Query 006188
Match_columns 657
No_of_seqs 266 out of 1819
Neff 4.8
Searched_HMMs 46136
Date Thu Mar 28 19:39:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006188.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006188hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.4 5.1E-14 1.1E-18 150.0 4.8 68 588-656 213-281 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 2.5E-13 5.3E-18 104.0 2.0 44 606-649 1-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.1 2E-11 4.4E-16 103.8 3.1 50 600-649 14-73 (73)
4 COG5540 RING-finger-containing 99.1 4.2E-11 9.1E-16 124.6 3.7 52 603-654 321-373 (374)
5 COG5243 HRD1 HRD ubiquitin lig 99.1 7.8E-11 1.7E-15 125.2 3.5 51 602-652 284-344 (491)
6 PHA02929 N1R/p28-like protein; 99.1 1.4E-10 3.1E-15 118.8 5.2 51 603-653 172-227 (238)
7 KOG0317 Predicted E3 ubiquitin 98.9 5E-10 1.1E-14 116.3 4.2 51 602-655 236-286 (293)
8 KOG0320 Predicted E3 ubiquitin 98.9 1.3E-09 2.8E-14 106.6 3.9 54 599-653 125-178 (187)
9 PLN03208 E3 ubiquitin-protein 98.9 1.9E-09 4.1E-14 107.2 4.8 49 603-654 16-80 (193)
10 KOG0823 Predicted E3 ubiquitin 98.8 3E-09 6.4E-14 107.8 3.5 51 602-655 44-97 (230)
11 cd00162 RING RING-finger (Real 98.8 5.7E-09 1.2E-13 77.3 3.9 44 607-652 1-45 (45)
12 PF13920 zf-C3HC4_3: Zinc fing 98.8 3.4E-09 7.4E-14 83.3 2.5 46 605-653 2-48 (50)
13 PF13923 zf-C3HC4_2: Zinc fing 98.7 3.9E-09 8.4E-14 79.1 2.0 39 608-648 1-39 (39)
14 KOG0802 E3 ubiquitin ligase [P 98.7 4.3E-09 9.4E-14 119.2 2.2 51 603-653 289-341 (543)
15 smart00504 Ubox Modified RING 98.6 2.4E-08 5.1E-13 81.0 4.0 45 606-653 2-46 (63)
16 PF14634 zf-RING_5: zinc-RING 98.6 3.1E-08 6.7E-13 76.2 3.7 44 607-650 1-44 (44)
17 PHA02926 zinc finger-like prot 98.6 2.4E-08 5.3E-13 100.9 3.9 51 603-653 168-230 (242)
18 PF12861 zf-Apc11: Anaphase-pr 98.6 3E-08 6.5E-13 87.0 3.9 51 603-653 19-82 (85)
19 PF15227 zf-C3HC4_4: zinc fing 98.6 1.9E-08 4.1E-13 77.2 2.2 38 608-648 1-42 (42)
20 PF00097 zf-C3HC4: Zinc finger 98.5 4.6E-08 9.9E-13 73.4 2.2 39 608-648 1-41 (41)
21 TIGR00599 rad18 DNA repair pro 98.5 5.8E-08 1.3E-12 106.2 3.9 49 603-654 24-72 (397)
22 smart00184 RING Ring finger. E 98.5 9.7E-08 2.1E-12 68.2 3.8 38 608-648 1-39 (39)
23 COG5194 APC11 Component of SCF 98.4 2.2E-07 4.7E-12 80.4 4.1 54 600-653 15-81 (88)
24 COG5574 PEX10 RING-finger-cont 98.3 2.8E-07 6.1E-12 95.1 2.9 50 603-655 213-264 (271)
25 KOG0828 Predicted E3 ubiquitin 98.2 7.7E-07 1.7E-11 98.0 3.5 53 602-654 568-635 (636)
26 KOG2930 SCF ubiquitin ligase, 98.2 4.4E-07 9.6E-12 81.9 1.3 55 597-651 38-106 (114)
27 KOG2164 Predicted E3 ubiquitin 98.2 6.3E-07 1.4E-11 99.5 2.7 47 605-654 186-237 (513)
28 KOG0287 Postreplication repair 98.2 6.2E-07 1.3E-11 95.1 1.5 47 604-653 22-68 (442)
29 PF13445 zf-RING_UBOX: RING-ty 98.2 1.3E-06 2.9E-11 67.6 2.9 38 608-646 1-43 (43)
30 COG5432 RAD18 RING-finger-cont 98.2 8.8E-07 1.9E-11 92.4 2.3 47 603-652 23-69 (391)
31 KOG1493 Anaphase-promoting com 98.1 7.6E-07 1.7E-11 76.5 1.1 54 600-653 15-81 (84)
32 PF04564 U-box: U-box domain; 98.1 1.3E-06 2.8E-11 74.2 2.0 47 605-654 4-51 (73)
33 KOG1734 Predicted RING-contain 98.1 8.1E-07 1.8E-11 91.9 0.5 52 602-653 221-281 (328)
34 KOG2177 Predicted E3 ubiquitin 98.1 1.4E-06 3.1E-11 85.9 1.9 45 603-650 11-55 (386)
35 smart00744 RINGv The RING-vari 98.0 7.1E-06 1.5E-10 65.1 4.0 42 607-649 1-49 (49)
36 COG5219 Uncharacterized conser 97.9 3.5E-06 7.6E-11 98.2 0.5 51 603-653 1467-1523(1525)
37 PF11793 FANCL_C: FANCL C-term 97.8 3.8E-06 8.2E-11 71.2 -0.3 50 605-654 2-67 (70)
38 KOG4265 Predicted E3 ubiquitin 97.7 2.6E-05 5.7E-10 83.7 3.0 49 603-654 288-337 (349)
39 KOG4445 Uncharacterized conser 97.6 2.4E-05 5.2E-10 82.3 1.3 56 600-655 110-188 (368)
40 KOG0978 E3 ubiquitin ligase in 97.6 2.4E-05 5.2E-10 90.6 1.3 48 604-654 642-690 (698)
41 KOG0825 PHD Zn-finger protein 97.5 1.6E-05 3.4E-10 91.6 -0.8 52 603-654 121-172 (1134)
42 KOG4172 Predicted E3 ubiquitin 97.5 3.4E-05 7.3E-10 62.8 0.9 46 605-653 7-54 (62)
43 KOG1039 Predicted E3 ubiquitin 97.4 7E-05 1.5E-09 81.0 2.3 50 603-652 159-220 (344)
44 KOG0311 Predicted E3 ubiquitin 97.3 2.9E-05 6.3E-10 83.2 -1.6 50 603-654 41-91 (381)
45 PF14835 zf-RING_6: zf-RING of 97.3 4.2E-05 9E-10 64.1 -0.7 45 605-653 7-51 (65)
46 KOG4159 Predicted E3 ubiquitin 97.2 0.00024 5.2E-09 78.3 3.5 49 603-654 82-130 (398)
47 KOG0804 Cytoplasmic Zn-finger 97.1 0.00022 4.9E-09 78.5 1.6 50 603-654 173-223 (493)
48 KOG1785 Tyrosine kinase negati 97.0 0.00026 5.5E-09 77.1 1.6 46 607-655 371-418 (563)
49 KOG2660 Locus-specific chromos 96.9 0.00024 5.3E-09 75.8 0.2 49 603-653 13-61 (331)
50 KOG1428 Inhibitor of type V ad 96.8 0.0007 1.5E-08 82.0 3.2 53 601-653 3482-3544(3738)
51 KOG2879 Predicted E3 ubiquitin 96.8 0.0011 2.3E-08 69.5 3.7 51 601-653 235-287 (298)
52 KOG0297 TNF receptor-associate 96.7 0.00069 1.5E-08 74.7 2.0 50 602-654 18-68 (391)
53 KOG4692 Predicted E3 ubiquitin 96.7 0.0012 2.6E-08 71.2 3.6 49 603-654 420-468 (489)
54 COG5152 Uncharacterized conser 96.7 0.0007 1.5E-08 68.0 1.3 44 606-652 197-240 (259)
55 PF11789 zf-Nse: Zinc-finger o 96.6 0.0009 2E-08 54.9 1.3 43 603-647 9-53 (57)
56 KOG1002 Nucleotide excision re 96.6 0.0019 4.2E-08 72.4 4.1 51 601-654 532-587 (791)
57 KOG1813 Predicted E3 ubiquitin 96.5 0.0012 2.5E-08 69.9 1.4 47 605-654 241-287 (313)
58 KOG1571 Predicted E3 ubiquitin 96.3 0.0016 3.4E-08 70.5 1.5 45 603-653 303-347 (355)
59 KOG1941 Acetylcholine receptor 96.3 0.0014 3.1E-08 71.4 1.2 47 604-650 364-413 (518)
60 KOG2114 Vacuolar assembly/sort 96.3 0.0034 7.3E-08 73.9 3.9 44 604-652 839-882 (933)
61 KOG4275 Predicted E3 ubiquitin 96.2 0.0016 3.4E-08 68.8 0.7 41 605-652 300-341 (350)
62 KOG3039 Uncharacterized conser 95.9 0.006 1.3E-07 63.3 3.5 51 604-654 220-271 (303)
63 KOG2034 Vacuolar sorting prote 95.9 0.0033 7.1E-08 74.4 1.6 38 602-640 814-851 (911)
64 KOG1814 Predicted E3 ubiquitin 95.9 0.0071 1.5E-07 66.5 4.0 47 605-651 184-238 (445)
65 PHA02825 LAP/PHD finger-like p 95.7 0.011 2.5E-07 57.7 4.0 49 601-653 4-59 (162)
66 PF05883 Baculo_RING: Baculovi 95.4 0.0072 1.6E-07 57.7 1.6 37 604-640 25-67 (134)
67 COG5236 Uncharacterized conser 95.3 0.012 2.6E-07 63.5 3.2 51 599-652 55-107 (493)
68 PF10367 Vps39_2: Vacuolar sor 95.3 0.007 1.5E-07 53.6 1.0 33 603-636 76-108 (109)
69 KOG3970 Predicted E3 ubiquitin 95.2 0.019 4.1E-07 59.0 4.0 52 603-655 48-107 (299)
70 PF04641 Rtf2: Rtf2 RING-finge 94.8 0.029 6.2E-07 58.7 4.1 52 602-654 110-162 (260)
71 PHA03096 p28-like protein; Pro 94.8 0.015 3.3E-07 61.8 2.2 45 606-650 179-231 (284)
72 PF14570 zf-RING_4: RING/Ubox 94.7 0.022 4.7E-07 45.6 2.2 44 608-652 1-47 (48)
73 PHA02862 5L protein; Provision 94.6 0.026 5.6E-07 54.6 3.0 47 605-653 2-53 (156)
74 KOG0801 Predicted E3 ubiquitin 94.6 0.0093 2E-07 58.5 -0.1 31 602-632 174-204 (205)
75 PF14447 Prok-RING_4: Prokaryo 94.5 0.018 3.8E-07 47.2 1.3 48 603-655 5-52 (55)
76 COG5222 Uncharacterized conser 94.2 0.028 6E-07 59.8 2.5 42 606-650 275-318 (427)
77 PF12906 RINGv: RING-variant d 94.2 0.024 5.2E-07 44.7 1.4 40 608-648 1-47 (47)
78 KOG0827 Predicted E3 ubiquitin 94.2 0.0029 6.2E-08 69.0 -5.0 50 604-653 195-245 (465)
79 KOG1952 Transcription factor N 94.1 0.04 8.8E-07 65.2 3.6 49 604-652 190-246 (950)
80 KOG2932 E3 ubiquitin ligase in 94.1 0.022 4.7E-07 60.9 1.3 45 605-653 90-134 (389)
81 KOG3268 Predicted E3 ubiquitin 93.7 0.044 9.5E-07 54.7 2.6 53 603-655 163-230 (234)
82 KOG1001 Helicase-like transcri 93.6 0.029 6.3E-07 66.0 1.3 43 606-652 455-499 (674)
83 COG5183 SSM4 Protein involved 93.4 0.053 1.1E-06 63.9 3.0 50 603-653 10-66 (1175)
84 KOG0826 Predicted E3 ubiquitin 93.4 0.073 1.6E-06 57.4 3.8 49 602-652 297-345 (357)
85 COG5175 MOT2 Transcriptional r 92.4 0.1 2.3E-06 56.4 3.2 53 603-655 12-66 (480)
86 KOG1940 Zn-finger protein [Gen 92.1 0.057 1.2E-06 57.3 0.9 46 605-650 158-204 (276)
87 PF03854 zf-P11: P-11 zinc fin 92.1 0.063 1.4E-06 42.9 0.9 43 607-654 4-47 (50)
88 KOG0298 DEAD box-containing he 91.4 0.061 1.3E-06 66.2 0.3 43 605-650 1153-1196(1394)
89 PF05290 Baculo_IE-1: Baculovi 90.8 0.32 6.9E-06 46.7 4.3 53 604-656 79-135 (140)
90 PF08746 zf-RING-like: RING-li 90.1 0.13 2.9E-06 39.9 1.0 41 608-648 1-43 (43)
91 KOG3002 Zn finger protein [Gen 90.1 0.18 4E-06 54.1 2.3 45 603-654 46-92 (299)
92 KOG1812 Predicted E3 ubiquitin 89.2 0.43 9.3E-06 52.9 4.5 40 603-642 144-184 (384)
93 COG5220 TFB3 Cdk activating ki 88.9 0.19 4E-06 52.4 1.3 48 603-650 8-61 (314)
94 KOG3161 Predicted E3 ubiquitin 88.3 0.15 3.3E-06 59.0 0.2 43 605-650 11-54 (861)
95 PF10272 Tmpp129: Putative tra 88.2 0.72 1.6E-05 50.8 5.3 27 626-652 311-350 (358)
96 KOG1609 Protein involved in mR 88.0 0.3 6.6E-06 51.0 2.2 49 605-653 78-134 (323)
97 KOG4362 Transcriptional regula 87.5 0.15 3.3E-06 59.8 -0.4 46 604-652 20-68 (684)
98 KOG0825 PHD Zn-finger protein 87.2 0.35 7.7E-06 57.2 2.3 50 604-653 95-154 (1134)
99 KOG3053 Uncharacterized conser 87.0 0.31 6.7E-06 51.2 1.6 54 600-653 15-82 (293)
100 KOG2817 Predicted E3 ubiquitin 85.9 0.53 1.2E-05 52.1 2.7 49 605-653 334-385 (394)
101 KOG0309 Conserved WD40 repeat- 85.8 0.4 8.6E-06 56.6 1.8 26 622-647 1044-1069(1081)
102 KOG1100 Predicted E3 ubiquitin 84.6 0.42 9.2E-06 48.8 1.2 39 608-653 161-200 (207)
103 KOG1829 Uncharacterized conser 84.1 0.77 1.7E-05 53.4 3.0 45 603-650 509-558 (580)
104 PF14446 Prok-RING_1: Prokaryo 79.8 2.4 5.3E-05 34.9 3.6 44 604-651 4-50 (54)
105 KOG3899 Uncharacterized conser 78.7 1.2 2.7E-05 47.6 2.1 27 626-652 325-364 (381)
106 PF07800 DUF1644: Protein of u 78.0 2.4 5.2E-05 41.9 3.7 36 605-640 2-47 (162)
107 KOG0802 E3 ubiquitin ligase [P 73.1 1.5 3.2E-05 50.7 0.9 47 602-655 476-522 (543)
108 KOG1815 Predicted E3 ubiquitin 72.5 2.4 5.3E-05 47.7 2.5 38 603-642 68-105 (444)
109 PF02891 zf-MIZ: MIZ/SP-RING z 72.4 3.1 6.6E-05 33.3 2.3 43 606-651 3-50 (50)
110 KOG3005 GIY-YIG type nuclease 71.9 1.9 4.1E-05 45.7 1.4 48 606-653 183-243 (276)
111 KOG3039 Uncharacterized conser 71.3 2.6 5.7E-05 44.4 2.2 35 603-640 41-75 (303)
112 KOG3579 Predicted E3 ubiquitin 69.7 2.2 4.8E-05 45.7 1.2 37 604-643 267-307 (352)
113 KOG2066 Vacuolar assembly/sort 69.4 2 4.3E-05 51.3 0.9 46 604-650 783-832 (846)
114 KOG0269 WD40 repeat-containing 67.5 3.7 8.1E-05 48.9 2.6 41 606-647 780-820 (839)
115 KOG2807 RNA polymerase II tran 67.3 6 0.00013 43.2 3.9 49 603-651 328-376 (378)
116 KOG2169 Zn-finger transcriptio 66.1 7.2 0.00016 46.2 4.6 90 561-654 259-357 (636)
117 KOG1812 Predicted E3 ubiquitin 61.0 4.2 9.2E-05 45.2 1.4 45 605-649 306-352 (384)
118 KOG4718 Non-SMC (structural ma 60.8 3.9 8.4E-05 42.3 1.0 44 604-649 180-223 (235)
119 KOG2068 MOT2 transcription fac 60.0 7.3 0.00016 42.5 3.0 50 605-654 249-299 (327)
120 PF13901 DUF4206: Domain of un 57.7 7.3 0.00016 39.6 2.4 43 603-650 150-197 (202)
121 PF10235 Cript: Microtubule-as 53.7 7.6 0.00016 35.2 1.5 40 605-656 44-83 (90)
122 smart00249 PHD PHD zinc finger 53.3 8.6 0.00019 28.2 1.6 32 607-638 1-32 (47)
123 KOG0824 Predicted E3 ubiquitin 52.8 4.3 9.3E-05 43.9 -0.2 51 601-653 101-151 (324)
124 KOG3842 Adaptor protein Pellin 50.5 14 0.00031 40.3 3.2 52 603-654 339-415 (429)
125 COG5109 Uncharacterized conser 50.1 11 0.00023 41.3 2.2 45 606-650 337-384 (396)
126 KOG3113 Uncharacterized conser 48.6 16 0.00035 38.8 3.1 49 604-654 110-159 (293)
127 PF04710 Pellino: Pellino; In 48.1 6 0.00013 44.2 0.0 28 622-652 305-338 (416)
128 TIGR00622 ssl1 transcription f 47.3 20 0.00042 33.8 3.2 46 605-650 55-111 (112)
129 KOG2071 mRNA cleavage and poly 42.9 12 0.00027 43.6 1.5 36 603-638 511-556 (579)
130 PF05605 zf-Di19: Drought indu 42.0 12 0.00025 30.0 0.8 38 605-652 2-41 (54)
131 PF06906 DUF1272: Protein of u 41.7 42 0.0009 28.1 3.9 46 607-654 7-53 (57)
132 PF06844 DUF1244: Protein of u 40.9 16 0.00035 31.4 1.5 11 630-640 12-22 (68)
133 KOG2593 Transcription initiati 40.5 18 0.00039 41.0 2.2 44 600-655 123-166 (436)
