Query 008670
Match_columns 557
No_of_seqs 208 out of 1691
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 15:06:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008670.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008670hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.6 3.2E-15 6.9E-20 156.1 6.1 78 469-555 207-285 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 1.5E-14 3.3E-19 108.4 2.4 44 501-544 1-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.2E-11 2.7E-16 103.0 4.0 45 500-544 19-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.2 1.6E-11 3.5E-16 128.2 4.6 60 497-556 284-354 (491)
5 COG5540 RING-finger-containing 99.2 1.7E-11 3.6E-16 125.5 3.9 53 498-550 321-374 (374)
6 PHA02929 N1R/p28-like protein; 99.1 4.1E-11 9E-16 120.3 6.0 71 472-548 152-227 (238)
7 cd00162 RING RING-finger (Real 98.9 9.5E-10 2.1E-14 79.6 3.8 44 502-547 1-45 (45)
8 PF13920 zf-C3HC4_3: Zinc fing 98.9 1.3E-09 2.8E-14 84.0 3.3 46 500-548 2-48 (50)
9 PF13923 zf-C3HC4_2: Zinc fing 98.8 1.9E-09 4.1E-14 79.1 3.1 39 503-543 1-39 (39)
10 PLN03208 E3 ubiquitin-protein 98.8 2.3E-09 5E-14 104.6 4.3 54 495-551 13-82 (193)
11 KOG0802 E3 ubiquitin ligase [P 98.8 2E-09 4.4E-14 119.1 2.5 54 496-549 287-342 (543)
12 KOG0317 Predicted E3 ubiquitin 98.8 3.5E-09 7.5E-14 108.2 3.5 55 495-552 234-288 (293)
13 PF12861 zf-Apc11: Anaphase-pr 98.7 8.7E-09 1.9E-13 88.7 3.5 50 499-548 20-82 (85)
14 KOG0823 Predicted E3 ubiquitin 98.7 8.5E-09 1.8E-13 102.6 3.1 53 497-552 44-99 (230)
15 smart00184 RING Ring finger. E 98.7 2.3E-08 4.9E-13 69.9 3.7 38 503-543 1-39 (39)
16 PHA02926 zinc finger-like prot 98.6 2.5E-08 5.4E-13 99.1 3.4 53 497-549 167-231 (242)
17 PF14634 zf-RING_5: zinc-RING 98.6 3.5E-08 7.7E-13 74.4 3.2 44 502-545 1-44 (44)
18 PF00097 zf-C3HC4: Zinc finger 98.6 2.8E-08 6E-13 73.0 2.5 39 503-543 1-41 (41)
19 smart00504 Ubox Modified RING 98.6 6E-08 1.3E-12 76.8 4.2 47 501-550 2-48 (63)
20 KOG0320 Predicted E3 ubiquitin 98.5 4.8E-08 1E-12 94.1 3.4 52 497-549 128-179 (187)
21 PF15227 zf-C3HC4_4: zinc fing 98.5 8.1E-08 1.8E-12 72.3 3.2 38 503-543 1-42 (42)
22 TIGR00599 rad18 DNA repair pro 98.5 8.7E-08 1.9E-12 102.8 3.9 52 496-550 22-73 (397)
23 COG5194 APC11 Component of SCF 98.3 4E-07 8.6E-12 77.6 3.6 50 502-551 33-84 (88)
24 smart00744 RINGv The RING-vari 98.2 1.1E-06 2.4E-11 68.3 3.4 42 502-544 1-49 (49)
25 PF13445 zf-RING_UBOX: RING-ty 98.2 9.9E-07 2.1E-11 67.1 2.7 38 503-541 1-43 (43)
26 KOG1493 Anaphase-promoting com 98.2 4.1E-07 8.9E-12 76.9 0.3 51 497-547 17-80 (84)
27 KOG0828 Predicted E3 ubiquitin 98.2 6.8E-07 1.5E-11 96.9 1.9 53 497-549 568-635 (636)
28 COG5574 PEX10 RING-finger-cont 98.1 1E-06 2.3E-11 89.4 2.7 52 498-552 213-266 (271)
29 KOG1734 Predicted RING-contain 98.1 5.9E-07 1.3E-11 91.4 0.2 57 495-551 219-284 (328)
30 KOG2177 Predicted E3 ubiquitin 98.1 1.1E-06 2.3E-11 84.3 1.7 46 497-545 10-55 (386)
31 KOG2164 Predicted E3 ubiquitin 98.1 1.5E-06 3.2E-11 94.9 2.6 49 500-551 186-239 (513)
32 KOG0287 Postreplication repair 98.0 1.3E-06 2.8E-11 91.3 0.8 51 497-550 20-70 (442)
33 PF04564 U-box: U-box domain; 98.0 3.5E-06 7.6E-11 70.1 1.8 50 499-551 3-53 (73)
34 KOG0827 Predicted E3 ubiquitin 97.9 4.6E-06 1E-10 88.5 1.9 47 501-547 5-55 (465)
35 PF11793 FANCL_C: FANCL C-term 97.9 2.6E-06 5.7E-11 70.7 -0.1 50 500-549 2-67 (70)
36 COG5432 RAD18 RING-finger-cont 97.9 5.6E-06 1.2E-10 85.2 2.0 50 496-548 21-70 (391)
37 KOG0804 Cytoplasmic Zn-finger 97.9 6.6E-06 1.4E-10 88.7 2.4 53 494-548 169-222 (493)
38 TIGR00570 cdk7 CDK-activating 97.8 1.2E-05 2.6E-10 83.9 3.7 52 499-550 2-56 (309)
39 COG5219 Uncharacterized conser 97.8 7.5E-06 1.6E-10 94.1 1.0 54 495-548 1464-1523(1525)
40 KOG2930 SCF ubiquitin ligase, 97.7 2.8E-05 6.1E-10 69.4 3.2 52 497-548 43-108 (114)
41 KOG4265 Predicted E3 ubiquitin 97.6 3.8E-05 8.2E-10 81.0 3.3 50 498-550 288-338 (349)
42 KOG0825 PHD Zn-finger protein 97.5 1.8E-05 3.8E-10 89.8 -0.1 54 497-550 120-173 (1134)
43 KOG0311 Predicted E3 ubiquitin 97.5 1.6E-05 3.5E-10 83.7 -1.4 53 497-551 40-93 (381)
44 KOG1645 RING-finger-containing 97.4 9.4E-05 2E-09 79.3 3.4 48 500-547 4-55 (463)
45 KOG4445 Uncharacterized conser 97.4 5.9E-05 1.3E-09 78.1 1.5 55 497-551 112-189 (368)
46 KOG1039 Predicted E3 ubiquitin 97.3 0.00012 2.6E-09 77.7 2.0 51 498-548 159-221 (344)
47 PF14835 zf-RING_6: zf-RING of 97.2 7.4E-05 1.6E-09 61.6 0.0 48 500-551 7-54 (65)
48 KOG1428 Inhibitor of type V ad 97.2 0.00024 5.3E-09 84.5 3.3 54 496-549 3482-3545(3738)
49 KOG4172 Predicted E3 ubiquitin 97.0 0.00019 4E-09 57.7 -0.1 45 500-547 7-53 (62)
50 KOG0824 Predicted E3 ubiquitin 96.9 0.00039 8.4E-09 72.2 2.1 50 500-552 7-57 (324)
51 KOG0978 E3 ubiquitin ligase in 96.8 0.00042 9.1E-09 79.1 1.0 51 498-551 641-692 (698)
52 KOG4275 Predicted E3 ubiquitin 96.7 0.00093 2E-08 69.3 2.9 92 445-547 247-341 (350)
53 PF11789 zf-Nse: Zinc-finger o 96.7 0.00087 1.9E-08 53.9 1.8 44 497-542 8-53 (57)
54 KOG1941 Acetylcholine receptor 96.5 0.00083 1.8E-08 71.9 1.1 46 499-544 364-412 (518)
55 KOG4159 Predicted E3 ubiquitin 96.5 0.0014 3E-08 71.1 2.5 51 496-549 80-130 (398)
56 KOG0297 TNF receptor-associate 96.5 0.0016 3.4E-08 70.3 2.7 53 497-551 18-70 (391)
57 KOG1785 Tyrosine kinase negati 96.4 0.0011 2.4E-08 71.2 1.1 48 500-550 369-418 (563)
58 KOG3970 Predicted E3 ubiquitin 96.3 0.0036 7.8E-08 63.1 3.7 54 497-551 47-108 (299)
59 KOG2660 Locus-specific chromos 96.2 0.0015 3.2E-08 68.7 0.8 53 497-551 12-64 (331)
60 PF12906 RINGv: RING-variant d 96.0 0.0044 9.6E-08 47.9 2.1 40 503-543 1-47 (47)
61 KOG2879 Predicted E3 ubiquitin 95.9 0.007 1.5E-07 62.5 3.7 53 495-549 234-288 (298)
62 PF05883 Baculo_RING: Baculovi 95.7 0.0057 1.2E-07 57.3 2.1 37 500-536 26-68 (134)
63 KOG0801 Predicted E3 ubiquitin 95.6 0.0036 7.8E-08 60.3 0.5 33 495-527 172-204 (205)
64 PF10367 Vps39_2: Vacuolar sor 95.5 0.0053 1.2E-07 53.0 1.1 34 497-531 75-108 (109)
65 COG5152 Uncharacterized conser 95.4 0.0062 1.3E-07 60.4 1.1 47 500-549 196-242 (259)
66 KOG1814 Predicted E3 ubiquitin 95.3 0.012 2.5E-07 63.8 3.1 47 500-546 184-238 (445)
67 KOG1002 Nucleotide excision re 95.3 0.009 1.9E-07 66.3 2.0 53 495-550 531-588 (791)
68 KOG4692 Predicted E3 ubiquitin 95.2 0.015 3.3E-07 61.9 3.5 50 496-548 418-467 (489)
69 KOG0827 Predicted E3 ubiquitin 95.1 0.0017 3.7E-08 69.6 -3.9 51 500-550 196-247 (465)
70 KOG3039 Uncharacterized conser 95.0 0.02 4.4E-07 58.5 3.6 53 499-551 220-273 (303)
71 KOG1940 Zn-finger protein [Gen 94.9 0.015 3.1E-07 60.5 2.1 47 499-545 157-204 (276)
72 PHA02862 5L protein; Provision 94.8 0.02 4.3E-07 54.4 2.8 44 501-548 3-53 (156)
73 KOG1571 Predicted E3 ubiquitin 94.8 0.015 3.2E-07 62.0 2.1 46 497-548 302-347 (355)
74 PHA03096 p28-like protein; Pro 94.5 0.021 4.6E-07 59.5 2.2 44 501-544 179-230 (284)
75 KOG2114 Vacuolar assembly/sort 94.5 0.014 3E-07 67.7 1.0 43 500-547 840-882 (933)
76 PHA02825 LAP/PHD finger-like p 94.3 0.048 1E-06 52.5 4.0 49 497-549 5-60 (162)
77 KOG1813 Predicted E3 ubiquitin 94.1 0.018 3.9E-07 60.1 0.7 47 501-550 242-288 (313)
78 COG5222 Uncharacterized conser 94.0 0.035 7.5E-07 58.2 2.5 47 501-550 275-324 (427)
79 KOG4185 Predicted E3 ubiquitin 93.9 0.037 8.1E-07 56.8 2.6 47 501-547 4-54 (296)
80 PF04641 Rtf2: Rtf2 RING-finge 93.9 0.057 1.2E-06 55.2 3.9 55 496-551 109-164 (260)
81 KOG3268 Predicted E3 ubiquitin 93.6 0.047 1E-06 53.6 2.5 53 499-551 164-231 (234)
82 COG5236 Uncharacterized conser 93.5 0.067 1.5E-06 57.1 3.8 52 495-549 56-109 (493)
83 PF10272 Tmpp129: Putative tra 93.1 0.11 2.4E-06 55.9 4.6 29 521-549 311-352 (358)
84 PF14570 zf-RING_4: RING/Ubox 93.0 0.051 1.1E-06 42.7 1.4 44 503-547 1-47 (48)
85 KOG1952 Transcription factor N 92.9 0.058 1.3E-06 62.8 2.4 49 498-546 189-245 (950)
86 PF08746 zf-RING-like: RING-li 92.8 0.043 9.3E-07 41.8 0.8 41 503-543 1-43 (43)
87 COG5175 MOT2 Transcriptional r 91.7 0.12 2.6E-06 55.1 2.7 56 496-551 10-67 (480)
88 PF03854 zf-P11: P-11 zinc fin 91.4 0.072 1.6E-06 41.9 0.5 44 502-550 4-48 (50)
89 KOG1001 Helicase-like transcri 90.6 0.097 2.1E-06 60.5 0.9 46 501-550 455-502 (674)
90 KOG0298 DEAD box-containing he 89.9 0.11 2.4E-06 62.9 0.6 47 498-546 1151-1197(1394)
91 PF07800 DUF1644: Protein of u 89.6 0.34 7.4E-06 46.8 3.5 34 499-535 1-47 (162)
92 KOG2932 E3 ubiquitin ligase in 89.5 0.17 3.6E-06 53.5 1.5 42 501-546 91-132 (389)
93 KOG2034 Vacuolar sorting prote 88.7 0.22 4.7E-06 58.6 1.8 39 495-534 812-850 (911)
94 KOG1609 Protein involved in mR 88.5 0.26 5.5E-06 50.3 2.0 51 500-550 78-136 (323)
95 KOG0826 Predicted E3 ubiquitin 87.9 0.42 9E-06 50.9 3.1 52 495-548 295-346 (357)
96 PF14447 Prok-RING_4: Prokaryo 87.7 0.3 6.5E-06 39.5 1.5 47 500-551 7-53 (55)
97 KOG0309 Conserved WD40 repeat- 87.2 0.36 7.8E-06 56.0 2.3 42 500-542 1028-1069(1081)
98 KOG0825 PHD Zn-finger protein 85.9 0.37 8E-06 56.1 1.6 53 496-548 92-154 (1134)
99 KOG3002 Zn finger protein [Gen 85.7 0.52 1.1E-05 49.7 2.4 46 496-548 44-91 (299)
100 KOG1829 Uncharacterized conser 85.6 0.51 1.1E-05 53.7 2.5 44 497-543 508-556 (580)
101 COG5220 TFB3 Cdk activating ki 85.6 0.39 8.5E-06 49.3 1.4 46 498-544 8-60 (314)
102 COG5183 SSM4 Protein involved 83.9 0.69 1.5E-05 54.1 2.6 53 497-550 9-68 (1175)
103 KOG1812 Predicted E3 ubiquitin 83.0 0.51 1.1E-05 51.2 1.0 40 498-537 144-184 (384)
