221 (344)
49 KOG0978 E3 ubiquitin ligase in 97.0 0.00021 4.5E-09 80.4 0.8 50 456-508 643-692 (698)
50 KOG4159 Predicted E3 ubiquitin 96.9 0.00042 9.2E-09 73.7 2.3 49 454-506 82-130 (398)
51 KOG0297 TNF receptor-associate 96.6 0.00088 1.9E-08 70.8 2.0 55 454-511 19-73 (391)
52 KOG1428 Inhibitor of type V ad 96.6 0.0013 2.8E-08 78.2 3.0 66 439-505 3470-3544(3738)
53 PF14835 zf-RING_6: zf-RING of 96.5 0.00067 1.5E-08 56.0 -0.1 51 455-510 6-56 (65)
54 PF11789 zf-Nse: Zinc-finger o 96.5 0.0012 2.6E-08 52.6 1.3 43 455-499 10-53 (57)
55 PF05883 Baculo_RING: Baculovi 96.3 0.0017 3.7E-08 60.2 1.3 36 456-491 26-67 (134)
56 KOG1941 Acetylcholine receptor 96.3 0.0016 3.4E-08 69.4 1.1 48 455-502 364-413 (518)
57 KOG1785 Tyrosine kinase negati 96.2 0.0019 4.1E-08 69.1 1.2 49 457-508 370-419 (563)
58 KOG1002 Nucleotide excision re 95.9 0.0067 1.4E-07 66.8 3.6 56 454-512 534-593 (791)
59 KOG3970 Predicted E3 ubiquitin 95.8 0.0064 1.4E-07 61.1 3.0 52 456-508 50-108 (299)
60 KOG2660 Locus-specific chromos 95.8 0.0035 7.6E-08 65.3 1.0 56 454-512 13-68 (331)
61 KOG0826 Predicted E3 ubiquitin 95.7 0.022 4.9E-07 59.7 6.7 46 454-503 298-344 (357)
62 PF04641 Rtf2: Rtf2 RING-finge 95.7 0.015 3.2E-07 58.2 5.3 55 454-510 111-166 (260)
63 KOG0801 Predicted E3 ubiquitin 95.7 0.0033 7.2E-08 60.5 0.5 30 454-483 175-204 (205)
64 KOG2879 Predicted E3 ubiquitin 95.6 0.0094 2E-07 61.2 3.5 50 454-505 237-287 (298)
65 PF10367 Vps39_2: Vacuolar sor 95.5 0.005 1.1E-07 51.9 1.0 33 454-487 76-108 (109)
66 COG5222 Uncharacterized conser 95.5 0.0099 2.2E-07 61.8 3.1 54 457-512 275-329 (427)
67 PF12906 RINGv: RING-variant d 95.5 0.01 2.3E-07 45.5 2.4 41 459-500 1-47 (47)
68 PHA02862 5L protein; Provision 95.0 0.015 3.2E-07 55.0 2.5 46 457-506 3-54 (156)
69 PF14570 zf-RING_4: RING/Ubox 95.0 0.0097 2.1E-07 46.6 1.0 45 459-504 1-47 (48)
70 KOG4692 Predicted E3 ubiquitin 94.8 0.016 3.4E-07 61.5 2.3 48 454-505 420-467 (489)
71 KOG3039 Uncharacterized conser 94.6 0.042 9.1E-07 56.0 4.6 56 455-511 220-276 (303)
72 KOG1952 Transcription factor N 94.6 0.019 4E-07 66.1 2.3 48 454-501 189-243 (950)
73 PHA03096 p28-like protein; Pro 94.5 0.019 4.2E-07 58.9 1.9 46 457-502 179-231 (284)
74 KOG1571 Predicted E3 ubiquitin 94.4 0.022 4.8E-07 60.1 2.3 44 455-505 304-347 (355)
75 COG5152 Uncharacterized conser 94.4 0.014 3.1E-07 57.8 0.8 45 456-504 196-240 (259)
76 KOG4185 Predicted E3 ubiquitin 94.2 0.027 5.8E-07 56.4 2.1 48 457-504 4-54 (296)
77 PHA02825 LAP/PHD finger-like p 94.1 0.042 9.1E-07 52.6 3.1 48 454-505 6-59 (162)
78 KOG1813 Predicted E3 ubiquitin 93.6 0.024 5.2E-07 58.7 0.5 46 456-505 241-286 (313)
79 KOG1001 Helicase-like transcri 93.1 0.022 4.8E-07 64.5 -0.7 49 457-509 455-504 (674)
80 COG5236 Uncharacterized conser 92.9 0.092 2E-06 55.8 3.5 66 434-503 40-106 (493)
81 KOG1814 Predicted E3 ubiquitin 92.7 0.085 1.8E-06 56.9 3.0 36 456-491 184-219 (445)
82 KOG0827 Predicted E3 ubiquitin 92.4 0.011 2.4E-07 63.2 -3.9 50 456-506 196-246 (465)
83 KOG4275 Predicted E3 ubiquitin 92.3 0.031 6.7E-07 58.1 -0.8 43 456-506 300-343 (350)
84 PF07800 DUF1644: Protein of u 92.0 0.14 3.1E-06 49.0 3.4 33 456-491 2-47 (162)
85 KOG2114 Vacuolar assembly/sort 91.6 0.092 2E-06 60.7 1.8 42 456-503 840-881 (933)
86 KOG1940 Zn-finger protein [Gen 91.6 0.088 1.9E-06 54.2 1.5 44 458-502 160-204 (276)
87 COG5175 MOT2 Transcriptional r 90.7 0.15 3.2E-06 54.2 2.2 53 456-508 14-67 (480)
88 KOG2817 Predicted E3 ubiquitin 90.2 0.52 1.1E-05 50.7 5.8 66 437-503 316-383 (394)
89 PF14447 Prok-RING_4: Prokaryo 90.1 0.17 3.6E-06 40.9 1.6 47 457-509 8-54 (55)
90 KOG2932 E3 ubiquitin ligase in 89.6 0.15 3.3E-06 53.5 1.2 44 457-505 91-134 (389)
91 KOG3002 Zn finger protein [Gen 89.2 0.22 4.7E-06 51.7 2.0 44 454-505 46-91 (299)
92 PF08746 zf-RING-like: RING-li 87.5 0.22 4.9E-06 37.7 0.6 42 459-500 1-43 (43)
93 KOG3268 Predicted E3 ubiquitin 87.2 0.44 9.4E-06 47.0 2.6 34 474-507 187-230 (234)
94 KOG2034 Vacuolar sorting prote 87.0 0.3 6.6E-06 56.8 1.6 36 454-490 815-850 (911)
95 KOG3053 Uncharacterized conser 86.8 0.29 6.4E-06 50.2 1.2 51 454-504 18-81 (293)
96 PF10272 Tmpp129: Putative tra 86.6 0.45 9.8E-06 50.6 2.5 32 477-508 311-354 (358)
97 KOG3161 Predicted E3 ubiquitin 86.6 0.25 5.4E-06 56.0 0.6 45 455-503 10-55 (861)
98 PF14446 Prok-RING_1: Prokaryo 86.4 0.66 1.4E-05 37.4 2.8 43 456-503 5-50 (54)
99 KOG0825 PHD Zn-finger protein 85.9 0.41 8.8E-06 55.4 1.8 50 455-504 95-153 (1134)
100 PF05290 Baculo_IE-1: Baculovi 84.1 1.5 3.2E-05 41.4 4.3 51 455-508 79-135 (140)
101 KOG1609 Protein involved in mR 83.9 0.57 1.2E-05 46.4 1.7 50 456-505 78-134 (323)
102 COG5183 SSM4 Protein involved 83.7 0.58 1.3E-05 54.4 1.8 56 454-510 10-71 (1175)
103 KOG0298 DEAD box-containing he 82.6 0.48 1E-05 57.1 0.7 44 456-502 1153-1196(1394)
104 KOG1812 Predicted E3 ubiquitin 81.7 1.1 2.5E-05 47.7 3.0 37 455-491 145-182 (384)
105 KOG4362 Transcriptional regula 80.1 0.44 9.5E-06 54.3 -0.7 48 456-506 21-70 (684)
106 KOG1100 Predicted E3 ubiquitin 77.4 2.5 5.5E-05 41.8 3.6 39 459-505 161-200 (207)
107 KOG3899 Uncharacterized conser 77.0 1.3 2.9E-05 46.5 1.7 32 477-508 325-368 (381)
108 COG5220 TFB3 Cdk activating ki 75.0 1.5 3.3E-05 45.0 1.4 46 456-501 10-60 (314)
109 smart00249 PHD PHD zinc finger 72.2 1.1 2.3E-05 31.8 -0.3 31 458-488 1-31 (47)
110 KOG0802 E3 ubiquitin ligase [P 70.1 2.9 6.4E-05 46.2 2.4 48 455-510 478-525 (543)
111 KOG0309 Conserved WD40 repeat- 69.6 2.9 6.2E-05 48.7 2.2 26 473-499 1044-1069(1081)
112 KOG0269 WD40 repeat-containing 68.5 9.3 0.0002 44.6 5.8 40 457-499 780-820 (839)
113 KOG3005 GIY-YIG type nuclease 67.7 3.1 6.6E-05 43.1 1.8 47 456-502 182-240 (276)
114 KOG1815 Predicted E3 ubiquitin 67.5 2.9 6.3E-05 45.1 1.6 37 454-492 68-104 (444)
115 KOG2807 RNA polymerase II tran 63.2 6.1 0.00013 42.2 2.9 62 440-502 314-375 (378)
116 PF02891 zf-MIZ: MIZ/SP-RING z 61.8 7.9 0.00017 30.2 2.7 44 457-503 3-50 (50)
117 KOG1829 Uncharacterized conser 59.1 3.3 7.1E-05 46.8 0.2 41 456-500 511-556 (580)
118 KOG4718 Non-SMC (structural ma 58.6 4.9 0.00011 40.6 1.3 44 455-501 180-223 (235)
119 KOG1812 Predicted E3 ubiquitin 56.2 5.3 0.00012 42.8 1.1 44 456-500 306-351 (384)
120 KOG2066 Vacuolar assembly/sort 56.0 5 0.00011 46.8 1.0 44 456-501 784-831 (846)
121 COG5109 Uncharacterized conser 53.4 12 0.00026 40.0 3.1 48 454-501 334-383 (396)
122 PF03854 zf-P11: P-11 zinc fin 51.3 4.8 0.0001 32.1 -0.1 33 474-507 15-48 (50)
123 KOG3800 Predicted E3 ubiquitin 49.3 11 0.00023 39.7 2.0 35 473-507 19-53 (300)
124 KOG3113 Uncharacterized conser 43.4 20 0.00044 37.3 2.9 52 456-510 111-163 (293)
125 PF13901 DUF4206: Domain of un 43.3 15 0.00032 35.9 1.9 40 456-501 152-196 (202)
126 KOG4739 Uncharacterized protei 41.7 13 0.00028 37.9 1.2 39 458-497 5-43 (233)
127 KOG3039 Uncharacterized conser 41.7 16 0.00036 37.9 2.0 34 455-491 42-75 (303)
128 smart00132 LIM Zinc-binding do 41.4 26 0.00057 23.8 2.4 36 459-504 2-37 (39)
129 PF14569 zf-UDP: Zinc-binding 39.3 27 0.00058 30.4 2.6 51 455-505 8-62 (80)
130 PF00628 PHD: PHD-finger; Int 38.8 14 0.00029 27.7 0.7 44 459-502 2-50 (51)
131 PF12510 Smoothelin: Smootheli 37.5 28 0.00062 28.3 2.3 25 321-346 27-51 (54)
132 PF07975 C1_4: TFIIH C1-like d 36.1 31 0.00067 27.6 2.3 42 459-501 2-50 (51)
133 KOG4185 Predicted E3 ubiquitin 36.0 7.4 0.00016 39.1 -1.5 48 456-503 207-265 (296)
134 PLN02189 cellulose synthase 35.4 31 0.00066 41.8 3.1 50 456-505 34-87 (1040)
135 KOG1729 FYVE finger containing 34.8 8.4 0.00018 40.1 -1.3 42 456-497 214-255 (288)
136 PF04710 Pellino: Pellino; In 33.7 14 0.0003 40.4 0.0 30 471-503 303-337 (416)
137 KOG2068 MOT2 transcription fac 33.0 28 0.00061 37.1 2.1 49 456-506 249-299 (327)
138 PLN02436 cellulose synthase A 32.7 39 0.00085 41.1 3.4 50 456-505 36-89 (1094)
139 TIGR00622 ssl1 transcription f 31.8 44 0.00095 30.7 2.9 45 456-501 55-110 (112)
140 PF10571 UPF0547: Uncharacteri 31.5 21 0.00046 24.7 0.6 22 458-481 2-24 (26)
141 PF01363 FYVE: FYVE zinc finge 31.1 24 0.00053 28.1 1.0 37 454-490 7-44 (69)
142 PLN02915 cellulose synthase A 30.3 48 0.001 40.2 3.6 51 455-505 14-68 (1044)
143 PF06906 DUF1272: Protein of u 27.8 67 0.0014 26.5 2.9 45 459-506 8-53 (57)
144 PF06844 DUF1244: Protein of u 25.8 40 0.00087 28.6 1.4 13 480-492 11-23 (68)
145 PLN02638 cellulose synthase A 25.7 61 0.0013 39.6 3.4 50 456-505 17-70 (1079)
146 PLN02195 cellulose synthase A 25.1 79 0.0017 38.3 4.1 50 456-505 6-59 (977)
147 KOG1815 Predicted E3 ubiquitin 24.9 22 0.00048 38.5 -0.3 38 455-492 225-267 (444)
148 KOG3842 Adaptor protein Pellin 24.6 57 0.0012 35.2 2.6 52 455-506 340-415 (429)
149 KOG3842 Adaptor protein Pellin 24.6 29 0.00062 37.3 0.5 30 470-502 315-349 (429)
150 PF13719 zinc_ribbon_5: zinc-r 24.4 41 0.0009 24.6 1.1 25 458-482 4-36 (37)
151 KOG3579 Predicted E3 ubiquitin 22.8 54 0.0012 34.9 2.0 37 455-492 267-305 (352)
152 PF07191 zinc-ribbons_6: zinc- 21.8 8.2 0.00018 32.8 -3.4 39 457-504 2-40 (70)
153 PF00412 LIM: LIM domain; Int 21.0 79 0.0017 23.8 2.1 39 459-507 1-39 (58)
154 PF13717 zinc_ribbon_4: zinc-r 20.7 46 0.00099 24.4 0.7 25 458-482 4-36 (36)
155 PF04710 Pellino: Pellino; In 20.4 34 0.00073 37.5 0.0 52 456-507 328-403 (416)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=7.7e-16 Score=158.38 Aligned_cols=80 Identities=36% Similarity=0.860 Sum_probs=67.9
Q ss_pred CCCCChHHHhcCCceeeeccccccccccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCC
Q 010258 429 SIPAPNEVVESLPVKLYTKSQKYQNEEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPD 508 (514)
Q Consensus 429 p~PApke~IdSLP~~~~~ks~k~~see~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~ 508 (514)
--..++..++.+|...|+........ ..|+||||+|+.||++++|||+|.||..||++||.+....||+||.++..+.