134 PF07975 C1_4: TFIIH C1-like d 39.3 13 0.00027 30.4 0.6 42 608-649 2-50 (51)
135 KOG4185 Predicted E3 ubiquitin 39.1 6.1 0.00013 41.6 -1.6 48 604-651 206-265 (296)
136 KOG3799 Rab3 effector RIM1 and 39.1 12 0.00025 36.4 0.4 51 601-651 61-116 (169)
137 PLN02189 cellulose synthase 38.1 26 0.00056 43.7 3.2 50 604-653 33-87 (1040)
138 PLN02248 cellulose synthase-li 36.3 47 0.001 41.8 5.0 32 621-652 145-176 (1135)
139 KOG1924 RhoA GTPase effector D 36.2 1E+02 0.0022 37.8 7.4 10 388-397 521-530 (1102)
140 COG0068 HypF Hydrogenase matur 35.2 15 0.00033 43.9 0.6 48 604-651 100-182 (750)
141 PF04710 Pellino: Pellino; In 34.9 13 0.00028 41.7 0.0 50 604-653 327-401 (416)
142 PLN02436 cellulose synthase A 34.4 32 0.00069 43.1 3.2 50 604-653 35-89 (1094)
143 KOG1814 Predicted E3 ubiquitin 34.1 23 0.00049 40.0 1.7 37 603-639 366-405 (445)
144 PF00628 PHD: PHD-finger; Int 32.7 16 0.00035 28.3 0.3 44 607-650 1-50 (51)
145 KOG0956 PHD finger protein AF1 32.0 12 0.00026 44.5 -0.8 48 604-651 116-180 (900)
146 KOG3726 Uncharacterized conser 31.7 22 0.00047 42.4 1.1 44 605-651 654-698 (717)
147 PF14569 zf-UDP: Zinc-binding 31.6 50 0.0011 29.4 3.1 51 603-653 7-62 (80)
148 PF13717 zinc_ribbon_4: zinc-r 30.8 20 0.00043 26.9 0.4 25 607-631 4-36 (36)
149 KOG1729 FYVE finger containing 30.7 9.9 0.00021 41.0 -1.7 42 601-642 210-251 (288)
150 KOG2979 Protein involved in DN 30.6 27 0.00059 37.2 1.5 44 605-650 176-221 (262)
151 PLN02638 cellulose synthase A 28.0 54 0.0012 41.3 3.6 50 604-653 16-70 (1079)
152 PF02318 FYVE_2: FYVE-type zin 27.8 60 0.0013 30.2 3.1 46 604-650 53-102 (118)
153 smart00064 FYVE Protein presen 27.7 50 0.0011 27.2 2.4 38 603-640 8-46 (68)
154 PF01363 FYVE: FYVE zinc finge 27.6 21 0.00046 29.5 0.1 38 602-639 6-44 (69)
155 PF07191 zinc-ribbons_6: zinc- 27.5 4.2 9.1E-05 35.2 -4.1 40 606-653 2-41 (70)
156 KOG1245 Chromatin remodeling c 26.6 24 0.00053 45.5 0.4 54 599-652 1102-1159(1404)
157 COG5151 SSL1 RNA polymerase II 25.8 62 0.0013 35.6 3.2 53 599-651 356-419 (421)
158 PTZ00303 phosphatidylinositol 25.7 45 0.00097 40.6 2.3 34 606-639 461-500 (1374)
159 smart00132 LIM Zinc-binding do 24.7 70 0.0015 22.5 2.4 38 607-653 1-38 (39)
160 cd00065 FYVE FYVE domain; Zinc 24.3 50 0.0011 26.1 1.7 36 605-640 2-38 (57)
161 KOG3842 Adaptor protein Pellin 24.0 37 0.00081 37.2 1.2 29 621-652 317-351 (429)
162 PLN02400 cellulose synthase 24.0 48 0.0011 41.7 2.3 50 604-653 35-89 (1085)
163 PF13719 zinc_ribbon_5: zinc-r 23.8 30 0.00066 26.0 0.3 25 607-631 4-36 (37)
164 PF07649 C1_3: C1-like domain; 23.7 49 0.0011 23.5 1.4 29 607-635 2-30 (30)
165 PLN02915 cellulose synthase A 23.2 66 0.0014 40.4 3.2 51 603-653 13-68 (1044)
166 COG3492 Uncharacterized protei 23.1 46 0.00099 30.4 1.4 11 630-640 43-53 (104)
167 PF06750 DiS_P_DiS: Bacterial 22.1 88 0.0019 28.1 3.0 39 604-654 32-70 (92)
168 TIGR00143 hypF [NiFe] hydrogen 22.0 37 0.0008 41.0 0.7 49 604-652 67-150 (711)
169 PF10146 zf-C4H2: Zinc finger- 21.3 57 0.0012 34.2 1.9 22 630-651 196-217 (230)
170 KOG4323 Polycomb-like PHD Zn-f 20.8 32 0.00069 39.5 -0.1 46 605-651 168-224 (464)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.44 E-value=5.1e-14 Score=150.00 Aligned_cols=68 Identities=32% Similarity=0.837 Sum_probs=54.5
Q ss_pred HhhhhcccccccCCCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCC-CCCCCCCcCCCC
Q 006188 588 NRLKQQKYSISLGSQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNL-CPICKTTALSTS 656 (657)
Q Consensus 588 k~L~~~ky~~~~~~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~t-CPICRtsLl~tS 656 (657)
+.++...|....+.... ..|+||+|+|++++++++|||+|.||..||++||.+..+ ||+||+.+.+.+
T Consensus 213 ~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 213 KKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhCCcEEeccccccCCC-ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 44666666533222222 689999999999999999999999999999999997755 999999887653
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=99.35 E-value=2.5e-13 Score=103.99 Aligned_cols=44 Identities=55% Similarity=1.237 Sum_probs=40.4
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCC
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 649 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICR 649 (657)
++|+||+++|..++.+..++|||+||.+||.+|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 46999999999988899999999999999999999999999997
No 3
>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=99.14 E-value=2e-11 Score=103.78 Aligned_cols=50 Identities=38% Similarity=0.844 Sum_probs=39.1
Q ss_pred CCCCCCCccccccCCcCCC----------CceeEecCCChhcHHHHHHHHHcCCCCCCCC
Q 006188 600 GSQQEQEPCCICQEEYNDG----------EDTGILHCGHDFHTSCIKQWLMHKNLCPICK 649 (657)
Q Consensus 600 ~~~~~~e~C~IClEef~d~----------d~v~~LpCGHiFH~~CI~qWL~~k~tCPICR 649 (657)
.....++.|+||++.|.+. -.+...+|||.||..||.+||+.+.+||+||
T Consensus 14 ~~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 14 SWDIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp EESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred eecCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3344566799999999542 2345568999999999999999999999998
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=4.2e-11 Score=124.57 Aligned_cols=52 Identities=31% Similarity=0.899 Sum_probs=48.1
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM-HKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl~ 654 (657)
...-+|+|||++|...+.++.|||.|.||..||.+|+. .++.||+||+++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34478999999999999999999999999999999998 88999999999986
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.05 E-value=7.8e-11 Score=125.16 Aligned_cols=51 Identities=33% Similarity=0.912 Sum_probs=43.6
Q ss_pred CCCCCccccccCC-cCCCC---------ceeEecCCChhcHHHHHHHHHcCCCCCCCCCCc
Q 006188 602 QQEQEPCCICQEE-YNDGE---------DTGILHCGHDFHTSCIKQWLMHKNLCPICKTTA 652 (657)
Q Consensus 602 ~~~~e~C~IClEe-f~d~d---------~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsL 652 (657)
...+..|.||+++ |+.+. ...+|||||+||.+|++.|++++.+||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 4678899999999 44431 246899999999999999999999999999984
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.05 E-value=1.4e-10 Score=118.84 Aligned_cols=51 Identities=37% Similarity=0.864 Sum_probs=42.4
Q ss_pred CCCCccccccCCcCCCCc----ee-EecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGED----TG-ILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~----v~-~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
..+.+|+||++.+.+++. ++ .++|+|.||..||.+|++.+.+||+||+.+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 456899999999876531 23 3479999999999999999999999999765
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=5e-10 Score=116.27 Aligned_cols=51 Identities=29% Similarity=0.735 Sum_probs=46.4
Q ss_pred CCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCCC
Q 006188 602 QQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALST 655 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~t 655 (657)
.+....|.||+|...++. .+||||+||..||..|+..+..||+||....+.
T Consensus 236 ~~a~~kC~LCLe~~~~pS---aTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPS---ATPCGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCCCceEEEecCCCCCC---cCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 456688999999998888 999999999999999999999999999988764
No 8
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=1.3e-09 Score=106.61 Aligned_cols=54 Identities=28% Similarity=0.565 Sum_probs=45.0
Q ss_pred cCCCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 599 LGSQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 599 ~~~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
....+....|+|||+.+.+... ..++|||+||..||+.-++....||+|++.|.
T Consensus 125 ~~~~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 125 PLRKEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 3444556789999999977552 35799999999999999999999999998764
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.86 E-value=1.9e-09 Score=107.22 Aligned_cols=49 Identities=31% Similarity=0.735 Sum_probs=41.2
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHc----------------CCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH----------------KNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~----------------k~tCPICRtsLl~ 654 (657)
.++.+|+||++.++++. +++|||.||..||.+|+.. +..||+||+.+..
T Consensus 16 ~~~~~CpICld~~~dPV---vT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRDPV---VTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCCcE---EcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 35678999999998775 7899999999999999862 2469999998854
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=3e-09 Score=107.78 Aligned_cols=51 Identities=31% Similarity=0.662 Sum_probs=43.3
Q ss_pred CCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHc---CCCCCCCCCCcCCC
Q 006188 602 QQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH---KNLCPICKTTALST 655 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~---k~tCPICRtsLl~t 655 (657)
.....+|.||++.-++++ ++.|||+||.-||.+||.. +..||+||..+..+
T Consensus 44 ~~~~FdCNICLd~akdPV---vTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPV---VTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCCceeeeeeccccCCCE---EeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 455678999999988887 8899999999999999984 34599999987654
No 11
>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=98.78 E-value=5.7e-09 Score=77.28 Aligned_cols=44 Identities=48% Similarity=1.100 Sum_probs=36.3
Q ss_pred ccccccCCcCCCCceeEecCCChhcHHHHHHHHHc-CCCCCCCCCCc
Q 006188 607 PCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH-KNLCPICKTTA 652 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~-k~tCPICRtsL 652 (657)
.|+||++.+.. .+..++|||.||..|++.|++. ...||+||+.+
T Consensus 1 ~C~iC~~~~~~--~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 49999999833 3345569999999999999997 77899999864
No 12
>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=98.77 E-value=3.4e-09 Score=83.30 Aligned_cols=46 Identities=39% Similarity=0.808 Sum_probs=38.9
Q ss_pred CCccccccCCcCCCCceeEecCCCh-hcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHD-FHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHi-FH~~CI~qWL~~k~tCPICRtsLl 653 (657)
+..|.||++...+ +..+||||. ||..|+.+|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4679999988654 558899999 999999999999999999999875
No 13
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.74 E-value=3.9e-09 Score=79.07 Aligned_cols=39 Identities=38% Similarity=0.994 Sum_probs=33.3
Q ss_pred cccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCC
Q 006188 608 CCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPIC 648 (657)
Q Consensus 608 C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPIC 648 (657)
|+||++.+.++ +..++|||.||+.||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~~--~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999998874 2578999999999999999998899998
No 14
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=4.3e-09 Score=119.22 Aligned_cols=51 Identities=39% Similarity=0.948 Sum_probs=44.8
Q ss_pred CCCCccccccCCcCCCCc--eeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGED--TGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~--v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
..++.|+||+|++..+.. ..+|+|+|+||..|++.|++++.+||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 457899999999998644 568999999999999999999999999999443
No 15
>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=98.65 E-value=2.4e-08 Score=80.96 Aligned_cols=45 Identities=24% Similarity=0.440 Sum_probs=41.1
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
..|+||.+.+.++. .++|||+|++.||.+|++.+.+||+|++.+.