104 KOG3053 Uncharacterized conser 81.9 0.68 1.5E-05 47.9 1.4 54 495-548 15-82 (293)
105 KOG0269 WD40 repeat-containing 80.8 1.2 2.6E-05 52.0 2.9 44 501-545 780-825 (839)
106 KOG1100 Predicted E3 ubiquitin 79.5 0.89 1.9E-05 45.5 1.3 39 503-548 161-200 (207)
107 KOG2817 Predicted E3 ubiquitin 79.3 1.6 3.4E-05 47.6 3.1 49 499-547 333-384 (394)
108 KOG4362 Transcriptional regula 77.7 0.6 1.3E-05 53.9 -0.6 47 500-549 21-70 (684)
109 PF14446 Prok-RING_1: Prokaryo 76.8 2.5 5.5E-05 34.1 2.9 32 499-530 4-36 (54)
110 KOG2066 Vacuolar assembly/sort 73.8 1.4 3E-05 51.7 0.9 47 497-544 781-831 (846)
111 KOG1815 Predicted E3 ubiquitin 73.4 2 4.4E-05 47.2 2.1 38 497-536 67-104 (444)
112 PF05290 Baculo_IE-1: Baculovi 72.4 3.5 7.6E-05 39.1 3.0 51 499-552 79-136 (140)
113 KOG3899 Uncharacterized conser 71.6 2.3 5E-05 44.9 1.8 29 521-549 325-366 (381)
114 KOG0802 E3 ubiquitin ligase [P 71.2 2.2 4.8E-05 48.1 1.8 48 497-551 476-523 (543)
115 KOG3161 Predicted E3 ubiquitin 67.9 2.4 5.1E-05 48.9 1.1 44 500-546 11-55 (861)
116 KOG4718 Non-SMC (structural ma 63.3 3.8 8.2E-05 41.6 1.4 42 500-543 181-222 (235)
117 KOG2068 MOT2 transcription fac 62.6 6.6 0.00014 42.1 3.1 53 500-552 249-302 (327)
118 smart00249 PHD PHD zinc finger 60.2 5.1 0.00011 28.8 1.3 32 502-533 1-32 (47)
119 KOG1812 Predicted E3 ubiquitin 59.8 4.3 9.3E-05 44.2 1.2 44 500-543 306-351 (384)
120 KOG3579 Predicted E3 ubiquitin 56.8 4.8 0.0001 42.5 0.9 38 498-538 266-307 (352)
121 KOG3005 GIY-YIG type nuclease 56.7 5.8 0.00013 41.4 1.5 47 500-546 182-241 (276)
122 smart00132 LIM Zinc-binding do 56.0 11 0.00025 26.1 2.5 38 502-548 1-38 (39)
123 PF02891 zf-MIZ: MIZ/SP-RING z 50.4 5.7 0.00012 31.1 0.2 42 501-545 3-49 (50)
124 PF00628 PHD: PHD-finger; Int 48.8 7.1 0.00015 29.6 0.5 43 502-544 1-49 (51)
125 PF13901 DUF4206: Domain of un 48.3 11 0.00023 37.5 1.8 40 500-544 152-196 (202)
126 PF06906 DUF1272: Protein of u 47.9 28 0.0006 28.6 3.7 48 501-551 6-55 (57)
127 COG5109 Uncharacterized conser 41.5 18 0.00039 38.8 2.3 46 499-544 335-383 (396)
128 KOG3842 Adaptor protein Pellin 39.9 26 0.00057 37.7 3.2 55 496-550 337-416 (429)
129 KOG3113 Uncharacterized conser 38.2 32 0.00069 36.0 3.4 52 499-552 110-162 (293)
130 PF13717 zinc_ribbon_4: zinc-r 37.9 14 0.00031 27.1 0.6 26 501-526 3-36 (36)
131 KOG3039 Uncharacterized conser 36.1 24 0.00052 36.8 2.1 38 496-536 39-76 (303)
132 KOG4443 Putative transcription 35.3 18 0.00039 42.0 1.2 28 520-547 40-72 (694)
133 KOG1245 Chromatin remodeling c 34.4 7.4 0.00016 48.9 -2.1 53 495-547 1103-1159(1404)
134 PF07191 zinc-ribbons_6: zinc- 32.9 4.4 9.5E-05 34.4 -3.1 40 501-548 2-41 (70)
135 PF13832 zf-HC5HC2H_2: PHD-zin 32.7 32 0.0007 30.2 2.2 33 499-533 54-88 (110)
136 KOG1729 FYVE finger containing 32.4 8.1 0.00018 40.8 -1.9 39 500-538 214-252 (288)
137 KOG2807 RNA polymerase II tran 32.3 35 0.00077 36.9 2.7 48 499-546 329-376 (378)
138 PF07649 C1_3: C1-like domain; 32.0 30 0.00064 24.1 1.5 29 502-530 2-30 (30)
139 PF04710 Pellino: Pellino; In 30.3 17 0.00037 40.0 0.0 25 519-546 307-337 (416)
140 PF06844 DUF1244: Protein of u 30.3 30 0.00065 29.3 1.4 13 524-536 11-23 (68)
141 cd00350 rubredoxin_like Rubred 29.4 38 0.00083 24.2 1.7 11 536-546 16-26 (33)
142 KOG0824 Predicted E3 ubiquitin 29.2 18 0.00039 38.6 -0.0 52 497-550 102-153 (324)
143 KOG4185 Predicted E3 ubiquitin 29.1 11 0.00023 38.9 -1.7 48 499-546 206-265 (296)
144 PF13719 zinc_ribbon_5: zinc-r 28.1 29 0.00062 25.5 0.9 26 501-526 3-36 (37)
145 COG3813 Uncharacterized protei 27.0 63 0.0014 28.0 2.8 48 502-551 7-55 (84)
146 PF00412 LIM: LIM domain; Int 26.1 49 0.0011 25.3 1.9 39 503-550 1-39 (58)
147 KOG2113 Predicted RNA binding 25.7 50 0.0011 35.7 2.4 47 496-547 339-386 (394)
148 PLN02189 cellulose synthase 24.8 56 0.0012 40.2 2.9 49 500-548 34-87 (1040)
149 PF05605 zf-Di19: Drought indu 24.6 36 0.00078 26.6 0.9 13 500-512 2-14 (54)
150 PF04216 FdhE: Protein involve 24.2 9.7 0.00021 39.5 -3.1 48 499-546 171-220 (290)
151 KOG4577 Transcription factor L 23.7 19 0.00042 38.2 -0.9 41 500-549 92-132 (383)
152 KOG2071 mRNA cleavage and poly 23.4 37 0.0008 39.1 1.0 37 498-534 511-557 (579)
153 KOG3165 Predicted nucleic-acid 23.3 36 0.00077 33.6 0.8 23 516-538 126-150 (195)
154 COG2824 PhnA Uncharacterized Z 22.6 26 0.00057 32.2 -0.2 28 501-534 4-31 (112)
155 PF01363 FYVE: FYVE zinc finge 21.7 36 0.00078 27.5 0.4 37 498-534 7-44 (69)
156 PLN02436 cellulose synthase A 21.2 86 0.0019 38.8 3.5 50 499-548 35-89 (1094)
157 KOG3842 Adaptor protein Pellin 20.5 51 0.0011 35.6 1.3 28 516-548 317-352 (429)
158 smart00064 FYVE Protein presen 20.5 46 0.00099 26.8 0.8 38 499-536 9-47 (68)
159 KOG0955 PHD finger protein BR1 20.2 43 0.00093 41.3 0.8 37 495-531 214-252 (1051)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=3.2e-15 Score=156.10 Aligned_cols=78 Identities=31% Similarity=0.731 Sum_probs=61.3
Q ss_pred CCHHHHHhhccceeccCCCcccccccCCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCC-CCCCCCCCC
Q 008670 469 LTDEAILKCLKTSIYQPAPLDVALSCSGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTN-WCPICKAPA 547 (557)
Q Consensus 469 LSee~I~k~Lp~~~y~~~~~e~~~~~~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~-SCPVCR~eV 547 (557)
+.+..+ +.++...|+..+ ..... ..|+||||+|..||+++.|||.|.||..||++||.++. .|||||.++
T Consensus 207 ~~k~~l-~~~p~~~f~~~~-------~~~~~-~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 207 LIKRLL-KKLPVRTFTKGD-------DEDAT-DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred hHHHHH-hhCCcEEecccc-------ccCCC-ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence 344444 557777777543 11222 68999999999999999999999999999999999985 599999998
Q ss_pred CCCCCCCC
Q 008670 548 ESAPSSPS 555 (557)
Q Consensus 548 ~~s~ss~p 555 (557)
......++
T Consensus 278 ~~~~~~~~ 285 (348)
T KOG4628|consen 278 RTDSGSEP 285 (348)
T ss_pred CCCCCCCC
Confidence 88776544
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=99.47 E-value=1.5e-14 Score=108.41 Aligned_cols=44 Identities=45% Similarity=1.097 Sum_probs=40.6
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICK 544 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR 544 (557)
+.|+||+++|..++.+..|+|+|.||..||.+||+.+.+||+||
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 36999999999999999999999999999999999999999997
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=99.19 E-value=1.2e-11 Score=102.99 Aligned_cols=45 Identities=38% Similarity=0.860 Sum_probs=36.3
Q ss_pred CccccccccccccC----------ceeEEeCCCCcchHHHHHHHHhcCCCCCCCC
Q 008670 500 DVKCSICQEEYVVG----------EEVGRLHCQHRYHVLCIQQWLRLTNWCPICK 544 (557)
Q Consensus 500 d~~CsICLEeF~~g----------eeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR 544 (557)
++.|+||++.|... -.+...+|+|.||..||.+||..+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 44599999999322 2355568999999999999999999999998
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.6e-11 Score=128.24 Aligned_cols=60 Identities=33% Similarity=0.791 Sum_probs=48.7
Q ss_pred CCCCccccccccc-cccCc---------eeEEeCCCCcchHHHHHHHHhcCCCCCCCCCC-CCCCCCCCCC
Q 008670 497 NNDDVKCSICQEE-YVVGE---------EVGRLHCQHRYHVLCIQQWLRLTNWCPICKAP-AESAPSSPSS 556 (557)
Q Consensus 497 ~~ed~~CsICLEe-F~~ge---------eV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~e-V~~s~ss~p~ 556 (557)
..+|..|.||+++ |+.+. +..+|||||+||..|++.|++++.+|||||.+ +.....++++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~~~~~ 354 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSSPTPA 354 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCCCCcC
Confidence 5668899999999 65552 24689999999999999999999999999999 5555544443
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.7e-11 Score=125.50 Aligned_cols=53 Identities=32% Similarity=0.955 Sum_probs=48.0
Q ss_pred CCCccccccccccccCceeEEeCCCCcchHHHHHHHHh-cCCCCCCCCCCCCCC
Q 008670 498 NDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLR-LTNWCPICKAPAESA 550 (557)
Q Consensus 498 ~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~-~k~SCPVCR~eV~~s 550 (557)
...-+|+|||++|..+|+++.|||.|.||..||.+|+. -++.||+||.++++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 33478999999999999999999999999999999998 478999999999863
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.15 E-value=4.1e-11 Score=120.32 Aligned_cols=71 Identities=27% Similarity=0.610 Sum_probs=51.2
Q ss_pred HHHHhhccceeccCCCcccccccCCCCCCccccccccccccCce----eEE-eCCCCcchHHHHHHHHhcCCCCCCCCCC
Q 008670 472 EAILKCLKTSIYQPAPLDVALSCSGNNDDVKCSICQEEYVVGEE----VGR-LHCQHRYHVLCIQQWLRLTNWCPICKAP 546 (557)
Q Consensus 472 e~I~k~Lp~~~y~~~~~e~~~~~~~~~ed~~CsICLEeF~~gee----V~~-LPCgH~FH~~CI~~WL~~k~SCPVCR~e 546 (557)
..+.+.+|........ ......+.+|+||++.+...+. +.. ++|+|.||..||.+|+..+.+||+||..
T Consensus 152 ~~~i~~lp~vl~~~e~------~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~ 225 (238)
T PHA02929 152 KKFLKTIPSVLSEYEK------LYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTP 225 (238)
T ss_pred HHHHHhcchhhhhhhh------hhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCE
Confidence 4455667765444221 0223456899999999865431 233 4799999999999999999999999987
Q ss_pred CC
Q 008670 547 AE 548 (557)
Q Consensus 547 V~ 548 (557)
+.