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCC--ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 34567899999999999987665422 6899999999999999999999999999999999974466999999887655
Q ss_pred CC
Q 010258 509 SL 510 (514)
Q Consensus 509 s~ 510 (514)
..
T Consensus 282 ~~ 283 (348)
T KOG4628|consen 282 GS 283 (348)
T ss_pred CC
Confidence 43
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=6.3e-14 Score=103.47 Aligned_cols=43 Identities=51% Similarity=1.313 Sum_probs=40.0
Q ss_pred cccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccc
Q 010258 458 QCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCR 501 (514)
Q Consensus 458 EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCR 501 (514)
+|+||+++|..++.++.|+|+|.||.+||.+|+++ +.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 69999999999999999999999999999999997 78999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.18 E-value=1.2e-11 Score=122.13 Aligned_cols=72 Identities=25% Similarity=0.600 Sum_probs=53.6
Q ss_pred ChHHHhcCCceeeeccccccccccccccccccccccCCe-----eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 433 PNEVVESLPVKLYTKSQKYQNEEVAQCYICLLEYEEGDS-----VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 433 pke~IdSLP~~~~~ks~k~~see~~EC~ICLEefe~gd~-----VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
.+..++.+|..............+.+|+||++.+..+.. .+.++|+|.||..||.+|++. +.+||+||..+.
T Consensus 151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~ 227 (238)
T PHA02929 151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFI 227 (238)
T ss_pred hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEee
Confidence 456777888776543333233456789999999876531 244569999999999999996 889999999775
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.9e-11 Score=124.33 Aligned_cols=54 Identities=44% Similarity=1.028 Sum_probs=48.4
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKP 507 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~ 507 (514)
....+|+|||+.|..+|.+++|||.|.||..||++|+...+..||+||.+|+++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 345789999999999999999999999999999999996578999999988753
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=99.13 E-value=3.3e-11 Score=98.91 Aligned_cols=45 Identities=40% Similarity=0.916 Sum_probs=36.0
Q ss_pred cccccccccccccC----------CeeEEeCCCCcccHHHHHHHHHhcCCCCCccc
Q 010258 456 VAQCYICLLEYEEG----------DSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCR 501 (514)
Q Consensus 456 ~~EC~ICLEefe~g----------d~VrvLPCgHvFH~eCIdkWLke~~~TCPLCR 501 (514)
++.|+||+++|.+. -.+...+|+|.||..||.+||+. +.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence 44599999999422 24667789999999999999996 77999998
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=1.6e-09 Score=112.76 Aligned_cols=66 Identities=26% Similarity=0.712 Sum_probs=48.8
Q ss_pred HHHhcCCceeeeccccccccccccccccccc-cccCC---------eeEEeCCCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 435 EVVESLPVKLYTKSQKYQNEEVAQCYICLLE-YEEGD---------SVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 435 e~IdSLP~~~~~ks~k~~see~~EC~ICLEe-fe~gd---------~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
+.-+.+|.....+. ..++..|.|||++ |+.+. ....|||||+||.+|+..|+++ ..+||+||.++
T Consensus 270 dl~~~~~t~t~eql----~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~ 344 (491)
T COG5243 270 DLNAMYPTATEEQL----TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPV 344 (491)
T ss_pred HHHhhcchhhhhhh----cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcc
Confidence 34444444433332 3456789999999 55442 2478999999999999999996 88999999995
Q ss_pred C
Q 010258 505 C 505 (514)
Q Consensus 505 ~ 505 (514)
.
T Consensus 345 i 345 (491)
T COG5243 345 I 345 (491)
T ss_pred c
Confidence 3
No 7
>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=98.92 E-value=1e-09 Score=77.46 Aligned_cols=45 Identities=51% Similarity=1.183 Sum_probs=37.4
Q ss_pred cccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 458 QCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 458 EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
+|+||++.+. +.+..++|+|.||..|+..|++.....||+|+..+
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 4999999983 34566669999999999999996467899999764
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.90 E-value=7.7e-10 Score=106.69 Aligned_cols=55 Identities=29% Similarity=0.667 Sum_probs=44.5
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHh---------------cCCCCCccccCcCCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE---------------IHRVCPLCRGDICKPDSLP 511 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke---------------~~~TCPLCRa~V~e~~s~P 511 (514)
.+..+|+||++.+.++ ++++|||.||..||.+|+.. ....||+||.+|......|
T Consensus 16 ~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvP 85 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVP 85 (193)
T ss_pred CCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEE
Confidence 3567899999998765 67889999999999999852 1357999999997765544
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1.1e-09 Score=107.89 Aligned_cols=55 Identities=27% Similarity=0.666 Sum_probs=45.4
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHh--cCCCCCccccCcCCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE--IHRVCPLCRGDICKPDSLP 511 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke--~~~TCPLCRa~V~e~~s~P 511 (514)
....+|.|||+.-+++ ++..|||.||+-||.+||.. ....||+||..|..+..+|
T Consensus 45 ~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP 101 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP 101 (230)
T ss_pred CCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence 4567899999997775 66669999999999999984 2456899999998877665
No 10
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.82 E-value=1.8e-09 Score=109.11 Aligned_cols=52 Identities=31% Similarity=0.735 Sum_probs=45.3
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDS 509 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s 509 (514)
+....|.|||+....+ ..+||||+||..||..|+.+ +..||+||..+.+.+.
T Consensus 237 ~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSE-KAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHcc-ccCCCcccccCCCcce
Confidence 4567899999998776 78999999999999999997 7889999998876554
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=98.79 E-value=3.9e-09 Score=80.02 Aligned_cols=46 Identities=37% Similarity=0.873 Sum_probs=38.9
Q ss_pred cccccccccccccCCeeEEeCCCCc-ccHHHHHHHHHhcCCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHE-FHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHv-FH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
+..|.||++.... +..+||||. ||..|+..|++. ...||+||++|.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence 4579999998654 789999999 999999999995 889999999885
No 12
>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=98.74 E-value=6.1e-09 Score=75.49 Aligned_cols=39 Identities=46% Similarity=1.103 Sum_probs=33.8
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcc
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLC 500 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLC 500 (514)
|+||++.+.+ .++.++|||.||.+||.+|++. +..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 8999998777 5688999999999999999997 8899998
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.74 E-value=6.4e-09 Score=89.00 Aligned_cols=52 Identities=33% Similarity=0.749 Sum_probs=40.9
Q ss_pred ccccccccccccc--------cCC--eeEEeCCCCcccHHHHHHHHHh--cCCCCCccccCcCC
Q 010258 455 EVAQCYICLLEYE--------EGD--SVRVLPCHHEFHKTCVDKWLKE--IHRVCPLCRGDICK 506 (514)
Q Consensus 455 e~~EC~ICLEefe--------~gd--~VrvLPCgHvFH~eCIdkWLke--~~~TCPLCRa~V~e 506 (514)
+++.|.||...|+ +++ .++.-.|+|.||..||.+||.. .+..||+||+....
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 3678999999987 222 3555669999999999999995 35789999997643
No 14
>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=98.74 E-value=9.7e-09 Score=79.62 Aligned_cols=52 Identities=23% Similarity=0.517 Sum_probs=45.6
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCCCC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSLPS 512 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~Pn 512 (514)
..|+||++.+.++ ++++|||+|+..||.+|+++ +.+||+|+..+...+..++
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhceeC
Confidence 3599999999886 77899999999999999997 8899999999877766654
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=9.1e-09 Score=98.34 Aligned_cols=56 Identities=30% Similarity=0.552 Sum_probs=45.9
Q ss_pred ccccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCC
Q 010258 453 NEEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 453 see~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~ 510 (514)
.+..+.|+|||+.|..... +...|||+||.+||..-|+. ...||+|+..|..+...
T Consensus 128 ~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKN-TNKCPTCRKKITHKQFH 183 (187)
T ss_pred cccccCCCceecchhhccc-cccccchhHHHHHHHHHHHh-CCCCCCcccccchhhhe
Confidence 3556789999999887522 44679999999999999996 77999999988777544
No 16
>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=98.63 E-value=2.6e-08 Score=67.88 Aligned_cols=39 Identities=49% Similarity=1.163 Sum_probs=33.4
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcc
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLC 500 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLC 500 (514)
|+||++.. .....++|+|.||..||..|++.....||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 88999983 3468899999999999999998546789998
No 17
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.63 E-value=2e-08 Score=74.88 Aligned_cols=39 Identities=38% Similarity=0.924 Sum_probs=30.8
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHHhcC---CCCCcc
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIH---RVCPLC 500 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~---~TCPLC 500 (514)
|+||++.|.++ +.|+|||.|+..||..|+++.+ ..||+|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999997 8999999999999999998533 369998
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=1.4e-08 Score=109.80 Aligned_cols=51 Identities=35% Similarity=0.897 Sum_probs=44.6
Q ss_pred cccccccccccccccCCe--eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 454 EEVAQCYICLLEYEEGDS--VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~--VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
..+..|+||++++..+.. ...|||+|+||..|+..|+++ ..+||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence 346789999999988665 689999999999999999997 889999999543
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=98.59 E-value=2.9e-08 Score=71.76 Aligned_cols=40 Identities=48% Similarity=1.128 Sum_probs=35.0
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHH-hcCCCCCcc
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLK-EIHRVCPLC 500 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLk-e~~~TCPLC 500 (514)
|+||++.+..+ +..++|+|.||..||.+|++ .....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998775 46899999999999999999 446789998
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=98.58 E-value=1.6e-08 Score=99.65 Aligned_cols=53 Identities=25% Similarity=0.534 Sum_probs=39.1
Q ss_pred ccccccccccccccccCC-----e-eEEeCCCCcccHHHHHHHHHhc-----CCCCCccccCcC
Q 010258 453 NEEVAQCYICLLEYEEGD-----S-VRVLPCHHEFHKTCVDKWLKEI-----HRVCPLCRGDIC 505 (514)
Q Consensus 453 see~~EC~ICLEefe~gd-----~-VrvLPCgHvFH~eCIdkWLke~-----~~TCPLCRa~V~ 505 (514)
...+.+|+|||+....+. . -...+|+|.||..||..|.+.. ...||+||..+.