T Consensus 2 ~~Cpi~~~~~~~Pv---~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDPV---ILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCCE---ECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 46999999999875 7899999999999999999889999999874
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.62 E-value=3.1e-08 Score=76.23 Aligned_cols=44 Identities=34% Similarity=0.832 Sum_probs=38.3
Q ss_pred ccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 607 PCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
.|.||++.|.+.....+|+|||+||..||.++......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999955556778899999999999999866778999986
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.61 E-value=2.4e-08 Score=100.89 Aligned_cols=51 Identities=33% Similarity=0.763 Sum_probs=39.3
Q ss_pred CCCCccccccCCcCCC-----CceeEe-cCCChhcHHHHHHHHHcC------CCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDG-----EDTGIL-HCGHDFHTSCIKQWLMHK------NLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~-----d~v~~L-pCGHiFH~~CI~qWL~~k------~tCPICRtsLl 653 (657)
..+.+|.||+|...++ ...++| +|+|.||..||.+|.+.+ ..||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4568899999986432 123455 799999999999999853 35999998764
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.61 E-value=3e-08 Score=87.00 Aligned_cols=51 Identities=33% Similarity=0.873 Sum_probs=39.9
Q ss_pred CCCCccccccCCcCC--------CCc--eeEecCCChhcHHHHHHHHHc---CCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYND--------GED--TGILHCGHDFHTSCIKQWLMH---KNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d--------~d~--v~~LpCGHiFH~~CI~qWL~~---k~tCPICRtsLl 653 (657)
..++.|.||+..|.. +++ +..-.|+|.||..||.+||.. +..||+||+...
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 347889999999972 222 333479999999999999985 467999998754
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.60 E-value=1.9e-08 Score=77.19 Aligned_cols=38 Identities=37% Similarity=0.871 Sum_probs=30.5
Q ss_pred cccccCCcCCCCceeEecCCChhcHHHHHHHHHcC----CCCCCC
Q 006188 608 CCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHK----NLCPIC 648 (657)
Q Consensus 608 C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k----~tCPIC 648 (657)
|+||++.|+++. .|+|||.||+.||.+|++.. ..||+|
T Consensus 1 CpiC~~~~~~Pv---~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPV---SLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEE---E-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcc---ccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999999988 89999999999999999844 359998
No 20
>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=98.52 E-value=4.6e-08 Score=73.41 Aligned_cols=39 Identities=41% Similarity=1.083 Sum_probs=34.1
Q ss_pred cccccCCcCCCCceeEecCCChhcHHHHHHHHH--cCCCCCCC
Q 006188 608 CCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM--HKNLCPIC 648 (657)
Q Consensus 608 C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~--~k~tCPIC 648 (657)
|.||++.+.++. ..++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987765 5679999999999999999 55669998
No 21
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.52 E-value=5.8e-08 Score=106.15 Aligned_cols=49 Identities=24% Similarity=0.710 Sum_probs=43.7
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
+....|.||++.|..+. +++|||.||..||..|+..+..||+||..+..
T Consensus 24 e~~l~C~IC~d~~~~Pv---itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPV---LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhCcc---CCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 45678999999998876 78999999999999999988899999998753
No 22
>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=98.52 E-value=9.7e-08 Score=68.23 Aligned_cols=38 Identities=55% Similarity=1.249 Sum_probs=32.4
Q ss_pred cccccCCcCCCCceeEecCCChhcHHHHHHHHH-cCCCCCCC
Q 006188 608 CCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM-HKNLCPIC 648 (657)
Q Consensus 608 C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~-~k~tCPIC 648 (657)
|.||++... ....++|||.||..||+.|++ .+..||+|
T Consensus 1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 889988843 445889999999999999998 66779998
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.42 E-value=2.2e-07 Score=80.41 Aligned_cols=54 Identities=30% Similarity=0.714 Sum_probs=39.9
Q ss_pred CCCCCCCccccccCCcC-----------CCCceeE--ecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 600 GSQQEQEPCCICQEEYN-----------DGEDTGI--LHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 600 ~~~~~~e~C~IClEef~-----------d~d~v~~--LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
..+...+.|.||+..|. .+++..+ -.|.|.||.+||.+||..++.||+||++..
T Consensus 15 swdi~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 15 SWDIPIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecccccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 33444566777766654 3443333 379999999999999999999999998753
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=2.8e-07 Score=95.13 Aligned_cols=50 Identities=30% Similarity=0.681 Sum_probs=43.5
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHH-HHHcCCC-CCCCCCCcCCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQ-WLMHKNL-CPICKTTALST 655 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~q-WL~~k~t-CPICRtsLl~t 655 (657)
..+..|.||++....+. .++|||+||..||.. |-..+.. ||+||+...+.
T Consensus 213 ~~d~kC~lC~e~~~~ps---~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEPEVPS---CTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeecccCCcc---cccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 56788999999987777 999999999999999 9887776 99999987653
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=7.7e-07 Score=98.04 Aligned_cols=53 Identities=30% Similarity=0.741 Sum_probs=41.7
Q ss_pred CCCCCccccccCCcCC---CCc-----------eeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcCC
Q 006188 602 QQEQEPCCICQEEYND---GED-----------TGILHCGHDFHTSCIKQWLM-HKNLCPICKTTALS 654 (657)
Q Consensus 602 ~~~~e~C~IClEef~d---~d~-----------v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl~ 654 (657)
......|+|||.++.. +.+ ...+||.|+||..|+++|+. .|-.||+||..+++
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3456789999988752 111 23459999999999999999 66689999999875
No 26
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=4.4e-07 Score=81.93 Aligned_cols=55 Identities=29% Similarity=0.713 Sum_probs=41.9
Q ss_pred cccCCCCCCCccccccCCcCC------------CCceeEe--cCCChhcHHHHHHHHHcCCCCCCCCCC
Q 006188 597 ISLGSQQEQEPCCICQEEYND------------GEDTGIL--HCGHDFHTSCIKQWLMHKNLCPICKTT 651 (657)
Q Consensus 597 ~~~~~~~~~e~C~IClEef~d------------~d~v~~L--pCGHiFH~~CI~qWL~~k~tCPICRts 651 (657)
.....+...+.|+||+..+.+ .++.... .|.|.||..||.+||+.++.||+|.+.
T Consensus 38 AlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 38 ALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 445666778889998766532 2222222 799999999999999999999999875
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=6.3e-07 Score=99.48 Aligned_cols=47 Identities=34% Similarity=0.615 Sum_probs=39.8
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcC-----CCCCCCCCCcCC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHK-----NLCPICKTTALS 654 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k-----~tCPICRtsLl~ 654 (657)
+..|+||++....+. .+.|||+||..||.+++... ..||+|+..+..
T Consensus 186 ~~~CPICL~~~~~p~---~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV---RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCccc---ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 778999999987776 77799999999999998744 359999987754
No 28
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.16 E-value=6.2e-07 Score=95.14 Aligned_cols=47 Identities=36% Similarity=0.707 Sum_probs=43.0
Q ss_pred CCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
....|-||.|.|..+. ++||+|.||.-||+.+|..+..||.|+.++.
T Consensus 22 ~lLRC~IC~eyf~ip~---itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPM---ITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHhcCce---eccccchHHHHHHHHHhccCCCCCceecccc
Confidence 4467999999999988 8899999999999999999999999998764
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.16 E-value=1.3e-06 Score=67.64 Aligned_cols=38 Identities=34% Similarity=0.832 Sum_probs=22.6
Q ss_pred cccccCCcCCCC-ceeEecCCChhcHHHHHHHHHcC----CCCC
Q 006188 608 CCICQEEYNDGE-DTGILHCGHDFHTSCIKQWLMHK----NLCP 646 (657)
Q Consensus 608 C~IClEef~d~d-~v~~LpCGHiFH~~CI~qWL~~k----~tCP 646 (657)
|+||.| |.+.+ ....|+|||+||++||+++++.. ..||
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 86644 34578999999999999999843 3577
No 30
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.15 E-value=8.8e-07 Score=92.40 Aligned_cols=47 Identities=28% Similarity=0.670 Sum_probs=42.3
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCc
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTA 652 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsL 652 (657)
+....|-||.+.|..+. .++|||.||.-||+..|..+..||+||...
T Consensus 23 Ds~lrC~IC~~~i~ip~---~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 23 DSMLRCRICDCRISIPC---ETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred hhHHHhhhhhheeecce---ecccccchhHHHHHHHhcCCCCCccccccH
Confidence 34567999999998887 889999999999999999999999999854
No 31
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=7.6e-07 Score=76.51 Aligned_cols=54 Identities=33% Similarity=0.841 Sum_probs=41.0
Q ss_pred CCCCCCCccccccCCcCC--------CCceeEe--cCCChhcHHHHHHHHHc---CCCCCCCCCCcC
Q 006188 600 GSQQEQEPCCICQEEYND--------GEDTGIL--HCGHDFHTSCIKQWLMH---KNLCPICKTTAL 653 (657)
Q Consensus 600 ~~~~~~e~C~IClEef~d--------~d~v~~L--pCGHiFH~~CI~qWL~~---k~tCPICRtsLl 653 (657)
.....++.|-||+-.|.. +++.-++ .|.|.||..||.+|+.. +..||+||++..
T Consensus 15 tW~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 15 TWDAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred EEcCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 445667799999999862 3333233 79999999999999984 456999998753
No 32
>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=98.10 E-value=1.3e-06 Score=74.24 Aligned_cols=47 Identities=28% Similarity=0.446 Sum_probs=38.0
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHc-CCCCCCCCCCcCC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH-KNLCPICKTTALS 654 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~-k~tCPICRtsLl~ 654 (657)
...|+||.+-|.++. +++|||+|.+.||.+||+. ..+||+|+..+..
T Consensus 4 ~f~CpIt~~lM~dPV---i~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGELMRDPV---ILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSSB-SSEE---EETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred ccCCcCcCcHhhCce---eCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 467999999999988 8999999999999999998 8899999987754
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=8.1e-07 Score=91.93 Aligned_cols=52 Identities=31% Similarity=0.753 Sum_probs=42.9
Q ss_pred CCCCCccccccCCcCCCC-------ceeEecCCChhcHHHHHHHHH--cCCCCCCCCCCcC
Q 006188 602 QQEQEPCCICQEEYNDGE-------DTGILHCGHDFHTSCIKQWLM--HKNLCPICKTTAL 653 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d-------~v~~LpCGHiFH~~CI~qWL~--~k~tCPICRtsLl 653 (657)
..++..|+||-..+...+ +.-.|.|+|+||+.||+.|.. .|.+||.||+.+.
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 346778999988886555 466789999999999999975 6778999998764
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.4e-06 Score=85.92 Aligned_cols=45 Identities=33% Similarity=0.812 Sum_probs=39.9
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
.+...|+||++.|..+ .+++|||.||..||..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 4667899999999999 48899999999999999985567999993
No 35
>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=97.98 E-value=7.1e-06 Score=65.09 Aligned_cols=42 Identities=31% Similarity=0.820 Sum_probs=33.0
Q ss_pred ccccccCCcCCCCceeEecCC-----ChhcHHHHHHHHHcC--CCCCCCC
Q 006188 607 PCCICQEEYNDGEDTGILHCG-----HDFHTSCIKQWLMHK--NLCPICK 649 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCG-----HiFH~~CI~qWL~~k--~tCPICR 649 (657)
.|.||++ +.++++..++||. |.||..|+++|+..+ .+||+|+
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 4999998 4444455577886 889999999999754 4799996
No 36
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.86 E-value=3.5e-06 Score=98.22 Aligned_cols=51 Identities=25% Similarity=0.757 Sum_probs=39.3
Q ss_pred CCCCccccccCCcCCCC----ceeEecCCChhcHHHHHHHHHc--CCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGE----DTGILHCGHDFHTSCIKQWLMH--KNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d----~v~~LpCGHiFH~~CI~qWL~~--k~tCPICRtsLl 653 (657)
...++|+||+..+.--+ .-++-.|.|.||..|+.+|++. ..+||+||.++.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 56789999987765111 1235579999999999999994 567999998764
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.81 E-value=3.8e-06 Score=71.23 Aligned_cols=50 Identities=28% Similarity=0.651 Sum_probs=24.1
Q ss_pred CCccccccCCcCCCC-c--eeEe--cCCChhcHHHHHHHHHc--C---------CCCCCCCCCcCC
Q 006188 605 QEPCCICQEEYNDGE-D--TGIL--HCGHDFHTSCIKQWLMH--K---------NLCPICKTTALS 654 (657)
Q Consensus 605 ~e~C~IClEef~d~d-~--v~~L--pCGHiFH~~CI~qWL~~--k---------~tCPICRtsLl~ 654 (657)
+.+|.||+..+.+.+ . +..- .|++.||..||.+||.. + ..||.|+++|.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 467999999876333 2 2222 69999999999999972 1 139999998753
No 38
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=2.6e-05 Score=83.73 Aligned_cols=49 Identities=31% Similarity=0.674 Sum_probs=41.7
Q ss_pred CCCCccccccCCcCCCCceeEecCCCh-hcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHD-FHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHi-FH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
+..++|.|||.+-++.. +|||-|. .|..|.+..--+.+.||+||+.+..
T Consensus 288 ~~gkeCVIClse~rdt~---vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTV---VLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceE---EecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 44689999998876655 9999999 8999999877788999999998754
No 39
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.57 E-value=2.4e-05 Score=82.26 Aligned_cols=56 Identities=20% Similarity=0.607 Sum_probs=46.0
Q ss_pred CCCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHH-----------------------cCCCCCCCCCCcCCC
Q 006188 600 GSQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM-----------------------HKNLCPICKTTALST 655 (657)
Q Consensus 600 ~~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~-----------------------~k~tCPICRtsLl~t 655 (657)
+.......|.||+.-|.+++...+++|-|.||..|+.++|. .+..||+||..|..+
T Consensus 110 ~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 110 ENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred cCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 44456678999999999999999999999999999998872 123499999988654
No 40
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.57 E-value=2.4e-05 Score=90.59 Aligned_cols=48 Identities=27% Similarity=0.708 Sum_probs=39.9
Q ss_pred CCCccccccCCcCCCCceeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcCC
Q 006188 604 EQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM-HKNLCPICKTTALS 654 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl~ 654 (657)
....|++|-..+++.. ++.|+|+||..||..-+. ++..||.|.+.+-+
T Consensus 642 ~~LkCs~Cn~R~Kd~v---I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAV---ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhhHH---HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 4568999986665554 889999999999999998 67889999987643
No 41
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.53 E-value=1.6e-05 Score=91.61 Aligned_cols=52 Identities=21% Similarity=0.461 Sum_probs=45.2
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.....|+||+..+.+.......+|+|+||..||..|-+.-.+||+||+.+..
