Query 028554
Match_columns 207
No_of_seqs 247 out of 1731
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 13:20:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028554.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028554hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 1.6E-16 3.4E-21 97.6 2.0 44 136-179 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 1.1E-14 2.4E-19 124.5 3.2 52 136-187 230-282 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 3E-14 6.4E-19 96.9 3.6 46 134-179 18-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.3 5E-13 1.1E-17 113.8 2.8 56 132-188 284-350 (491)
5 PHA02929 N1R/p28-like protein; 99.3 2.5E-12 5.3E-17 105.6 4.5 51 133-183 172-227 (238)
6 PF12861 zf-Apc11: Anaphase-pr 99.3 2.6E-12 5.6E-17 88.6 3.5 52 134-185 20-84 (85)
7 PF13923 zf-C3HC4_2: Zinc fing 99.3 2.9E-12 6.3E-17 76.5 2.6 39 138-178 1-39 (39)
8 KOG0317 Predicted E3 ubiquitin 99.2 3.9E-12 8.4E-17 105.4 3.1 54 130-186 234-287 (293)
9 PF13920 zf-C3HC4_3: Zinc fing 99.2 7.8E-12 1.7E-16 78.7 3.4 47 134-183 1-48 (50)
10 COG5540 RING-finger-containing 99.2 1.1E-11 2.3E-16 103.2 3.4 52 133-184 321-373 (374)
11 PLN03208 E3 ubiquitin-protein 99.2 1.8E-11 3.8E-16 97.0 4.1 49 133-184 16-80 (193)
12 cd00162 RING RING-finger (Real 99.2 2.3E-11 5E-16 73.7 3.6 44 137-182 1-45 (45)
13 PF15227 zf-C3HC4_4: zinc fing 99.1 3.5E-11 7.6E-16 72.9 2.7 38 138-178 1-42 (42)
14 KOG0823 Predicted E3 ubiquitin 99.1 4.1E-11 9E-16 96.6 3.2 51 132-185 44-97 (230)
15 KOG0320 Predicted E3 ubiquitin 99.1 5.2E-11 1.1E-15 92.3 2.5 51 132-183 128-178 (187)
16 PF00097 zf-C3HC4: Zinc finger 99.1 1.1E-10 2.3E-15 70.3 2.8 39 138-178 1-41 (41)
17 PF14634 zf-RING_5: zinc-RING 99.0 1.7E-10 3.8E-15 70.6 3.4 44 137-180 1-44 (44)
18 TIGR00599 rad18 DNA repair pro 99.0 1.2E-10 2.7E-15 102.0 3.6 55 131-188 22-76 (397)
19 smart00504 Ubox Modified RING 99.0 3.8E-10 8.3E-15 74.0 4.8 47 136-185 2-48 (63)
20 COG5194 APC11 Component of SCF 99.0 2.3E-10 5E-15 77.1 2.8 52 135-186 20-84 (88)
21 PHA02926 zinc finger-like prot 99.0 3.8E-10 8.3E-15 90.6 3.3 53 132-184 167-231 (242)
22 KOG0802 E3 ubiquitin ligase [P 98.9 3.4E-10 7.4E-15 104.0 1.6 52 132-183 288-341 (543)
23 smart00184 RING Ring finger. E 98.9 1.8E-09 3.8E-14 63.1 3.2 38 138-178 1-39 (39)
24 KOG0287 Postreplication repair 98.7 3.8E-09 8.3E-14 89.4 2.3 62 132-196 20-81 (442)
25 KOG1493 Anaphase-promoting com 98.7 1.4E-09 3.1E-14 72.7 -0.4 53 133-185 18-83 (84)
26 KOG2930 SCF ubiquitin ligase, 98.7 2.6E-09 5.6E-14 75.5 0.8 68 118-185 26-110 (114)
27 PF04564 U-box: U-box domain; 98.7 2.4E-08 5.3E-13 67.7 4.0 52 134-188 3-55 (73)
28 PF13445 zf-RING_UBOX: RING-ty 98.6 2.2E-08 4.9E-13 60.8 2.7 34 138-172 1-35 (43)
29 COG5574 PEX10 RING-finger-cont 98.6 2E-08 4.3E-13 82.6 2.4 52 133-187 213-266 (271)
30 smart00744 RINGv The RING-vari 98.6 3.6E-08 7.8E-13 61.7 3.0 42 137-179 1-49 (49)
31 COG5432 RAD18 RING-finger-cont 98.6 3.4E-08 7.3E-13 82.2 2.6 52 133-187 23-74 (391)
32 PF14835 zf-RING_6: zf-RING of 98.5 2.6E-08 5.5E-13 64.9 0.9 59 134-196 6-64 (65)
33 KOG0804 Cytoplasmic Zn-finger 98.5 2.2E-08 4.7E-13 87.6 0.3 49 133-183 173-222 (493)
34 TIGR00570 cdk7 CDK-activating 98.5 5.2E-08 1.1E-12 82.6 2.4 53 134-186 2-57 (309)
35 KOG2164 Predicted E3 ubiquitin 98.5 6.7E-08 1.5E-12 86.0 2.8 49 135-186 186-239 (513)
36 KOG0828 Predicted E3 ubiquitin 98.5 5.4E-08 1.2E-12 86.0 1.6 52 132-183 568-634 (636)
37 PF11793 FANCL_C: FANCL C-term 98.4 5.4E-08 1.2E-12 65.5 0.1 51 135-185 2-68 (70)
38 KOG2177 Predicted E3 ubiquitin 98.3 1.8E-07 4E-12 78.0 1.6 46 132-180 10-55 (386)
39 KOG4265 Predicted E3 ubiquitin 98.1 1.8E-06 4E-11 73.9 2.8 48 133-183 288-336 (349)
40 COG5219 Uncharacterized conser 98.1 6.3E-07 1.4E-11 84.6 -0.5 55 130-184 1464-1524(1525)
41 KOG1734 Predicted RING-contain 98.1 1.5E-06 3.2E-11 71.8 1.4 53 131-183 220-281 (328)