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 345688999999864321 1 2344599999999999999842 245999999764
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.48 E-value=8.6e-08 Score=71.39 Aligned_cols=44 Identities=34% Similarity=0.801 Sum_probs=38.2
Q ss_pred cccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcccc
Q 010258 458 QCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRG 502 (514)
Q Consensus 458 EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa 502 (514)
.|.||++.|.......+++|||.||..||..+.. ....||+||.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~-~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG-KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC-CCCCCcCCCC
Confidence 4999999996556789999999999999999994 3679999984
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.47 E-value=8.7e-08 Score=101.10 Aligned_cols=54 Identities=24% Similarity=0.591 Sum_probs=45.0
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSLP 511 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~P 511 (514)
+....|+||++.|..+ ++++|+|.||..||..|+.. ...||+|+..+......+
T Consensus 24 e~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~~Lr~ 77 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQESKLRS 77 (397)
T ss_pred ccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhC-CCCCCCCCCccccccCcc
Confidence 4567899999998775 57899999999999999986 678999999887654433
No 23
>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=98.31 E-value=2.4e-07 Score=75.85 Aligned_cols=55 Identities=20% Similarity=0.481 Sum_probs=43.4
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCCCC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSLPS 512 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~Pn 512 (514)
+...|+||.+-+.++ +++||||.|.+.||..||++.+.+||+|+..+...+..|+
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn 57 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPN 57 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-
T ss_pred cccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceEC
Confidence 456799999999997 8899999999999999999767899999999988777665
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=5.6e-07 Score=90.52 Aligned_cols=53 Identities=32% Similarity=0.709 Sum_probs=44.0
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHH-HHHhcCCCCCccccCcCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDK-WLKEIHRVCPLCRGDICKPDS 509 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdk-WLke~~~TCPLCRa~V~e~~s 509 (514)
..+..|+||++..+.+ ..++|||+||..||.. |-++.-..||+||+.+..++.
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 4578899999987775 8899999999999999 998633459999998876554
No 25
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=6.4e-07 Score=82.08 Aligned_cols=45 Identities=36% Similarity=0.810 Sum_probs=40.5
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcccc
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRG 502 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa 502 (514)
.+...|+||++.|..+ .+|||+|.||..||..|+. ....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 4567899999999997 8999999999999999998 5678999994
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=1e-06 Score=94.92 Aligned_cols=53 Identities=32% Similarity=0.551 Sum_probs=42.0
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHh----cCCCCCccccCcCCCCCCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE----IHRVCPLCRGDICKPDSLP 511 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke----~~~TCPLCRa~V~e~~s~P 511 (514)
+..|+|||++...+ ..+.|||+||..||-.++.. ....||+|+..|..+++.|
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p 242 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP 242 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence 56799999987664 44559999999999998863 2457999999998766554
No 27
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=6.2e-07 Score=76.00 Aligned_cols=50 Identities=34% Similarity=0.796 Sum_probs=37.5
Q ss_pred cccccccccccc--------cCCe--eEEeCCCCcccHHHHHHHHHh--cCCCCCccccCcC
Q 010258 456 VAQCYICLLEYE--------EGDS--VRVLPCHHEFHKTCVDKWLKE--IHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe--------~gd~--VrvLPCgHvFH~eCIdkWLke--~~~TCPLCRa~V~ 505 (514)
++.|.||..+|. ++|. ++.--|.|.||..||.+||.. .+..||+||+...
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 458999999996 2222 222239999999999999983 2457999998754
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.07 E-value=2.7e-06 Score=64.35 Aligned_cols=39 Identities=38% Similarity=0.796 Sum_probs=23.0
Q ss_pred ccccccccccCC-eeEEeCCCCcccHHHHHHHHHhc---CCCCC
Q 010258 459 CYICLLEYEEGD-SVRVLPCHHEFHKTCVDKWLKEI---HRVCP 498 (514)
Q Consensus 459 C~ICLEefe~gd-~VrvLPCgHvFH~eCIdkWLke~---~~TCP 498 (514)
|+||.+ |...+ ..++|+|||.|+.+||++|++.. ...||
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 76543 46889999999999999999952 33576
No 29
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.06 E-value=2.9e-06 Score=72.53 Aligned_cols=51 Identities=35% Similarity=0.720 Sum_probs=39.0
Q ss_pred cccccccccccc-----------cCCe--eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCC
Q 010258 456 VAQCYICLLEYE-----------EGDS--VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKP 507 (514)
Q Consensus 456 ~~EC~ICLEefe-----------~gd~--VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~ 507 (514)
.+.|+||...|. .+++ ++.--|.|.||..||.+||.. +..||+||+.....
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~~ 83 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWVLA 83 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeEEe
Confidence 356888887763 3332 444459999999999999997 88999999876443
No 30
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.06 E-value=1.1e-06 Score=99.79 Aligned_cols=51 Identities=37% Similarity=0.879 Sum_probs=39.6
Q ss_pred ccccccccccccccccCCeeEEeC------CCCcccHHHHHHHHHh-cCCCCCccccCcC
Q 010258 453 NEEVAQCYICLLEYEEGDSVRVLP------CHHEFHKTCVDKWLKE-IHRVCPLCRGDIC 505 (514)
Q Consensus 453 see~~EC~ICLEefe~gd~VrvLP------CgHvFH~eCIdkWLke-~~~TCPLCRa~V~ 505 (514)
-...++|+||+..+..-+ +.|| |.|.||..|+.+|++. .+.+||+||..++
T Consensus 1466 fsG~eECaICYsvL~~vd--r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHh--ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 345789999998776211 3343 9999999999999995 4578999998775
No 31
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=1.6e-06 Score=93.44 Aligned_cols=52 Identities=29% Similarity=0.842 Sum_probs=40.8
Q ss_pred ccccccccccccccCC---e-----------eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCC
Q 010258 455 EVAQCYICLLEYEEGD---S-----------VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICK 506 (514)
Q Consensus 455 e~~EC~ICLEefe~gd---~-----------VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e 506 (514)
....|+|||.++..-. . ....||.|+||..|+..|....+-.||+||.+++.
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 4567999999875221 1 23569999999999999999656699999998753
No 32
>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=97.99 E-value=5.4e-06 Score=63.93 Aligned_cols=43 Identities=28% Similarity=0.845 Sum_probs=33.6
Q ss_pred cccccccccccCCeeEEeCCC-----CcccHHHHHHHHHhc-CCCCCccc
Q 010258 458 QCYICLLEYEEGDSVRVLPCH-----HEFHKTCVDKWLKEI-HRVCPLCR 501 (514)
Q Consensus 458 EC~ICLEefe~gd~VrvLPCg-----HvFH~eCIdkWLke~-~~TCPLCR 501 (514)
.|.||++ ...++...++||. |.||..|+.+|+... +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 4444455688985 899999999999852 45899995
No 33
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=3.3e-06 Score=75.10 Aligned_cols=50 Identities=34% Similarity=0.695 Sum_probs=37.5
Q ss_pred cccccccccccccc-------------cCCe-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 454 EEVAQCYICLLEYE-------------EGDS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 454 ee~~EC~ICLEefe-------------~gd~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
...+.|+||...+- .++- |.---|.|.||..||.+||++ +..||+|-.+-
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW 107 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEW 107 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh-cCcCCCcCcce
Confidence 34667999988762 1112 334449999999999999997 88999997653
No 34
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.99 E-value=4.8e-06 Score=85.66 Aligned_cols=53 Identities=25% Similarity=0.476 Sum_probs=39.9
Q ss_pred cccccccccc-cccCCe-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCC
Q 010258 456 VAQCYICLLE-YEEGDS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPD 508 (514)
Q Consensus 456 ~~EC~ICLEe-fe~gd~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~ 508 (514)
+..|+||... |..++. +.+-+|||.||..||+.++......||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 3579999996 444432 2222799999999999977655678999998887665
No 35
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.92 E-value=2.3e-06 Score=70.25 Aligned_cols=50 Identities=26% Similarity=0.650 Sum_probs=23.9
Q ss_pred cccccccccccccCCe--eEEe---CCCCcccHHHHHHHHHhc----------CCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEGDS--VRVL---PCHHEFHKTCVDKWLKEI----------HRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~--VrvL---PCgHvFH~eCIdkWLke~----------~~TCPLCRa~V~ 505 (514)
..+|.||+..+..++. ..+- .|++.||..||.+||... ...||.|+.+|.
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 3579999998763332 2222 399999999999999841 125999999874
No 36
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.86 E-value=5e-06 Score=86.53 Aligned_cols=53 Identities=26% Similarity=0.674 Sum_probs=46.2
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~ 510 (514)
++...|.||.+-|..+ .+.||+|.||.-||..+|.. +..||+|+..+.+....
T Consensus 21 D~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhcc-CCCCCceecccchhhhh
Confidence 3456799999999886 88999999999999999996 89999999998876543
No 37
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=3.9e-06 Score=85.09 Aligned_cols=58 Identities=21% Similarity=0.545 Sum_probs=45.0
Q ss_pred cccccccccccccccCC-------eeEEeCCCCcccHHHHHHHHHh-cCCCCCccccCcCCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGD-------SVRVLPCHHEFHKTCVDKWLKE-IHRVCPLCRGDICKPDSLP 511 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd-------~VrvLPCgHvFH~eCIdkWLke-~~~TCPLCRa~V~e~~s~P 511 (514)
.++..|+||-..+.... ..-.|.|+|+||..||..|--- .+.+||.|+..|-.+..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfs 287 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFS 287 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhcc
Confidence 35678999998876543 4568999999999999999852 2679999999886555443
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.66 E-value=1.9e-05 Score=81.02 Aligned_cols=51 Identities=27% Similarity=0.661 Sum_probs=44.0
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDS 509 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s 509 (514)
.-..|-||-+-|..+ ...+|||.||.-||...|.. +..||+||.+.++...
T Consensus 24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~esrl 74 (391)
T COG5432 24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGT-QPFCPVCREDPCESRL 74 (391)
T ss_pred hHHHhhhhhheeecc---eecccccchhHHHHHHHhcC-CCCCccccccHHhhhc
Confidence 345799999999886 78889999999999999996 8899999998776543
No 39
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=1.9e-05 Score=83.27 Aligned_cols=51 Identities=29% Similarity=0.782 Sum_probs=38.2
Q ss_pred cccccccccccccCCeeEEeC-CCCcccHHHHHHHHHhc--CCCCCccccCcCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLP-CHHEFHKTCVDKWLKEI--HRVCPLCRGDICK 506 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLP-CgHvFH~eCIdkWLke~--~~TCPLCRa~V~e 506 (514)
-++|.||.+-+.....+.-+. |||+||..|+..|+... ++.||+|+-.+..
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~ 57 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE 57 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence 357999966555555566666 99999999999999842 3589999955543
No 40
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=2e-05 Score=80.91 Aligned_cols=50 Identities=26% Similarity=0.464 Sum_probs=41.8
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPD 508 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~ 508 (514)
..+|+||+...--+ +.|+|+|.||..||..-.+....+||+||.+|.+.-
T Consensus 7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 45799999986665 889999999999999866655788999999987653
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=1.3e-05 Score=83.68 Aligned_cols=54 Identities=30% Similarity=0.544 Sum_probs=45.2
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~ 510 (514)
.+..|+|||+-+..- +....|.|.||.+||.+-++..+..||.||..+..+..+
T Consensus 42 ~~v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL 95 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL 95 (381)
T ss_pred hhhccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence 356799999987763 344449999999999999998889999999998777655
No 42
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=4.3e-05 Score=81.12 Aligned_cols=53 Identities=36% Similarity=0.792 Sum_probs=41.5
Q ss_pred ccccccccccccccCC--eeEEeCCCCcccHHHHHHHHHhc-CCCCCccccCcCCC
Q 010258 455 EVAQCYICLLEYEEGD--SVRVLPCHHEFHKTCVDKWLKEI-HRVCPLCRGDICKP 507 (514)
Q Consensus 455 e~~EC~ICLEefe~gd--~VrvLPCgHvFH~eCIdkWLke~-~~TCPLCRa~V~e~ 507 (514)
....|+||++.|+-.- .++.|.|||.|...||.+||.+. ...||.|..+..+.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr 58 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKR 58 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHH
Confidence 3567999999997543 36778899999999999999632 34799998765543
No 43
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.40 E-value=5.5e-05 Score=81.00 Aligned_cols=48 Identities=31% Similarity=0.834 Sum_probs=39.2
Q ss_pred ccccccccccccccCC-eeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 455 EVAQCYICLLEYEEGD-SVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 455 e~~EC~ICLEefe~gd-~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
+.-+|+|||+.+...- .++...|.|.||-.|+.+|-. .+||+||.-..