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 3457899999999887766667899999999999999999999999997754
No 42
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=3.4e-05 Score=62.78 Aligned_cols=46 Identities=28% Similarity=0.631 Sum_probs=37.3
Q ss_pred CCccccccCCcCCCCceeEecCCCh-hcHHHHHHHHH-cCCCCCCCCCCcC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHD-FHTSCIKQWLM-HKNLCPICKTTAL 653 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHi-FH~~CI~qWL~-~k~tCPICRtsLl 653 (657)
..+|.||+|.-.+.. +..|||. .|.+|-.+.++ .+..||+||+++.
T Consensus 7 ~dECTICye~pvdsV---lYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSV---LYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHH---HHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 478999987765544 6689998 79999877776 7889999999864
No 43
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=7e-05 Score=81.00 Aligned_cols=50 Identities=34% Similarity=0.921 Sum_probs=39.1
Q ss_pred CCCCccccccCCcCCCC----ceeEe-cCCChhcHHHHHHHHH--c-----CCCCCCCCCCc
Q 006188 603 QEQEPCCICQEEYNDGE----DTGIL-HCGHDFHTSCIKQWLM--H-----KNLCPICKTTA 652 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d----~v~~L-pCGHiFH~~CI~qWL~--~-----k~tCPICRtsL 652 (657)
..++.|.||++...+.. ..++| +|.|.||..||.+|-. + ...||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 46788999999976654 23445 5999999999999984 3 36799999864
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=2.9e-05 Score=83.23 Aligned_cols=50 Identities=30% Similarity=0.507 Sum_probs=39.8
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM-HKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl~ 654 (657)
..+..|.||++-++... ....|+|.||.+||.+-|+ ..+.||.||+.+..
T Consensus 41 ~~~v~c~icl~llk~tm--ttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTM--TTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhccHHHHHHHHhhc--ccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 34567999999886644 2336999999999999988 46789999998753
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.30 E-value=4.2e-05 Score=64.15 Aligned_cols=45 Identities=31% Similarity=0.671 Sum_probs=24.1
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
...|.+|.+.++++. ....|.|+||..||.+-+. ..||+|++++-
T Consensus 7 lLrCs~C~~~l~~pv--~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw 51 (65)
T PF14835_consen 7 LLRCSICFDILKEPV--CLGGCEHIFCSSCIRDCIG--SECPVCHTPAW 51 (65)
T ss_dssp TTS-SSS-S--SS-B-----SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred hcCCcHHHHHhcCCc--eeccCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence 356999999998886 2348999999999988554 34999999863
No 46
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.00024 Score=78.33 Aligned_cols=49 Identities=24% Similarity=0.764 Sum_probs=43.7
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
..+..|.||+..+..+. .++|||.||..||.+-+.....||+||..+..
T Consensus 82 ~sef~c~vc~~~l~~pv---~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPV---VTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCc---cccccccccHHHHHHHhccCCCCccccccccc
Confidence 56778999999998887 78999999999999988888889999998763
No 47
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.06 E-value=0.00022 Score=78.54 Aligned_cols=50 Identities=28% Similarity=0.783 Sum_probs=39.4
Q ss_pred CCCCccccccCCcCCCCc-eeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGED-TGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~-v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.+.-+|+||+|.+..... +....|.|.||..|+.+|. ..+||+||....+
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~p 223 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQSP 223 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcCc
Confidence 345689999999876553 3344799999999999995 5679999987663
No 48
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.02 E-value=0.00026 Score=77.05 Aligned_cols=46 Identities=37% Similarity=0.814 Sum_probs=37.7
Q ss_pred ccccccCCcCCCCceeEecCCChhcHHHHHHHHH--cCCCCCCCCCCcCCC
Q 006188 607 PCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM--HKNLCPICKTTALST 655 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~--~k~tCPICRtsLl~t 655 (657)
.|-||-|. ..++.+-||||..|..|+..|-. ...+||.||.+|.-+
T Consensus 371 LCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 371 LCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 59999765 44566889999999999999985 367899999988654
No 49
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.90 E-value=0.00024 Score=75.79 Aligned_cols=49 Identities=29% Similarity=0.634 Sum_probs=42.1
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
.....|.+|...|.+.. .+..|-|.||+.||.+.|...+.||+|...+-
T Consensus 13 n~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred ccceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 45678999999998876 34579999999999999999999999987653
No 50
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.83 E-value=0.0007 Score=82.03 Aligned_cols=53 Identities=32% Similarity=0.619 Sum_probs=41.7
Q ss_pred CCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCC----------CCCCCCCCcC
Q 006188 601 SQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKN----------LCPICKTTAL 653 (657)
Q Consensus 601 ~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~----------tCPICRtsLl 653 (657)
..+.++-|.||..+--.......|.|+|+||..|.+..|++.- .||+|+.+|.
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3456788999987765555667889999999999999887542 3999998763
No 51
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.78 E-value=0.0011 Score=69.54 Aligned_cols=51 Identities=24% Similarity=0.478 Sum_probs=41.3
Q ss_pred CCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHc--CCCCCCCCCCcC
Q 006188 601 SQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH--KNLCPICKTTAL 653 (657)
Q Consensus 601 ~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~--k~tCPICRtsLl 653 (657)
....+.+|++|.+.-..+. ...+|+|+||+.||..-+.- ..+||.|..+..
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~--~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPH--VIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCCCCCe--eeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3456789999999877776 34579999999999987763 478999998876
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.73 E-value=0.00069 Score=74.66 Aligned_cols=50 Identities=28% Similarity=0.639 Sum_probs=44.0
Q ss_pred CCCCCccccccCCcCCCCceeE-ecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 602 QQEQEPCCICQEEYNDGEDTGI-LHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~-LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.+.+..|+||...+.++. . +.|||.||..||..|+..+..||.|+..+..
T Consensus 18 ~~~~l~C~~C~~vl~~p~---~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPV---QTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred CcccccCccccccccCCC---CCCCCCCcccccccchhhccCcCCcccccccch
Confidence 356688999999999987 4 5899999999999999999999999987654
No 53
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.71 E-value=0.0012 Score=71.15 Aligned_cols=49 Identities=33% Similarity=0.580 Sum_probs=41.4
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.++..|+||+.. +......||+|.-|+.||.+.|...+.|=.||+++.+
T Consensus 420 sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 567889999655 4444478999999999999999999999999998764
No 54
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.66 E-value=0.0007 Score=68.02 Aligned_cols=44 Identities=25% Similarity=0.690 Sum_probs=40.0
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCc
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTA 652 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsL 652 (657)
..|.||.++|+.+. ++.|||.||..|..+-++....|-+|-+..
T Consensus 197 F~C~iCKkdy~spv---vt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESPV---VTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccchh---hhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 47999999999988 889999999999999888889999998754
No 55
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.59 E-value=0.0009 Score=54.90 Aligned_cols=43 Identities=26% Similarity=0.564 Sum_probs=29.1
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHc--CCCCCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH--KNLCPI 647 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~--k~tCPI 647 (657)
.....|+|.+..|+++. ....|||+|-++.|.+||.. ...||+
T Consensus 9 ~~~~~CPiT~~~~~~PV--~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPV--KSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEE--EESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCc--CcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 44578999999999876 44589999999999999943 345999
No 56
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.57 E-value=0.0019 Score=72.44 Aligned_cols=51 Identities=24% Similarity=0.589 Sum_probs=40.1
Q ss_pred CCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHH-----cCCCCCCCCCCcCC
Q 006188 601 SQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM-----HKNLCPICKTTALS 654 (657)
Q Consensus 601 ~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~-----~k~tCPICRtsLl~ 654 (657)
.......|-+|.+.-++.. ...|.|.||+.||+.++. ..-+||+|-..+.-
T Consensus 532 enk~~~~C~lc~d~aed~i---~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDYI---ESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred cccCceeecccCChhhhhH---hhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 3455678999988866654 778999999999999986 34579999886643
No 57
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.45 E-value=0.0012 Score=69.89 Aligned_cols=47 Identities=21% Similarity=0.528 Sum_probs=41.8
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
...|-||...|..++ ++.|+|.||..|..+-++....|.+|-+.+..
T Consensus 241 Pf~c~icr~~f~~pV---vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPV---VTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Cccccccccccccch---hhcCCceeehhhhccccccCCcceeccccccc
Confidence 456999999999998 89999999999999999888999999886543
No 58
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.32 E-value=0.0016 Score=70.52 Aligned_cols=45 Identities=24% Similarity=0.640 Sum_probs=32.7
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
.....|.||+++.++-+ .+||||+-| |+.-- +.-..||+||..|.
T Consensus 303 ~~p~lcVVcl~e~~~~~---fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAV---FVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCcccee---eecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 34567999999987754 889999976 65443 23344999998763
No 59
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.31 E-value=0.0014 Score=71.35 Aligned_cols=47 Identities=30% Similarity=0.668 Sum_probs=38.7
Q ss_pred CCCccccccCCcCCC-CceeEecCCChhcHHHHHHHHHcC--CCCCCCCC
Q 006188 604 EQEPCCICQEEYNDG-EDTGILHCGHDFHTSCIKQWLMHK--NLCPICKT 650 (657)
Q Consensus 604 ~~e~C~IClEef~d~-d~v~~LpCGHiFH~~CI~qWL~~k--~tCPICRt 650 (657)
.+..|-.|=|.+... +.+..|||.|+||..|+...|+.+ .+||-||+
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 356799999888654 457788999999999999999854 46999994
No 60
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.25 E-value=0.0034 Score=73.89 Aligned_cols=44 Identities=23% Similarity=0.647 Sum_probs=35.4
Q ss_pred CCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCc
Q 006188 604 EQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTA 652 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsL 652 (657)
....|.+|--.+..|. +...|||.||.+|+. .....||-|+..+
T Consensus 839 q~skCs~C~~~LdlP~--VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPF--VHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccce--eeeecccHHHHHhhc---cCcccCCccchhh
Confidence 4568999988887765 456899999999998 4556799999743
No 61
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.20 E-value=0.0016 Score=68.81 Aligned_cols=41 Identities=39% Similarity=0.800 Sum_probs=32.0
Q ss_pred CCccccccCCcCCCCceeEecCCCh-hcHHHHHHHHHcCCCCCCCCCCc
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHD-FHTSCIKQWLMHKNLCPICKTTA 652 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHi-FH~~CI~qWL~~k~tCPICRtsL 652 (657)
...|.||++...+ ...|+|||. -|.+|-+. -+.|||||+.+
T Consensus 300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHH
Confidence 6789999877544 559999997 58888655 34899999865
No 62
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.94 E-value=0.006 Score=63.27 Aligned_cols=51 Identities=12% Similarity=0.345 Sum_probs=45.4
Q ss_pred CCCccccccCCcCCCCceeEe-cCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 604 EQEPCCICQEEYNDGEDTGIL-HCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~L-pCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
....|+||.+.+.+...+..| +|||+|+++|+++.+.....||+|-+++.+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 345799999999998888888 899999999999999999999999988754
No 63
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.90 E-value=0.0033 Score=74.36 Aligned_cols=38 Identities=24% Similarity=0.553 Sum_probs=29.7
Q ss_pred CCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHH
Q 006188 602 QQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM 640 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~ 640 (657)
.+..+.|.+|...+-... ..+.+|||.||++||.+-..
T Consensus 814 ~ep~d~C~~C~~~ll~~p-F~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKP-FYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcCc-ceeeeccchHHHHHHHHHHH
Confidence 356788999988875543 34569999999999998763
No 64
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.89 E-value=0.0071 Score=66.50 Aligned_cols=47 Identities=34% Similarity=0.602 Sum_probs=38.2
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcC--------CCCCCCCCC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHK--------NLCPICKTT 651 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k--------~tCPICRts 651 (657)
...|.||+++..-.+....+||+|+||+.|++.++... -.||-|+..
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 34699999998777878889999999999999998732 249877654
No 65
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.67 E-value=0.011 Score=57.72 Aligned_cols=49 Identities=24% Similarity=0.630 Sum_probs=36.0
Q ss_pred CCCCCCccccccCCcCCCCceeEecCCC-----hhcHHHHHHHHHcC--CCCCCCCCCcC
Q 006188 601 SQQEQEPCCICQEEYNDGEDTGILHCGH-----DFHTSCIKQWLMHK--NLCPICKTTAL 653 (657)
Q Consensus 601 ~~~~~e~C~IClEef~d~d~v~~LpCGH-----iFH~~CI~qWL~~k--~tCPICRtsLl 653 (657)
....+..|-||+++..+ . .-||.. ..|..|+++|+..+ ..|++|+++..
T Consensus 4 ~s~~~~~CRIC~~~~~~-~---~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 4 VSLMDKCCWICKDEYDV-V---TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred cCCCCCeeEecCCCCCC-c---cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 34567889999988532 2 346665 46999999999854 45999998753
No 66
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=95.40 E-value=0.0072 Score=57.66 Aligned_cols=37 Identities=22% Similarity=0.493 Sum_probs=29.5
Q ss_pred CCCccccccCCcCCCCceeEecCC------ChhcHHHHHHHHH
Q 006188 604 EQEPCCICQEEYNDGEDTGILHCG------HDFHTSCIKQWLM 640 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpCG------HiFH~~CI~qWL~ 640 (657)
...+|.||++.+.+.+-++.++|| |.||.+|+++|-.
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 356799999999884445666776 8899999999944
No 67
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.33 E-value=0.012 Score=63.52 Aligned_cols=51 Identities=25% Similarity=0.618 Sum_probs=39.9
Q ss_pred cCCCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHH--HHcCCCCCCCCCCc
Q 006188 599 LGSQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQW--LMHKNLCPICKTTA 652 (657)
Q Consensus 599 ~~~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qW--L~~k~tCPICRtsL 652 (657)
++.+++.+.|.||-+.+.- ..++||+|..|-.|..+. |-.++.||+||++-
T Consensus 55 ddtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 55 DDTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 4556677889999877543 447899999999998765 44788899999863
No 68
>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=95.28 E-value=0.007 Score=53.58 Aligned_cols=33 Identities=33% Similarity=0.746 Sum_probs=27.3
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHH
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIK 636 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~ 636 (657)
..+..|.||...+... .....||||+||..|++
T Consensus 76 ~~~~~C~vC~k~l~~~-~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNS-VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCc-eEEEeCCCeEEeccccc
Confidence 4567799999999774 46667999999999986
No 69
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.21 E-value=0.019 Score=58.95 Aligned_cols=52 Identities=25% Similarity=0.593 Sum_probs=41.7
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHc--------CCCCCCCCCCcCCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH--------KNLCPICKTTALST 655 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~--------k~tCPICRtsLl~t 655 (657)
+-.-.|.+|-..+..++ ...|-|-|+||.+|+..|-.. ...||.|..+|.+.