42 KOG2660 Locus-specific chromos 98.0 9.2E-07 2E-11 75.0 -1.4 71 133-205 13-95 (331)
43 KOG0824 Predicted E3 ubiquitin 97.9 4.8E-06 1E-10 69.9 1.9 49 134-185 6-55 (324)
44 KOG4445 Uncharacterized conser 97.9 2.3E-06 5.1E-11 71.6 0.0 57 133-189 113-192 (368)
45 KOG1039 Predicted E3 ubiquitin 97.9 2.7E-06 5.9E-11 73.6 0.4 53 133-185 159-223 (344)
46 KOG0311 Predicted E3 ubiquitin 97.8 1.3E-06 2.7E-11 74.7 -2.5 50 132-183 40-90 (381)
47 KOG1645 RING-finger-containing 97.8 1.1E-05 2.4E-10 70.2 2.9 50 133-182 2-55 (463)
48 KOG4172 Predicted E3 ubiquitin 97.8 3.9E-06 8.4E-11 52.7 -0.1 46 135-183 7-54 (62)
49 PF11789 zf-Nse: Zinc-finger o 97.8 1.6E-05 3.4E-10 51.3 2.2 43 133-177 9-53 (57)
50 KOG0827 Predicted E3 ubiquitin 97.7 1.6E-05 3.4E-10 68.9 1.8 43 137-179 6-52 (465)
51 COG5152 Uncharacterized conser 97.6 3.7E-05 8.1E-10 61.0 3.0 49 132-183 193-241 (259)
52 KOG0297 TNF receptor-associate 97.6 2.3E-05 5E-10 69.4 1.8 54 133-188 19-72 (391)
53 KOG0825 PHD Zn-finger protein 97.6 1.2E-05 2.6E-10 74.9 -0.9 51 133-183 121-171 (1134)
54 KOG0978 E3 ubiquitin ligase in 97.6 2E-05 4.4E-10 73.4 0.6 51 133-186 641-692 (698)
55 KOG4159 Predicted E3 ubiquitin 97.5 4.1E-05 8.9E-10 67.6 2.2 49 133-184 82-130 (398)
56 PF12906 RINGv: RING-variant d 97.5 2.8E-05 6E-10 48.1 0.5 40 138-178 1-47 (47)
57 KOG1785 Tyrosine kinase negati 97.5 3.8E-05 8.3E-10 66.8 1.3 47 135-184 369-417 (563)
58 KOG1813 Predicted E3 ubiquitin 97.5 8.4E-05 1.8E-09 62.3 3.2 65 134-201 240-304 (313)
59 KOG1428 Inhibitor of type V ad 97.4 0.00015 3.2E-09 71.7 3.5 54 131-184 3482-3545(3738)
60 PHA02862 5L protein; Provision 97.3 0.00015 3.3E-09 54.7 2.3 46 135-184 2-54 (156)
61 KOG3970 Predicted E3 ubiquitin 97.2 0.00034 7.3E-09 56.7 3.9 67 132-199 47-121 (299)
62 KOG2879 Predicted E3 ubiquitin 97.2 0.0003 6.5E-09 58.5 3.5 52 130-183 234-287 (298)
63 PHA02825 LAP/PHD finger-like p 97.2 0.00029 6.3E-09 54.2 3.1 51 131-185 4-61 (162)
64 KOG1941 Acetylcholine receptor 97.1 0.00011 2.5E-09 63.7 0.1 49 132-180 362-413 (518)
65 KOG4692 Predicted E3 ubiquitin 97.0 0.00057 1.2E-08 58.8 3.1 49 132-183 419-467 (489)
66 PF05883 Baculo_RING: Baculovi 97.0 0.00026 5.7E-09 53.1 0.9 37 134-170 25-67 (134)
67 KOG1002 Nucleotide excision re 96.8 0.00043 9.3E-09 62.4 0.6 56 130-188 531-591 (791)
68 KOG1814 Predicted E3 ubiquitin 96.7 0.0013 2.8E-08 57.7 2.9 61 133-193 182-250 (445)
69 PF14570 zf-RING_4: RING/Ubox 96.6 0.0022 4.9E-08 39.6 2.8 45 138-182 1-47 (48)
70 KOG4185 Predicted E3 ubiquitin 96.6 0.0023 5E-08 54.5 3.8 55 136-190 4-62 (296)
71 KOG4275 Predicted E3 ubiquitin 96.5 0.00058 1.3E-08 57.3 -0.1 42 134-182 299-341 (350)
72 KOG1952 Transcription factor N 96.5 0.0023 5E-08 60.6 3.3 51 130-180 186-244 (950)
73 PF10367 Vps39_2: Vacuolar sor 96.5 0.0012 2.7E-08 47.3 1.2 36 131-167 74-109 (109)
74 KOG1940 Zn-finger protein [Gen 96.3 0.0027 5.8E-08 53.5 2.7 61 136-198 159-220 (276)
75 COG5236 Uncharacterized conser 96.0 0.0051 1.1E-07 53.0 3.0 50 130-182 56-107 (493)
76 PHA03096 p28-like protein; Pro 96.0 0.0029 6.3E-08 53.7 1.4 45 136-180 179-231 (284)
77 KOG3039 Uncharacterized conser 95.9 0.0078 1.7E-07 49.6 3.4 52 134-185 220-272 (303)
78 PF03854 zf-P11: P-11 zinc fin 95.7 0.0043 9.3E-08 38.0 0.8 34 152-185 14-48 (50)
79 PF04641 Rtf2: Rtf2 RING-finge 95.6 0.013 2.9E-07 49.1 3.9 51 132-183 110-161 (260)
80 KOG4739 Uncharacterized protei 95.6 0.0049 1.1E-07 50.6 1.1 46 137-185 5-50 (233)
81 KOG3268 Predicted E3 ubiquitin 95.6 0.0073 1.6E-07 47.4 2.0 55 132-186 162-231 (234)
82 KOG0826 Predicted E3 ubiquitin 95.5 0.016 3.5E-07 49.6 3.7 54 130-185 295-348 (357)
83 KOG2114 Vacuolar assembly/sort 95.5 0.0083 1.8E-07 57.0 2.2 44 134-182 839-882 (933)
84 KOG1571 Predicted E3 ubiquitin 95.4 0.0086 1.9E-07 51.8 1.9 46 132-183 302-347 (355)