T Consensus 226 ~~ 227 (238)
T PHA02929 226 FI 227 (238)
T ss_pred ee
Confidence 65
No 7
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.92 E-value=9.5e-10 Score=79.64 Aligned_cols=44 Identities=43% Similarity=1.037 Sum_probs=37.1
Q ss_pred cccccccccccCceeEEeCCCCcchHHHHHHHHhc-CCCCCCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL-TNWCPICKAPA 547 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~-k~SCPVCR~eV 547 (557)
.|+||++.+ .+.+..++|+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 344555669999999999999998 77899999764
No 8
>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=98.87 E-value=1.3e-09 Score=83.99 Aligned_cols=46 Identities=37% Similarity=0.740 Sum_probs=39.7
Q ss_pred CccccccccccccCceeEEeCCCCc-chHHHHHHHHhcCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHR-YHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~-FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
+..|.||++.+.. +..+||||. |+..|+..|+.....||+||++|.
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 5689999998653 778899999 999999999999999999999875
No 9
>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=98.84 E-value=1.9e-09 Score=79.14 Aligned_cols=39 Identities=33% Similarity=0.794 Sum_probs=33.8
Q ss_pred ccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPIC 543 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVC 543 (557)
|+||++++.+ .+..++|||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999875 45788999999999999999999999998
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.83 E-value=2.3e-09 Score=104.63 Aligned_cols=54 Identities=26% Similarity=0.602 Sum_probs=43.0
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc----------------CCCCCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL----------------TNWCPICKAPAESAP 551 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~----------------k~SCPVCR~eV~~s~ 551 (557)
....++..|+||++.+.. ...++|||.||..||.+||.. ...||+||..+....
T Consensus 13 ~~~~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 13 VDSGGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred ccCCCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 344567899999999854 346789999999999999863 347999999986543
No 11
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=2e-09 Score=119.14 Aligned_cols=54 Identities=31% Similarity=0.678 Sum_probs=47.0
Q ss_pred CCCCCccccccccccccCce--eEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEE--VGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAES 549 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~gee--V~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~ 549 (557)
....+..|+||+|++..+.. ..+|||+|.||..|++.||+++.+||+||..+..
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 34457899999999988765 6789999999999999999999999999995443
No 12
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=3.5e-09 Score=108.18 Aligned_cols=55 Identities=25% Similarity=0.541 Sum_probs=47.2
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAPS 552 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~s 552 (557)
...+...+|+||||..... ..+||||+||..||..|+..+..||+||....++..
T Consensus 234 ~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred cCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 3455568999999998654 488999999999999999999999999999887754
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.71 E-value=8.7e-09 Score=88.75 Aligned_cols=50 Identities=32% Similarity=0.891 Sum_probs=39.6
Q ss_pred CCccccccccccc--------cCce--eEEeCCCCcchHHHHHHHHhc---CCCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYV--------VGEE--VGRLHCQHRYHVLCIQQWLRL---TNWCPICKAPAE 548 (557)
Q Consensus 499 ed~~CsICLEeF~--------~gee--V~~LPCgH~FH~~CI~~WL~~---k~SCPVCR~eV~ 548 (557)
+++.|.||+..|. +|+. +..-.|+|.||..||.+||.. +..||+||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 4788999999995 3443 222359999999999999986 468999998754
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=8.5e-09 Score=102.63 Aligned_cols=53 Identities=26% Similarity=0.560 Sum_probs=42.8
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc---CCCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL---TNWCPICKAPAESAPS 552 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~---k~SCPVCR~eV~~s~s 552 (557)
......|.||||.-++ ...+.|||+||..||.+||.. .+.|||||..|.....
T Consensus 44 ~~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 4567899999988543 446669999999999999987 4579999998876654
No 15
>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=98.66 E-value=2.3e-08 Score=69.89 Aligned_cols=38 Identities=45% Similarity=1.044 Sum_probs=33.1
Q ss_pred ccccccccccCceeEEeCCCCcchHHHHHHHHh-cCCCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLR-LTNWCPIC 543 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~-~k~SCPVC 543 (557)
|+||++.. .....++|+|.||..||..|+. ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 88999883 4577889999999999999998 66789998
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=98.60 E-value=2.5e-08 Score=99.09 Aligned_cols=53 Identities=30% Similarity=0.746 Sum_probs=39.7
Q ss_pred CCCCccccccccccccC----c-eeEEe-CCCCcchHHHHHHHHhcC------CCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVG----E-EVGRL-HCQHRYHVLCIQQWLRLT------NWCPICKAPAES 549 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~g----e-eV~~L-PCgH~FH~~CI~~WL~~k------~SCPVCR~eV~~ 549 (557)
...+.+|+||||..... + ..+.| +|+|.||..||..|...+ .+||+||.....
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 34567899999986322 1 23455 699999999999999753 469999987653
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.58 E-value=3.5e-08 Score=74.41 Aligned_cols=44 Identities=27% Similarity=0.660 Sum_probs=38.4
Q ss_pred cccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKA 545 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~ 545 (557)
.|.||++.|........|+|||+|+..||..+......||+|++
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 49999999955556788899999999999999866789999985
No 18
>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=98.58 E-value=2.8e-08 Score=73.03 Aligned_cols=39 Identities=36% Similarity=0.871 Sum_probs=33.9
Q ss_pred ccccccccccCceeEEeCCCCcchHHHHHHHHh--cCCCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLR--LTNWCPIC 543 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~--~k~SCPVC 543 (557)
|+||++.+... +..++|+|.||..||.+|+. ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998753 35789999999999999999 46689998
No 19
>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=98.57 E-value=6e-08 Score=76.84 Aligned_cols=47 Identities=21% Similarity=0.278 Sum_probs=40.9
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
..|+||++.+... ..++|||+|+..||.+|+..+..||+|+..+...
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 4699999998753 5689999999999999999999999999887543
No 20
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=4.8e-08 Score=94.09 Aligned_cols=52 Identities=27% Similarity=0.565 Sum_probs=43.1
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAES 549 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~ 549 (557)
.+....|+|||+.|..... .-+.|||+||..||+.-|+....||+|++.|..
T Consensus 128 ~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred cccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 4455899999999975332 347899999999999999999999999987654
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.50 E-value=8.1e-08 Score=72.32 Aligned_cols=38 Identities=26% Similarity=0.679 Sum_probs=29.5
Q ss_pred ccccccccccCceeEEeCCCCcchHHHHHHHHhcC----CCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLT----NWCPIC 543 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k----~SCPVC 543 (557)
|+||++.|.. ...|+|||.|+..||..|++.. ..||+|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999975 5589999999999999999864 469998
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.48 E-value=8.7e-08 Score=102.76 Aligned_cols=52 Identities=27% Similarity=0.677 Sum_probs=44.2
Q ss_pred CCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
..+....|+||++.|... ..++|+|.||..||..||.....||+|+..+...
T Consensus 22 ~Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 355677999999998643 3689999999999999999988999999987654
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.33 E-value=4e-07 Score=77.61 Aligned_cols=50 Identities=30% Similarity=0.634 Sum_probs=37.8
Q ss_pred cccccccccccCceeEEe--CCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRL--HCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~L--PCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
.|+-|+-....+++.... -|.|.||..||..||..++.||+||++...+.
T Consensus 33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 445555555566664332 59999999999999999999999998765543
No 24
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.21 E-value=1.1e-06 Score=68.34 Aligned_cols=42 Identities=26% Similarity=0.654 Sum_probs=33.5
Q ss_pred cccccccccccCceeEEeCCC-----CcchHHHHHHHHhcC--CCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRLHCQ-----HRYHVLCIQQWLRLT--NWCPICK 544 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~LPCg-----H~FH~~CI~~WL~~k--~SCPVCR 544 (557)
.|-||++ +..++....+||. |.||..||.+||..+ .+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 4444556678985 899999999999764 5899995
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.19 E-value=9.9e-07 Score=67.10 Aligned_cols=38 Identities=32% Similarity=0.679 Sum_probs=22.8
Q ss_pred ccccccccccCc-eeEEeCCCCcchHHHHHHHHhcC----CCCC
Q 008670 503 CSICQEEYVVGE-EVGRLHCQHRYHVLCIQQWLRLT----NWCP 541 (557)
Q Consensus 503 CsICLEeF~~ge-eV~~LPCgH~FH~~CI~~WL~~k----~SCP 541 (557)
|+||.| |...+ ..+.|+|||+|+.+||++|+... ..||
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 85544 35779999999999999999853 3676
No 26
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=4.1e-07 Score=76.95 Aligned_cols=51 Identities=29% Similarity=0.821 Sum_probs=39.2
Q ss_pred CCCCccccccccccc--------cCceeEEe--CCCCcchHHHHHHHHhc---CCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYV--------VGEEVGRL--HCQHRYHVLCIQQWLRL---TNWCPICKAPA 547 (557)
Q Consensus 497 ~~ed~~CsICLEeF~--------~geeV~~L--PCgH~FH~~CI~~WL~~---k~SCPVCR~eV 547 (557)
...++.|-||...|. +||..-.+ -|.|.||..||.+||.. +..||+||++.
T Consensus 17 ~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 17 DAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred cCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 334559999999993 45543332 49999999999999986 45799999864
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=6.8e-07 Score=96.88 Aligned_cols=53 Identities=25% Similarity=0.666 Sum_probs=41.7
Q ss_pred CCCCccccccccccccCc---e-----------eEEeCCCCcchHHHHHHHHh-cCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGE---E-----------VGRLHCQHRYHVLCIQQWLR-LTNWCPICKAPAES 549 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~ge---e-----------V~~LPCgH~FH~~CI~~WL~-~k~SCPVCR~eV~~ 549 (557)
......|+|||.++.... . .+..||.|+||..|+.+|.. .+..||+||..+++
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 445678999998873221 1 23459999999999999999 56699999999875
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=1e-06 Score=89.41 Aligned_cols=52 Identities=29% Similarity=0.608 Sum_probs=44.4
Q ss_pred CCCccccccccccccCceeEEeCCCCcchHHHHHH-HHhcCCC-CCCCCCCCCCCCC
Q 008670 498 NDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQ-WLRLTNW-CPICKAPAESAPS 552 (557)
Q Consensus 498 ~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~-WL~~k~S-CPVCR~eV~~s~s 552 (557)
..+.+|.||+|.... ..+++|||+||..||.. |-.++.- ||+||+.+.++..
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 568899999998754 45889999999999999 9887765 9999999887654
No 29
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=5.9e-07 Score=91.43 Aligned_cols=57 Identities=26% Similarity=0.662 Sum_probs=46.4
Q ss_pred CCCCCCccccccccccccCc-------eeEEeCCCCcchHHHHHHHHh--cCCCCCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGE-------EVGRLHCQHRYHVLCIQQWLR--LTNWCPICKAPAESAP 551 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~ge-------eV~~LPCgH~FH~~CI~~WL~--~k~SCPVCR~eV~~s~ 551 (557)
....++..|+||-..+.... +..+|.|+|.||..||+-|-. ++.+||.||..++.+.
T Consensus 219 tkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 219 TKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 34556789999998886555 577899999999999999964 4679999999887653
No 30
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.1e-06 Score=84.31 Aligned_cols=46 Identities=24% Similarity=0.612 Sum_probs=40.5
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKA 545 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~ 545 (557)
..+...|+||++.|... ..|||+|.||..||..|+.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 45677999999999876 68999999999999999986678999993
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.5e-06 Score=94.86 Aligned_cols=49 Identities=33% Similarity=0.684 Sum_probs=40.1
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcC-----CCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLT-----NWCPICKAPAESAP 551 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k-----~SCPVCR~eV~~s~ 551 (557)
+..|+||++...... ++.|||+||..||.++|... ..||+|+..|.+..
T Consensus 186 ~~~CPICL~~~~~p~---~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV---RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCccc---ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 678999999976532 45599999999999998764 47999999887744
No 32
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.03 E-value=1.3e-06 Score=91.27 Aligned_cols=51 Identities=27% Similarity=0.663 Sum_probs=44.1
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
.+.-..|-||.|.|.. .+.+||+|.||.-||..+|..+..||.|+.++-.+
T Consensus 20 lD~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred hHHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccchh
Confidence 4456799999999976 45789999999999999999999999999887554
No 33
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=97.95 E-value=3.5e-06 Score=70.10 Aligned_cols=50 Identities=24% Similarity=0.368 Sum_probs=38.4
Q ss_pred CCccccccccccccCceeEEeCCCCcchHHHHHHHHhc-CCCCCCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL-TNWCPICKAPAESAP 551 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~-k~SCPVCR~eV~~s~ 551 (557)
+...|+||.+-|.+ ...+||||.|...||..||.. +.+||+|+..+....