T Consensus 48 DY~pNC~LC~t~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCCceeCCccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 34567999999988887 446789999999999999763 23499999998764
No 70
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.80 E-value=0.029 Score=58.68 Aligned_cols=52 Identities=21% Similarity=0.462 Sum_probs=40.5
Q ss_pred CCCCCccccccCCcCCCCceeEe-cCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 602 QQEQEPCCICQEEYNDGEDTGIL-HCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~L-pCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
......|+|+..+|........+ +|||+|...||++. .....||+|-+++..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTE 162 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCcccc
Confidence 34567899999999665555555 99999999999997 234579999988653
No 71
>PHA03096 p28-like protein; Provisional
Probab=94.80 E-value=0.015 Score=61.76 Aligned_cols=45 Identities=33% Similarity=0.645 Sum_probs=32.8
Q ss_pred CccccccCCcCCC----CceeEe-cCCChhcHHHHHHHHHc---CCCCCCCCC
Q 006188 606 EPCCICQEEYNDG----EDTGIL-HCGHDFHTSCIKQWLMH---KNLCPICKT 650 (657)
Q Consensus 606 e~C~IClEef~d~----d~v~~L-pCGHiFH~~CI~qWL~~---k~tCPICRt 650 (657)
..|.||++..... ...+.| .|.|.||..||..|-.. +.+||.||.
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 6799999987643 234456 69999999999999863 334555553
No 72
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.68 E-value=0.022 Score=45.57 Aligned_cols=44 Identities=25% Similarity=0.690 Sum_probs=22.6
Q ss_pred cccccCCcCCCCceeEe--cCCChhcHHHHHHHHH-cCCCCCCCCCCc
Q 006188 608 CCICQEEYNDGEDTGIL--HCGHDFHTSCIKQWLM-HKNLCPICKTTA 652 (657)
Q Consensus 608 C~IClEef~d~d~v~~L--pCGHiFH~~CI~qWL~-~k~tCPICRtsL 652 (657)
|++|.+++...+ ...+ +||+.+|..|..+-++ ....||-||++.
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999994333 2334 6999999999988886 577899999864
No 73
>PHA02862 5L protein; Provisional
Probab=94.62 E-value=0.026 Score=54.55 Aligned_cols=47 Identities=26% Similarity=0.688 Sum_probs=32.2
Q ss_pred CCccccccCCcCCCCceeEecC---CChhcHHHHHHHHH--cCCCCCCCCCCcC
Q 006188 605 QEPCCICQEEYNDGEDTGILHC---GHDFHTSCIKQWLM--HKNLCPICKTTAL 653 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpC---GHiFH~~CI~qWL~--~k~tCPICRtsLl 653 (657)
.+.|-||+++-.+. +.--.| -...|.+|+.+|+. .+..|++|+++..
T Consensus 2 ~diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 45799999985332 110012 13589999999998 4557999998753
No 74
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.60 E-value=0.0093 Score=58.50 Aligned_cols=31 Identities=26% Similarity=0.651 Sum_probs=27.8
Q ss_pred CCCCCccccccCCcCCCCceeEecCCChhcH
Q 006188 602 QQEQEPCCICQEEYNDGEDTGILHCGHDFHT 632 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~LpCGHiFH~ 632 (657)
.++.-+|.||+|++..++.+..|||-.+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 3456789999999999999999999999996
No 75
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.50 E-value=0.018 Score=47.25 Aligned_cols=48 Identities=31% Similarity=0.643 Sum_probs=36.7
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALST 655 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~t 655 (657)
.....|..|...-..+. +++|||+.|..|..- ++-+-||+|-+++...
T Consensus 5 ~~~~~~~~~~~~~~~~~---~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 5 QPEQPCVFCGFVGTKGT---VLPCGHLICDNCFPG--ERYNGCPFCGTPFEFD 52 (55)
T ss_pred ccceeEEEccccccccc---cccccceeeccccCh--hhccCCCCCCCcccCC
Confidence 34567888866654544 889999999999654 5778899999998764
No 76
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.24 E-value=0.028 Score=59.79 Aligned_cols=42 Identities=29% Similarity=0.630 Sum_probs=35.4
Q ss_pred CccccccCCcCCCCceeEe-cCCChhcHHHHHHHHH-cCCCCCCCCC
Q 006188 606 EPCCICQEEYNDGEDTGIL-HCGHDFHTSCIKQWLM-HKNLCPICKT 650 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~L-pCGHiFH~~CI~qWL~-~k~tCPICRt 650 (657)
..|+.|..-+..+. .+ -|+|.||.+||..-|. ....||.|.+
T Consensus 275 LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCccc
Confidence 67999988888877 55 5999999999998776 5678999976
No 77
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.19 E-value=0.024 Score=44.74 Aligned_cols=40 Identities=35% Similarity=0.816 Sum_probs=26.7
Q ss_pred cccccCCcCCCCceeEecCCC-----hhcHHHHHHHHH--cCCCCCCC
Q 006188 608 CCICQEEYNDGEDTGILHCGH-----DFHTSCIKQWLM--HKNLCPIC 648 (657)
Q Consensus 608 C~IClEef~d~d~v~~LpCGH-----iFH~~CI~qWL~--~k~tCPIC 648 (657)
|-||++.-.+.. .-+.||.- ..|..|+++|+. .+..|++|
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 789998876655 23457664 579999999998 44569988
No 78
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.16 E-value=0.0029 Score=69.03 Aligned_cols=50 Identities=24% Similarity=0.548 Sum_probs=43.8
Q ss_pred CCCccccccCCcCCC-CceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYNDG-EDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d~-d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
....|+||.+.|+.. +.+..+-|||.+|.+||.+||..+..||.|+.++.
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 356899999999876 55667789999999999999999999999999875
No 79
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.09 E-value=0.04 Score=65.22 Aligned_cols=49 Identities=31% Similarity=0.720 Sum_probs=36.2
Q ss_pred CCCccccccCCcCCCCceeE-ecCCChhcHHHHHHHHHcCC-------CCCCCCCCc
Q 006188 604 EQEPCCICQEEYNDGEDTGI-LHCGHDFHTSCIKQWLMHKN-------LCPICKTTA 652 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~-LpCGHiFH~~CI~qWL~~k~-------tCPICRtsL 652 (657)
...+|.||++.+.....+.. ..|-|+||..||++|-.... .||.|....
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 34569999999887664332 25889999999999986311 299999543
No 80
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.06 E-value=0.022 Score=60.89 Aligned_cols=45 Identities=20% Similarity=0.521 Sum_probs=31.2
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
...|.-|--.+ ...-+..+|+|+||.+|..- ...+.||.|-..++
T Consensus 90 VHfCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 90 VHFCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred eEeecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 45677774333 33334569999999999754 45678999987654
No 81
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.72 E-value=0.044 Score=54.65 Aligned_cols=53 Identities=30% Similarity=0.700 Sum_probs=36.8
Q ss_pred CCCCccccccCCcCCCCc----eeEecCCChhcHHHHHHHHHc-----C------CCCCCCCCCcCCC
Q 006188 603 QEQEPCCICQEEYNDGED----TGILHCGHDFHTSCIKQWLMH-----K------NLCPICKTTALST 655 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~----v~~LpCGHiFH~~CI~qWL~~-----k------~tCPICRtsLl~t 655 (657)
+....|-||+..--++.. .--..||.-||.-|+..||+. + ..||.|-+++.-.
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 344568888766544432 112379999999999999972 1 1399999987543
No 82
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.56 E-value=0.029 Score=66.03 Aligned_cols=43 Identities=33% Similarity=0.794 Sum_probs=35.0
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHHcC--CCCCCCCCCc
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHK--NLCPICKTTA 652 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k--~tCPICRtsL 652 (657)
..|.||++ .+...++.|+|.||..|+.+-+... ..||+||..+
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 78999998 3444588999999999999988743 3599999755
No 83
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.39 E-value=0.053 Score=63.90 Aligned_cols=50 Identities=22% Similarity=0.625 Sum_probs=37.5
Q ss_pred CCCCccccccCCcCCCCceeEecCCCh-----hcHHHHHHHHHc--CCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHD-----FHTSCIKQWLMH--KNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHi-----FH~~CI~qWL~~--k~tCPICRtsLl 653 (657)
++++.|.||..+=..++.+ .-||++. .|++|+.+|+.. +..|-+|+.++.
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 4558899999886665521 2378754 899999999994 456999998754
No 84
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.38 E-value=0.073 Score=57.41 Aligned_cols=49 Identities=20% Similarity=0.463 Sum_probs=40.3
Q ss_pred CCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCc
Q 006188 602 QQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTA 652 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsL 652 (657)
..+...|+||+....++. .+..-|-+||+.||.+.+...+.||+-..++
T Consensus 297 ~~~~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CCccccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 345678999999888776 2335799999999999999999999977654
No 85
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.35 E-value=0.1 Score=56.44 Aligned_cols=53 Identities=19% Similarity=0.392 Sum_probs=36.8
Q ss_pred CCCCccccccCCcCCCCc-eeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcCCC
Q 006188 603 QEQEPCCICQEEYNDGED-TGILHCGHDFHTSCIKQWLM-HKNLCPICKTTALST 655 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~-v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl~t 655 (657)
++++-|++|+|++...++ ..-.+||-..|.-|...--+ ....||.||+...++
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 344459999999987663 22347998888888655333 456799999876543
No 86
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=92.06 E-value=0.057 Score=57.25 Aligned_cols=46 Identities=35% Similarity=0.798 Sum_probs=38.6
Q ss_pred CCccccccCCcCCCC-ceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 605 QEPCCICQEEYNDGE-DTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 605 ~e~C~IClEef~d~d-~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
...|+||.+.+.... .+..++|||..|..|........-.||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 344999999977655 4567899999999999998887788999998
No 87
>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=92.05 E-value=0.063 Score=42.90 Aligned_cols=43 Identities=23% Similarity=0.685 Sum_probs=26.5
Q ss_pred ccccccCCcCCCCceeEecCC-ChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 607 PCCICQEEYNDGEDTGILHCG-HDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCG-HiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.|--|. |.+.. ...|. |..|..|+...|.....||+|++++++
T Consensus 4 nCKsCW--f~~k~---Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCW--FANKG---LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS---S--SS---EEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhh--hcCCC---eeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 455565 33444 66786 999999999999999999999999875
No 88
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=91.43 E-value=0.061 Score=66.24 Aligned_cols=43 Identities=37% Similarity=0.852 Sum_probs=38.0
Q ss_pred CCccccccCCcC-CCCceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 605 QEPCCICQEEYN-DGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 605 ~e~C~IClEef~-d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
...|.||++.+. .+. +..|||.||..|+..|+..+..||+|+.
T Consensus 1153 ~~~c~ic~dil~~~~~---I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGG---IAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHhcCC---eeeechhHhhhHHHHHHHHhccCcchhh
Confidence 447999999987 443 7789999999999999999999999984
No 89
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=90.84 E-value=0.32 Score=46.67 Aligned_cols=53 Identities=26% Similarity=0.493 Sum_probs=40.5
Q ss_pred CCCccccccCCcCCCCceeEe-cCCChhcHHHHHHHHH---cCCCCCCCCCCcCCCC
Q 006188 604 EQEPCCICQEEYNDGEDTGIL-HCGHDFHTSCIKQWLM---HKNLCPICKTTALSTS 656 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~L-pCGHiFH~~CI~qWL~---~k~tCPICRtsLl~tS 656 (657)
...+|.||.|...+..-+.-- -||-..|..|.-..++ ....||+||+.+..++
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 667899999987766522111 3999999999988877 4567999999987654
No 90
>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=90.12 E-value=0.13 Score=39.89 Aligned_cols=41 Identities=29% Similarity=0.814 Sum_probs=24.1
Q ss_pred cccccCCcCCCCceeEecCCChhcHHHHHHHHHcCC--CCCCC
Q 006188 608 CCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKN--LCPIC 648 (657)
Q Consensus 608 C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~--tCPIC 648 (657)
|.+|.+....+..-....|+=.+|..|++.++..+. .||.|
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 678888877776333335998999999999998655 69988
No 91
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.05 E-value=0.18 Score=54.12 Aligned_cols=45 Identities=24% Similarity=0.526 Sum_probs=36.6
Q ss_pred CCCCccccccCCcCCCCceeEecC--CChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHC--GHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpC--GHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.+..+|+||.+.+..+. ..| ||+-|..|-. +..+.||.||.++..
T Consensus 46 ~~lleCPvC~~~l~~Pi----~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPI----FQCDNGHLACSSCRT---KVSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCcccc----eecCCCcEehhhhhh---hhcccCCcccccccc
Confidence 45678999999998874 667 6999999965 467889999998763
No 92
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.21 E-value=0.43 Score=52.93 Aligned_cols=40 Identities=35% Similarity=0.696 Sum_probs=30.3
Q ss_pred CCCCccccccCCcCCC-CceeEecCCChhcHHHHHHHHHcC
Q 006188 603 QEQEPCCICQEEYNDG-EDTGILHCGHDFHTSCIKQWLMHK 642 (657)
Q Consensus 603 ~~~e~C~IClEef~d~-d~v~~LpCGHiFH~~CI~qWL~~k 642 (657)
...+.|.||..++... .....+.|+|.||.+|+++.++.+
T Consensus 144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 4567899999555444 333356899999999999999855
No 93
>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=88.92 E-value=0.19 Score=52.40 Aligned_cols=48 Identities=27% Similarity=0.603 Sum_probs=35.4
Q ss_pred CCCCccccccCCcCCCCceeEe--c-CCChhcHHHHHHHHHcC-CCCC--CCCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGIL--H-CGHDFHTSCIKQWLMHK-NLCP--ICKT 650 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~L--p-CGHiFH~~CI~qWL~~k-~tCP--ICRt 650 (657)
..+..|+||..+.--.-++.+| | |-|..|..|+++-|... ..|| -|.+
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 3466899999874433334444 5 99999999999999865 4699 6654
No 94
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.34 E-value=0.15 Score=59.05 Aligned_cols=43 Identities=26% Similarity=0.560 Sum_probs=31.5
Q ss_pred CCccccccCCcCCCC-ceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 605 QEPCCICQEEYNDGE-DTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 605 ~e~C~IClEef~d~d-~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
...|.||+..|.... ..+.|.|||+.|.+|+.... +.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence 356999988776543 34467899999999998754 55677 654
No 95
>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=88.23 E-value=0.72 Score=50.82 Aligned_cols=27 Identities=22% Similarity=0.827 Sum_probs=20.8
Q ss_pred CCChhcHHHHHHHHHcC-------------CCCCCCCCCc
Q 006188 626 CGHDFHTSCIKQWLMHK-------------NLCPICKTTA 652 (657)
Q Consensus 626 CGHiFH~~CI~qWL~~k-------------~tCPICRtsL 652 (657)
|.-..|.+|+-+|+..+ -.||+||+.+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 45667999999999622 2499999974
No 96
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.99 E-value=0.3 Score=51.02 Aligned_cols=49 Identities=31% Similarity=0.676 Sum_probs=36.0
Q ss_pred CCccccccCCcCCCCc-eeEecCC-----ChhcHHHHHHHHH--cCCCCCCCCCCcC
Q 006188 605 QEPCCICQEEYNDGED-TGILHCG-----HDFHTSCIKQWLM--HKNLCPICKTTAL 653 (657)
Q Consensus 605 ~e~C~IClEef~d~d~-v~~LpCG-----HiFH~~CI~qWL~--~k~tCPICRtsLl 653 (657)
+..|.||.++...... .-..+|. +..|+.|+.+|+. .+..|.+|.....