85 COG5222 Uncharacterized conser 95.3 0.018 4E-07 48.7 3.4 48 136-185 275-324 (427)
86 COG5175 MOT2 Transcriptional r 95.2 0.0061 1.3E-07 52.4 0.5 52 131-182 10-63 (480)
87 PF14447 Prok-RING_4: Prokaryo 95.1 0.0096 2.1E-07 37.7 1.1 47 135-186 7-53 (55)
88 COG5183 SSM4 Protein involved 94.9 0.017 3.7E-07 54.8 2.3 52 133-185 10-68 (1175)
89 PF08746 zf-RING-like: RING-li 94.7 0.019 4E-07 34.7 1.5 41 138-178 1-43 (43)
90 KOG3053 Uncharacterized conser 94.7 0.016 3.4E-07 48.0 1.4 54 130-184 15-83 (293)
91 PF07800 DUF1644: Protein of u 94.3 0.048 1E-06 42.1 3.3 34 134-170 1-47 (162)
92 KOG0298 DEAD box-containing he 94.2 0.013 2.9E-07 58.0 0.1 50 135-187 1153-1202(1394)
93 KOG3800 Predicted E3 ubiquitin 94.2 0.029 6.4E-07 47.2 2.1 52 137-188 2-56 (300)
94 KOG2034 Vacuolar sorting prote 94.1 0.015 3.3E-07 55.6 0.2 48 122-170 803-851 (911)
95 KOG4367 Predicted Zn-finger pr 93.9 0.033 7.1E-07 49.5 1.8 36 132-170 1-36 (699)
96 KOG1001 Helicase-like transcri 93.9 0.028 6E-07 53.2 1.5 45 136-184 455-501 (674)
97 KOG1609 Protein involved in mR 93.3 0.042 9.2E-07 46.8 1.6 52 134-185 77-136 (323)
98 KOG0801 Predicted E3 ubiquitin 93.2 0.028 6.1E-07 43.5 0.2 30 133-162 175-204 (205)
99 PF02891 zf-MIZ: MIZ/SP-RING z 92.6 0.15 3.1E-06 31.8 2.8 43 136-181 3-50 (50)
100 COG5220 TFB3 Cdk activating ki 92.2 0.045 9.7E-07 45.0 0.2 50 134-183 9-64 (314)
101 KOG2932 E3 ubiquitin ligase in 92.0 0.069 1.5E-06 45.5 1.1 44 136-183 91-134 (389)
102 KOG0827 Predicted E3 ubiquitin 91.7 0.016 3.4E-07 50.7 -3.0 55 134-188 195-250 (465)
103 KOG1100 Predicted E3 ubiquitin 91.4 0.11 2.5E-06 42.1 1.7 38 138-182 161-199 (207)
104 KOG1812 Predicted E3 ubiquitin 91.0 0.13 2.8E-06 45.6 1.8 39 134-172 145-184 (384)
105 KOG3002 Zn finger protein [Gen 90.3 0.21 4.5E-06 42.8 2.5 46 133-183 46-91 (299)
106 PF10272 Tmpp129: Putative tra 89.8 0.44 9.5E-06 41.8 4.0 53 131-185 267-353 (358)
107 KOG2817 Predicted E3 ubiquitin 88.5 0.4 8.6E-06 42.2 2.9 48 133-180 332-382 (394)
108 KOG4362 Transcriptional regula 87.1 0.16 3.4E-06 47.9 -0.5 49 132-183 18-69 (684)
109 KOG0802 E3 ubiquitin ligase [P 87.1 0.3 6.4E-06 45.3 1.3 51 131-188 475-525 (543)
110 KOG0309 Conserved WD40 repeat- 86.3 0.4 8.6E-06 45.6 1.7 26 152-177 1044-1069(1081)
111 PF05290 Baculo_IE-1: Baculovi 86.0 0.45 9.8E-06 35.7 1.6 52 134-187 79-136 (140)
112 KOG3161 Predicted E3 ubiquitin 83.4 0.62 1.3E-05 43.6 1.5 40 134-176 10-51 (861)
113 KOG3899 Uncharacterized conser 82.2 0.66 1.4E-05 39.4 1.1 29 158-186 327-368 (381)
114 KOG0825 PHD Zn-finger protein 82.0 0.58 1.3E-05 44.7 0.8 54 132-185 93-156 (1134)
115 PF14446 Prok-RING_1: Prokaryo 79.5 2.9 6.2E-05 26.5 3.1 44 134-181 4-50 (54)
116 KOG3039 Uncharacterized conser 75.2 2.6 5.6E-05 35.1 2.5 38 130-170 38-75 (303)
117 KOG2066 Vacuolar assembly/sort 75.2 1.2 2.6E-05 42.6 0.8 48 134-182 783-834 (846)
118 smart00249 PHD PHD zinc finger 74.8 2.1 4.5E-05 24.9 1.5 31 137-167 1-31 (47)
119 KOG4718 Non-SMC (structural ma 73.4 1.7 3.6E-05 35.3 1.1 47 134-182 180-226 (235)
120 KOG1815 Predicted E3 ubiquitin 73.2 2.2 4.8E-05 38.6 1.9 38 133-172 68-105 (444)
121 KOG2068 MOT2 transcription fac 72.0 3.3 7.2E-05 35.8 2.6 51 135-185 249-300 (327)
122 PF07975 C1_4: TFIIH C1-like d 70.3 2.8 6.2E-05 26.2 1.4 42 138-179 2-50 (51)
123 smart00132 LIM Zinc-binding do 69.1 4 8.7E-05 22.7 1.8 37 137-182 1-37 (39)
124 PF13901 DUF4206: Domain of un 68.6 4.1 8.9E-05 32.8 2.4 43 133-180 150-197 (202)
125 PF07191 zinc-ribbons_6: zinc- 68.3 0.41 9E-06 31.9 -2.9 41 136-184 2-42 (70)
126 PF04423 Rad50_zn_hook: Rad50 68.1 2.3 5E-05 26.6 0.6 25 174-200 22-46 (54)
127 KOG1812 Predicted E3 ubiquitin 66.9 3.1 6.7E-05 37.0 1.4 44 134-178 305-351 (384)
128 PF10571 UPF0547: Uncharacteri 66.8 3.3 7.1E-05 22.1 1.0 9 137-145 2-10 (26)
129 PF04710 Pellino: Pellino; In 65.1 2.1 4.5E-05 37.9 0.0 46 134-182 276-338 (416)