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 35689999999975 457899999999999999999 889999998876543
No 34
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=4.6e-06 Score=88.50 Aligned_cols=47 Identities=32% Similarity=0.841 Sum_probs=36.9
Q ss_pred ccccccccccccCceeEEeC-CCCcchHHHHHHHHhc---CCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLH-CQHRYHVLCIQQWLRL---TNWCPICKAPA 547 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LP-CgH~FH~~CI~~WL~~---k~SCPVCR~eV 547 (557)
..|.||.+-+-...++.-+. |||+||..|+.+||.. +..||+|+-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 47999955555555666665 9999999999999997 35799999443
No 35
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.88 E-value=2.6e-06 Score=70.74 Aligned_cols=50 Identities=26% Similarity=0.768 Sum_probs=24.2
Q ss_pred CccccccccccccCcee---EEe--CCCCcchHHHHHHHHhc---C--------CCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEV---GRL--HCQHRYHVLCIQQWLRL---T--------NWCPICKAPAES 549 (557)
Q Consensus 500 d~~CsICLEeF~~geeV---~~L--PCgH~FH~~CI~~WL~~---k--------~SCPVCR~eV~~ 549 (557)
+..|.||++.+...+++ ..- .|++.||..||.+||.. . ..||.|+.+|.-
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 45799999987633332 222 58999999999999985 1 149999988753
No 36
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.87 E-value=5.6e-06 Score=85.21 Aligned_cols=50 Identities=26% Similarity=0.718 Sum_probs=41.9
Q ss_pred CCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
+.+....|-||-+.|... ..++|||.||.-||...|..+..||+||.+..
T Consensus 21 ~LDs~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 21 GLDSMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred cchhHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 345567999999888653 25689999999999999999999999998653
No 37
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.86 E-value=6.6e-06 Score=88.66 Aligned_cols=53 Identities=23% Similarity=0.679 Sum_probs=43.1
Q ss_pred cCCCCCCccccccccccccCce-eEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 494 CSGNNDDVKCSICQEEYVVGEE-VGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 494 ~~~~~ed~~CsICLEeF~~gee-V~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
.....+...|+||||.+..... +..+.|.|.||..|+..| ...+|||||...-
T Consensus 169 ~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 169 PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence 3566778899999999965432 455679999999999999 5678999998765
No 38
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.83 E-value=1.2e-05 Score=83.93 Aligned_cols=52 Identities=23% Similarity=0.474 Sum_probs=38.0
Q ss_pred CCccccccccc-cccCce-eEEeCCCCcchHHHHHHHHh-cCCCCCCCCCCCCCC
Q 008670 499 DDVKCSICQEE-YVVGEE-VGRLHCQHRYHVLCIQQWLR-LTNWCPICKAPAESA 550 (557)
Q Consensus 499 ed~~CsICLEe-F~~gee-V~~LPCgH~FH~~CI~~WL~-~k~SCPVCR~eV~~s 550 (557)
++..|+||+.+ |...+. +..-+|||.||..||..+|. ....||+|+..+-..
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 35689999997 444332 22237999999999999664 456899998876543
No 39
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.76 E-value=7.5e-06 Score=94.10 Aligned_cols=54 Identities=19% Similarity=0.616 Sum_probs=40.8
Q ss_pred CCCCCCccccccccccccCce----eEEeCCCCcchHHHHHHHHhc--CCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEE----VGRLHCQHRYHVLCIQQWLRL--TNWCPICKAPAE 548 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~gee----V~~LPCgH~FH~~CI~~WL~~--k~SCPVCR~eV~ 548 (557)
......++|+||...+..-|. -++-.|.|.||..||.+|++. +.+||+||.++.
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 345667899999888752221 123348999999999999987 568999998764
No 40
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=2.8e-05 Score=69.40 Aligned_cols=52 Identities=29% Similarity=0.659 Sum_probs=37.2
Q ss_pred CCCCcccccccccc------------ccCceeE-Ee-CCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEY------------VVGEEVG-RL-HCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 497 ~~ed~~CsICLEeF------------~~geeV~-~L-PCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
+..-+.|+||..-+ ...++.. .. -|.|.||..||.+||++++.||+|.++-+
T Consensus 43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 44456788885443 1222322 23 59999999999999999999999987643
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.60 E-value=3.8e-05 Score=81.04 Aligned_cols=50 Identities=32% Similarity=0.570 Sum_probs=42.3
Q ss_pred CCCccccccccccccCceeEEeCCCC-cchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 498 NDDVKCSICQEEYVVGEEVGRLHCQH-RYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 498 ~ed~~CsICLEeF~~geeV~~LPCgH-~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
+...+|.|||.+-.+ +..|||.| ..|..|.+..--+++.|||||+.+...
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 446799999999754 66899999 599999999877899999999988653
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.55 E-value=1.8e-05 Score=89.79 Aligned_cols=54 Identities=19% Similarity=0.412 Sum_probs=46.7
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
......|+||+..|..+......+|+|+||..||.-|-+.-.+||+||.++...
T Consensus 120 ~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 120 THVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 345678999999998877777788999999999999999999999999876543
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=1.6e-05 Score=83.69 Aligned_cols=53 Identities=30% Similarity=0.517 Sum_probs=41.5
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc-CCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL-TNWCPICKAPAESAP 551 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~-k~SCPVCR~eV~~s~ 551 (557)
...+..|+|||+-+... +...-|.|.||.+||..-|+. ++.||.||+.+...-
T Consensus 40 ~~~~v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred hhhhhccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 34567899999998642 223349999999999998876 789999999887543
No 44
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=9.4e-05 Score=79.26 Aligned_cols=48 Identities=31% Similarity=0.849 Sum_probs=37.9
Q ss_pred CccccccccccccCce--eEEeCCCCcchHHHHHHHHhc--CCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEE--VGRLHCQHRYHVLCIQQWLRL--TNWCPICKAPA 547 (557)
Q Consensus 500 d~~CsICLEeF~~gee--V~~LPCgH~FH~~CI~~WL~~--k~SCPVCR~eV 547 (557)
...|+||++.|...-+ +..|.|||.|..+||..||.+ ...||.|..++
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 4589999999964433 445679999999999999974 34799997654
No 45
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.40 E-value=5.9e-05 Score=78.13 Aligned_cols=55 Identities=22% Similarity=0.590 Sum_probs=45.2
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc-----------------------CCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL-----------------------TNWCPICKAPAESAP 551 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~-----------------------k~SCPVCR~eV~~s~ 551 (557)
......|.|||.-|..++....++|-|+||..|+..+|.. +..|||||..|....
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 4456689999999999999999999999999999887542 225999998776544
No 46
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00012 Score=77.69 Aligned_cols=51 Identities=31% Similarity=0.849 Sum_probs=38.4
Q ss_pred CCCccccccccccccCc--e--eEEeC-CCCcchHHHHHHHH--hc-----CCCCCCCCCCCC
Q 008670 498 NDDVKCSICQEEYVVGE--E--VGRLH-CQHRYHVLCIQQWL--RL-----TNWCPICKAPAE 548 (557)
Q Consensus 498 ~ed~~CsICLEeF~~ge--e--V~~LP-CgH~FH~~CI~~WL--~~-----k~SCPVCR~eV~ 548 (557)
..+.+|.||||...... + .+.|| |.|.||..||..|- .+ .+.||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45779999999874332 0 23345 99999999999997 44 478999997654
No 47
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.23 E-value=7.4e-05 Score=61.61 Aligned_cols=48 Identities=29% Similarity=0.605 Sum_probs=25.0
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
...|++|.+.+.. .|....|.|.||..||..-+. .-||+|+.++..++
T Consensus 7 lLrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 7 LLRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp TTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred hcCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 3589999998753 455667999999999988655 34999999887665
No 48
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.17 E-value=0.00024 Score=84.51 Aligned_cols=54 Identities=30% Similarity=0.604 Sum_probs=44.1
Q ss_pred CCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcC----------CCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLT----------NWCPICKAPAES 549 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k----------~SCPVCR~eV~~ 549 (557)
..+.++.|-||.-+-.....+++|.|+|+||..|...-|... -+||+|+..|..
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 456678999998887666778999999999999999877652 269999998753
No 49
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00019 Score=57.67 Aligned_cols=45 Identities=33% Similarity=0.659 Sum_probs=33.8
Q ss_pred CccccccccccccCceeEEeCCCCc-chHHHHHHHHh-cCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHR-YHVLCIQQWLR-LTNWCPICKAPA 547 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~-FH~~CI~~WL~-~k~SCPVCR~eV 547 (557)
+.+|.||+|.-.+. ....|||+ .|.+|-.+.++ .+..||+||++|
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 36899999886542 23469994 78888665555 789999999876
No 50
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.00039 Score=72.24 Aligned_cols=50 Identities=24% Similarity=0.567 Sum_probs=40.5
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhc-CCCCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL-TNWCPICKAPAESAPS 552 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~-k~SCPVCR~eV~~s~s 552 (557)
..+|.||+....-. ..|+|+|.||..||+--... +.+|+|||.+|...-.
T Consensus 7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 45899999886543 57899999999999987765 4579999999987543
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00042 Score=79.06 Aligned_cols=51 Identities=24% Similarity=0.531 Sum_probs=41.0
Q ss_pred CCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc-CCCCCCCCCCCCCCC
Q 008670 498 NDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL-TNWCPICKAPAESAP 551 (557)
Q Consensus 498 ~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~-k~SCPVCR~eV~~s~ 551 (557)
.+...|++|-.-+.+ +..+.|+|+||..||+..+.. +..||.|-..+.+.+
T Consensus 641 K~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 641 KELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HhceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 345689999877653 446679999999999999975 789999988776554
No 52
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.00093 Score=69.30 Aligned_cols=92 Identities=20% Similarity=0.296 Sum_probs=53.4
Q ss_pred cCCCCCcHHHHHHHHHhhCCCCCCCCH--HHHHhhccceeccCCCcccccccCCCCCCccccccccccccCceeEEeCCC
Q 008670 445 LDIDNMSYEELLALEERMGTVSTALTD--EAILKCLKTSIYQPAPLDVALSCSGNNDDVKCSICQEEYVVGEEVGRLHCQ 522 (557)
Q Consensus 445 lDiDnmSyEeLlaL~eriG~vstgLSe--e~I~k~Lp~~~y~~~~~e~~~~~~~~~ed~~CsICLEeF~~geeV~~LPCg 522 (557)
.++++++..+|++.-.+.+.--.+..+ +.+.+.. ..|+..+ +..+. .....+.-|.||++.-. ++..|+||
T Consensus 247 ~d~Eg~~v~qLke~l~~d~vsy~gCcek~el~d~vt--rl~k~~~-g~~~~-~s~~~~~LC~ICmDaP~---DCvfLeCG 319 (350)
T KOG4275|consen 247 LDEEGLTVRQLKEILDDDFVSYKGCCEKYELDDRVT--RLYKGND-GEQHS-RSLATRRLCAICMDAPR---DCVFLECG 319 (350)
T ss_pred cccccchHHHhhhhhhccCCcccchhHHHHHHHHHH--HHHhccc-ccccc-cchhHHHHHHHHhcCCc---ceEEeecC
Confidence 567788888888765544433233332 2222221 2233332 11111 12233778999998754 37789999
Q ss_pred C-cchHHHHHHHHhcCCCCCCCCCCC
Q 008670 523 H-RYHVLCIQQWLRLTNWCPICKAPA 547 (557)
Q Consensus 523 H-~FH~~CI~~WL~~k~SCPVCR~eV 547 (557)
| +-|..|-+.. +.|||||+-|
T Consensus 320 HmVtCt~CGkrm----~eCPICRqyi 341 (350)
T KOG4275|consen 320 HMVTCTKCGKRM----NECPICRQYI 341 (350)
T ss_pred cEEeehhhcccc----ccCchHHHHH
Confidence 9 4677886543 3899999755
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.68 E-value=0.00087 Score=53.92 Aligned_cols=44 Identities=23% Similarity=0.573 Sum_probs=29.9
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc--CCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL--TNWCPI 542 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~--k~SCPV 542 (557)
..-...|+|.+..|+ +.|....|+|.|-...|.+||.. ...||+
T Consensus 8 ~~~~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 344678999999987 45777789999999999999944 457999
No 54
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.54 E-value=0.00083 Score=71.90 Aligned_cols=46 Identities=30% Similarity=0.782 Sum_probs=39.0
Q ss_pred CCccccccccccccCce-eEEeCCCCcchHHHHHHHHhcC--CCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEE-VGRLHCQHRYHVLCIQQWLRLT--NWCPICK 544 (557)
Q Consensus 499 ed~~CsICLEeF~~gee-V~~LPCgH~FH~~CI~~WL~~k--~SCPVCR 544 (557)
-+..|-.|-|.|...++ +--|||.|+||..|++++|.++ .+||-||
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 35689999999866554 5568999999999999999875 4899999
No 55
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.52 E-value=0.0014 Score=71.05 Aligned_cols=51 Identities=18% Similarity=0.515 Sum_probs=43.5
Q ss_pred CCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAES 549 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~ 549 (557)
....+..|.||+..|.. ...+||||.||..||.+-|.+..-||.||.+++.
T Consensus 80 ~~~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCccccccccc
Confidence 34667899999888865 3467999999999999988888899999999875
No 56
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.48 E-value=0.0016 Score=70.33 Aligned_cols=53 Identities=23% Similarity=0.542 Sum_probs=44.3
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
..++..|+||...+.+.-. ...|||.||..||..|+..+..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~--~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQ--TTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccCCCC--CCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 5667899999999875432 2689999999999999999999999988776544
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.42 E-value=0.0011 Score=71.17 Aligned_cols=48 Identities=25% Similarity=0.623 Sum_probs=38.7
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhc--CCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL--TNWCPICKAPAESA 550 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~--k~SCPVCR~eV~~s 550 (557)
-+-|.||-|. ...|..-||||+.|..|+..|-.. ..+||.||.+|-..