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcC
Confidence 4457999999987653 356677999999999999986 59999997554
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=0.0001 Score=76.98 Aligned_cols=49 Identities=35% Similarity=0.733 Sum_probs=40.3
Q ss_pred cccccccccccccccCCeeEEeCCCCc-ccHHHHHHHHHhcCCCCCccccCcCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHE-FHKTCVDKWLKEIHRVCPLCRGDICK 506 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHv-FH~eCIdkWLke~~~TCPLCRa~V~e 506 (514)
+...+|.|||.+-.+ +.+|||.|. .|..|.+..--+ +..||+||++|..
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHh-hcCCCccccchHh
Confidence 446889999998666 699999997 799999886643 6789999998854
No 45
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.38 E-value=3.8e-05 Score=86.48 Aligned_cols=52 Identities=25% Similarity=0.512 Sum_probs=44.6
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPD 508 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~ 508 (514)
...|+||+..+.+.......+|+|.||.+||..|-+ ...+||+||..+....
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR-~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR-CAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh-hcccCchhhhhhheee
Confidence 456999999998887777788999999999999999 4789999999775544
No 46
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.20 E-value=6.9e-05 Score=60.40 Aligned_cols=47 Identities=28% Similarity=0.626 Sum_probs=36.5
Q ss_pred cccccccccccccCCeeEEeCCCCc-ccHHHHHHHHHhcCCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHE-FHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHv-FH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
.++|.||++.-.+. +..-|||. .|.+|-.+.++..+..||+||++|.
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 46899999875542 44559996 7889988777656899999999873
No 47
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.12 E-value=0.00013 Score=75.14 Aligned_cols=50 Identities=36% Similarity=0.864 Sum_probs=41.7
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHh----------------------cCCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE----------------------IHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke----------------------~~~TCPLCRa~V~ 505 (514)
..+|.|||--|..++...+.+|-|.||..|+.++|.. ....||+||..|.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 4469999999999999999999999999999876642 1347999998774
No 48
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.11 E-value=0.00023 Score=74.42 Aligned_cols=51 Identities=31% Similarity=0.825 Sum_probs=38.2
Q ss_pred ccccccccccccccCCe----eEEeC-CCCcccHHHHHHHHHhc------CCCCCccccCcC
Q 010258 455 EVAQCYICLLEYEEGDS----VRVLP-CHHEFHKTCVDKWLKEI------HRVCPLCRGDIC 505 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~----VrvLP-CgHvFH~eCIdkWLke~------~~TCPLCRa~V~ 505 (514)
.+.+|.|||+...+... -.+|| |.|.||..||.+|-+.. .+.||.||....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 46689999998766430 23445 99999999999999531 368999997553
No 49
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.01 E-value=0.00021 Score=80.37 Aligned_cols=50 Identities=24% Similarity=0.662 Sum_probs=40.7
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPD 508 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~ 508 (514)
-..|++|-..+.+ +++..|+|+||..||.+-+......||.|-..+-.-+
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 4579999977666 4566699999999999999876889999988765444
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00042 Score=73.74 Aligned_cols=49 Identities=31% Similarity=0.749 Sum_probs=42.5
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICK 506 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e 506 (514)
..+.+|.||+..+..+ +.+||||.||..||++-+.+ ...||+||..+.+
T Consensus 82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhcc-CCCCccccccccc
Confidence 3467899999988886 77799999999999998874 8899999998876
No 51
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.63 E-value=0.00088 Score=70.78 Aligned_cols=55 Identities=31% Similarity=0.759 Sum_probs=45.8
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSLP 511 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~P 511 (514)
++...|+||+..+.++ +....|||.||..||..|+.. +..||.|+..+.....+|
T Consensus 19 ~~~l~C~~C~~vl~~p--~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDP--VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEELP 73 (391)
T ss_pred cccccCccccccccCC--CCCCCCCCcccccccchhhcc-CcCCcccccccchhhccC
Confidence 4567899999998886 222589999999999999997 889999998887666655
No 52
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.59 E-value=0.0013 Score=78.22 Aligned_cols=66 Identities=30% Similarity=0.577 Sum_probs=47.9
Q ss_pred cCCceeeeccccccccccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhc---------CCCCCccccCcC
Q 010258 439 SLPVKLYTKSQKYQNEEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEI---------HRVCPLCRGDIC 505 (514)
Q Consensus 439 SLP~~~~~ks~k~~see~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~---------~~TCPLCRa~V~ 505 (514)
-||....++....+ +.++.|.||+.+--...+...|.|+|+||..|...-|.+. --.||+|+.+|.
T Consensus 3470 CLPCl~Cdks~tkQ-D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3470 CLPCLHCDKSATKQ-DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccccccChhhhhc-ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 35555444433322 5577899999987666778999999999999998766531 127999998874
No 53
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.47 E-value=0.00067 Score=56.00 Aligned_cols=51 Identities=27% Similarity=0.593 Sum_probs=25.8
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~ 510 (514)
....|++|.+-+..+ |....|.|.||..||..-+. ..||+|+.+.-..+..
T Consensus 6 ~lLrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 6 ELLRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS--
T ss_pred HhcCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHH
Confidence 345699999997775 55667999999999988554 4699999988666543
No 54
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.47 E-value=0.0012 Score=52.64 Aligned_cols=43 Identities=26% Similarity=0.589 Sum_probs=29.5
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHh-cCCCCCc
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE-IHRVCPL 499 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke-~~~TCPL 499 (514)
-...|+|.+..|+++ |+...|+|.|-++.|..||+. ....||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 356799999998875 777889999999999999943 3457998
No 55
>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=96.27 E-value=0.0017 Score=60.20 Aligned_cols=36 Identities=22% Similarity=0.574 Sum_probs=31.0
Q ss_pred cccccccccccccCCeeEEeCCC------CcccHHHHHHHHH
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCH------HEFHKTCVDKWLK 491 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCg------HvFH~eCIdkWLk 491 (514)
..+|.||++.+...+.|+.++|+ |.||.+|+.+|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 56799999999886668888887 8999999999954
No 56
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.25 E-value=0.0016 Score=69.43 Aligned_cols=48 Identities=31% Similarity=0.671 Sum_probs=39.7
Q ss_pred ccccccccccccccCC-eeEEeCCCCcccHHHHHHHHHh-cCCCCCcccc
Q 010258 455 EVAQCYICLLEYEEGD-SVRVLPCHHEFHKTCVDKWLKE-IHRVCPLCRG 502 (514)
Q Consensus 455 e~~EC~ICLEefe~gd-~VrvLPCgHvFH~eCIdkWLke-~~~TCPLCRa 502 (514)
-..-|..|-+.|...+ .+..|||.|+||..|+...|.+ ...+||-||.
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3456999999987654 4889999999999999999974 3458999994
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.18 E-value=0.0019 Score=69.05 Aligned_cols=49 Identities=29% Similarity=0.756 Sum_probs=39.3
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHhc-CCCCCccccCcCCCC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEI-HRVCPLCRGDICKPD 508 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~-~~TCPLCRa~V~e~~ 508 (514)
.-|-||-+.- ..|.+-||||..|..|+..|-... ..+||.||.+|....
T Consensus 370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 4599997753 347889999999999999999642 568999999875543
No 58
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.86 E-value=0.0067 Score=66.83 Aligned_cols=56 Identities=23% Similarity=0.562 Sum_probs=43.7
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHh----cCCCCCccccCcCCCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE----IHRVCPLCRGDICKPDSLPS 512 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke----~~~TCPLCRa~V~e~~s~Pn 512 (514)
....+|-+|-++-++. ....|.|.||+.||..++.. .+-+||+|-..+.-..+-|.
T Consensus 534 k~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~a 593 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPA 593 (791)
T ss_pred cCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchh
Confidence 4567899999886653 66779999999999988863 35689999988776655543
No 59
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.82 E-value=0.0064 Score=61.12 Aligned_cols=52 Identities=29% Similarity=0.659 Sum_probs=41.8
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhc-------CCCCCccccCcCCCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEI-------HRVCPLCRGDICKPD 508 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~-------~~TCPLCRa~V~e~~ 508 (514)
.-.|..|-..+..+|.+ .|-|-|+||.+|+..|-... ...||.|-.+|..+.
T Consensus 50 ~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 34599999999988655 45699999999999999741 337999999887654
No 60
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.76 E-value=0.0035 Score=65.32 Aligned_cols=56 Identities=29% Similarity=0.583 Sum_probs=43.0
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSLPS 512 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~Pn 512 (514)
....+|.+|-.-|-+. ..+.-|-|.||+.||.+.|.. ...||.|...|-...+..+
T Consensus 13 n~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t~pl~n 68 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKTHPLLN 68 (331)
T ss_pred ccceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCcccccc
Confidence 3456799997766553 334449999999999999997 8899999988766654443
No 61
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.75 E-value=0.022 Score=59.67 Aligned_cols=46 Identities=20% Similarity=0.391 Sum_probs=36.5
Q ss_pred cccccccccccccccCCeeEEeC-CCCcccHHHHHHHHHhcCCCCCccccC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLP-CHHEFHKTCVDKWLKEIHRVCPLCRGD 503 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLP-CgHvFH~eCIdkWLke~~~TCPLCRa~ 503 (514)
.+...|+||+.....+ .+|. -|-+||..||...+.+ +..||+--.+
T Consensus 298 ~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p 344 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVN-YGHCPVTGYP 344 (357)
T ss_pred CccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHh-cCCCCccCCc
Confidence 4566899999997776 3333 5999999999999996 8999985443
No 62
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.74 E-value=0.015 Score=58.19 Aligned_cols=55 Identities=22% Similarity=0.454 Sum_probs=42.8
Q ss_pred cccccccccccccccCCe-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~ 510 (514)
.....|||+..+|..... +.+.||||+|...||... + ....||+|-.++...+.+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k-~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-K-KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-c-ccccccccCCccccCCEE
Confidence 456789999999955444 556689999999999996 3 246799998888766554
No 63
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.70 E-value=0.0033 Score=60.46 Aligned_cols=30 Identities=40% Similarity=0.934 Sum_probs=27.7
Q ss_pred cccccccccccccccCCeeEEeCCCCcccH
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHK 483 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~ 483 (514)
++..||.||||+++.++.+..|||-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 456789999999999999999999999997
No 64
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.65 E-value=0.0094 Score=61.16 Aligned_cols=50 Identities=18% Similarity=0.321 Sum_probs=39.4
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHh-cCCCCCccccCcC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE-IHRVCPLCRGDIC 505 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke-~~~TCPLCRa~V~ 505 (514)
..+.+|++|-+.-..+ ....+|+|+||.-||..=+.. ...+||.|-.++.
T Consensus 237 t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 5577899999885554 677789999999999986552 2469999987765
No 65
>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=95.55 E-value=0.005 Score=51.90 Aligned_cols=33 Identities=27% Similarity=0.680 Sum_probs=28.2
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHH
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVD 487 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCId 487 (514)
++...|+||-..+.. ....+.||||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 446679999999877 578899999999999975
No 66
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.49 E-value=0.0099 Score=61.83 Aligned_cols=54 Identities=24% Similarity=0.535 Sum_probs=41.4
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcc-ccCcCCCCCCCC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLC-RGDICKPDSLPS 512 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLC-Ra~V~e~~s~Pn 512 (514)
..|+.|-.-+..+ +..-.|+|.||.+||..-|......||.| |.+|......|.
T Consensus 275 LkCplc~~Llrnp--~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD 329 (427)
T COG5222 275 LKCPLCHCLLRNP--MKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPD 329 (427)
T ss_pred ccCcchhhhhhCc--ccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCcc
Confidence 6799998876654 44444999999999998888668899999 556666655553
No 67
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.48 E-value=0.01 Score=45.47 Aligned_cols=41 Identities=37% Similarity=0.997 Sum_probs=28.1
Q ss_pred ccccccccccCCeeEEeCCC--C---cccHHHHHHHHHh-cCCCCCcc
Q 010258 459 CYICLLEYEEGDSVRVLPCH--H---EFHKTCVDKWLKE-IHRVCPLC 500 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCg--H---vFH~eCIdkWLke-~~~TCPLC 500 (514)
|-||++.....+ ..+.||. = ..|..|+.+|+.. .+..|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877655 4567764 3 7899999999984 35679988
No 68
>PHA02862 5L protein; Provisional
Probab=95.04 E-value=0.015 Score=55.01 Aligned_cols=46 Identities=24% Similarity=0.570 Sum_probs=35.2
Q ss_pred ccccccccccccCCeeEEeCCC-----CcccHHHHHHHHHh-cCCCCCccccCcCC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCH-----HEFHKTCVDKWLKE-IHRVCPLCRGDICK 506 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCg-----HvFH~eCIdkWLke-~~~TCPLCRa~V~e 506 (514)
..|=||.++.++. .-||. ..-|.+|+.+|++. .+..||+|+.+..-
T Consensus 3 diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 4699999985443 35765 57899999999984 35689999987643
No 69
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.04 E-value=0.0097 Score=46.62 Aligned_cols=45 Identities=27% Similarity=0.593 Sum_probs=22.8
Q ss_pred ccccccccccCCeeEEeC--CCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 459 CYICLLEYEEGDSVRVLP--CHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLP--CgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
|++|.+++... ....+| |++..+..|...-++.....||-||.+.