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 5789999998654332 2345766 4579999999998 4556999998654
No 97
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=87.52 E-value=0.15 Score=59.80 Aligned_cols=46 Identities=28% Similarity=0.689 Sum_probs=38.7
Q ss_pred CCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCC---CCCCCCCCc
Q 006188 604 EQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKN---LCPICKTTA 652 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~---tCPICRtsL 652 (657)
...+|.||.+.+.++. .+.|-|.||..|+..-|..++ .||+|+..+
T Consensus 20 k~lEc~ic~~~~~~p~---~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 20 KILECPICLEHVKEPS---LLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hhccCCceeEEeeccc---hhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 4567999999999885 789999999999998887655 599999654
No 98
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=87.21 E-value=0.35 Score=57.21 Aligned_cols=50 Identities=16% Similarity=0.270 Sum_probs=36.5
Q ss_pred CCCccccccCCcCCCCc-eeEec---CCChhcHHHHHHHHHc------CCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYNDGED-TGILH---CGHDFHTSCIKQWLMH------KNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~-v~~Lp---CGHiFH~~CI~qWL~~------k~tCPICRtsLl 653 (657)
+...|.||..++..+++ ..+++ |+|.||..||+.|+.+ +-.|++|...+.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 45678888888877443 33444 9999999999999862 224899987654
No 99
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.05 E-value=0.31 Score=51.22 Aligned_cols=54 Identities=28% Similarity=0.622 Sum_probs=36.0
Q ss_pred CCCCCCCccccccCCcCCCCce-eEecCC-----ChhcHHHHHHHHHcCC--------CCCCCCCCcC
Q 006188 600 GSQQEQEPCCICQEEYNDGEDT-GILHCG-----HDFHTSCIKQWLMHKN--------LCPICKTTAL 653 (657)
Q Consensus 600 ~~~~~~e~C~IClEef~d~d~v-~~LpCG-----HiFH~~CI~qWL~~k~--------tCPICRtsLl 653 (657)
+..+.+..|=||+..=++.-.- -+-||- |..|..||..|+..|. .||.|+++..
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 3445667788996653332211 112665 7799999999997554 3999998753
No 100
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.91 E-value=0.53 Score=52.07 Aligned_cols=49 Identities=22% Similarity=0.441 Sum_probs=39.3
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcC---CCCCCCCCCcC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHK---NLCPICKTTAL 653 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k---~tCPICRtsLl 653 (657)
...|+|=.+.-.+......|.|||+.+++-|.+..+.. ..||.|=....
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 34699988887777777889999999999999988743 57999966543
No 101
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=85.83 E-value=0.4 Score=56.61 Aligned_cols=26 Identities=38% Similarity=0.825 Sum_probs=23.6
Q ss_pred eEecCCChhcHHHHHHHHHcCCCCCC
Q 006188 622 GILHCGHDFHTSCIKQWLMHKNLCPI 647 (657)
Q Consensus 622 ~~LpCGHiFH~~CI~qWL~~k~tCPI 647 (657)
.+..|+|+.|..|.+.|++....||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 35689999999999999999999985
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.65 E-value=0.42 Score=48.82 Aligned_cols=39 Identities=28% Similarity=0.682 Sum_probs=29.0
Q ss_pred cccccCCcCCCCceeEecCCCh-hcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 608 CCICQEEYNDGEDTGILHCGHD-FHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 608 C~IClEef~d~d~v~~LpCGHi-FH~~CI~qWL~~k~tCPICRtsLl 653 (657)
|.+|-+. +..+..+||-|. +|..|-.. ..+||+|+....
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 8888554 455677899987 88889543 556999998654
No 103
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=84.05 E-value=0.77 Score=53.36 Aligned_cols=45 Identities=22% Similarity=0.617 Sum_probs=28.8
Q ss_pred CCCCccccccCC-----cCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 603 QEQEPCCICQEE-----YNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 603 ~~~e~C~IClEe-----f~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
.....|.||... |+.....++..|+++||.+|++. .+..||.|-+
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 345678888433 22222344568999999999655 3444999943
No 104
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=79.82 E-value=2.4 Score=34.87 Aligned_cols=44 Identities=30% Similarity=0.757 Sum_probs=32.6
Q ss_pred CCCccccccCCcCCCCceeEe-cCCChhcHHHHHHHHHcCCCCCC--CCCC
Q 006188 604 EQEPCCICQEEYNDGEDTGIL-HCGHDFHTSCIKQWLMHKNLCPI--CKTT 651 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~L-pCGHiFH~~CI~qWL~~k~tCPI--CRts 651 (657)
....|.+|-+.|++++++++- .||=.||+.|..+ ...|-+ |.+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 346799999999877765555 6999999999654 555655 5544
No 105
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.72 E-value=1.2 Score=47.62 Aligned_cols=27 Identities=26% Similarity=0.701 Sum_probs=22.0
Q ss_pred CCChhcHHHHHHHHH-------------cCCCCCCCCCCc
Q 006188 626 CGHDFHTSCIKQWLM-------------HKNLCPICKTTA 652 (657)
Q Consensus 626 CGHiFH~~CI~qWL~-------------~k~tCPICRtsL 652 (657)
|....|..|+-+|+. .+-+||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 677899999999984 344699999965
No 106
>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=78.00 E-value=2.4 Score=41.88 Aligned_cols=36 Identities=22% Similarity=0.420 Sum_probs=22.7
Q ss_pred CCccccccCCcCCCCceeEe---------cCCCh-hcHHHHHHHHH
Q 006188 605 QEPCCICQEEYNDGEDTGIL---------HCGHD-FHTSCIKQWLM 640 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~L---------pCGHi-FH~~CI~qWL~ 640 (657)
+..|+||||.-.+.+.+... -|+-. -|..|+++.-+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 56799999987666522111 13322 38899999764
No 107
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.09 E-value=1.5 Score=50.69 Aligned_cols=47 Identities=30% Similarity=0.879 Sum_probs=38.3
Q ss_pred CCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCCC
Q 006188 602 QQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALST 655 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~t 655 (657)
.+....|.||+++. ..+..+|. |..|+.+|+..+..||+|++.+..+
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKED 522 (543)
T ss_pred hcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcc
Confidence 34567899999998 34567888 8999999999999999998866543
No 108
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.47 E-value=2.4 Score=47.71 Aligned_cols=38 Identities=34% Similarity=0.689 Sum_probs=31.3
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHK 642 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k 642 (657)
.....|-||.+.+.. .+..+.|||.||..|+...|..+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 456789999999876 45677999999999999998743
No 109
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=72.44 E-value=3.1 Score=33.35 Aligned_cols=43 Identities=19% Similarity=0.334 Sum_probs=20.3
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHH---cCC--CCCCCCCC
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM---HKN--LCPICKTT 651 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~---~k~--tCPICRts 651 (657)
..|+|....+..+. +-..|.|.-|.+ ++.||+ .+. .||+|.++
T Consensus 3 L~CPls~~~i~~P~--Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPV--RGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEE--EETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCc--cCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 46888888877765 455899985432 344554 222 39999874
No 110
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=71.93 E-value=1.9 Score=45.74 Aligned_cols=48 Identities=21% Similarity=0.532 Sum_probs=35.5
Q ss_pred CccccccCCcCCCCceeEe----cCCChhcHHHHHHHHH---------cCCCCCCCCCCcC
Q 006188 606 EPCCICQEEYNDGEDTGIL----HCGHDFHTSCIKQWLM---------HKNLCPICKTTAL 653 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~L----pCGHiFH~~CI~qWL~---------~k~tCPICRtsLl 653 (657)
..|-||.+++.+.+..+.+ .|.-++|..|+-.-+. ....||.|++.+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 5799999999655544433 5999999999998443 2345999998654
No 111
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.33 E-value=2.6 Score=44.35 Aligned_cols=35 Identities=17% Similarity=0.311 Sum_probs=30.6
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHH
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM 640 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~ 640 (657)
..-+.|++|+..+.++. +.+=||+|+++||.+++.
T Consensus 41 K~FdcCsLtLqPc~dPv---it~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPV---ITPDGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccCCc---cCCCCeeeeHHHHHHHHH
Confidence 34467899999999998 899999999999999875
No 112
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.73 E-value=2.2 Score=45.67 Aligned_cols=37 Identities=22% Similarity=0.639 Sum_probs=30.5
Q ss_pred CCCccccccCCcCCCCceeEecC----CChhcHHHHHHHHHcCC
Q 006188 604 EQEPCCICQEEYNDGEDTGILHC----GHDFHTSCIKQWLMHKN 643 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpC----GHiFH~~CI~qWL~~k~ 643 (657)
.-..|.+|.|.+++.. ...| .|+||.-|-++-++.+.
T Consensus 267 apLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhhc
Confidence 3467999999999988 4445 69999999999998664
No 113
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.44 E-value=2 Score=51.30 Aligned_cols=46 Identities=26% Similarity=0.603 Sum_probs=33.7
Q ss_pred CCCccccccCCcCCC----CceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 604 EQEPCCICQEEYNDG----EDTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 604 ~~e~C~IClEef~d~----d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
.+..|.-|.+..... +.++.+.|||.||+.|+.--..+.+ |-.|--
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~ 832 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESG 832 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhc
Confidence 355799998876522 4577889999999999987766554 665543
No 114
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=67.50 E-value=3.7 Score=48.93 Aligned_cols=41 Identities=29% Similarity=0.645 Sum_probs=30.2
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCC
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPI 647 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPI 647 (657)
..|++|-..+ .+..+-+--|||.-|..|+++|+.....||.
T Consensus 780 ~~CtVC~~vi-~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVI-RGVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeeccee-eeeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 4688885443 3333334469999999999999998777766
No 115
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=67.27 E-value=6 Score=43.22 Aligned_cols=49 Identities=20% Similarity=0.326 Sum_probs=38.5
Q ss_pred CCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCC
Q 006188 603 QEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTT 651 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRts 651 (657)
.....|-.|.++.......++-.|+++||.+|=.---+.-..||-|...
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 3556699999998888877777999999999965444456679999754
No 116
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=66.11 E-value=7.2 Score=46.18 Aligned_cols=90 Identities=18% Similarity=0.282 Sum_probs=44.4
Q ss_pred CCCHHHHHHHHHHhCCCCC--CCCHHHHHHhhhhcc-cccccCCCCCCCccccccCCcCCCCceeEecCCChhcHHHHHH
Q 006188 561 NMSYEELLALEERIGNVST--GLTEETIKNRLKQQK-YSISLGSQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQ 637 (657)
Q Consensus 561 nmsyEeLLaLeErig~vst--gLsee~I~k~L~~~k-y~~~~~~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~q 637 (657)
-.+.+.|++..+.+..... ..+...+++.+.... +........-...|+||...+..+. +...|+|+=|.+-.
T Consensus 259 ~~t~~~llq~~~~~~~~~~~~~~s~~~~~~~l~~~~d~~i~tt~~~vSL~CPl~~~Rm~~P~--r~~~CkHlQcFD~~-- 334 (636)
T KOG2169|consen 259 GLTSKDLLQRLKQNGKINRNLSQSDALIKKKLTAGPDSEIATTSLRVSLNCPLSKMRMSLPA--RGHTCKHLQCFDAL-- 334 (636)
T ss_pred ccCHHHHHHHHhccCCccCchhHhHHHhhcccccCCcccceeccceeEecCCcccceeecCC--cccccccceecchh--
Confidence 4567777777665544433 222222222111100 0111122233457998876665544 34567776555543
Q ss_pred HHH--c--CC--CCCCCCCCcCC
Q 006188 638 WLM--H--KN--LCPICKTTALS 654 (657)
Q Consensus 638 WL~--~--k~--tCPICRtsLl~ 654 (657)
|+- + +. .||+|.+.+.-
T Consensus 335 ~~lq~n~~~pTW~CPVC~~~~~~ 357 (636)
T KOG2169|consen 335 SYLQMNEQKPTWRCPVCQKAAPF 357 (636)
T ss_pred hhHHhccCCCeeeCccCCccccc
Confidence 332 2 22 29999997754
No 117
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.04 E-value=4.2 Score=45.24 Aligned_cols=45 Identities=27% Similarity=0.569 Sum_probs=31.8
Q ss_pred CCccccccCCcCCCCceeEe--cCCChhcHHHHHHHHHcCCCCCCCC
Q 006188 605 QEPCCICQEEYNDGEDTGIL--HCGHDFHTSCIKQWLMHKNLCPICK 649 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~L--pCGHiFH~~CI~qWL~~k~tCPICR 649 (657)
-..|++|.-.++.......+ .|||.||+.|...|......|..|-
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence 45688887766544422222 4999999999999988888775543
No 118
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=60.78 E-value=3.9 Score=42.25 Aligned_cols=44 Identities=25% Similarity=0.718 Sum_probs=36.6
Q ss_pred CCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCC
Q 006188 604 EQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 649 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICR 649 (657)
....|.+|.+-...+. ++-.|+-.||..|+...+.....||.|.