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 3579999865 344777899999999999999754 57999999988543
No 58
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0036 Score=63.08 Aligned_cols=54 Identities=22% Similarity=0.547 Sum_probs=45.1
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc--------CCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL--------TNWCPICKAPAESAP 551 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~--------k~SCPVCR~eV~~s~ 551 (557)
.+-+..|..|--.+..||. .+|-|-|+||-+|+.+|-.. ...||-|-.+|.+..
T Consensus 47 sDY~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred cCCCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 4456789999999998884 46779999999999999775 347999999998765
No 59
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.24 E-value=0.0015 Score=68.74 Aligned_cols=53 Identities=21% Similarity=0.575 Sum_probs=42.7
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
......|.+|...|.+.. .+.-|-|.||..||...|...++||+|...|....
T Consensus 12 ~n~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred cccceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 445679999998886543 12349999999999999999999999988776543
No 60
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.96 E-value=0.0044 Score=47.90 Aligned_cols=40 Identities=33% Similarity=0.718 Sum_probs=28.1
Q ss_pred ccccccccccCceeEEeCCC-----CcchHHHHHHHHhc--CCCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQ-----HRYHVLCIQQWLRL--TNWCPIC 543 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCg-----H~FH~~CI~~WL~~--k~SCPVC 543 (557)
|-||+++....+ ....||. -+.|..||.+|+.. +..|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877655 4456875 37899999999985 5679998
No 61
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.88 E-value=0.007 Score=62.48 Aligned_cols=53 Identities=26% Similarity=0.499 Sum_probs=41.9
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcC--CCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLT--NWCPICKAPAES 549 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k--~SCPVCR~eV~~ 549 (557)
.....+.+|++|.+.-... ....+|+|.||-.||..=+... .+||.|-.++++
T Consensus 234 s~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 4566788999999886543 3345799999999999877654 799999988873
No 62
>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=95.72 E-value=0.0057 Score=57.27 Aligned_cols=37 Identities=22% Similarity=0.432 Sum_probs=30.4
Q ss_pred CccccccccccccCceeEEeCCC------CcchHHHHHHHHhc
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQ------HRYHVLCIQQWLRL 536 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCg------H~FH~~CI~~WL~~ 536 (557)
..+|.||++.+...+-+..++|+ |+||.+|+++|-+.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 45899999999885567777786 89999999999433
No 63
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.63 E-value=0.0036 Score=60.31 Aligned_cols=33 Identities=33% Similarity=0.690 Sum_probs=29.4
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchH
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHV 527 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~ 527 (557)
...++..+|.||||++..|+.+.+|||-.+||+
T Consensus 172 VL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 172 VLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 345667789999999999999999999999996
No 64
>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=95.53 E-value=0.0053 Score=53.03 Aligned_cols=34 Identities=26% Similarity=0.528 Sum_probs=28.4
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHH
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQ 531 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~ 531 (557)
..++..|+||...+.. ......||||+||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 4456789999999976 457788999999999985
No 65
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.36 E-value=0.0062 Score=60.43 Aligned_cols=47 Identities=21% Similarity=0.532 Sum_probs=39.3
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAES 549 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~ 549 (557)
...|.||.++|... ....|||.||..|...-++....|-+|-+....
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G 242 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKATYG 242 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhhcc
Confidence 45899999999753 366799999999999988989999999776543
No 66
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.35 E-value=0.012 Score=63.78 Aligned_cols=47 Identities=26% Similarity=0.489 Sum_probs=38.5
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcC--------CCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLT--------NWCPICKAP 546 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k--------~SCPVCR~e 546 (557)
...|.||+++......+..|||+|+||..|++.++... -.||-|+..
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 35799999998765778889999999999999998752 368877654
No 67
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.26 E-value=0.009 Score=66.27 Aligned_cols=53 Identities=23% Similarity=0.668 Sum_probs=40.8
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc-----CCCCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL-----TNWCPICKAPAESA 550 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~-----k~SCPVCR~eV~~s 550 (557)
........|.+|-+.-+ +.....|.|.||..||.+++.. +-+||+|...+.-.
T Consensus 531 ~enk~~~~C~lc~d~ae---d~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAE---DYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred ccccCceeecccCChhh---hhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 55667789999987643 3446679999999999999864 45899997766544
No 68
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.24 E-value=0.015 Score=61.89 Aligned_cols=50 Identities=28% Similarity=0.444 Sum_probs=41.2
Q ss_pred CCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
...++..|+||.-.- -..+..||+|.-|..||.+.|...+.|=.|+..+-
T Consensus 418 p~sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CCcccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 346678899997543 23556799999999999999999999999998765
No 69
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.11 E-value=0.0017 Score=69.55 Aligned_cols=51 Identities=24% Similarity=0.445 Sum_probs=44.7
Q ss_pred CccccccccccccC-ceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVG-EEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 500 d~~CsICLEeF~~g-eeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
...|+||.+.|... +++..+-|||.||.+||.+||.....||.|+.+++..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 45899999999765 6677888999999999999999999999999988753
No 70
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.04 E-value=0.02 Score=58.47 Aligned_cols=53 Identities=13% Similarity=0.265 Sum_probs=46.2
Q ss_pred CCccccccccccccCceeEEe-CCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEEVGRL-HCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~L-PCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
.-..|+||.+.+.+...+..| ||||+|+.+|+.+.+.....||||-.++-..+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 456899999999988877777 79999999999999999999999987765544
No 71
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.86 E-value=0.015 Score=60.45 Aligned_cols=47 Identities=32% Similarity=0.734 Sum_probs=39.9
Q ss_pred CCccccccccccccCce-eEEeCCCCcchHHHHHHHHhcCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEE-VGRLHCQHRYHVLCIQQWLRLTNWCPICKA 545 (557)
Q Consensus 499 ed~~CsICLEeF~~gee-V~~LPCgH~FH~~CI~~WL~~k~SCPVCR~ 545 (557)
....|+||.|.+..... +..|+|+|.-|..|..+....+.+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 34459999999766654 667899999999999999888899999987
No 72
>PHA02862 5L protein; Provisional
Probab=94.84 E-value=0.02 Score=54.36 Aligned_cols=44 Identities=25% Similarity=0.631 Sum_probs=34.0
Q ss_pred ccccccccccccCceeEEeCCC-----CcchHHHHHHHHhc--CCCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQ-----HRYHVLCIQQWLRL--TNWCPICKAPAE 548 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCg-----H~FH~~CI~~WL~~--k~SCPVCR~eV~ 548 (557)
..|=||.++-.+ . .-||. ..-|..|+.+|+.. +..|++|+.+..
T Consensus 3 diCWIC~~~~~e--~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDE--R--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCC--C--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 579999998532 2 34765 47899999999975 568999998764
No 73
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.83 E-value=0.015 Score=62.04 Aligned_cols=46 Identities=20% Similarity=0.395 Sum_probs=33.9
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
......|.||++++.. +..+||||+-| |+.--.. ...||+||..|.
T Consensus 302 ~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCccc---eeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 4445679999999865 66899999866 6665433 334999998664
No 74
>PHA03096 p28-like protein; Provisional
Probab=94.48 E-value=0.021 Score=59.51 Aligned_cols=44 Identities=25% Similarity=0.548 Sum_probs=32.3
Q ss_pred ccccccccccccCc----eeEEeC-CCCcchHHHHHHHHhc---CCCCCCCC
Q 008670 501 VKCSICQEEYVVGE----EVGRLH-CQHRYHVLCIQQWLRL---TNWCPICK 544 (557)
Q Consensus 501 ~~CsICLEeF~~ge----eV~~LP-CgH~FH~~CI~~WL~~---k~SCPVCR 544 (557)
..|.||+|...... .-+.|+ |.|.||..||..|-.. ..+||.|+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 67999999875432 345676 9999999999999765 23455554
No 75
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.47 E-value=0.014 Score=67.74 Aligned_cols=43 Identities=28% Similarity=0.645 Sum_probs=33.5
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPA 547 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV 547 (557)
..+|..|--.+... +...-|+|.||..|+. ....-||-|+.++
T Consensus 840 ~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 46899998777543 3455699999999998 4567899998754
No 76
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.33 E-value=0.048 Score=52.54 Aligned_cols=49 Identities=29% Similarity=0.647 Sum_probs=36.1
Q ss_pred CCCCccccccccccccCceeEEeCCCC-----cchHHHHHHHHhc--CCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQH-----RYHVLCIQQWLRL--TNWCPICKAPAES 549 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH-----~FH~~CI~~WL~~--k~SCPVCR~eV~~ 549 (557)
...+..|-||.++.. +. .-||.. .-|..|+++|+.. ...|++|+++...
T Consensus 5 s~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 445678999998853 22 347654 5699999999986 4589999987543
No 77
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.09 E-value=0.018 Score=60.08 Aligned_cols=47 Identities=19% Similarity=0.475 Sum_probs=40.1
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
..|-||...|... ....|+|+||..|-..-|+....|+||-+.+...
T Consensus 242 f~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS 288 (313)
T ss_pred ccccccccccccc---hhhcCCceeehhhhccccccCCcceecccccccc
Confidence 4699999999764 3678999999999999999999999998876543
No 78
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.98 E-value=0.035 Score=58.17 Aligned_cols=47 Identities=23% Similarity=0.432 Sum_probs=34.9
Q ss_pred ccccccccccccCceeEEeC-CCCcchHHHHHHHHhc-CCCCCCCCC-CCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLH-CQHRYHVLCIQQWLRL-TNWCPICKA-PAESA 550 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LP-CgH~FH~~CI~~WL~~-k~SCPVCR~-eV~~s 550 (557)
..|+.|-.-+... + .+| |+|.||.+||..-|.. ...||.|.. .|...
T Consensus 275 LkCplc~~Llrnp--~-kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld 324 (427)
T COG5222 275 LKCPLCHCLLRNP--M-KTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD 324 (427)
T ss_pred ccCcchhhhhhCc--c-cCccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence 6899998776542 2 345 8999999999987764 679999944 44433
No 79
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.89 E-value=0.037 Score=56.77 Aligned_cols=47 Identities=28% Similarity=0.673 Sum_probs=38.4
Q ss_pred ccccccccccccCce---eEEeCCCCcchHHHHHHHHhcC-CCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEE---VGRLHCQHRYHVLCIQQWLRLT-NWCPICKAPA 547 (557)
Q Consensus 501 ~~CsICLEeF~~gee---V~~LPCgH~FH~~CI~~WL~~k-~SCPVCR~eV 547 (557)
..|-||-++|..++. .+.|.|||.|+..|+.+-+... ..||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 579999999987743 3557799999999998877654 4699999985
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.87 E-value=0.057 Score=55.23 Aligned_cols=55 Identities=13% Similarity=0.360 Sum_probs=42.4
Q ss_pred CCCCCccccccccccccCcee-EEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEV-GRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV-~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
.......|+|+..+|...... ...||||+|...||.+- .....||+|-.++...+
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 356678999999999544444 44599999999999997 33567999988876554
No 81
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.60 E-value=0.047 Score=53.61 Aligned_cols=53 Identities=26% Similarity=0.672 Sum_probs=34.9
Q ss_pred CCccccccccccccCce----eEEeCCCCcchHHHHHHHHhcC-----------CCCCCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEE----VGRLHCQHRYHVLCIQQWLRLT-----------NWCPICKAPAESAP 551 (557)
Q Consensus 499 ed~~CsICLEeF~~gee----V~~LPCgH~FH~~CI~~WL~~k-----------~SCPVCR~eV~~s~ 551 (557)
+...|-||...-..|.. +--..|+.-||.-|+..||+.- ..||.|-.+|..+.
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 33456666543322221 2234699999999999999852 25999988876554
No 82
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.54 E-value=0.067 Score=57.06 Aligned_cols=52 Identities=23% Similarity=0.646 Sum_probs=40.7
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHH--HhcCCCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQW--LRLTNWCPICKAPAES 549 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~W--L~~k~SCPVCR~eV~~ 549 (557)
..+++...|-||-+.+. .+..+||+|..|-.|.... |-.++.||+||.+-+.
T Consensus 56 dtDEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 56 DTDEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred ccccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 45667788999987763 3568899999999998664 4568899999987543
No 83
>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=93.05 E-value=0.11 Score=55.87 Aligned_cols=29 Identities=24% Similarity=0.698 Sum_probs=22.7
Q ss_pred CCCcchHHHHHHHHhc-------------CCCCCCCCCCCCC
Q 008670 521 CQHRYHVLCIQQWLRL-------------TNWCPICKAPAES 549 (557)
Q Consensus 521 CgH~FH~~CI~~WL~~-------------k~SCPVCR~eV~~ 549 (557)
|.-++|.+||-+||.. +-.||+||+....
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 6678899999999864 3369999997543
No 84
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=92.98 E-value=0.051 Score=42.67 Aligned_cols=44 Identities=25% Similarity=0.604 Sum_probs=21.9
Q ss_pred ccccccccccCceeEEeC--CCCcchHHHHHHHHh-cCCCCCCCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLH--CQHRYHVLCIQQWLR-LTNWCPICKAPA 547 (557)
Q Consensus 503 CsICLEeF~~geeV~~LP--CgH~FH~~CI~~WL~-~k~SCPVCR~eV 547 (557)
|++|.+++...+ ...+| |++..+..|...-+. ....||-||.+.