T Consensus 1 cp~C~e~~d~~-d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDET-DKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CC-CTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccC-CCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78999998332 334555 8999999998887764478999999763
No 70
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.82 E-value=0.016 Score=61.47 Aligned_cols=48 Identities=23% Similarity=0.515 Sum_probs=39.9
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
.++..|+||+..-- ..+..||+|.-|..||.+.|-. .+.|=.|+..+.
T Consensus 420 sEd~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccc---hhhccCCCCchHHHHHHHHHhc-CCeeeEecceee
Confidence 45678999987532 3478899999999999999996 889999998775
No 71
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.62 E-value=0.042 Score=56.02 Aligned_cols=56 Identities=20% Similarity=0.286 Sum_probs=46.9
Q ss_pred ccccccccccccccCCeeEEeC-CCCcccHHHHHHHHHhcCCCCCccccCcCCCCCCC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLP-CHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSLP 511 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLP-CgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~P 511 (514)
.-..|+||.+.+..--.+.+|. |||+|+.+|+.+.+.. ...||+|-.++.+.+.++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccceEe
Confidence 4578999999998877666554 9999999999999985 789999988887776543
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.62 E-value=0.019 Score=66.08 Aligned_cols=48 Identities=29% Similarity=0.764 Sum_probs=36.7
Q ss_pred cccccccccccccccCCeeEEeC-CCCcccHHHHHHHHHhcCC------CCCccc
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLP-CHHEFHKTCVDKWLKEIHR------VCPLCR 501 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLP-CgHvFH~eCIdkWLke~~~------TCPLCR 501 (514)
....+|.||++.+..-+.+-.-. |-|+||..||.+|...... .||.|.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 34678999999987765443322 8899999999999985222 599998
No 73
>PHA03096 p28-like protein; Provisional
Probab=94.48 E-value=0.019 Score=58.92 Aligned_cols=46 Identities=28% Similarity=0.526 Sum_probs=33.0
Q ss_pred ccccccccccccCC----eeEEeC-CCCcccHHHHHHHHHhc--CCCCCcccc
Q 010258 457 AQCYICLLEYEEGD----SVRVLP-CHHEFHKTCVDKWLKEI--HRVCPLCRG 502 (514)
Q Consensus 457 ~EC~ICLEefe~gd----~VrvLP-CgHvFH~eCIdkWLke~--~~TCPLCRa 502 (514)
.+|.||++...... .-..|+ |.|.||..||..|-... ..+||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 67999999876532 124566 99999999999999842 234555543
No 74
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.45 E-value=0.022 Score=60.09 Aligned_cols=44 Identities=30% Similarity=0.590 Sum_probs=34.1
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
...-|.||+++.+. ...+||||+-| |+.--.. ..+||+||+.|.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeecCCcEEE--chHHHhh--CCCCchhHHHHH
Confidence 45679999998766 58999999977 7665443 567999998763
No 75
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.44 E-value=0.014 Score=57.83 Aligned_cols=45 Identities=27% Similarity=0.538 Sum_probs=38.2
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
...|.||-.+|+.+ ++..|||.||..|...-.+. ...|-+|-...
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~k-g~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQK-GDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhcc-CCcceecchhh
Confidence 45799999999987 77889999999999988875 67899996643
No 76
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.16 E-value=0.027 Score=56.39 Aligned_cols=48 Identities=35% Similarity=0.803 Sum_probs=40.3
Q ss_pred ccccccccccccCCe---eEEeCCCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 457 AQCYICLLEYEEGDS---VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 457 ~EC~ICLEefe~gd~---VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
.+|-||-++|...+. .+.|.|||.|+..|+.+.+....-.||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 469999999987643 567889999999999999986566799999974
No 77
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.06 E-value=0.042 Score=52.57 Aligned_cols=48 Identities=27% Similarity=0.702 Sum_probs=35.4
Q ss_pred cccccccccccccccCCeeEEeCCCC-----cccHHHHHHHHHh-cCCCCCccccCcC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHH-----EFHKTCVDKWLKE-IHRVCPLCRGDIC 505 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgH-----vFH~eCIdkWLke-~~~TCPLCRa~V~ 505 (514)
..+.+|-||.++..+ ..-||.. ..|.+|+..|+.. ....|++|..+..
T Consensus 6 ~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 446689999988432 2357654 5699999999985 3557999998764
No 78
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.57 E-value=0.024 Score=58.72 Aligned_cols=46 Identities=24% Similarity=0.499 Sum_probs=39.5
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
...|-||...|..+ ++..|+|.||..|...-++. ...|++|-+.+.
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTH 286 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhcccccc-CCcceecccccc
Confidence 45699999999997 78889999999999998885 678999977653
No 79
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.06 E-value=0.022 Score=64.50 Aligned_cols=49 Identities=31% Similarity=0.622 Sum_probs=38.9
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCC-CCCccccCcCCCCC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHR-VCPLCRGDICKPDS 509 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~-TCPLCRa~V~e~~s 509 (514)
..|.||++ .+.....+|+|.||.+|+..-+...+. .||+||..+...+.
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 68999999 345688889999999999998874333 59999987755443
No 80
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.87 E-value=0.092 Score=55.83 Aligned_cols=66 Identities=26% Similarity=0.499 Sum_probs=44.7
Q ss_pred hHHHhcCCceeeeccccccccccccccccccccccCCeeEEeCCCCcccHHHHHHHHH-hcCCCCCccccC
Q 010258 434 NEVVESLPVKLYTKSQKYQNEEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLK-EIHRVCPLCRGD 503 (514)
Q Consensus 434 ke~IdSLP~~~~~ks~k~~see~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLk-e~~~TCPLCRa~ 503 (514)
+..+...|..+ +....+..++...|.||-+.+.- +.++||+|..|-.|..+.-. -....||+||..
T Consensus 40 KNnlsaEPnlt-tsSaddtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 40 KNNLSAEPNLT-TSSADDTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccccCCccc-cccccccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34444455533 33333444677889999887554 58999999999999875332 125789999974
No 81
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.67 E-value=0.085 Score=56.88 Aligned_cols=36 Identities=31% Similarity=0.791 Sum_probs=32.1
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHH
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLK 491 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLk 491 (514)
...|.||+++..-.+.+..|||+|+||+.|+..++.
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 467999999976667799999999999999999986
No 82
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.45 E-value=0.011 Score=63.15 Aligned_cols=50 Identities=30% Similarity=0.670 Sum_probs=43.1
Q ss_pred cccccccccccccC-CeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCC
Q 010258 456 VAQCYICLLEYEEG-DSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICK 506 (514)
Q Consensus 456 ~~EC~ICLEefe~g-d~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e 506 (514)
...|+||.+.|... +.+..+-|||.+|..||.+||.. ...||.|+..+..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPK 246 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhh
Confidence 45699999999876 56778889999999999999997 7789999987754
No 83
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.26 E-value=0.031 Score=58.05 Aligned_cols=43 Identities=28% Similarity=0.631 Sum_probs=32.1
Q ss_pred cccccccccccccCCeeEEeCCCCc-ccHHHHHHHHHhcCCCCCccccCcCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHE-FHKTCVDKWLKEIHRVCPLCRGDICK 506 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHv-FH~eCIdkWLke~~~TCPLCRa~V~e 506 (514)
..-|+|||+...+ ...|+|||. -|.+|-.. -..||+||+.|..
T Consensus 300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr-----m~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR-----MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc---eEEeecCcEEeehhhccc-----cccCchHHHHHHH
Confidence 5679999986444 689999996 47777544 2389999987643
No 84
>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=92.03 E-value=0.14 Score=49.00 Aligned_cols=33 Identities=27% Similarity=0.579 Sum_probs=22.2
Q ss_pred cccccccccccccCCeeEEeCCC-------------CcccHHHHHHHHH
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCH-------------HEFHKTCVDKWLK 491 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCg-------------HvFH~eCIdkWLk 491 (514)
+..|+|||+.-.. .+.|-|. -.-|..|++++-+
T Consensus 2 d~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 5679999997544 3555443 2247789998765
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.57 E-value=0.092 Score=60.67 Aligned_cols=42 Identities=24% Similarity=0.668 Sum_probs=34.6
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGD 503 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~ 503 (514)
...|.+|--.++.+ ++..-|||.||..|+. .....||-|+.+
T Consensus 840 ~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e----~~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLDLP--FVHFLCGHSYHQHCLE----DKEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCccccc--eeeeecccHHHHHhhc----cCcccCCccchh
Confidence 35799999887775 6777799999999998 236789999873
No 86
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=91.56 E-value=0.088 Score=54.15 Aligned_cols=44 Identities=30% Similarity=0.608 Sum_probs=38.0
Q ss_pred cccccccccccCCe-eEEeCCCCcccHHHHHHHHHhcCCCCCcccc
Q 010258 458 QCYICLLEYEEGDS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRG 502 (514)
Q Consensus 458 EC~ICLEefe~gd~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa 502 (514)
.|+||.+.+..... +..++|||.-|..|+...... +-+||+|.+
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-GYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHhcc-CCCCCcccc
Confidence 49999998876653 678999999999999999887 589999987
No 87
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.72 E-value=0.15 Score=54.19 Aligned_cols=53 Identities=19% Similarity=0.481 Sum_probs=39.5
Q ss_pred cccccccccccccCCe-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCC
Q 010258 456 VAQCYICLLEYEEGDS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPD 508 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~ 508 (514)
++-|+.|++++...|+ -.-.|||...|.-|....-+..+..||-||....+.+
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 3449999999887654 3445699888888876655556789999998765443
No 88
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.19 E-value=0.52 Score=50.67 Aligned_cols=66 Identities=20% Similarity=0.345 Sum_probs=48.1
Q ss_pred HhcCCceeeeccccccccccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcC--CCCCccccC
Q 010258 437 VESLPVKLYTKSQKYQNEEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIH--RVCPLCRGD 503 (514)
Q Consensus 437 IdSLP~~~~~ks~k~~see~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~--~TCPLCRa~ 503 (514)
.+.||....-.... .-.....|||=.+.-.+..+...|.|||+..++-|.+..+.+. ..||.|=.+
T Consensus 316 ~deLPveIeL~~~~-~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 316 KDELPVEIELGKEY-HFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred cccCccceeccccc-cccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 44555544332221 1245678999888888888899999999999999999988655 679999443
No 89
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=90.14 E-value=0.17 Score=40.90 Aligned_cols=47 Identities=26% Similarity=0.482 Sum_probs=33.9
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDS 509 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s 509 (514)
..|..|...-.. -.++||+|+.+..|.+-|= -.-||+|-.++...+.
T Consensus 8 ~~~~~~~~~~~~---~~~~pCgH~I~~~~f~~~r---YngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 8 QPCVFCGFVGTK---GTVLPCGHLICDNCFPGER---YNGCPFCGTPFEFDDP 54 (55)
T ss_pred eeEEEccccccc---cccccccceeeccccChhh---ccCCCCCCCcccCCCC
Confidence 346666655333 4899999999999976642 4589999888865543
No 90
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.63 E-value=0.15 Score=53.54 Aligned_cols=44 Identities=27% Similarity=0.688 Sum_probs=30.8
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
--|--|--.+.. .-+.+||+|+||.+|... . ..+.||+|-..|.