130 COG5109 Uncharacterized conser 64.7 5.4 0.00012 34.4 2.4 49 132-180 333-384 (396)
131 PF06844 DUF1244: Protein of u 64.4 4.1 8.9E-05 26.8 1.2 13 159-171 11-23 (68)
132 KOG0269 WD40 repeat-containing 63.6 4.8 0.00011 38.5 2.1 40 137-177 781-820 (839)
133 KOG0824 Predicted E3 ubiquitin 62.9 2 4.3E-05 36.7 -0.5 50 133-184 103-152 (324)
134 PF00412 LIM: LIM domain; Int 62.3 2.9 6.2E-05 26.0 0.3 39 138-185 1-39 (58)
135 PF00628 PHD: PHD-finger; Int 62.3 3.3 7.1E-05 25.2 0.5 44 137-180 1-50 (51)
136 KOG3005 GIY-YIG type nuclease 62.0 4.2 9.2E-05 34.2 1.3 47 136-182 183-242 (276)
137 smart00734 ZnF_Rad18 Rad18-lik 61.1 6.3 0.00014 20.9 1.4 19 174-194 3-21 (26)
138 KOG3579 Predicted E3 ubiquitin 60.4 4.9 0.00011 34.2 1.3 38 133-173 266-307 (352)
139 TIGR00622 ssl1 transcription f 55.9 10 0.00023 27.7 2.3 44 136-179 56-110 (112)
140 KOG2807 RNA polymerase II tran 55.3 10 0.00022 32.9 2.4 47 134-180 329-375 (378)
141 KOG1829 Uncharacterized conser 53.7 4 8.7E-05 38.1 -0.2 45 133-180 509-558 (580)
142 PF14169 YdjO: Cold-inducible 50.9 5.6 0.00012 25.6 0.2 16 173-188 40-55 (59)
143 KOG2979 Protein involved in DN 44.9 13 0.00028 31.2 1.4 46 134-181 175-222 (262)
144 PF10497 zf-4CXXC_R1: Zinc-fin 44.1 28 0.00062 25.0 3.0 24 157-180 37-69 (105)
145 KOG3113 Uncharacterized conser 43.4 25 0.00053 29.5 2.9 51 133-185 109-160 (293)
146 KOG3842 Adaptor protein Pellin 42.6 27 0.00058 30.3 3.1 51 133-183 339-414 (429)
147 PF13832 zf-HC5HC2H_2: PHD-zin 42.1 26 0.00056 24.9 2.6 32 134-167 54-87 (110)
148 smart00064 FYVE Protein presen 41.9 14 0.00031 23.8 1.1 37 134-170 9-46 (68)
149 PF06906 DUF1272: Protein of u 41.6 45 0.00098 21.2 3.2 47 136-185 6-54 (57)
150 PF14569 zf-UDP: Zinc-binding 40.9 35 0.00075 23.3 2.8 50 134-183 8-62 (80)
151 smart00647 IBR In Between Ring 40.2 8.4 0.00018 24.2 -0.2 21 149-169 38-59 (64)
152 PLN02189 cellulose synthase 39.4 28 0.0006 34.9 3.0 50 134-183 33-87 (1040)
153 PF07649 C1_3: C1-like domain; 39.2 24 0.00052 19.0 1.6 29 137-165 2-30 (30)
154 KOG2071 mRNA cleavage and poly 38.2 16 0.00035 34.1 1.2 36 133-169 511-557 (579)
155 COG3813 Uncharacterized protei 37.8 23 0.00049 23.8 1.5 46 138-186 8-55 (84)
156 PF10235 Cript: Microtubule-as 37.4 19 0.00042 25.2 1.2 37 135-183 44-80 (90)
157 PF01363 FYVE: FYVE zinc finge 37.0 14 0.00031 23.9 0.5 37 133-169 7-44 (69)
158 PRK11088 rrmA 23S rRNA methylt 35.5 28 0.00061 29.0 2.2 25 136-160 3-27 (272)
159 COG5627 MMS21 DNA repair prote 35.4 18 0.00039 30.0 0.9 49 134-184 188-240 (275)
160 PF03119 DNA_ligase_ZBD: NAD-d 34.5 16 0.00034 19.7 0.3 15 174-188 1-15 (28)
161 KOG4185 Predicted E3 ubiquitin 34.5 5.8 0.00013 33.6 -2.2 47 135-181 207-265 (296)
162 PF02318 FYVE_2: FYVE-type zin 34.5 23 0.0005 25.8 1.3 47 134-181 53-103 (118)
163 cd00350 rubredoxin_like Rubred 33.6 31 0.00067 19.1 1.5 8 173-180 18-25 (33)
164 KOG2169 Zn-finger transcriptio 33.2 45 0.00097 31.8 3.3 54 136-196 307-369 (636)
165 cd00065 FYVE FYVE domain; Zinc 33.2 36 0.00078 20.9 1.9 35 136-170 3-38 (57)
166 COG3492 Uncharacterized protei 33.0 20 0.00044 25.1 0.7 13 159-171 42-54 (104)
167 PF13717 zinc_ribbon_4: zinc-r 31.1 26 0.00056 20.0 0.9 10 137-146 4-13 (36)
168 PF14353 CpXC: CpXC protein 30.7 55 0.0012 24.0 2.8 47 136-185 2-51 (128)
169 KOG1729 FYVE finger containing 30.0 8.6 0.00019 32.8 -1.8 37 136-172 215-251 (288)
170 KOG1815 Predicted E3 ubiquitin 28.8 18 0.00038 32.8 -0.2 38 135-172 226-268 (444)
171 PF11809 DUF3330: Domain of un 27.1 17 0.00036 24.0 -0.5 37 134-172 10-51 (70)
172 PF09237 GAGA: GAGA factor; I 26.7 34 0.00075 21.4 0.9 10 174-183 26-35 (54)
173 PLN02436 cellulose synthase A 26.6 60 0.0013 32.8 3.0 50 134-183 35-89 (1094)
174 PF13771 zf-HC5HC2H: PHD-like 26.3 44 0.00096 22.6 1.6 32 134-167 35-68 (90)