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 789999994444 23455 789999999888776 478999999763
No 85
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=92.94 E-value=0.058 Score=62.85 Aligned_cols=49 Identities=33% Similarity=0.771 Sum_probs=36.8
Q ss_pred CCCccccccccccccCceeEE-eCCCCcchHHHHHHHHhcC------C-CCCCCCCC
Q 008670 498 NDDVKCSICQEEYVVGEEVGR-LHCQHRYHVLCIQQWLRLT------N-WCPICKAP 546 (557)
Q Consensus 498 ~ed~~CsICLEeF~~geeV~~-LPCgH~FH~~CI~~WL~~k------~-SCPVCR~e 546 (557)
....+|.||.+.+...+.+.- -.|-|+||..||..|-+.. . .||-|...
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 345689999999977665332 2488999999999998751 1 49999843
No 86
>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=92.81 E-value=0.043 Score=41.81 Aligned_cols=41 Identities=29% Similarity=0.758 Sum_probs=24.3
Q ss_pred ccccccccccCceeEEeCCCCcchHHHHHHHHhcCC--CCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTN--WCPIC 543 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~--SCPVC 543 (557)
|.+|.+....|.......|.=.+|..|+..+++... .||.|
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 778888877765433335888999999999998755 79988
No 87
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.71 E-value=0.12 Score=55.07 Aligned_cols=56 Identities=16% Similarity=0.453 Sum_probs=38.7
Q ss_pred CCCCCccccccccccccCcee-EEeCCCCcchHHHHHHHHh-cCCCCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEV-GRLHCQHRYHVLCIQQWLR-LTNWCPICKAPAESAP 551 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV-~~LPCgH~FH~~CI~~WL~-~k~SCPVCR~eV~~s~ 551 (557)
..++++.|+.|+|++...|+- .--|||-..|.-|....-+ .+..||.||.......
T Consensus 10 sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred cccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 344556699999999887753 3346888777777544322 2678999998765543
No 88
>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=91.36 E-value=0.072 Score=41.90 Aligned_cols=44 Identities=25% Similarity=0.600 Sum_probs=26.4
Q ss_pred cccccccccccCceeEEeCCC-CcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRLHCQ-HRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~LPCg-H~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
.|--|.-+... .+.|. |+.|..|+...|.....||||..+++..
T Consensus 4 nCKsCWf~~k~-----Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFANKG-----LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S--SS-----EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcCCC-----eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 46667644332 56786 9999999999999999999999988753
No 89
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.63 E-value=0.097 Score=60.49 Aligned_cols=46 Identities=22% Similarity=0.574 Sum_probs=37.0
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhcC--CCCCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLT--NWCPICKAPAESA 550 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k--~SCPVCR~eV~~s 550 (557)
..|.||++ -+.+...+|+|.||..|+.+-+... ..||+||..+...
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 78999999 3456678899999999999988762 3699999866543
No 90
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=89.94 E-value=0.11 Score=62.93 Aligned_cols=47 Identities=30% Similarity=0.650 Sum_probs=39.0
Q ss_pred CCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCC
Q 008670 498 NDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAP 546 (557)
Q Consensus 498 ~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~e 546 (557)
-....|.||++.+.. ..+...|+|.||..|+..||..+..||+|+..
T Consensus 1151 ~~~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred hcccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence 344589999999873 23466799999999999999999999999853
No 91
>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=89.60 E-value=0.34 Score=46.78 Aligned_cols=34 Identities=32% Similarity=0.638 Sum_probs=23.6
Q ss_pred CCccccccccccccCceeEEeCC------------CC-cchHHHHHHHHh
Q 008670 499 DDVKCSICQEEYVVGEEVGRLHC------------QH-RYHVLCIQQWLR 535 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~LPC------------gH-~FH~~CI~~WL~ 535 (557)
++..|+||||--.+.- .|-| +- +-|.+|++++-+
T Consensus 1 ed~~CpICme~PHNAV---LLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAV---LLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceE---EEEeccccCCccccccCCccchhHHHHHHHH
Confidence 3568999999876532 3433 32 468999999854
No 92
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.50 E-value=0.17 Score=53.47 Aligned_cols=42 Identities=19% Similarity=0.505 Sum_probs=28.7
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAP 546 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~e 546 (557)
..|--|---+. -.-+++||.|+||.+|..- ...+.||.|-..
T Consensus 91 HfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~ 132 (389)
T KOG2932|consen 91 HFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDR 132 (389)
T ss_pred EeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccH
Confidence 35666643332 2345789999999999743 446799999654
No 93
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.68 E-value=0.22 Score=58.58 Aligned_cols=39 Identities=15% Similarity=0.402 Sum_probs=30.6
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHH
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWL 534 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL 534 (557)
.-.+.++.|.||..-+.. ..-...||||.||.+||.+-.
T Consensus 812 ~v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 812 RVLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EEecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 345667899999887754 356678999999999998764
No 94
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=88.50 E-value=0.26 Score=50.30 Aligned_cols=51 Identities=25% Similarity=0.480 Sum_probs=38.1
Q ss_pred CccccccccccccCce-eEEeCCC-----CcchHHHHHHHHh--cCCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEE-VGRLHCQ-----HRYHVLCIQQWLR--LTNWCPICKAPAESA 550 (557)
Q Consensus 500 d~~CsICLEeF~~gee-V~~LPCg-----H~FH~~CI~~WL~--~k~SCPVCR~eV~~s 550 (557)
+..|-||.++...... ....||. +..|..|+..|+. .+..|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 5789999998754332 3456775 5789999999998 467899998755443
No 95
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=87.91 E-value=0.42 Score=50.88 Aligned_cols=52 Identities=17% Similarity=0.245 Sum_probs=39.8
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
....+...|+||+..-.+.. ...--|-+||-.||..++..++.|||=-.++.
T Consensus 295 ~l~~~~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 295 LLPPDREVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred cCCCccccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 34556779999998876543 22236899999999999999999999655543
No 96
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=87.70 E-value=0.3 Score=39.47 Aligned_cols=47 Identities=26% Similarity=0.396 Sum_probs=33.5
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
...|-.|...- .+-..+||+|+.+..|..-| .-+-||+|-..++...
T Consensus 7 ~~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVG---TKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccc---cccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 44566665442 33457899999999996543 5678999998887654
No 97
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.21 E-value=0.36 Score=55.99 Aligned_cols=42 Identities=29% Similarity=0.653 Sum_probs=30.9
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPI 542 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPV 542 (557)
...|.||.-... |-...+..|+|+.|..|..+|++....||-
T Consensus 1028 ~~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 334666644432 333456789999999999999999999985
No 98
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.95 E-value=0.37 Score=56.13 Aligned_cols=53 Identities=8% Similarity=0.088 Sum_probs=39.1
Q ss_pred CCCCCccccccccccccCce-eEEeC---CCCcchHHHHHHHHhc------CCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEE-VGRLH---CQHRYHVLCIQQWLRL------TNWCPICKAPAE 548 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~gee-V~~LP---CgH~FH~~CI~~WL~~------k~SCPVCR~eV~ 548 (557)
...+...|.||.-+|...+. ...+| |.|.||..||..|+.+ +..|+.|..-|.
T Consensus 92 K~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 92 KTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 34455678888888876332 34455 9999999999999876 457899977554
No 99
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=85.66 E-value=0.52 Score=49.67 Aligned_cols=46 Identities=24% Similarity=0.574 Sum_probs=35.9
Q ss_pred CCCCCccccccccccccCceeEEeCC--CCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHC--QHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPC--gH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
...+-..|+||.+.+... .+.| ||+-|..|=. +..+.||.||.++.
T Consensus 44 ~~~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 345567899999998753 4567 7999999965 45788999999876
No 100
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=85.65 E-value=0.51 Score=53.72 Aligned_cols=44 Identities=23% Similarity=0.648 Sum_probs=30.3
Q ss_pred CCCCccccccccc-----cccCceeEEeCCCCcchHHHHHHHHhcCCCCCCC
Q 008670 497 NNDDVKCSICQEE-----YVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPIC 543 (557)
Q Consensus 497 ~~ed~~CsICLEe-----F~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVC 543 (557)
......|.||+.. |+.....++.-|+++||..|.. +.+.-||.|
T Consensus 508 ~~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~---r~s~~CPrC 556 (580)
T KOG1829|consen 508 TGKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLR---RKSPCCPRC 556 (580)
T ss_pred ccCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHh---ccCCCCCch
Confidence 3445689999543 3333345667899999999943 455569999
No 101
>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=85.65 E-value=0.39 Score=49.26 Aligned_cols=46 Identities=26% Similarity=0.722 Sum_probs=35.0
Q ss_pred CCCccccccccc-cccCceeEEe--C-CCCcchHHHHHHHHhc-CCCCC--CCC
Q 008670 498 NDDVKCSICQEE-YVVGEEVGRL--H-CQHRYHVLCIQQWLRL-TNWCP--ICK 544 (557)
Q Consensus 498 ~ed~~CsICLEe-F~~geeV~~L--P-CgH~FH~~CI~~WL~~-k~SCP--VCR 544 (557)
..+..|+||..+ |...+ +..| | |-|..|..|++.-|.. ...|| -|-
T Consensus 8 ~~d~~CPvCksDrYLnPd-ik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPD-IKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred hhcccCCccccccccCCC-eEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 346789999988 44444 3333 6 9999999999999976 56899 663
No 102
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=83.94 E-value=0.69 Score=54.14 Aligned_cols=53 Identities=26% Similarity=0.611 Sum_probs=39.6
Q ss_pred CCCCccccccccccccCceeEEeCCCC-----cchHHHHHHHHhc--CCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQH-----RYHVLCIQQWLRL--TNWCPICKAPAESA 550 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH-----~FH~~CI~~WL~~--k~SCPVCR~eV~~s 550 (557)
.+++..|-||..+=..++.+ .=||.. +.|.+|+.+|+.- ...|-+|+.++.-.
T Consensus 9 N~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk 68 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK 68 (1175)
T ss_pred CccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence 45568999999886665532 346753 6899999999985 55799999876543
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.96 E-value=0.51 Score=51.23 Aligned_cols=40 Identities=25% Similarity=0.529 Sum_probs=29.6
Q ss_pred CCCcccccccccc-ccCceeEEeCCCCcchHHHHHHHHhcC
Q 008670 498 NDDVKCSICQEEY-VVGEEVGRLHCQHRYHVLCIQQWLRLT 537 (557)
Q Consensus 498 ~ed~~CsICLEeF-~~geeV~~LPCgH~FH~~CI~~WL~~k 537 (557)
.....|.||..++ ...+....+.|+|.||.+|+.+.+..+
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 3467899999444 433434456799999999999998754
No 104
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.88 E-value=0.68 Score=47.90 Aligned_cols=54 Identities=19% Similarity=0.402 Sum_probs=37.1
Q ss_pred CCCCCCccccccccccccCcee-EEeCCC-----CcchHHHHHHHHhcCC--------CCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEV-GRLHCQ-----HRYHVLCIQQWLRLTN--------WCPICKAPAE 548 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV-~~LPCg-----H~FH~~CI~~WL~~k~--------SCPVCR~eV~ 548 (557)
.+.+.+..|=||...=++.-.. -.=||. |-.|..||..|+..+. +||-|+.+.-
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 3466778899998764332211 123663 7799999999997643 6999998753
No 105
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=80.81 E-value=1.2 Score=51.95 Aligned_cols=44 Identities=25% Similarity=0.518 Sum_probs=32.5
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCC--CCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPI--CKA 545 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPV--CR~ 545 (557)
..|++|-..+ .|..+.+-.|+|.-|..|++.||..+.-||. |-+
T Consensus 780 ~~CtVC~~vi-~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 780 AKCTVCDLVI-RGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPH 825 (839)
T ss_pred cCceeeccee-eeeEeecccccccccHHHHHHHHhcCCCCccccCCc
Confidence 4788885444 3343444459999999999999999988876 643
No 106
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.49 E-value=0.89 Score=45.51 Aligned_cols=39 Identities=33% Similarity=0.767 Sum_probs=28.4
Q ss_pred ccccccccccCceeEEeCCCC-cchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQH-RYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCgH-~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
|-+|-+. +-.|..|||.| .+|..|=.. -..||+|+....
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 7788655 34488899988 688889543 456999987654
No 107
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.26 E-value=1.6 Score=47.57 Aligned_cols=49 Identities=16% Similarity=0.245 Sum_probs=40.5
Q ss_pred CCccccccccccccCceeEEeCCCCcchHHHHHHHHhcC---CCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLT---NWCPICKAPA 547 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k---~SCPVCR~eV 547 (557)
.-..|+|=.+.-.+....++|.|||+...+-|.+..+.. ..||.|=.+.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 346899999988888889999999999999999987653 4799994443
No 108
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=77.66 E-value=0.6 Score=53.95 Aligned_cols=47 Identities=26% Similarity=0.652 Sum_probs=37.8
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCC---CCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTN---WCPICKAPAES 549 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~---SCPVCR~eV~~ 549 (557)
..+|.||++-|... ..+.|.|.|+..|+..-|...+ .||||+..++-
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 56899999998765 4678999999999887776644 79999976553
No 109
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=76.80 E-value=2.5 Score=34.13 Aligned_cols=32 Identities=25% Similarity=0.707 Sum_probs=26.5
Q ss_pred CCccccccccccccCceeEEeC-CCCcchHHHH
Q 008670 499 DDVKCSICQEEYVVGEEVGRLH-CQHRYHVLCI 530 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~LP-CgH~FH~~CI 530 (557)
....|.+|-+.|..++.+..-| |+=.||.+|-
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 3468999999998777766665 9999999994
No 110
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.77 E-value=1.4 Score=51.68 Aligned_cols=47 Identities=28% Similarity=0.488 Sum_probs=35.4
Q ss_pred CCCCccccccccccccC----ceeEEeCCCCcchHHHHHHHHhcCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVG----EEVGRLHCQHRYHVLCIQQWLRLTNWCPICK 544 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~g----eeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR 544 (557)
...+..|+-|.+..... +.+..+.|+|.||..|+.--..+++ |-+|-
T Consensus 781 v~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 781 VSVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred EeehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 34455899998886432 4578899999999999988776665 76663
No 111
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.45 E-value=2 Score=47.25 Aligned_cols=38 Identities=34% Similarity=0.669 Sum_probs=32.2
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL 536 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~ 536 (557)
...+..|-||.+.+.. .+..+.|+|.|+..|+...|..