T Consensus 91 HfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~-~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIAI--YGRMIPCKHVFCLECARS--D-SDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCccee--eecccccchhhhhhhhhc--C-ccccCcCcccHHH
Confidence 346666555433 357899999999999754 2 2568999976653
No 91
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=89.20 E-value=0.22 Score=51.71 Aligned_cols=44 Identities=25% Similarity=0.624 Sum_probs=35.4
Q ss_pred cccccccccccccccCCeeEEeCC--CCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPC--HHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPC--gHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
.+..+|+||.+.+..+ ++.| ||.-|..|-.+ ....||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~----~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRTK----VSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCccc----ceecCCCcEehhhhhhh----hcccCCccccccc
Confidence 4567899999999986 6667 79999888653 3568999999876
No 92
>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=87.47 E-value=0.22 Score=37.70 Aligned_cols=42 Identities=24% Similarity=0.652 Sum_probs=23.3
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCC-CCCcc
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHR-VCPLC 500 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~-TCPLC 500 (514)
|.+|.+-...|..-....|+=.+|..|+..+++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 6788887777632222348889999999999985332 69988
No 93
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.19 E-value=0.44 Score=46.97 Aligned_cols=34 Identities=32% Similarity=0.892 Sum_probs=26.8
Q ss_pred EeCCCCcccHHHHHHHHHhc----------CCCCCccccCcCCC
Q 010258 474 VLPCHHEFHKTCVDKWLKEI----------HRVCPLCRGDICKP 507 (514)
Q Consensus 474 vLPCgHvFH~eCIdkWLke~----------~~TCPLCRa~V~e~ 507 (514)
-..|+.-||.-|+..||..+ -..||.|-.+|.-+
T Consensus 187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 45599999999999999841 23699999887544
No 94
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.96 E-value=0.3 Score=56.82 Aligned_cols=36 Identities=28% Similarity=0.552 Sum_probs=28.9
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHH
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWL 490 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWL 490 (514)
+..+.|.||...+... +-.+.||||.||..||.+-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 3467899999887653 56788999999999998644
No 95
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.77 E-value=0.29 Score=50.23 Aligned_cols=51 Identities=31% Similarity=0.824 Sum_probs=36.9
Q ss_pred cccccccccccccccCCee-EEeCCC-----CcccHHHHHHHHHhcCC-------CCCccccCc
Q 010258 454 EEVAQCYICLLEYEEGDSV-RVLPCH-----HEFHKTCVDKWLKEIHR-------VCPLCRGDI 504 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~V-rvLPCg-----HvFH~eCIdkWLke~~~-------TCPLCRa~V 504 (514)
+.+..|-||+..-++.... -+-||. |..|..||..|+.+.+. .||.|+.+.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 4566799999986654322 345653 88999999999986222 699998865
No 96
>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=86.62 E-value=0.45 Score=50.64 Aligned_cols=32 Identities=31% Similarity=0.848 Sum_probs=24.9
Q ss_pred CCCcccHHHHHHHHHh------------cCCCCCccccCcCCCC
Q 010258 477 CHHEFHKTCVDKWLKE------------IHRVCPLCRGDICKPD 508 (514)
Q Consensus 477 CgHvFH~eCIdkWLke------------~~~TCPLCRa~V~e~~ 508 (514)
|.-.+|.+|+-+|+.. .+..||+||+.++--+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 6667889999999863 2447999999987544
No 97
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.61 E-value=0.25 Score=56.03 Aligned_cols=45 Identities=27% Similarity=0.514 Sum_probs=33.9
Q ss_pred ccccccccccccccCC-eeEEeCCCCcccHHHHHHHHHhcCCCCCccccC
Q 010258 455 EVAQCYICLLEYEEGD-SVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGD 503 (514)
Q Consensus 455 e~~EC~ICLEefe~gd-~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~ 503 (514)
+...|.||+..|.... ..+.|-|||..|..|+..... .+|| |+.+
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp-~~~D 55 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCP-TKRD 55 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCC-CCcc
Confidence 3467999998887543 235666999999999998664 5899 7654
No 98
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=86.39 E-value=0.66 Score=37.39 Aligned_cols=43 Identities=30% Similarity=0.828 Sum_probs=33.7
Q ss_pred cccccccccccccCCeeEEeC-CCCcccHHHHHHHHHhcCCCCCc--cccC
Q 010258 456 VAQCYICLLEYEEGDSVRVLP-CHHEFHKTCVDKWLKEIHRVCPL--CRGD 503 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLP-CgHvFH~eCIdkWLke~~~TCPL--CRa~ 503 (514)
...|++|-+.|.+++.+++-| |+-.||+.| |.+ ...|-+ |..+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C---~~~--~g~C~~~~c~~~ 50 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDC---WEK--AGGCINYSCGTG 50 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHH---Hhh--CCceEeccCCCC
Confidence 456999999999888888888 999999999 554 456655 5443
No 99
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.87 E-value=0.41 Score=55.40 Aligned_cols=50 Identities=16% Similarity=0.245 Sum_probs=37.7
Q ss_pred ccccccccccccccCC-eeEEeC---CCCcccHHHHHHHHHh-----cCCCCCccccCc
Q 010258 455 EVAQCYICLLEYEEGD-SVRVLP---CHHEFHKTCVDKWLKE-----IHRVCPLCRGDI 504 (514)
Q Consensus 455 e~~EC~ICLEefe~gd-~VrvLP---CgHvFH~eCIdkWLke-----~~~TCPLCRa~V 504 (514)
+...|.||..++..++ ..-.+| |+|.||..||..|+.+ ++..|++|.+-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 3567888888887743 345666 9999999999999984 355789987643
No 100
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=84.10 E-value=1.5 Score=41.37 Aligned_cols=51 Identities=25% Similarity=0.569 Sum_probs=37.6
Q ss_pred ccccccccccccccCCeeEEeC----CCCcccHHHHHHHHHh--cCCCCCccccCcCCCC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLP----CHHEFHKTCVDKWLKE--IHRVCPLCRGDICKPD 508 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLP----CgHvFH~eCIdkWLke--~~~TCPLCRa~V~e~~ 508 (514)
...+|.||.|.-.+. +-|. ||-..|..|-...++. .+..||+|+..+....
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 467899999986654 2222 9999999988776662 4678999998775443
No 101
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=83.95 E-value=0.57 Score=46.41 Aligned_cols=50 Identities=28% Similarity=0.692 Sum_probs=37.0
Q ss_pred cccccccccccccCCe-eEEeCCC-----CcccHHHHHHHHHh-cCCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEGDS-VRVLPCH-----HEFHKTCVDKWLKE-IHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~-VrvLPCg-----HvFH~eCIdkWLke-~~~TCPLCRa~V~ 505 (514)
...|-||.++...... ....||. +..|..|+..|+.. ....|.+|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4679999998664322 4567764 66899999999983 3568999987553
No 102
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=83.68 E-value=0.58 Score=54.38 Aligned_cols=56 Identities=25% Similarity=0.574 Sum_probs=41.2
Q ss_pred cccccccccccccccCCeeEEeCCC-----CcccHHHHHHHHHh-cCCCCCccccCcCCCCCC
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCH-----HEFHKTCVDKWLKE-IHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCg-----HvFH~eCIdkWLke-~~~TCPLCRa~V~e~~s~ 510 (514)
++...|-||..+-..++++- -||+ ...|.+|+..|+.- ....|-+|+.++.-++.+
T Consensus 10 ~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY 71 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY 71 (1175)
T ss_pred ccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence 55688999999876665543 3455 45899999999983 345799999887655543
No 103
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=82.60 E-value=0.48 Score=57.13 Aligned_cols=44 Identities=30% Similarity=0.630 Sum_probs=36.6
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcccc
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRG 502 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa 502 (514)
...|.||++.+... -.+..|||.||..|+..|+.. +..||+|+.
T Consensus 1153 ~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~-~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYA-SSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHH-hccCcchhh
Confidence 34799999998732 245669999999999999995 889999984
No 104
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.67 E-value=1.1 Score=47.74 Aligned_cols=37 Identities=38% Similarity=0.776 Sum_probs=28.1
Q ss_pred ccccccccccccccC-CeeEEeCCCCcccHHHHHHHHH
Q 010258 455 EVAQCYICLLEYEEG-DSVRVLPCHHEFHKTCVDKWLK 491 (514)
Q Consensus 455 e~~EC~ICLEefe~g-d~VrvLPCgHvFH~eCIdkWLk 491 (514)
...+|.||+.++... +...++.|+|.||.+|+.+.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 356899999554443 4444677999999999998887
No 105
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=80.11 E-value=0.44 Score=54.35 Aligned_cols=48 Identities=38% Similarity=0.790 Sum_probs=38.3
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHh--cCCCCCccccCcCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE--IHRVCPLCRGDICK 506 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke--~~~TCPLCRa~V~e 506 (514)
..+|+||+..|..+ ..+.|-|.|+..|+..-|.. ....||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 45799999999987 77889999999998876553 24579999976643
No 106
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.35 E-value=2.5 Score=41.76 Aligned_cols=39 Identities=33% Similarity=0.804 Sum_probs=28.4
Q ss_pred ccccccccccCCeeEEeCCCCc-ccHHHHHHHHHhcCCCCCccccCcC
Q 010258 459 CYICLLEYEEGDSVRVLPCHHE-FHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHv-FH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
|-+|.+. ...|..|||.|. +|..|-.. -..||+|+..+.
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES-----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc-----CccCCCCcChhh
Confidence 7788664 345899999764 78888554 246999987653
No 107
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.01 E-value=1.3 Score=46.47 Aligned_cols=32 Identities=25% Similarity=0.719 Sum_probs=25.2
Q ss_pred CCCcccHHHHHHHHHh------------cCCCCCccccCcCCCC
Q 010258 477 CHHEFHKTCVDKWLKE------------IHRVCPLCRGDICKPD 508 (514)
Q Consensus 477 CgHvFH~eCIdkWLke------------~~~TCPLCRa~V~e~~ 508 (514)
|.-.+|.+|+.+|+-. ++.+||+||++++--+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 6778899999998852 3568999999887543
No 108
>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=74.97 E-value=1.5 Score=45.04 Aligned_cols=46 Identities=28% Similarity=0.650 Sum_probs=35.5
Q ss_pred cccccccccc-cccCCee-EEeC-CCCcccHHHHHHHHHhcCCCCC--ccc
Q 010258 456 VAQCYICLLE-YEEGDSV-RVLP-CHHEFHKTCVDKWLKEIHRVCP--LCR 501 (514)
Q Consensus 456 ~~EC~ICLEe-fe~gd~V-rvLP-CgHvFH~eCIdkWLke~~~TCP--LCR 501 (514)
+..|+||..+ |-.++.. .+-| |-|..|..|+++.+..+...|| -|-
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 4579999986 4444443 3334 9999999999999998788999 673
No 109
>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 KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.14 E-value=2.9 Score=46.19 Aligned_cols=48 Identities=42% Similarity=0.881 Sum_probs=38.7
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCC
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~ 510 (514)
....|.||+.+. ..+..+|. |..|+.+|+.- +..||+|+..+...+..
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~-~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYV-QEVCPLCHTYMKEDDFL 525 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhh-ccccCCCchhhhccccc
Confidence 356799999998 35777888 89999999984 78999999877665543
No 111
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=69.63 E-value=2.9 Score=48.70 Aligned_cols=26 Identities=31% Similarity=0.742 Sum_probs=21.7
Q ss_pred EEeCCCCcccHHHHHHHHHhcCCCCCc
Q 010258 473 RVLPCHHEFHKTCVDKWLKEIHRVCPL 499 (514)
Q Consensus 473 rvLPCgHvFH~eCIdkWLke~~~TCPL 499 (514)
..+.|+|+-|..|...|+.. ...||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~-gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRT-GDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhc-CCcCCC
Confidence 34559999999999999995 668885
No 112
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=68.52 E-value=9.3 Score=44.57 Aligned_cols=40 Identities=23% Similarity=0.460 Sum_probs=28.4
Q ss_pred ccccccccccccCCeeEEeC-CCCcccHHHHHHHHHhcCCCCCc
Q 010258 457 AQCYICLLEYEEGDSVRVLP-CHHEFHKTCVDKWLKEIHRVCPL 499 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLP-CgHvFH~eCIdkWLke~~~TCPL 499 (514)
..|.+|-..+.. ....-+ |+|.-|.+|+.+|+.. +..||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~-~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFK-ASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhc-CCCCcc
Confidence 457777655432 112223 9999999999999995 777876
No 113
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=67.75 E-value=3.1 Score=43.13 Aligned_cols=47 Identities=34% Similarity=0.646 Sum_probs=34.1
Q ss_pred cccccccccccccCCeeEEe-C---CCCcccHHHHHHHHHh--------cCCCCCcccc
Q 010258 456 VAQCYICLLEYEEGDSVRVL-P---CHHEFHKTCVDKWLKE--------IHRVCPLCRG 502 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvL-P---CgHvFH~eCIdkWLke--------~~~TCPLCRa 502 (514)
..+|-||.++|...+..+.. + |.-.+|..|+..-+.. ....||.|++
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~ 240 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEK 240 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhc
Confidence 35899999999544443332 2 9999999999984442 2447999987
No 114
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.49 E-value=2.9 Score=45.13 Aligned_cols=37 Identities=30% Similarity=0.610 Sum_probs=31.4
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHh
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE 492 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke 492 (514)
....+|-||++.+.. .+..+.|+|.|+..|+...|..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 345689999999876 5678889999999999999984
No 115
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=63.20 E-value=6.1 Score=42.20 Aligned_cols=62 Identities=23% Similarity=0.516 Sum_probs=39.8
Q ss_pred CCceeeeccccccccccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcccc
Q 010258 440 LPVKLYTKSQKYQNEEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRG 502 (514)
Q Consensus 440 LP~~~~~ks~k~~see~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa 502 (514)
+|...+.............|..|.++.......+.-.|.|.||.+| +.++.+.-..||-|-.