175 COG4847 Uncharacterized protei 25.6 52 0.0011 23.3 1.7 34 135-169 6-39 (103)
176 PF14311 DUF4379: Domain of un 25.1 41 0.00089 20.8 1.1 9 170-178 47-55 (55)
177 COG2824 PhnA Uncharacterized Z 24.8 31 0.00068 24.9 0.6 29 136-170 4-32 (112)
178 PF09889 DUF2116: Uncharacteri 24.3 41 0.00088 21.6 1.0 14 172-185 3-16 (59)
179 KOG1245 Chromatin remodeling c 23.8 26 0.00057 36.5 -0.0 52 131-182 1104-1159(1404)
180 COG4647 AcxC Acetone carboxyla 23.7 45 0.00097 25.1 1.2 21 139-162 61-81 (165)
181 KOG2231 Predicted E3 ubiquitin 23.4 60 0.0013 31.1 2.3 44 137-183 2-52 (669)
182 KOG2231 Predicted E3 ubiquitin 23.0 18 0.0004 34.4 -1.2 49 130-181 73-123 (669)
183 PF03884 DUF329: Domain of unk 22.6 25 0.00055 22.4 -0.2 11 174-184 4-14 (57)
184 PF12132 DUF3587: Protein of u 22.4 47 0.001 26.8 1.2 19 153-171 156-178 (199)
185 PRK11595 DNA utilization prote 21.8 78 0.0017 25.7 2.4 22 160-181 22-43 (227)
186 KOG2041 WD40 repeat protein [G 21.8 1.3E+02 0.0027 29.5 4.0 48 131-182 1127-1184(1189)
187 PRK00418 DNA gyrase inhibitor; 21.7 36 0.00078 22.1 0.3 11 173-183 7-17 (62)
188 PF06676 DUF1178: Protein of u 20.7 38 0.00082 26.0 0.3 23 155-182 9-42 (148)
189 PRK01343 zinc-binding protein; 20.6 49 0.0011 21.1 0.8 12 172-183 9-20 (57)
190 PF09723 Zn-ribbon_8: Zinc rib 20.5 18 0.00039 21.3 -1.2 27 153-180 8-34 (42)
No 1
>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=99.62 E-value=1.6e-16 Score=97.63 Aligned_cols=44 Identities=50% Similarity=1.158 Sum_probs=39.7
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (207)
+.|+||++.+..++.++.++|+|.||..||.+|++.+.+||+||
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 47999999998788888999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=1.1e-14 Score=124.51 Aligned_cols=52 Identities=37% Similarity=0.894 Sum_probs=46.8
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCC-Ccccccccccccch
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE-SCPICDQVLIILKD 187 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~-~CP~Cr~~~~~~~~ 187 (207)
+.|+||||+|..++.+++|||+|.||..||+.||.... .||+|++.+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 59999999999999999999999999999999997765 59999998875543
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=99.47 E-value=3e-14 Score=96.88 Aligned_cols=46 Identities=37% Similarity=1.007 Sum_probs=37.5
Q ss_pred CCCcccccccccCC----------CCCeEEcCCCCccCHHHHHHHhhcCCCccccc
Q 028554 134 EEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (207)
Q Consensus 134 e~~~C~ICle~~~~----------~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (207)
.++.|+||++.+.. .-++.+.+|||.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 45569999999922 24556779999999999999999999999997
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.33 E-value=5e-13 Score=113.77 Aligned_cols=56 Identities=34% Similarity=0.896 Sum_probs=46.6
Q ss_pred CCCCCccccccccc-CCC----------CCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchh
Q 028554 132 SEEEDTCPICLEEY-DTE----------NPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDA 188 (207)
Q Consensus 132 ~ee~~~C~ICle~~-~~~----------~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (207)
...+..|.||++++ ..+ .| ..+||||.||.+|++.|++++++||+||.++.++...
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~p-KrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTP-KRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS 350 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCc-ccccccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence 45677899999995 332 23 4599999999999999999999999999998877654
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.29 E-value=2.5e-12 Score=105.64 Aligned_cols=51 Identities=27% Similarity=0.857 Sum_probs=41.9