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 3456789999999976 5667899999999999999876
No 112
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=72.42 E-value=3.5 Score=39.06 Aligned_cols=51 Identities=25% Similarity=0.512 Sum_probs=35.7
Q ss_pred CCccccccccccccCceeEEe-C---CCCcchHHHHHHHHhc---CCCCCCCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEEVGRL-H---CQHRYHVLCIQQWLRL---TNWCPICKAPAESAPS 552 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~L-P---CgH~FH~~CI~~WL~~---k~SCPVCR~eV~~s~s 552 (557)
.--+|-||.|.-.+. +-| | ||-..|..|--..++- +..||+|+.+.-.+..
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 567899999986532 234 3 8988887765544443 5689999998876554
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.56 E-value=2.3 Score=44.92 Aligned_cols=29 Identities=21% Similarity=0.477 Sum_probs=22.8
Q ss_pred CCCcchHHHHHHHHh-------------cCCCCCCCCCCCCC
Q 008670 521 CQHRYHVLCIQQWLR-------------LTNWCPICKAPAES 549 (557)
Q Consensus 521 CgH~FH~~CI~~WL~-------------~k~SCPVCR~eV~~ 549 (557)
|.-++|..|+-+|+. ++.+||+||+...-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 677899999999864 35589999987543
No 114
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.17 E-value=2.2 Score=48.15 Aligned_cols=48 Identities=27% Similarity=0.770 Sum_probs=39.2
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
.+....|.||+++. ..+..+|. |..|+.+|+..+..||.|+..+....
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred hcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccc
Confidence 44567899999998 34566788 99999999999999999987766554
No 115
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.87 E-value=2.4 Score=48.86 Aligned_cols=44 Identities=32% Similarity=0.576 Sum_probs=32.5
Q ss_pred CccccccccccccCc-eeEEeCCCCcchHHHHHHHHhcCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGE-EVGRLHCQHRYHVLCIQQWLRLTNWCPICKAP 546 (557)
Q Consensus 500 d~~CsICLEeF~~ge-eV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~e 546 (557)
-..|.||+..|.... ...-|.|||+.|..|+.... +.+|| |++.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~D 55 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKRD 55 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCcc
Confidence 347999999986544 23456799999999998754 56788 6553
No 116
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=63.29 E-value=3.8 Score=41.56 Aligned_cols=42 Identities=31% Similarity=0.736 Sum_probs=34.6
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPIC 543 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVC 543 (557)
-..|.+|.+-...| +++=.|+-.||..||..+|+....||.|
T Consensus 181 lk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCch
Confidence 45899998876543 3444688899999999999999999999
No 117
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=62.61 E-value=6.6 Score=42.06 Aligned_cols=53 Identities=23% Similarity=0.493 Sum_probs=39.0
Q ss_pred CccccccccccccCce-eEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEE-VGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAPS 552 (557)
Q Consensus 500 d~~CsICLEeF~~gee-V~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~s 552 (557)
...|+||-+.....+. ..-.||+|..|..|+..-...+..||.||...+....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t~ 302 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERNTK 302 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccCcc
Confidence 4789999998744442 3334588888888888877788999999976665443
No 118
>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 KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.81 E-value=4.3 Score=44.20 Aligned_cols=44 Identities=20% Similarity=0.548 Sum_probs=32.8
Q ss_pred CccccccccccccCceeEEe--CCCCcchHHHHHHHHhcCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRL--HCQHRYHVLCIQQWLRLTNWCPIC 543 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~L--PCgH~FH~~CI~~WL~~k~SCPVC 543 (557)
-..|++|.-.++..+....+ .|+|.|+..|...|...+..|.-|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 45788888777555543333 389999999999998888877555
No 120
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.76 E-value=4.8 Score=42.48 Aligned_cols=38 Identities=16% Similarity=0.541 Sum_probs=30.0
Q ss_pred CCCccccccccccccCceeEEeCC----CCcchHHHHHHHHhcCC
Q 008670 498 NDDVKCSICQEEYVVGEEVGRLHC----QHRYHVLCIQQWLRLTN 538 (557)
Q Consensus 498 ~ed~~CsICLEeF~~geeV~~LPC----gH~FH~~CI~~WL~~k~ 538 (557)
.....|.+|.|.+++.- ...| .|.||.-|-.+-++++.
T Consensus 266 ~apLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CCceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhhc
Confidence 34479999999997643 4456 69999999999998754
No 121
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=56.73 E-value=5.8 Score=41.43 Aligned_cols=47 Identities=23% Similarity=0.587 Sum_probs=34.4
Q ss_pred CccccccccccccCceeEEe----CCCCcchHHHHHHHHhc---------CCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRL----HCQHRYHVLCIQQWLRL---------TNWCPICKAP 546 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~L----PCgH~FH~~CI~~WL~~---------k~SCPVCR~e 546 (557)
..+|-||.+++...++.+.. -|.-++|..|+..-+.. ...||.|++-
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 35899999999554543332 28889999999995543 3479999874
No 122
>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=55.95 E-value=11 Score=26.09 Aligned_cols=38 Identities=32% Similarity=0.552 Sum_probs=25.6
Q ss_pred cccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
.|..|.+.+...+.+.. .=+..||..|. .|..|...+.
T Consensus 1 ~C~~C~~~i~~~~~~~~-~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLR-ALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEE-eCCccccccCC--------CCcccCCcCc
Confidence 48888888776533322 24788998874 5888877664
No 123
>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=50.39 E-value=5.7 Score=31.13 Aligned_cols=42 Identities=21% Similarity=0.573 Sum_probs=19.9
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhc----CC-CCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL----TN-WCPICKA 545 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~----k~-SCPVCR~ 545 (557)
..|+|....+.. .++-..|.|.-+.+ +..||.. .. .||+|.+
T Consensus 3 L~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 368888777654 46667799975432 4455543 22 5999976
No 124
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=48.84 E-value=7.1 Score=29.65 Aligned_cols=43 Identities=23% Similarity=0.609 Sum_probs=29.7
Q ss_pred cccccccccccCceeEEeCCCCcchHHHHHHHHhc------CCCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL------TNWCPICK 544 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~------k~SCPVCR 544 (557)
.|.||......++.+..-.|+..||..|+..=+.. .-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 38899985555554444568999999998765431 34688775
No 125
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=48.32 E-value=11 Score=37.52 Aligned_cols=40 Identities=25% Similarity=0.765 Sum_probs=28.2
Q ss_pred Cccccccccc-----cccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCC
Q 008670 500 DVKCSICQEE-----YVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICK 544 (557)
Q Consensus 500 d~~CsICLEe-----F~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR 544 (557)
...|-||..+ |.....++.-.|+-+||..|.. +..||-|-
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 4689999752 3443334555699999999965 26799994
No 126
>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=47.89 E-value=28 Score=28.58 Aligned_cols=48 Identities=19% Similarity=0.528 Sum_probs=34.9
Q ss_pred ccccccccccccCceeEEeCCC--CcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQ--HRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCg--H~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
..|-.|-.++..+.....+ |. ..||.+|....| +..||-|--++...+
T Consensus 6 pnCE~C~~dLp~~s~~A~I-CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI-CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCCCcceE-EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 4577888888665522222 54 489999999977 789999988887654
No 127
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=41.51 E-value=18 Score=38.84 Aligned_cols=46 Identities=17% Similarity=0.256 Sum_probs=36.2
Q ss_pred CCccccccccccccCceeEEeCCCCcchHHHHHHHHhc---CCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL---TNWCPICK 544 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~---k~SCPVCR 544 (557)
.-..|+|-.|.-......++|.|||+.-..-+...-+. ...||.|=
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 34689998888777777889999999999988885443 34699994
No 128
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=39.95 E-value=26 Score=37.69 Aligned_cols=55 Identities=18% Similarity=0.454 Sum_probs=37.0
Q ss_pred CCCCCccccccccccc-----cCce-----------eEEeCCCCcchHHHHHHHHhc---------CCCCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYV-----VGEE-----------VGRLHCQHRYHVLCIQQWLRL---------TNWCPICKAPAESA 550 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~-----~gee-----------V~~LPCgH~FH~~CI~~WL~~---------k~SCPVCR~eV~~s 550 (557)
....+.+|++|+..=. .|-+ -..-||||+--..-+.-|-+. +..||.|-+.+...
T Consensus 337 ~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 337 TGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 3445789999986521 1111 123489999999999999775 34699998776543
No 129
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.23 E-value=32 Score=36.02 Aligned_cols=52 Identities=12% Similarity=0.202 Sum_probs=37.7
Q ss_pred CCccccccccccccCce-eEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEE-VGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESAPS 552 (557)
Q Consensus 499 ed~~CsICLEeF~~gee-V~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~s 552 (557)
....|+|---+|..... +...+|||+|-..-+++. ...+|++|.+.+.....
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDV 162 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCe
Confidence 34679987766644333 345689999999888774 36789999988776653
No 130
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=37.86 E-value=14 Score=27.11 Aligned_cols=26 Identities=31% Similarity=0.786 Sum_probs=17.6
Q ss_pred ccccccccccccCce--------eEEeCCCCcch
Q 008670 501 VKCSICQEEYVVGEE--------VGRLHCQHRYH 526 (557)
Q Consensus 501 ~~CsICLEeF~~gee--------V~~LPCgH~FH 526 (557)
..|+=|.-.|...++ +..-.|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 368888888876664 33345788875
No 131
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.08 E-value=24 Score=36.84 Aligned_cols=38 Identities=8% Similarity=-0.101 Sum_probs=30.0
Q ss_pred CCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL 536 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~ 536 (557)
...+-..|+.||.-+... ++.|=||+|+.+||.+++..
T Consensus 39 siK~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDP---VITPDGYLFDREAILEYILA 76 (303)
T ss_pred ccCCcceeeeecccccCC---ccCCCCeeeeHHHHHHHHHH
Confidence 445566899999988753 36678999999999999754
No 132
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=35.30 E-value=18 Score=42.05 Aligned_cols=28 Identities=29% Similarity=0.959 Sum_probs=21.9
Q ss_pred CCCCcchHHHHHHHHhc---CCC--CCCCCCCC
Q 008670 520 HCQHRYHVLCIQQWLRL---TNW--CPICKAPA 547 (557)
Q Consensus 520 PCgH~FH~~CI~~WL~~---k~S--CPVCR~eV 547 (557)
.|+-.||..|+.-|+.. ..+ ||-||.-.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 48899999999999864 233 99887643
No 133
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=34.39 E-value=7.4 Score=48.93 Aligned_cols=53 Identities=17% Similarity=0.458 Sum_probs=42.1
Q ss_pred CCCCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhc----CCCCCCCCCCC
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRL----TNWCPICKAPA 547 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~----k~SCPVCR~eV 547 (557)
........|-||.......+.+.+.-|--.||..|+.+-+.. .-+||-|+.+-
T Consensus 1103 ~~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1103 DRSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 445566789999999887666666678899999999998876 33799998754
No 134
>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=32.90 E-value=4.4 Score=34.42 Aligned_cols=40 Identities=28% Similarity=0.574 Sum_probs=20.6
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAE 548 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~ 548 (557)
..|++|..++.... +|+++..|-.. +.....||-|..++.
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 46999988865432 56666666554 344567898887764
No 135
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=32.68 E-value=32 Score=30.21 Aligned_cols=33 Identities=30% Similarity=0.642 Sum_probs=23.1
Q ss_pred CCccccccccccccCceeEEeC--CCCcchHHHHHHH
Q 008670 499 DDVKCSICQEEYVVGEEVGRLH--CQHRYHVLCIQQW 533 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~LP--CgH~FH~~CI~~W 533 (557)
....|.||... .|..+..-. |...||..|...+
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 35689999987 333333333 7789999998663
No 136
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=32.35 E-value=8.1 Score=40.77 Aligned_cols=39 Identities=28% Similarity=0.469 Sum_probs=31.4
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTN 538 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~ 538 (557)
...|.||.++|..+.....+-|--.||..|+..||....
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred ceecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 349999999998766666666666999999999998743
No 137
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=32.29 E-value=35 Score=36.86 Aligned_cols=48 Identities=19% Similarity=0.334 Sum_probs=34.0
Q ss_pred CCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAP 546 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~e 546 (557)
....|=.|+++.......++-.|.|.||.+|=.---..-..||-|-..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 445598998887776666666799999999944332333469999743
No 138
>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=32.01 E-value=30 Score=24.06 Aligned_cols=29 Identities=21% Similarity=0.399 Sum_probs=11.4
Q ss_pred cccccccccccCceeEEeCCCCcchHHHH
Q 008670 502 KCSICQEEYVVGEEVGRLHCQHRYHVLCI 530 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~LPCgH~FH~~CI 530 (557)
.|.+|.+....+--.....|.-.+|..|+
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 58899888765333455679999999996
No 139
>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=30.31 E-value=17 Score=40.04 Aligned_cols=25 Identities=28% Similarity=0.784 Sum_probs=0.0
Q ss_pred eCCCCcchHHHHHHHHh------cCCCCCCCCCC
Q 008670 519 LHCQHRYHVLCIQQWLR------LTNWCPICKAP 546 (557)
Q Consensus 519 LPCgH~FH~~CI~~WL~------~k~SCPVCR~e 546 (557)
|.|||++. ...|-. ....||+||..