T Consensus 180 nlk~Cn~Ch~LvIqg~--rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGI--RCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhheee--ccCcccchhhhHHHHHHhcccCcCCchh
Confidence 4568999988766654 4557999999999999999999999994
No 119
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=59.99 E-value=7.3 Score=42.54 Aligned_cols=50 Identities=22% Similarity=0.404 Sum_probs=37.6
Q ss_pred CCccccccCCcCCCCce-eEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 605 QEPCCICQEEYNDGEDT-GILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v-~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
...|+||.+.....+.. .-.+|++..|..|+..-......||.||+....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 36899999887443322 123688888888988888888899999987654
No 120
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=57.68 E-value=7.3 Score=39.57 Aligned_cols=43 Identities=30% Similarity=0.696 Sum_probs=29.3
Q ss_pred CCCCccccccCC-----cCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 603 QEQEPCCICQEE-----YNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 603 ~~~e~C~IClEe-----f~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
.....|-||..+ |......+.-.|+-+||+.|.. +..||-|.+
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 345679999753 2222233444799999999975 367999964
No 121
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=53.71 E-value=7.6 Score=35.15 Aligned_cols=40 Identities=25% Similarity=0.698 Sum_probs=31.3
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCCCC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALSTS 656 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~tS 656 (657)
...|.||-..... =||.||..|-.+ +..|.+|-+.+++++
T Consensus 44 ~~~C~~CK~~v~q--------~g~~YCq~CAYk----kGiCamCGKki~dtk 83 (90)
T PF10235_consen 44 SSKCKICKTKVHQ--------PGAKYCQTCAYK----KGICAMCGKKILDTK 83 (90)
T ss_pred Ccccccccccccc--------CCCccChhhhcc----cCcccccCCeecccc
Confidence 4579999665433 367899999755 889999999998875
No 122
>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 KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.83 E-value=4.3 Score=43.86 Aligned_cols=51 Identities=29% Similarity=0.510 Sum_probs=41.5
Q ss_pred CCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 601 SQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 601 ~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
...+...|-||+..+..++ ..--|.|.|+..|...|....+.||.|+..+-
T Consensus 101 ~~~~~~~~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 101 FQQDHDICYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred ccCCccceeeeeeeEEecc--cccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 3455678999999988776 12249999999999999999999999987653
No 124
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=50.54 E-value=14 Score=40.32 Aligned_cols=52 Identities=25% Similarity=0.541 Sum_probs=35.3
Q ss_pred CCCCccccccCCcCC---------------CC-ceeEecCCChhcHHHHHHHHHc---------CCCCCCCCCCcCC
Q 006188 603 QEQEPCCICQEEYND---------------GE-DTGILHCGHDFHTSCIKQWLMH---------KNLCPICKTTALS 654 (657)
Q Consensus 603 ~~~e~C~IClEef~d---------------~d-~v~~LpCGHiFH~~CI~qWL~~---------k~tCPICRtsLl~ 654 (657)
..+.+|++|+..-.- +. .....||||+--++-.+-|-+. +..||.|-+.+..
T Consensus 339 ~~~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 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 447789999875320 00 1223499999989999889752 2349999887653
No 125
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=50.06 E-value=11 Score=41.26 Aligned_cols=45 Identities=22% Similarity=0.440 Sum_probs=34.3
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHHc---CCCCCCCCC
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH---KNLCPICKT 650 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~---k~tCPICRt 650 (657)
..|++-.+.-.+......|.|||+.-++-+.+.-+. ...||.|=.
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 468887777666666678899999999999886553 345999954
No 126
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.56 E-value=16 Score=38.84 Aligned_cols=49 Identities=20% Similarity=0.371 Sum_probs=36.1
Q ss_pred CCCccccccCCcCCCCceeEe-cCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 604 EQEPCCICQEEYNDGEDTGIL-HCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~L-pCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
....|+|---+|........+ .|||+|-..-+++. ....|++|...+..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~ 159 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQE 159 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccc
Confidence 345798877777665544444 89999999988873 36679999987654
No 127
>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=48.06 E-value=6 Score=44.21 Aligned_cols=28 Identities=29% Similarity=0.769 Sum_probs=0.0
Q ss_pred eEecCCChhcHHHHHHHHH------cCCCCCCCCCCc
Q 006188 622 GILHCGHDFHTSCIKQWLM------HKNLCPICKTTA 652 (657)
Q Consensus 622 ~~LpCGHiFH~~CI~qWL~------~k~tCPICRtsL 652 (657)
.-|.|||++..+ .|-. ...+||+||+.-
T Consensus 305 VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 305 VYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp -------------------------------------
T ss_pred eeccccceeeec---ccccccccccccccCCCccccC
Confidence 467899998754 5653 245699999853
No 128
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.28 E-value=20 Score=33.77 Aligned_cols=46 Identities=20% Similarity=0.303 Sum_probs=35.5
Q ss_pred CCccccccCCcCCCC-----------ceeEecCCChhcHHHHHHHHHcCCCCCCCCC
Q 006188 605 QEPCCICQEEYNDGE-----------DTGILHCGHDFHTSCIKQWLMHKNLCPICKT 650 (657)
Q Consensus 605 ~e~C~IClEef~d~d-----------~v~~LpCGHiFH~~CI~qWL~~k~tCPICRt 650 (657)
...|--|+..|.+.. ......|++.||.+|=.-+-+.-+.||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 456999999886531 1234579999999998888888888999974
No 129
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=42.89 E-value=12 Score=43.62 Aligned_cols=36 Identities=36% Similarity=0.699 Sum_probs=25.8
Q ss_pred CCCCccccccCCcCCC----C------ceeEecCCChhcHHHHHHH
Q 006188 603 QEQEPCCICQEEYNDG----E------DTGILHCGHDFHTSCIKQW 638 (657)
Q Consensus 603 ~~~e~C~IClEef~d~----d------~v~~LpCGHiFH~~CI~qW 638 (657)
+....|.||.|.|+.- + +.+.+.=|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 6778999999999741 1 1223336899999998764
No 130
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=41.99 E-value=12 Score=30.05 Aligned_cols=38 Identities=18% Similarity=0.593 Sum_probs=21.6
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHc--CCCCCCCCCCc
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMH--KNLCPICKTTA 652 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~--k~tCPICRtsL 652 (657)
...|+.|-++|.... +...|.+.--.. .-.||+|.+.+
T Consensus 2 ~f~CP~C~~~~~~~~----------L~~H~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSESS----------LVEHCEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHHH----------HHHHHHhHCcCCCCCccCCCchhhh
Confidence 357999988554332 234444443332 34599998753
No 131
>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=41.72 E-value=42 Score=28.10 Aligned_cols=46 Identities=20% Similarity=0.514 Sum_probs=31.4
Q ss_pred ccccccCCcCCCC-ceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 607 PCCICQEEYNDGE-DTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 607 ~C~IClEef~d~d-~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.|-.|-.++.... +..+-.=...||.+|.+..| +..||-|.-.+..
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 4777777775544 22222222469999999976 8899999887754
No 132
>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=40.93 E-value=16 Score=31.36 Aligned_cols=11 Identities=27% Similarity=1.053 Sum_probs=8.5
Q ss_pred hcHHHHHHHHH
Q 006188 630 FHTSCIKQWLM 640 (657)
Q Consensus 630 FH~~CI~qWL~ 640 (657)
||+.|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 133
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=40.48 E-value=18 Score=40.97 Aligned_cols=44 Identities=16% Similarity=0.223 Sum_probs=26.9
Q ss_pred CCCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCCC
Q 006188 600 GSQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALST 655 (657)
Q Consensus 600 ~~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~t 655 (657)
........|++|...|..=+ ..||..-......|-.|...+..+
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Le------------a~~L~~~~~~~F~C~~C~gelveD 166 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLE------------ALQLLDNETGEFHCENCGGELVED 166 (436)
T ss_pred ccccccccCCccccchhhhH------------HHHhhcccCceEEEecCCCchhcc
Confidence 44556788999999987655 223322222334477777776654
No 134
>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=39.25 E-value=13 Score=30.38 Aligned_cols=42 Identities=26% Similarity=0.568 Sum_probs=21.1
Q ss_pred cccccCCcCCCCc-------eeEecCCChhcHHHHHHHHHcCCCCCCCC
Q 006188 608 CCICQEEYNDGED-------TGILHCGHDFHTSCIKQWLMHKNLCPICK 649 (657)
Q Consensus 608 C~IClEef~d~d~-------v~~LpCGHiFH~~CI~qWL~~k~tCPICR 649 (657)
|--|+..|..... .+.-.|++.||.+|=.=--+.-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 5567777766521 22337999999999433223456799884
No 135
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.08 E-value=6.1 Score=41.64 Aligned_cols=48 Identities=29% Similarity=0.668 Sum_probs=36.4
Q ss_pred CCCccccccCCcCCC-C--ceeEec--------CCChhcHHHHHHHHHcC-CCCCCCCCC
Q 006188 604 EQEPCCICQEEYNDG-E--DTGILH--------CGHDFHTSCIKQWLMHK-NLCPICKTT 651 (657)
Q Consensus 604 ~~e~C~IClEef~d~-d--~v~~Lp--------CGHiFH~~CI~qWL~~k-~tCPICRts 651 (657)
....|.||...|... . ..+++. |||..|..|+..-+... -.||.|+..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 346799999999833 2 223345 99999999999998755 479999864
No 136
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.07 E-value=12 Score=36.42 Aligned_cols=51 Identities=22% Similarity=0.604 Sum_probs=27.1
Q ss_pred CCCCCCccccccCC-cCCCCceeEecCCChhcHHHHHHHHHcCC----CCCCCCCC
Q 006188 601 SQQEQEPCCICQEE-YNDGEDTGILHCGHDFHTSCIKQWLMHKN----LCPICKTT 651 (657)
Q Consensus 601 ~~~~~e~C~IClEe-f~d~d~v~~LpCGHiFH~~CI~qWL~~k~----tCPICRts 651 (657)
...++..|-||+.. |.++.-..+.-|.-.||..|--+.-.+.+ .|-+|++.
T Consensus 61 Gv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred ccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 34567899999865 33332222222333455555544322322 28888864
No 137
>PLN02189 cellulose synthase
Probab=38.06 E-value=26 Score=43.73 Aligned_cols=50 Identities=24% Similarity=0.439 Sum_probs=34.4
Q ss_pred CCCccccccCCcCCC---Cc-eeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYNDG---ED-TGILHCGHDFHTSCIKQWLM-HKNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d~---d~-v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl 653 (657)
..+.|.||-++.... +. +.+-.|+--.|+.|.+-=-+ .+..||.||+...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 456899999997632 22 33336888899999854222 3456999999754
No 138
>PLN02248 cellulose synthase-like protein
Probab=36.26 E-value=47 Score=41.83 Aligned_cols=32 Identities=22% Similarity=0.464 Sum_probs=27.2
Q ss_pred eeEecCCChhcHHHHHHHHHcCCCCCCCCCCc
Q 006188 621 TGILHCGHDFHTSCIKQWLMHKNLCPICKTTA 652 (657)
Q Consensus 621 v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsL 652 (657)
+.-..|++..|++|...-++....||-||...
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 (1135)
T PLN02248 145 LLPCECGFKICRDCYIDAVKSGGICPGCKEPY 176 (1135)
T ss_pred CCcccccchhHHhHhhhhhhcCCCCCCCcccc
Confidence 33346888899999999999999999999876
No 139
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=36.19 E-value=1e+02 Score=37.77 Aligned_cols=10 Identities=10% Similarity=0.438 Sum_probs=4.2
Q ss_pred CCCCCCCCCC
Q 006188 388 ISTPGNVASS 397 (657)
Q Consensus 388 ~~~~g~~~s~ 397 (657)
+.+.+|+|..
T Consensus 521 ~~~~~~iP~P 530 (1102)
T KOG1924|consen 521 LPIDGGIPPP 530 (1102)
T ss_pred CCCCCCCCCC
Confidence 3334444443
No 140
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=35.16 E-value=15 Score=43.92 Aligned_cols=48 Identities=27% Similarity=0.548 Sum_probs=35.4
Q ss_pred CCCccccccCCcCCCCc-------eeEecCCChh--------------------cHHHHHHHHH--------cCCCCCCC
Q 006188 604 EQEPCCICQEEYNDGED-------TGILHCGHDF--------------------HTSCIKQWLM--------HKNLCPIC 648 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~-------v~~LpCGHiF--------------------H~~CI~qWL~--------~k~tCPIC 648 (657)
+...|.-|++++-++.. ..++.||-.| |..|-+++-. +-..||.|
T Consensus 100 D~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~C 179 (750)
T COG0068 100 DAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPKC 179 (750)
T ss_pred chhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCccc
Confidence 44679999999988875 3466788776 9999988754 22349999
Q ss_pred CCC
Q 006188 649 KTT 651 (657)
Q Consensus 649 Rts 651 (657)
.-.
T Consensus 180 GP~ 182 (750)
T COG0068 180 GPH 182 (750)
T ss_pred CCC
Confidence 753
No 141
>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=34.95 E-value=13 Score=41.73 Aligned_cols=50 Identities=22% Similarity=0.475 Sum_probs=0.0
Q ss_pred CCCccccccCCcCC--------------CC--ceeEecCCChhcHHHHHHHHHc---------CCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYND--------------GE--DTGILHCGHDFHTSCIKQWLMH---------KNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d--------------~d--~v~~LpCGHiFH~~CI~qWL~~---------k~tCPICRtsLl 653 (657)
...+|++|+..-.- .. ....-||||+-=.++.+-|-+. +..||.|-+.|.
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 36789999865321 11 1234499999999999999752 235999988775
No 142
>PLN02436 cellulose synthase A
Probab=34.40 E-value=32 Score=43.12 Aligned_cols=50 Identities=26% Similarity=0.498 Sum_probs=34.5
Q ss_pred CCCccccccCCcCC---CCc-eeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYND---GED-TGILHCGHDFHTSCIKQWLM-HKNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d---~d~-v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl 653 (657)
....|-||=++... ++. +.+-.|+--.|+.|.+-=-+ .+..||.||+...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 45689999999743 332 33336888899999854222 3456999999754
No 143
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.08 E-value=23 Score=40.02 Aligned_cols=37 Identities=19% Similarity=0.386 Sum_probs=27.5
Q ss_pred CCCCccccccCCcCCCC---ceeEecCCChhcHHHHHHHH
Q 006188 603 QEQEPCCICQEEYNDGE---DTGILHCGHDFHTSCIKQWL 639 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d---~v~~LpCGHiFH~~CI~qWL 639 (657)
.....|+-|.-.++..+ +...+.|+|.||.-|-.-..
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 45567999987776555 56677899999999976543
No 144
>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=32.68 E-value=16 Score=28.31 Aligned_cols=44 Identities=23% Similarity=0.554 Sum_probs=29.3
Q ss_pred ccccccCCcCCCCceeEecCCChhcHHHHHHHHH------cCCCCCCCCC
Q 006188 607 PCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLM------HKNLCPICKT 650 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~------~k~tCPICRt 650 (657)
.|.||.........+..-.|+-.||..|+..-.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3889988544444333447999999999876543 1234887753
No 145
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=31.99 E-value=12 Score=44.47 Aligned_cols=48 Identities=25% Similarity=0.553 Sum_probs=31.0
Q ss_pred CCCccccccCCcCCCC-c-eeEe-----cCCChhcHHHHHHHH----------HcCCCCCCCCCC
Q 006188 604 EQEPCCICQEEYNDGE-D-TGIL-----HCGHDFHTSCIKQWL----------MHKNLCPICKTT 651 (657)
Q Consensus 604 ~~e~C~IClEef~d~d-~-v~~L-----pCGHiFH~~CI~qWL----------~~k~tCPICRts 651 (657)
..+.|.||.|+-...+ . -.+| .|...||..|...-= ..-+.|-+|+..