Q ss_pred CCCCcccccccccCCCC-----CeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 133 EEEDTCPICLEEYDTEN-----PKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~-----~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
..+..|+||++.+.... -.++++|+|.||..||.+|++.+.+||+||..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 34678999999873322 1256789999999999999999999999999875
No 6
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.28 E-value=2.6e-12 Score=88.57 Aligned_cols=52 Identities=37% Similarity=0.909 Sum_probs=43.0
Q ss_pred CCCcccccccccCC----------CCCeEEcCCCCccCHHHHHHHhhc---CCCccccccccccc
Q 028554 134 EEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNER---SESCPICDQVLIIL 185 (207)
Q Consensus 134 e~~~C~ICle~~~~----------~~~~~~lpC~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~ 185 (207)
+++.|.||...|+. .-|++.-.|+|.||.+||.+|++. +.+||+||+.+.+.
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 47789999999964 235667789999999999999985 46999999988764
No 7
>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=99.26 E-value=2.9e-12 Score=76.51 Aligned_cols=39 Identities=44% Similarity=1.161 Sum_probs=34.7
Q ss_pred ccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccc
Q 028554 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPIC 178 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~C 178 (207)
|+||++.+ .+++++++|||.||..||.+|++....||+|
T Consensus 1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999 7787889999999999999999998899998
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=3.9e-12 Score=105.37 Aligned_cols=54 Identities=39% Similarity=0.847 Sum_probs=47.5
Q ss_pred ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccc
Q 028554 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILK 186 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (207)
...+....|.+||+.. .+| ..+||||.||+.||.+|...+..||+||..+...+
T Consensus 234 ~i~~a~~kC~LCLe~~--~~p-SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENR--SNP-SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred cCCCCCCceEEEecCC--CCC-CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 5567778999999998 788 56999999999999999999999999999876543
No 9
>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=99.23 E-value=7.8e-12 Score=78.71 Aligned_cols=47 Identities=34% Similarity=0.820 Sum_probs=39.3
Q ss_pred CCCcccccccccCCCCCeEEcCCCCc-cCHHHHHHHhhcCCCccccccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~-Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
|+..|.||++.. .+ +.++||||. ||..|+.+|++....||+||+++.
T Consensus 1 ~~~~C~iC~~~~--~~-~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENP--RD-VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSB--SS-EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CcCCCccCCccC--Cc-eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 356799999987 44 577999999 999999999999999999999874
No 10
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.19 E-value=1.1e-11 Score=103.24 Aligned_cols=52 Identities=25% Similarity=0.772 Sum_probs=46.3
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhh-cCCCcccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPICDQVLII 184 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~~~ 184 (207)
..+-.|+|||+.|.-.+.++++||.|.||..||.+||. .+..||+||..++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 44567999999997778889999999999999999997 78899999998764
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.18 E-value=1.8e-11 Score=96.95 Aligned_cols=49 Identities=31% Similarity=0.821 Sum_probs=41.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc----------------CCCcccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER----------------SESCPICDQVLII 184 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~----------------~~~CP~Cr~~~~~ 184 (207)
.++..|+||++.+ .++ ++++|||.||+.||.+|+.. ...||+||..+..