T Consensus 314 ~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldC-Dv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 314 FPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDC-DVFIHESLHNCPGCEH 375 (378)
T ss_pred cCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccc-hHHHHhhhhcCCCcCC
Confidence 3444454444333233445999987777665556666999999999 4444433447999974
No 116
>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=61.76 E-value=7.9 Score=30.15 Aligned_cols=44 Identities=20% Similarity=0.440 Sum_probs=21.1
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHh----cCCCCCccccC
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE----IHRVCPLCRGD 503 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke----~~~TCPLCRa~ 503 (514)
..|+|....+..+ ++-..|.|.-+.+ +..||.. ..-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3589988887764 7777799985543 3445542 23369999753
No 117
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=59.09 E-value=3.3 Score=46.84 Aligned_cols=41 Identities=29% Similarity=0.724 Sum_probs=26.1
Q ss_pred cccccccccc-----cccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCcc
Q 010258 456 VAQCYICLLE-----YEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLC 500 (514)
Q Consensus 456 ~~EC~ICLEe-----fe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLC 500 (514)
...|.||-.. |+.....+..-|+++||..|+.. ....||-|
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~s~~CPrC 556 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----KSPCCPRC 556 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----cCCCCCch
Confidence 4567777332 22222344556999999999554 34559999
No 118
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=58.57 E-value=4.9 Score=40.60 Aligned_cols=44 Identities=25% Similarity=0.841 Sum_probs=35.3
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccc
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCR 501 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCR 501 (514)
....|.+|.+-.-.+ ++.-.|+=.||..|+.+.+++ ...||.|-
T Consensus 180 nlk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~-~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQR-RDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcc-cCcCCchh
Confidence 356799998875443 455568888999999999997 88999993
No 119
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.16 E-value=5.3 Score=42.77 Aligned_cols=44 Identities=25% Similarity=0.533 Sum_probs=31.4
Q ss_pred cccccccccccccCCe--eEEeCCCCcccHHHHHHHHHhcCCCCCcc
Q 010258 456 VAQCYICLLEYEEGDS--VRVLPCHHEFHKTCVDKWLKEIHRVCPLC 500 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~--VrvLPCgHvFH~eCIdkWLke~~~TCPLC 500 (514)
-.+|++|.-.++.... ..+-.|+|.||..|...|... +..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~-~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH-NGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhC-CccccCc
Confidence 4579999887765543 223339999999999999984 6666444
No 120
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.04 E-value=5 Score=46.79 Aligned_cols=44 Identities=27% Similarity=0.505 Sum_probs=32.7
Q ss_pred cccccccccccccC----CeeEEeCCCCcccHHHHHHHHHhcCCCCCccc
Q 010258 456 VAQCYICLLEYEEG----DSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCR 501 (514)
Q Consensus 456 ~~EC~ICLEefe~g----d~VrvLPCgHvFH~eCIdkWLke~~~TCPLCR 501 (514)
...|.-|++..... +.++++.|+|.||+.|+.--..+ + .|-.|-
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~-~-~~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR-N-ACNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh-c-ccChhh
Confidence 34699999986532 45889999999999999877664 2 265553
No 121
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=53.39 E-value=12 Score=39.98 Aligned_cols=48 Identities=17% Similarity=0.311 Sum_probs=37.8
Q ss_pred cccccccccccccccCCeeEEeCCCCcccHHHHHHHHHhc--CCCCCccc
Q 010258 454 EEVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEI--HRVCPLCR 501 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~--~~TCPLCR 501 (514)
.....||+--+.-.+..+...|.|||+.-.+-++..-+++ ...||.|=
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 3467799877776666678899999999999999977742 35699993
No 122
>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=51.25 E-value=4.8 Score=32.09 Aligned_cols=33 Identities=21% Similarity=0.603 Sum_probs=22.3
Q ss_pred EeCCC-CcccHHHHHHHHHhcCCCCCccccCcCCC
Q 010258 474 VLPCH-HEFHKTCVDKWLKEIHRVCPLCRGDICKP 507 (514)
Q Consensus 474 vLPCg-HvFH~eCIdkWLke~~~TCPLCRa~V~e~ 507 (514)
.+.|. |..|..|+...|.. ...||+|..+++.+
T Consensus 15 Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPTK 48 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SS-SSEETTTTEE----
T ss_pred eeeecchhHHHHHHHHHhcc-ccCCCcccCcCccc
Confidence 45574 99999999999985 77899999887643
No 123
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=49.30 E-value=11 Score=39.66 Aligned_cols=35 Identities=26% Similarity=0.494 Sum_probs=28.5
Q ss_pred EEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCC
Q 010258 473 RVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKP 507 (514)
Q Consensus 473 rvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~ 507 (514)
.+=+|+|..|..|++..+......||-|-..+...
T Consensus 19 ~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 19 MINECGHRLCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred eeccccchHHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 34499999999999999987778999997655443
No 124
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.38 E-value=20 Score=37.26 Aligned_cols=52 Identities=17% Similarity=0.282 Sum_probs=37.2
Q ss_pred cccccccccccccCCe-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCCCCC
Q 010258 456 VAQCYICLLEYEEGDS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKPDSL 510 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~~s~ 510 (514)
...|+|=--+|..... +...+|||+|-..-+.+.= ...|++|-+.+...+.+
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDVI 163 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCeE
Confidence 4678886666544332 5677899999988766532 46899999988777655
No 125
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=43.32 E-value=15 Score=35.92 Aligned_cols=40 Identities=35% Similarity=0.809 Sum_probs=26.3
Q ss_pred cccccccccc-----cccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccc
Q 010258 456 VAQCYICLLE-----YEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCR 501 (514)
Q Consensus 456 ~~EC~ICLEe-----fe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCR 501 (514)
...|-||-.. |+....++--.|+-+||..|..+ ..||-|-
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~------~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK------KSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC------CCCCCcH
Confidence 4568888753 33322233344999999999652 4699994
No 126
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=41.74 E-value=13 Score=37.90 Aligned_cols=39 Identities=21% Similarity=0.539 Sum_probs=28.3
Q ss_pred cccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCC
Q 010258 458 QCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVC 497 (514)
Q Consensus 458 EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TC 497 (514)
.|..|..--. ++...++.|+|+||..|...-....-..|
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~~~C~lC 43 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSPDVCPLC 43 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccCCccccccc
Confidence 4777766444 67788899999999999876655324455
No 127
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.72 E-value=16 Score=37.86 Aligned_cols=34 Identities=12% Similarity=0.248 Sum_probs=29.6
Q ss_pred ccccccccccccccCCeeEEeCCCCcccHHHHHHHHH
Q 010258 455 EVAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLK 491 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLk 491 (514)
+-..|..||.++.++ ++.|=||+|+.+||.+++-
T Consensus 42 ~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP---VITPDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCC---ccCCCCeeeeHHHHHHHHH
Confidence 356799999999887 7888999999999998875
No 128
>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=41.38 E-value=26 Score=23.84 Aligned_cols=36 Identities=22% Similarity=0.476 Sum_probs=23.7
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
|..|-+.+...+.+ +..=+..||.+| ..|..|...+
T Consensus 2 C~~C~~~i~~~~~~-~~~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELV-LRALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEE-EEeCCccccccC---------CCCcccCCcC
Confidence 78888887765232 222477888876 5677776655
No 129
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=39.33 E-value=27 Score=30.44 Aligned_cols=51 Identities=24% Similarity=0.412 Sum_probs=24.0
Q ss_pred ccccccccccccccCC---e-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 455 EVAQCYICLLEYEEGD---S-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 455 e~~EC~ICLEefe~gd---~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
....|-||-+++.... . |....|+--.|+.|..-=.++.+..||.|+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3457999999875432 2 3334488899999999888888889999997654
No 130
>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=38.76 E-value=14 Score=27.74 Aligned_cols=44 Identities=30% Similarity=0.651 Sum_probs=29.8
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHHh-----cCCCCCcccc
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKE-----IHRVCPLCRG 502 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke-----~~~TCPLCRa 502 (514)
|.||......++.+.--.|+..||..|+..=+.. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 8899884444434444459999999999865441 1457888853
No 131
>PF12510 Smoothelin: Smoothelin cytoskeleton protein; InterPro: IPR022189 This domain family is found in eukaryotes, and is approximately 50 amino acids in length. The family is found in association with PF00307 from PFAM. Smoothelin is a cytoskeletal protein specifically expressed in differentiated smooth muscle cells and has been shown to co-localize with smooth muscle alpha actin.
Probab=37.46 E-value=28 Score=28.28 Aligned_cols=25 Identities=40% Similarity=0.759 Sum_probs=19.2
Q ss_pred HHHHHhhhhhHHHHHHHhhHhHHHHH
Q 010258 321 YHDLLEHRSNFLERRRRIRSQVRALQ 346 (514)
Q Consensus 321 ~~~~~~~~s~~~e~Rr~iRsq~~al~ 346 (514)
...||+.=..|.| ||.||++++.|+
T Consensus 27 L~kmLe~~~dyee-Rr~IRaaiR~lr 51 (54)
T PF12510_consen 27 LEKMLEATTDYEE-RRRIRAAIRELR 51 (54)
T ss_pred HHHHHHHhccHHH-HHHHHHHHHHHH
Confidence 4467887777655 788999999884
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=36.09 E-value=31 Score=27.62 Aligned_cols=42 Identities=31% Similarity=0.793 Sum_probs=21.2
Q ss_pred ccccccccccCC------eeEEeC-CCCcccHHHHHHHHHhcCCCCCccc
Q 010258 459 CYICLLEYEEGD------SVRVLP-CHHEFHKTCVDKWLKEIHRVCPLCR 501 (514)
Q Consensus 459 C~ICLEefe~gd------~VrvLP-CgHvFH~eCIdkWLke~~~TCPLCR 501 (514)
|.-|+..|.... ..-.-| |++.|+.+| +.++-+.-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 666777776642 223333 999999999 444443334799883
No 133
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.01 E-value=7.4 Score=39.12 Aligned_cols=48 Identities=33% Similarity=0.580 Sum_probs=38.0
Q ss_pred cccccccccccccCC---eeEEeC--------CCCcccHHHHHHHHHhcCCCCCccccC
Q 010258 456 VAQCYICLLEYEEGD---SVRVLP--------CHHEFHKTCVDKWLKEIHRVCPLCRGD 503 (514)
Q Consensus 456 ~~EC~ICLEefe~gd---~VrvLP--------CgHvFH~eCIdkWLke~~~TCPLCRa~ 503 (514)
...|.||...|...+ .-+++. |+|..+..|++.-+......||.|+..
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 456999999998432 234566 999999999999988645689999864
No 134
>PLN02189 cellulose synthase
Probab=35.40 E-value=31 Score=41.82 Aligned_cols=50 Identities=24% Similarity=0.427 Sum_probs=37.6
Q ss_pred cccccccccccc---cCCeeEEeC-CCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 456 VAQCYICLLEYE---EGDSVRVLP-CHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe---~gd~VrvLP-CgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
...|.||-+++. +++.-+... |+--.|..|.+-=.++.+..||.|+....
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 457999999975 333333333 88889999997766677889999998664
No 135
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=34.84 E-value=8.4 Score=40.14 Aligned_cols=42 Identities=26% Similarity=0.464 Sum_probs=32.2
Q ss_pred cccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVC 497 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TC 497 (514)
..+|.||+++|..+......-|.-+||..|+-.|+++....+
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGAAST 255 (288)
T ss_pred ceecHHHHHHHhcccccchhhccccccccccccccccccccc
Confidence 348999999998755555666666999999999999643333
No 136
>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=33.69 E-value=14 Score=40.40 Aligned_cols=30 Identities=33% Similarity=0.671 Sum_probs=0.0
Q ss_pred eeEEeCCCCcccHHHHHHHHHh-----cCCCCCccccC
Q 010258 471 SVRVLPCHHEFHKTCVDKWLKE-----IHRVCPLCRGD 503 (514)
Q Consensus 471 ~VrvLPCgHvFH~eCIdkWLke-----~~~TCPLCRa~ 503 (514)
+.+.|.|||++... .|-.. ...+||+||..