T Consensus 116 fnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~H 180 (900)
T KOG0956|consen 116 FNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYH 180 (900)
T ss_pred hcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHH
Confidence 3578999998844322 1 1133 578889999987641 122359999864
No 146
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.68 E-value=22 Score=42.38 Aligned_cols=44 Identities=16% Similarity=0.407 Sum_probs=31.6
Q ss_pred CCccccccCCcC-CCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCC
Q 006188 605 QEPCCICQEEYN-DGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTT 651 (657)
Q Consensus 605 ~e~C~IClEef~-d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRts 651 (657)
.+.|.+|+..=. +.+..+.+.|+-.||..| |+.....||+|--.
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~~~ 698 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCGPD 698 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccCch
Confidence 467999976533 233345568999999999 66678889999643
No 147
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=31.61 E-value=50 Score=29.36 Aligned_cols=51 Identities=22% Similarity=0.465 Sum_probs=21.1
Q ss_pred CCCCccccccCCcCCCC--c--eeEecCCChhcHHHHHHHHHc-CCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGE--D--TGILHCGHDFHTSCIKQWLMH-KNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d--~--v~~LpCGHiFH~~CI~qWL~~-k~tCPICRtsLl 653 (657)
.....|-||=++....+ + +....|+--.|+.|..-=.+. ...||.||+...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 34578999998875433 1 233378888999998765553 456999998654
No 148
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=30.75 E-value=20 Score=26.90 Aligned_cols=25 Identities=32% Similarity=0.747 Sum_probs=17.2
Q ss_pred ccccccCCcCCCCc--------eeEecCCChhc
Q 006188 607 PCCICQEEYNDGED--------TGILHCGHDFH 631 (657)
Q Consensus 607 ~C~IClEef~d~d~--------v~~LpCGHiFH 631 (657)
.|+=|...|..+++ +....|+|+|+
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 58888888876553 44457888874
No 149
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=30.68 E-value=9.9 Score=40.97 Aligned_cols=42 Identities=29% Similarity=0.485 Sum_probs=32.6
Q ss_pred CCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcC
Q 006188 601 SQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHK 642 (657)
Q Consensus 601 ~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k 642 (657)
.......|.||+++|..+.....+.|--+||..|+..|+...
T Consensus 210 ~~k~~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 210 STKPIRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred CCCCceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 344455899999999875555567777799999999999743
No 150
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=30.61 E-value=27 Score=37.17 Aligned_cols=44 Identities=20% Similarity=0.286 Sum_probs=33.3
Q ss_pred CCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCC--CCCCCCC
Q 006188 605 QEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKN--LCPICKT 650 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~--tCPICRt 650 (657)
...|+|-...+..+. +...|||+|-++-|...+.... .||+=-.
T Consensus 176 s~rdPis~~~I~nPv--iSkkC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPV--ISKKCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred cccCchhhhhhhchh--hhcCcCcchhhhhHHHHhccCceeecccccC
Confidence 567998777777765 4458999999999999987643 4887443
No 151
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=28.00 E-value=54 Score=41.26 Aligned_cols=50 Identities=22% Similarity=0.408 Sum_probs=34.5
Q ss_pred CCCccccccCCcCCCCc----eeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYNDGED----TGILHCGHDFHTSCIKQWLM-HKNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~----v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl 653 (657)
....|-||=++....++ |.+-.|+-=.|+.|.+==-+ ....||.||+...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45689999998764332 44447888899999843222 3456999998754
No 152
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=27.77 E-value=60 Score=30.16 Aligned_cols=46 Identities=17% Similarity=0.457 Sum_probs=28.6
Q ss_pred CCCccccccCCcCCC--CceeEecCCChhcHHHHHHHHHcCC--CCCCCCC
Q 006188 604 EQEPCCICQEEYNDG--EDTGILHCGHDFHTSCIKQWLMHKN--LCPICKT 650 (657)
Q Consensus 604 ~~e~C~IClEef~d~--d~v~~LpCGHiFH~~CI~qWL~~k~--tCPICRt 650 (657)
.+..|.+|...|..- .......|+|.+|..|-.. ..... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 567899999887533 2345558999999999654 11111 2777754
No 153
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the 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=27.64 E-value=21 Score=29.53 Aligned_cols=38 Identities=24% Similarity=0.496 Sum_probs=19.3
Q ss_pred CCCCCccccccCCcCCCCc-eeEecCCChhcHHHHHHHH
Q 006188 602 QQEQEPCCICQEEYNDGED-TGILHCGHDFHTSCIKQWL 639 (657)
Q Consensus 602 ~~~~e~C~IClEef~d~d~-v~~LpCGHiFH~~CI~qWL 639 (657)
+.+...|.+|...|..-.. ...-.||++||..|....+
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3456789999999955331 1122799999999987554
No 155
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=27.51 E-value=4.2 Score=35.18 Aligned_cols=40 Identities=28% Similarity=0.565 Sum_probs=20.6
Q ss_pred CccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 606 EPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 606 e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
..|+.|..++.... +|.+|..|-.. +.....||-|..++.
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHH
Confidence 46899987754322 66677777554 345566898887763
No 156
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=26.63 E-value=24 Score=45.53 Aligned_cols=54 Identities=20% Similarity=0.463 Sum_probs=41.3
Q ss_pred cCCCCCCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCC----CCCCCCCCc
Q 006188 599 LGSQQEQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKN----LCPICKTTA 652 (657)
Q Consensus 599 ~~~~~~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~----tCPICRtsL 652 (657)
+........|-||.....+...+.+.-|--.||..|++.-+.... .||-|+..-
T Consensus 1102 w~~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1102 WDRSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hccccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 344556678999999988866566667889999999999887433 499999753
No 157
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=25.83 E-value=62 Score=35.55 Aligned_cols=53 Identities=17% Similarity=0.370 Sum_probs=36.6
Q ss_pred cCCCCCCCccccccCCcCCCC-----------ceeEecCCChhcHHHHHHHHHcCCCCCCCCCC
Q 006188 599 LGSQQEQEPCCICQEEYNDGE-----------DTGILHCGHDFHTSCIKQWLMHKNLCPICKTT 651 (657)
Q Consensus 599 ~~~~~~~e~C~IClEef~d~d-----------~v~~LpCGHiFH~~CI~qWL~~k~tCPICRts 651 (657)
+........|-.|+..|..+. ...+-.|+-.||.+|=.---+.-..|+-|..+
T Consensus 356 ~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~~ 419 (421)
T COG5151 356 EGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCELP 419 (421)
T ss_pred CCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcCC
Confidence 344455678999999886432 13334699999999965544566779999643
No 158
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=25.66 E-value=45 Score=40.58 Aligned_cols=34 Identities=18% Similarity=0.408 Sum_probs=24.9
Q ss_pred CccccccCCcCCCC------ceeEecCCChhcHHHHHHHH
Q 006188 606 EPCCICQEEYNDGE------DTGILHCGHDFHTSCIKQWL 639 (657)
Q Consensus 606 e~C~IClEef~d~d------~v~~LpCGHiFH~~CI~qWL 639 (657)
..|.+|...|..-. .--+-.||.+||..|-.+..
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 57999999995321 11244799999999987764
No 159
>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=24.68 E-value=70 Score=22.53 Aligned_cols=38 Identities=24% Similarity=0.513 Sum_probs=25.0
Q ss_pred ccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcC
Q 006188 607 PCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl 653 (657)
.|..|.+.+...+. ....=+..||..|. .|..|+..|.
T Consensus 1 ~C~~C~~~i~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGEL-VLRALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcE-EEEeCCccccccCC--------CCcccCCcCc
Confidence 37888888766532 22234678888774 5888887764
No 160
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=24.33 E-value=50 Score=26.10 Aligned_cols=36 Identities=17% Similarity=0.427 Sum_probs=26.3
Q ss_pred CCccccccCCcCCCC-ceeEecCCChhcHHHHHHHHH
Q 006188 605 QEPCCICQEEYNDGE-DTGILHCGHDFHTSCIKQWLM 640 (657)
Q Consensus 605 ~e~C~IClEef~d~d-~v~~LpCGHiFH~~CI~qWL~ 640 (657)
...|.+|...|..-. ....-.||++||..|......
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 356999988886543 122347999999999987765
No 161
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.04 E-value=37 Score=37.24 Aligned_cols=29 Identities=28% Similarity=0.733 Sum_probs=18.8
Q ss_pred eeEecCCChhcHHHHHHHHHcC------CCCCCCCCCc
Q 006188 621 TGILHCGHDFHTSCIKQWLMHK------NLCPICKTTA 652 (657)
Q Consensus 621 v~~LpCGHiFH~~CI~qWL~~k------~tCPICRtsL 652 (657)
..-|.|||+-.+ ..|=.+. ..||+||..-
T Consensus 317 ~vYl~CGHV~G~---H~WG~~e~~g~~~r~CPmC~~~g 351 (429)
T KOG3842|consen 317 WVYLNCGHVHGY---HNWGVRENTGQRERECPMCRVVG 351 (429)
T ss_pred eEEEeccccccc---cccccccccCcccCcCCeeeeec
Confidence 356899997432 2575433 3599999753
No 162
>PLN02400 cellulose synthase
Probab=24.00 E-value=48 Score=41.65 Aligned_cols=50 Identities=22% Similarity=0.428 Sum_probs=34.3
Q ss_pred CCCccccccCCcCCCCc----eeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcC
Q 006188 604 EQEPCCICQEEYNDGED----TGILHCGHDFHTSCIKQWLM-HKNLCPICKTTAL 653 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~----v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl 653 (657)
....|-||=++....++ +.+-.|+--.|+.|.+==-+ ....||.||+...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 45689999999764332 44447888899999842111 2346999999764
No 163
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=23.76 E-value=30 Score=25.96 Aligned_cols=25 Identities=32% Similarity=0.713 Sum_probs=17.1
Q ss_pred ccccccCCcCCCCc--------eeEecCCChhc
Q 006188 607 PCCICQEEYNDGED--------TGILHCGHDFH 631 (657)
Q Consensus 607 ~C~IClEef~d~d~--------v~~LpCGHiFH 631 (657)
.|+-|...|..+++ ++.-.|+|+|.
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 58888888876553 44446888774
No 164
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=23.68 E-value=49 Score=23.45 Aligned_cols=29 Identities=24% Similarity=0.535 Sum_probs=11.4
Q ss_pred ccccccCCcCCCCceeEecCCChhcHHHH
Q 006188 607 PCCICQEEYNDGEDTGILHCGHDFHTSCI 635 (657)
Q Consensus 607 ~C~IClEef~d~d~v~~LpCGHiFH~~CI 635 (657)
.|.+|.+............|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 58899888766344555689999999996
No 165
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=23.24 E-value=66 Score=40.36 Aligned_cols=51 Identities=24% Similarity=0.504 Sum_probs=35.7
Q ss_pred CCCCccccccCCcCCCCc----eeEecCCChhcHHHHHHHHH-cCCCCCCCCCCcC
Q 006188 603 QEQEPCCICQEEYNDGED----TGILHCGHDFHTSCIKQWLM-HKNLCPICKTTAL 653 (657)
Q Consensus 603 ~~~e~C~IClEef~d~d~----v~~LpCGHiFH~~CI~qWL~-~k~tCPICRtsLl 653 (657)
...+.|-||=++.....+ +.+-.|+--.|+.|.+-=.+ ....||.||+...
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 456789999998764331 34447888899999943222 3456999998754
No 166
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.14 E-value=46 Score=30.43 Aligned_cols=11 Identities=27% Similarity=1.029 Sum_probs=10.4
Q ss_pred hcHHHHHHHHH
Q 006188 630 FHTSCIKQWLM 640 (657)
Q Consensus 630 FH~~CI~qWL~ 640 (657)
||+.|+..|+.
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999996
No 167
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=22.15 E-value=88 Score=28.14 Aligned_cols=39 Identities=15% Similarity=0.393 Sum_probs=30.4
Q ss_pred CCCccccccCCcCCCCceeEecCCChhcHHHHHHHHHcCCCCCCCCCCcCC
Q 006188 604 EQEPCCICQEEYNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTALS 654 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~v~~LpCGHiFH~~CI~qWL~~k~tCPICRtsLl~ 654 (657)
.--.|.-|...+.--+ ..| |..|+..+..|..|++++..
T Consensus 32 ~rS~C~~C~~~L~~~~---lIP---------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWD---LIP---------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCcccc---cch---------HHHHHHhCCCCcccCCCCCh
Confidence 3456888988877666 233 77899999999999998864
No 168
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=22.00 E-value=37 Score=40.96 Aligned_cols=49 Identities=31% Similarity=0.636 Sum_probs=31.7
Q ss_pred CCCccccccCCcCCCCc-------eeEecCCChh--------------------cHHHHHHHHHc--------CCCCCCC
Q 006188 604 EQEPCCICQEEYNDGED-------TGILHCGHDF--------------------HTSCIKQWLMH--------KNLCPIC 648 (657)
Q Consensus 604 ~~e~C~IClEef~d~d~-------v~~LpCGHiF--------------------H~~CI~qWL~~--------k~tCPIC 648 (657)
+...|.=|+.|+.++.+ +.++.||-.| |.+|.++.-.. -..||.|
T Consensus 67 D~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~~C 146 (711)
T TIGR00143 67 DVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACPRC 146 (711)
T ss_pred chhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCCCC
Confidence 34567777777776653 3355677554 99999997431 1249999
Q ss_pred CCCc
Q 006188 649 KTTA 652 (657)
Q Consensus 649 RtsL 652 (657)
--.+
T Consensus 147 gp~l 150 (711)
T TIGR00143 147 GPQL 150 (711)
T ss_pred CcEE
Confidence 6544
No 169
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=21.28 E-value=57 Score=34.17 Aligned_cols=22 Identities=32% Similarity=0.709 Sum_probs=18.0
Q ss_pred hcHHHHHHHHHcCCCCCCCCCC
Q 006188 630 FHTSCIKQWLMHKNLCPICKTT 651 (657)
Q Consensus 630 FH~~CI~qWL~~k~tCPICRts 651 (657)
-|..|-.+--+.-..||+||+.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccc
Confidence 4788888877778899999975
No 170
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=20.79 E-value=32 Score=39.46 Aligned_cols=46 Identities=17% Similarity=0.555 Sum_probs=29.6
Q ss_pred CCccccccCCcCCCCceeEe---cCCChhcHHHHHHHHHcC--------CCCCCCCCC
Q 006188 605 QEPCCICQEEYNDGEDTGIL---HCGHDFHTSCIKQWLMHK--------NLCPICKTT 651 (657)
Q Consensus 605 ~e~C~IClEef~d~d~v~~L---pCGHiFH~~CI~qWL~~k--------~tCPICRts 651 (657)
...|++|+.-....-. +.+ .|.-.||..|.+...+.. ..|=+|...
T Consensus 168 n~qc~vC~~g~~~~~N-rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGN-RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred cceeeeeecCCcCccc-eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 4559999865433222 333 789999999987654311 138888764
Done!