T Consensus 16 ~~~~~CpICld~~--~dP-VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQV--RDP-VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcC--CCc-EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3567899999998 777 55899999999999999853 2489999998854
No 12
>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=99.17 E-value=2.3e-11 Score=73.75 Aligned_cols=44 Identities=41% Similarity=1.079 Sum_probs=38.6
Q ss_pred cccccccccCCCCCeEEcCCCCccCHHHHHHHhhc-CCCcccccccc
Q 028554 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQVL 182 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~ 182 (207)
.|+||++.+ .++..+++|+|.||..|+..|++. ...||+||..+
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 677777789999999999999987 77899999754
No 13
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.13 E-value=3.5e-11 Score=72.94 Aligned_cols=38 Identities=39% Similarity=1.006 Sum_probs=30.0
Q ss_pred ccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCC----Ccccc
Q 028554 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE----SCPIC 178 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~----~CP~C 178 (207)
|+||++.| .+| +.++|||.||..||.+|++... .||+|
T Consensus 1 CpiC~~~~--~~P-v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF--KDP-VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB---SSE-EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh--CCc-cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 888 5599999999999999997653 69987
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=4.1e-11 Score=96.58 Aligned_cols=51 Identities=29% Similarity=0.763 Sum_probs=42.9
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC---CCccccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS---ESCPICDQVLIIL 185 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~---~~CP~Cr~~~~~~ 185 (207)
......|-|||+.- .+| +++.|||.||+.||.+|+..+ +.||+|+..|..+
T Consensus 44 ~~~~FdCNICLd~a--kdP-VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA--KDP-VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCCceeeeeecccc--CCC-EEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 45667899999998 888 569999999999999999754 4889999877544
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=5.2e-11 Score=92.29 Aligned_cols=51 Identities=33% Similarity=0.764 Sum_probs=43.1
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
.+....|+|||+.+...-+ +-++|||.||..||+..++....||+|++.|.
T Consensus 128 ~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 3455789999999954444 45999999999999999999999999999553
No 16
>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=99.06 E-value=1.1e-10 Score=70.33 Aligned_cols=39 Identities=46% Similarity=1.226 Sum_probs=34.9
Q ss_pred ccccccccCCCCCeEEcCCCCccCHHHHHHHhh--cCCCcccc
Q 028554 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNE--RSESCPIC 178 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~--~~~~CP~C 178 (207)
|+||++.+ .++..+++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~--~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF--EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC--SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc--cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999 77766899999999999999998 45599987
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.05 E-value=1.7e-10 Score=70.61 Aligned_cols=44 Identities=36% Similarity=0.875 Sum_probs=38.8
Q ss_pred cccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccc
Q 028554 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (207)
.|.||++.|....+..+++|||.||..||..++.....||+||+
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 49999999966666788999999999999999966779999985
No 18
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.04 E-value=1.2e-10 Score=102.02 Aligned_cols=55 Identities=25% Similarity=0.510 Sum_probs=46.8
Q ss_pred cCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchh
Q 028554 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDA 188 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (207)
..+....|+||++.| .+++ +++|||.||..||..|+.....||+||..+......
T Consensus 22 ~Le~~l~C~IC~d~~--~~Pv-itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr 76 (397)
T TIGR00599 22 PLDTSLRCHICKDFF--DVPV-LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLR 76 (397)
T ss_pred ccccccCCCcCchhh--hCcc-CCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCc
Confidence 445778999999999 7774 699999999999999999888999999988755443
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=99.03 E-value=3.8e-10 Score=74.04 Aligned_cols=47 Identities=26% Similarity=0.420 Sum_probs=41.7
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
..|+||++.+ .+| ++++|||.|+..||.+|++...+||+|++.+..+
T Consensus 2 ~~Cpi~~~~~--~~P-v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVM--KDP-VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcC--CCC-EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 5799999999 778 5589999999999999998888999999987543
No 20
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.00 E-value=2.3e-10 Score=77.09 Aligned_cols=52 Identities=31% Similarity=0.695 Sum_probs=41.3
Q ss_pred CCcccccccccCC-------------CCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccc
Q 028554 135 EDTCPICLEEYDT-------------ENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILK 186 (207)
Q Consensus 135 ~~~C~ICle~~~~-------------~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (207)
-+.|+||...+.. +-++..-.|.|.||.+||.+||..++.||++|+.+...+
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 4678887766522 224566789999999999999999999999999886544
No 21
>PHA02926 zinc finger-like protein; Provisional
Probab=98.96 E-value=3.8e-10 Score=90.59 Aligned_cols=53 Identities=30% Similarity=0.721 Sum_probs=40.4
Q ss_pred CCCCCcccccccccCC----C--CCeEEcCCCCccCHHHHHHHhhcC------CCcccccccccc
Q 028554 132 SEEEDTCPICLEEYDT----E--NPKLITKCEHHFHLSCILEWNERS------ESCPICDQVLII 184 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~----~--~~~~~lpC~H~Fh~~CI~~Wl~~~------~~CP~Cr~~~~~ 184 (207)
..++.+|+||+|..-. . ...++.+|+|.||..||..|.+.+ .+||+||..+..