T Consensus 303 P~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 303 PWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp --------------------------------------
T ss_pred ceeeccccceeeec---ccccccccccccccCCCcccc
Confidence 45778899987764 57642 14589999974
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=32.95 E-value=28 Score=37.10 Aligned_cols=49 Identities=24% Similarity=0.487 Sum_probs=34.9
Q ss_pred cccccccccccccCCeeEEeC--CCCcccHHHHHHHHHhcCCCCCccccCcCC
Q 010258 456 VAQCYICLLEYEEGDSVRVLP--CHHEFHKTCVDKWLKEIHRVCPLCRGDICK 506 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~VrvLP--CgHvFH~eCIdkWLke~~~TCPLCRa~V~e 506 (514)
...|+||.+.....+ ...|| |+|.-|..|...-.. .+..||.||.+...
T Consensus 249 ~~s~p~~~~~~~~~d-~~~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTD-SNFLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCCcccccc-cccccccccccchhhhhhcccc-cCCCCCccCCcccc
Confidence 357999999864332 23444 788888888877776 48899999966543
No 138
>PLN02436 cellulose synthase A
Probab=32.68 E-value=39 Score=41.12 Aligned_cols=50 Identities=24% Similarity=0.505 Sum_probs=37.5
Q ss_pred cccccccccccc---cCCeeEEeC-CCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 456 VAQCYICLLEYE---EGDSVRVLP-CHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe---~gd~VrvLP-CgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
...|-||-+++. +++.-+... |+--.|..|.+-=.++.+..||.|+....
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 457999999974 444433333 88889999997766677889999998664
No 139
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.78 E-value=44 Score=30.71 Aligned_cols=45 Identities=18% Similarity=0.346 Sum_probs=31.2
Q ss_pred cccccccccccccCCe-----------eEEeCCCCcccHHHHHHHHHhcCCCCCccc
Q 010258 456 VAQCYICLLEYEEGDS-----------VRVLPCHHEFHKTCVDKWLKEIHRVCPLCR 501 (514)
Q Consensus 456 ~~EC~ICLEefe~gd~-----------VrvLPCgHvFH~eCIdkWLke~~~TCPLCR 501 (514)
...|.-|+..|..... ..-..|++.|+.+|=.-|-.. -..||-|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~-Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES-LHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh-ccCCcCCC
Confidence 3469999998864310 122349999999996666654 44799995
No 140
>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=31.46 E-value=21 Score=24.72 Aligned_cols=22 Identities=32% Similarity=0.670 Sum_probs=11.6
Q ss_pred cccccccccccCCeeEEeC-CCCcc
Q 010258 458 QCYICLLEYEEGDSVRVLP-CHHEF 481 (514)
Q Consensus 458 EC~ICLEefe~gd~VrvLP-CgHvF 481 (514)
.|+-|...+... ...-| |||.|
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 466666664332 33344 66666
No 141
>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=31.15 E-value=24 Score=28.06 Aligned_cols=37 Identities=16% Similarity=0.372 Sum_probs=18.4
Q ss_pred cccccccccccccccCCeeEEe-CCCCcccHHHHHHHH
Q 010258 454 EEVAQCYICLLEYEEGDSVRVL-PCHHEFHKTCVDKWL 490 (514)
Q Consensus 454 ee~~EC~ICLEefe~gd~VrvL-PCgHvFH~eCIdkWL 490 (514)
.+...|.+|...|..-..-..- .||++|+..|....+
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3456799999999664222222 299999999987554
No 142
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=30.32 E-value=48 Score=40.24 Aligned_cols=51 Identities=22% Similarity=0.392 Sum_probs=38.2
Q ss_pred ccccccccccccccC---Ce-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 455 EVAQCYICLLEYEEG---DS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 455 e~~EC~ICLEefe~g---d~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
....|-||-+++... +. |..-.|+--.|+.|.+-=.++.+..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 456799999987543 33 3333488889999997766777889999998664
No 143
>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=27.77 E-value=67 Score=26.52 Aligned_cols=45 Identities=22% Similarity=0.603 Sum_probs=30.8
Q ss_pred ccccccccccCC-eeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCC
Q 010258 459 CYICLLEYEEGD-SVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICK 506 (514)
Q Consensus 459 C~ICLEefe~gd-~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e 506 (514)
|-.|-.++..+. ...+-.=...||.+|.+..|. ..||.|-..+..
T Consensus 8 CE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~---~~CPNCgGelv~ 53 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYICSFECTFCADCAETMLN---GVCPNCGGELVR 53 (57)
T ss_pred ccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc---CcCcCCCCcccc
Confidence 666777766554 222222234699999999885 599999887754
No 144
>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=25.80 E-value=40 Score=28.60 Aligned_cols=13 Identities=38% Similarity=1.168 Sum_probs=9.5
Q ss_pred cccHHHHHHHHHh
Q 010258 480 EFHKTCVDKWLKE 492 (514)
Q Consensus 480 vFH~eCIdkWLke 492 (514)
-||+.|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999974
No 145
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=25.68 E-value=61 Score=39.58 Aligned_cols=50 Identities=20% Similarity=0.388 Sum_probs=37.1
Q ss_pred cccccccccccccC---Ce-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEG---DS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~g---d~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
...|-||-+++... +. |..-.|+--.|+.|.+-=-++.+..||.|+....
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 45799999997543 33 3333488889999997666667889999998654
No 146
>PLN02195 cellulose synthase A
Probab=25.07 E-value=79 Score=38.30 Aligned_cols=50 Identities=26% Similarity=0.465 Sum_probs=37.7
Q ss_pred cccccccccccccC---Ce-eEEeCCCCcccHHHHHHHHHhcCCCCCccccCcC
Q 010258 456 VAQCYICLLEYEEG---DS-VRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDIC 505 (514)
Q Consensus 456 ~~EC~ICLEefe~g---d~-VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~ 505 (514)
...|.||-+++... +. |..--|+--.|+.|.+-=-++++..||.|+....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 44699999987543 33 3344499999999997666677889999998765
No 147
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.90 E-value=22 Score=38.49 Aligned_cols=38 Identities=21% Similarity=0.526 Sum_probs=29.1
Q ss_pred ccccccccccccccCCe-----eEEeCCCCcccHHHHHHHHHh
Q 010258 455 EVAQCYICLLEYEEGDS-----VRVLPCHHEFHKTCVDKWLKE 492 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~-----VrvLPCgHvFH~eCIdkWLke 492 (514)
....|+.|...++.... ....+|.|.||..|+..|...
T Consensus 225 ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 225 NTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred cCccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 34569999999887652 122359999999999999874
No 148
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.61 E-value=57 Score=35.16 Aligned_cols=52 Identities=23% Similarity=0.556 Sum_probs=35.4
Q ss_pred ccccccccccccc-----cCC-----------eeEEeCCCCcccHHHHHHHHHh--------cCCCCCccccCcCC
Q 010258 455 EVAQCYICLLEYE-----EGD-----------SVRVLPCHHEFHKTCVDKWLKE--------IHRVCPLCRGDICK 506 (514)
Q Consensus 455 e~~EC~ICLEefe-----~gd-----------~VrvLPCgHvFH~eCIdkWLke--------~~~TCPLCRa~V~e 506 (514)
...+|++|+..-. .+. ...--||||+--..-+.-|-+- -+..||.|-+.+..
T Consensus 340 ~~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 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 3678999987521 000 0134579999999999999872 24579999876643
No 149
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.57 E-value=29 Score=37.32 Aligned_cols=30 Identities=30% Similarity=0.599 Sum_probs=19.6
Q ss_pred CeeEEeCCCCcccHHHHHHHHHh-----cCCCCCcccc
Q 010258 470 DSVRVLPCHHEFHKTCVDKWLKE-----IHRVCPLCRG 502 (514)
Q Consensus 470 d~VrvLPCgHvFH~eCIdkWLke-----~~~TCPLCRa 502 (514)
++.+.|.|||+-..+ .|=.+ ....||+||.
T Consensus 315 QP~vYl~CGHV~G~H---~WG~~e~~g~~~r~CPmC~~ 349 (429)
T KOG3842|consen 315 QPWVYLNCGHVHGYH---NWGVRENTGQRERECPMCRV 349 (429)
T ss_pred CCeEEEecccccccc---ccccccccCcccCcCCeeee
Confidence 346789999873322 36543 2457999986
No 150
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=24.41 E-value=41 Score=24.61 Aligned_cols=25 Identities=32% Similarity=0.651 Sum_probs=16.7
Q ss_pred cccccccccccCCe--------eEEeCCCCccc
Q 010258 458 QCYICLLEYEEGDS--------VRVLPCHHEFH 482 (514)
Q Consensus 458 EC~ICLEefe~gd~--------VrvLPCgHvFH 482 (514)
+|+-|-..|..++. ++--.|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 58888888876653 22333888875
No 151
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.81 E-value=54 Score=34.87 Aligned_cols=37 Identities=22% Similarity=0.398 Sum_probs=28.7
Q ss_pred ccccccccccccccCCeeEEeC--CCCcccHHHHHHHHHh
Q 010258 455 EVAQCYICLLEYEEGDSVRVLP--CHHEFHKTCVDKWLKE 492 (514)
Q Consensus 455 e~~EC~ICLEefe~gd~VrvLP--CgHvFH~eCIdkWLke 492 (514)
....|.+|.|.+++- +-++.| =.|.||+-|-..-+|.
T Consensus 267 apLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHh
Confidence 346899999998875 333333 4799999999999985
No 152
>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=21.78 E-value=8.2 Score=32.76 Aligned_cols=39 Identities=26% Similarity=0.526 Sum_probs=20.3
Q ss_pred ccccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCc
Q 010258 457 AQCYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDI 504 (514)
Q Consensus 457 ~EC~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V 504 (514)
..|++|..++.... +|.+|..|-....+ ...||-|..++
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~~~~--~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKDYKK--EAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--EEEE--EEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccccee--cccCCCcccHH
Confidence 35888888865532 66667777655443 46788887765
No 153
>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=21.01 E-value=79 Score=23.80 Aligned_cols=39 Identities=15% Similarity=0.297 Sum_probs=19.0
Q ss_pred ccccccccccCCeeEEeCCCCcccHHHHHHHHHhcCCCCCccccCcCCC
Q 010258 459 CYICLLEYEEGDSVRVLPCHHEFHKTCVDKWLKEIHRVCPLCRGDICKP 507 (514)
Q Consensus 459 C~ICLEefe~gd~VrvLPCgHvFH~eCIdkWLke~~~TCPLCRa~V~e~ 507 (514)
|..|-..+...+. .+..-+..||..| ..|=.|...|...
T Consensus 1 C~~C~~~I~~~~~-~~~~~~~~~H~~C---------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEI-VIKAMGKFWHPEC---------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSE-EEEETTEEEETTT---------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEE-EEEeCCcEEEccc---------cccCCCCCccCCC
Confidence 4555555554322 2123555666644 4555665555443
No 154
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=20.66 E-value=46 Score=24.40 Aligned_cols=25 Identities=40% Similarity=0.743 Sum_probs=16.8
Q ss_pred cccccccccccCCe--------eEEeCCCCccc
Q 010258 458 QCYICLLEYEEGDS--------VRVLPCHHEFH 482 (514)
Q Consensus 458 EC~ICLEefe~gd~--------VrvLPCgHvFH 482 (514)
+|+=|...|..++. +.--.|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 58888888876653 22233888874
No 155
>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=20.41 E-value=34 Score=37.54 Aligned_cols=52 Identities=19% Similarity=0.458 Sum_probs=0.0
Q ss_pred cccccccccccc-------------cCC---eeEEeCCCCcccHHHHHHHHHh--------cCCCCCccccCcCCC
Q 010258 456 VAQCYICLLEYE-------------EGD---SVRVLPCHHEFHKTCVDKWLKE--------IHRVCPLCRGDICKP 507 (514)
Q Consensus 456 ~~EC~ICLEefe-------------~gd---~VrvLPCgHvFH~eCIdkWLke--------~~~TCPLCRa~V~e~ 507 (514)
..+|++|+..-. .+. ...--||||+--...+.-|-+- -+..||.|-..+...
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~ 403 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGE 403 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCC
Confidence 568999997521 110 1234679999999999999872 134799998877643
Done!