T Consensus 307 l~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 307 LNCGHVHG---YHNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ----------------------------------
T ss_pred ccccceee---ecccccccccccccccCCCcccc
No 140
>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=30.27 E-value=30 Score=29.26 Aligned_cols=13 Identities=23% Similarity=0.767 Sum_probs=9.2
Q ss_pred cchHHHHHHHHhc
Q 008670 524 RYHVLCIQQWLRL 536 (557)
Q Consensus 524 ~FH~~CI~~WL~~ 536 (557)
-||..|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999863
No 141
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=29.43 E-value=38 Score=24.21 Aligned_cols=11 Identities=45% Similarity=1.069 Sum_probs=7.5
Q ss_pred cCCCCCCCCCC
Q 008670 536 LTNWCPICKAP 546 (557)
Q Consensus 536 ~k~SCPVCR~e 546 (557)
....||+|.+.
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 34479999663
No 142
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.21 E-value=18 Score=38.59 Aligned_cols=52 Identities=23% Similarity=0.554 Sum_probs=40.2
Q ss_pred CCCCccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 497 NNDDVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 497 ~~ed~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
..+...|-||...|...... -.|.|.|+..|...|....+-||.|+..+.+.
T Consensus 102 ~~~~~~~~~~~g~l~vpt~~--qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv 153 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPTRI--QGCWHQFCYVCPKSNFAMGNDCPDCRGKISPV 153 (324)
T ss_pred cCCccceeeeeeeEEecccc--cCceeeeeecCCchhhhhhhccchhhcCcCce
Confidence 44566899998887554311 13999999999999999999999998876543
No 143
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.12 E-value=11 Score=38.85 Aligned_cols=48 Identities=27% Similarity=0.447 Sum_probs=37.1
Q ss_pred CCccccccccccccC-ce--eEEeC--------CCCcchHHHHHHHHhcCC-CCCCCCCC
Q 008670 499 DDVKCSICQEEYVVG-EE--VGRLH--------CQHRYHVLCIQQWLRLTN-WCPICKAP 546 (557)
Q Consensus 499 ed~~CsICLEeF~~g-ee--V~~LP--------CgH~FH~~CI~~WL~~k~-SCPVCR~e 546 (557)
....|.||...|... .. .+.+. |+|..+..|+..-+.+.. .||.|+..
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 346799999999832 22 23445 999999999999987754 89999863
No 144
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=28.08 E-value=29 Score=25.53 Aligned_cols=26 Identities=27% Similarity=0.715 Sum_probs=17.8
Q ss_pred ccccccccccccCce--------eEEeCCCCcch
Q 008670 501 VKCSICQEEYVVGEE--------VGRLHCQHRYH 526 (557)
Q Consensus 501 ~~CsICLEeF~~gee--------V~~LPCgH~FH 526 (557)
..|+-|.-.|...++ ++.-.|+|.|+
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 468899888866553 33345888875
No 145
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.98 E-value=63 Score=27.95 Aligned_cols=48 Identities=19% Similarity=0.516 Sum_probs=31.1
Q ss_pred cccccccccccCceeEEe-CCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 008670 502 KCSICQEEYVVGEEVGRL-HCQHRYHVLCIQQWLRLTNWCPICKAPAESAP 551 (557)
Q Consensus 502 ~CsICLEeF~~geeV~~L-PCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s~ 551 (557)
.|--|-.++-.+..-.++ .=.|.||.+|...- .+..||-|--++...+
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~--l~g~CPnCGGelv~RP 55 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENR--LHGLCPNCGGELVARP 55 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHh--hcCcCCCCCchhhcCc
Confidence 455566666443322222 22589999999864 4778999988877655
No 146
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=26.13 E-value=49 Score=25.30 Aligned_cols=39 Identities=23% Similarity=0.448 Sum_probs=21.9
Q ss_pred ccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 008670 503 CSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAESA 550 (557)
Q Consensus 503 CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~s 550 (557)
|..|.+.+..++.+ ...-+..||..|. .|=.|...|...
T Consensus 1 C~~C~~~I~~~~~~-~~~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIV-IKAMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEE-EEETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEE-EEeCCcEEEcccc--------ccCCCCCccCCC
Confidence 56666666644422 2245667776653 566666665543
No 147
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=25.66 E-value=50 Score=35.66 Aligned_cols=47 Identities=6% Similarity=-0.137 Sum_probs=35.2
Q ss_pred CCCCCccccccccccccCceeEEeCCCC-cchHHHHHHHHhcCCCCCCCCCCC
Q 008670 496 GNNDDVKCSICQEEYVVGEEVGRLHCQH-RYHVLCIQQWLRLTNWCPICKAPA 547 (557)
Q Consensus 496 ~~~ed~~CsICLEeF~~geeV~~LPCgH-~FH~~CI~~WL~~k~SCPVCR~eV 547 (557)
......+|.+|-+.... ....+|+| +|+..|.. +....+||+|-+-+
T Consensus 339 ~~~s~~~~~~~~~~~~s---t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGLLS---TIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred cchhhcccccccCceee---eEeecCCcccChhhhhh--cccCCccccccccc
Confidence 34556789999776643 23458998 79999987 67788999997654
No 148
>PLN02189 cellulose synthase
Probab=24.75 E-value=56 Score=40.17 Aligned_cols=49 Identities=29% Similarity=0.480 Sum_probs=32.7
Q ss_pred Ccccccccccccc---Cce-eEEeCCCCcchHHHHHHHHh-cCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVV---GEE-VGRLHCQHRYHVLCIQQWLR-LTNWCPICKAPAE 548 (557)
Q Consensus 500 d~~CsICLEeF~~---gee-V~~LPCgH~FH~~CI~~WL~-~k~SCPVCR~eV~ 548 (557)
...|.||-++... |+. |.+--|+--.|..|..-=-+ .+..||-|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4589999999753 332 22334777789999833222 2678999998665
No 149
>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=24.65 E-value=36 Score=26.64 Aligned_cols=13 Identities=15% Similarity=0.641 Sum_probs=9.5
Q ss_pred Ccccccccccccc
Q 008670 500 DVKCSICQEEYVV 512 (557)
Q Consensus 500 d~~CsICLEeF~~ 512 (557)
...|+.|-++|..
T Consensus 2 ~f~CP~C~~~~~~ 14 (54)
T PF05605_consen 2 SFTCPYCGKGFSE 14 (54)
T ss_pred CcCCCCCCCccCH
Confidence 4579999886643
No 150
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=24.23 E-value=9.7 Score=39.52 Aligned_cols=48 Identities=21% Similarity=0.368 Sum_probs=19.9
Q ss_pred CCccccccccccccCceeEEe--CCCCcchHHHHHHHHhcCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYVVGEEVGRL--HCQHRYHVLCIQQWLRLTNWCPICKAP 546 (557)
Q Consensus 499 ed~~CsICLEeF~~geeV~~L--PCgH~FH~~CI~~WL~~k~SCPVCR~e 546 (557)
....|+||-..-..+.-...- --.|.+|.-|-.+|-.....||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 346899997664322100000 013557777888887778899999543
No 151
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=23.71 E-value=19 Score=38.18 Aligned_cols=41 Identities=37% Similarity=0.632 Sum_probs=28.6
Q ss_pred CccccccccccccCceeEEeCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 008670 500 DVKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWLRLTNWCPICKAPAES 549 (557)
Q Consensus 500 d~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL~~k~SCPVCR~eV~~ 549 (557)
..+|+-|++-+...+.| +-.=.|+||..|. .|-||+..+..
T Consensus 92 GTKCsaC~~GIpPtqVV-RkAqd~VYHl~CF--------~C~iC~R~L~T 132 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVV-RKAQDFVYHLHCF--------ACFICKRQLAT 132 (383)
T ss_pred CCcchhhcCCCChHHHH-HHhhcceeehhhh--------hhHhhhccccc
Confidence 45799999888665533 3346789999885 37777776654
No 152
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.38 E-value=37 Score=39.13 Aligned_cols=37 Identities=27% Similarity=0.568 Sum_probs=25.3
Q ss_pred CCCcccccccccccc----Cce------eEEeCCCCcchHHHHHHHH
Q 008670 498 NDDVKCSICQEEYVV----GEE------VGRLHCQHRYHVLCIQQWL 534 (557)
Q Consensus 498 ~ed~~CsICLEeF~~----gee------V~~LPCgH~FH~~CI~~WL 534 (557)
+....|+||+|.|+. .++ ...+.=|-+||..|+.+--
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 667899999999842 111 1223358899999987653
No 153
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=23.35 E-value=36 Score=33.61 Aligned_cols=23 Identities=30% Similarity=0.562 Sum_probs=20.2
Q ss_pred eEEeCCCC--cchHHHHHHHHhcCC
Q 008670 516 VGRLHCQH--RYHVLCIQQWLRLTN 538 (557)
Q Consensus 516 V~~LPCgH--~FH~~CI~~WL~~k~ 538 (557)
+-.|||.| .|-.+||.+-..+|+
T Consensus 126 ~eRL~C~HKGTYADDClv~RV~qHk 150 (195)
T KOG3165|consen 126 FERLPCTHKGTYADDCLVQRVTQHK 150 (195)
T ss_pred ccccccccCCcchhhHHHHHHhhcc
Confidence 56899999 799999999988876
No 154
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=22.60 E-value=26 Score=32.17 Aligned_cols=28 Identities=21% Similarity=0.565 Sum_probs=19.7
Q ss_pred ccccccccccccCceeEEeCCCCcchHHHHHHHH
Q 008670 501 VKCSICQEEYVVGEEVGRLHCQHRYHVLCIQQWL 534 (557)
Q Consensus 501 ~~CsICLEeF~~geeV~~LPCgH~FH~~CI~~WL 534 (557)
..|++|..+|.-.+- ++++|..|..+|-
T Consensus 4 p~cp~c~sEytYed~------~~~~cpec~~ew~ 31 (112)
T COG2824 4 PPCPKCNSEYTYEDG------GQLICPECAHEWN 31 (112)
T ss_pred CCCCccCCceEEecC------ceEeCchhccccc
Confidence 479999999865442 2456777777774
No 155
>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=21.66 E-value=36 Score=27.47 Aligned_cols=37 Identities=16% Similarity=0.383 Sum_probs=18.6
Q ss_pred CCCccccccccccccCce-eEEeCCCCcchHHHHHHHH
Q 008670 498 NDDVKCSICQEEYVVGEE-VGRLHCQHRYHVLCIQQWL 534 (557)
Q Consensus 498 ~ed~~CsICLEeF~~gee-V~~LPCgH~FH~~CI~~WL 534 (557)
.+...|.+|...|..-.. ...-.||++|+..|...++
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 345689999999965332 2223599999999986554
No 156
>PLN02436 cellulose synthase A
Probab=21.24 E-value=86 Score=38.78 Aligned_cols=50 Identities=28% Similarity=0.477 Sum_probs=33.0
Q ss_pred CCccccccccccc---cCce-eEEeCCCCcchHHHHHHHHh-cCCCCCCCCCCCC
Q 008670 499 DDVKCSICQEEYV---VGEE-VGRLHCQHRYHVLCIQQWLR-LTNWCPICKAPAE 548 (557)
Q Consensus 499 ed~~CsICLEeF~---~gee-V~~LPCgH~FH~~CI~~WL~-~k~SCPVCR~eV~ 548 (557)
....|.||-++.. +|+. |.+=-|+--.|..|..-=.+ .+..||-|++...
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 3458999999973 3332 23334666799999843222 2678999998665
No 157
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=20.52 E-value=51 Score=35.64 Aligned_cols=28 Identities=32% Similarity=0.705 Sum_probs=19.0
Q ss_pred eEEeCCCCc--chHHHHHHHHhc------CCCCCCCCCCCC
Q 008670 516 VGRLHCQHR--YHVLCIQQWLRL------TNWCPICKAPAE 548 (557)
Q Consensus 516 V~~LPCgH~--FH~~CI~~WL~~------k~SCPVCR~eV~ 548 (557)
...|.|||+ ||. |=.+ ...||+|+..-+
T Consensus 317 ~vYl~CGHV~G~H~-----WG~~e~~g~~~r~CPmC~~~gp 352 (429)
T KOG3842|consen 317 WVYLNCGHVHGYHN-----WGVRENTGQRERECPMCRVVGP 352 (429)
T ss_pred eEEEeccccccccc-----cccccccCcccCcCCeeeeecc
Confidence 557899985 664 6443 346999987543
No 158
>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 KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=20.21 E-value=43 Score=41.25 Aligned_cols=37 Identities=22% Similarity=0.332 Sum_probs=26.7
Q ss_pred CCCCCCccccccccccccCceeEE--eCCCCcchHHHHH
Q 008670 495 SGNNDDVKCSICQEEYVVGEEVGR--LHCQHRYHVLCIQ 531 (557)
Q Consensus 495 ~~~~ed~~CsICLEeF~~geeV~~--LPCgH~FH~~CI~ 531 (557)
.+.+++..|.||++.=...-.+.. =-|+=.+|.+|..
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 456788999999987544223333 2588899999987
Done!