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 3456789999998621 1 123667999999999999999753 369999998753
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=3.4e-10 Score=103.97 Aligned_cols=52 Identities=38% Similarity=0.832 Sum_probs=43.0
Q ss_pred CCCCCcccccccccCCCCC--eEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENP--KLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~--~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
...++.|+||++++..... ...++|+|.||..|++.|++++++||+||..+.
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 3457889999999933221 466999999999999999999999999999443
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.87 E-value=1.8e-09 Score=63.09 Aligned_cols=38 Identities=47% Similarity=1.179 Sum_probs=32.5
Q ss_pred ccccccccCCCCCeEEcCCCCccCHHHHHHHhh-cCCCcccc
Q 028554 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPIC 178 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~-~~~~CP~C 178 (207)
|+||++.. . ...+++|+|.||..|+..|++ ....||+|
T Consensus 1 C~iC~~~~--~-~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL--K-DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC--C-CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999985 4 447799999999999999998 66689987
No 24
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.75 E-value=3.8e-09 Score=89.39 Aligned_cols=62 Identities=26% Similarity=0.473 Sum_probs=51.7
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchhhhhHHHHH
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDAVFRYVIVA 196 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 196 (207)
.+.-..|.||.+.| .-| +++||+|.||.-||+..|..+..||.|+..+...+..-++++..+
T Consensus 20 lD~lLRC~IC~eyf--~ip-~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Ei 81 (442)
T KOG0287|consen 20 LDDLLRCGICFEYF--NIP-MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEI 81 (442)
T ss_pred hHHHHHHhHHHHHh--cCc-eeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHH
Confidence 34567899999999 566 779999999999999999999999999999887776655555443
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=1.4e-09 Score=72.71 Aligned_cols=53 Identities=34% Similarity=0.815 Sum_probs=41.3
Q ss_pred CCCCcccccccccCC----------CCCeEEcCCCCccCHHHHHHHhhcC---CCccccccccccc
Q 028554 133 EEEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNERS---ESCPICDQVLIIL 185 (207)
Q Consensus 133 ee~~~C~ICle~~~~----------~~~~~~lpC~H~Fh~~CI~~Wl~~~---~~CP~Cr~~~~~~ 185 (207)
..+++|.||.-.|+. .-|+++-.|.|.||..||.+|+..+ ..||+||+.+.+.
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 344589999999855 2244555799999999999999654 4999999987654
No 26
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=2.6e-09 Score=75.51 Aligned_cols=68 Identities=25% Similarity=0.529 Sum_probs=50.7
Q ss_pred Cccchhcccccc---ccCCCCCcccccccccCC--------------CCCeEEcCCCCccCHHHHHHHhhcCCCcccccc
Q 028554 118 PRKSEVSQLNVF---AASEEEDTCPICLEEYDT--------------ENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (207)
Q Consensus 118 ~~~~~~~k~~~~---~~~ee~~~C~ICle~~~~--------------~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (207)
.+.++++|.... .-...-+.|+||..-+.. +-.+..-.|.|.||..||.+||+..+.||+|.+
T Consensus 26 ~krF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~ 105 (114)
T KOG2930|consen 26 KKRFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNK 105 (114)
T ss_pred CcceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCc
Confidence 455677777665 455677889999754411 112345589999999999999999999999998
Q ss_pred ccccc
Q 028554 181 VLIIL 185 (207)
Q Consensus 181 ~~~~~ 185 (207)
+..+.
T Consensus 106 eW~~q 110 (114)
T KOG2930|consen 106 EWVFQ 110 (114)
T ss_pred ceeEe
Confidence 87553
No 27
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.67 E-value=2.4e-08 Score=67.71 Aligned_cols=52 Identities=29% Similarity=0.399 Sum_probs=40.6
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc-CCCcccccccccccchh
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQVLIILKDA 188 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~~~~~~ 188 (207)
++..|+|+.+.+ .+| +++++||.|...+|.+|++. ..+||+|++.+...+..
T Consensus 3 ~~f~CpIt~~lM--~dP-Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 3 DEFLCPITGELM--RDP-VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI 55 (73)
T ss_dssp GGGB-TTTSSB---SSE-EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE
T ss_pred cccCCcCcCcHh--hCc-eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce
Confidence 567899999999 899 45899999999999999988 78999999988765444
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.63 E-value=2.2e-08 Score=60.76 Aligned_cols=34 Identities=38% Similarity=0.965 Sum_probs=22.4
Q ss_pred cccccccc-CCCCCeEEcCCCCccCHHHHHHHhhcC
Q 028554 138 CPICLEEY-DTENPKLITKCEHHFHLSCILEWNERS 172 (207)
Q Consensus 138 C~ICle~~-~~~~~~~~lpC~H~Fh~~CI~~Wl~~~ 172 (207)
|+||.+ | +.+++.++|+|||.|+.+||.+|++.+
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 6 445666779999999999999999854
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2e-08 Score=82.58 Aligned_cols=52 Identities=38% Similarity=0.778 Sum_probs=43.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHH-HhhcCCC-cccccccccccch
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILE-WNERSES-CPICDQVLIILKD 187 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~-Wl~~~~~-CP~Cr~~~~~~~~ 187 (207)
+.+..|.||++.. ..+ ..++|||.||+.||.. |-..+.. ||+||+.+...+.
T Consensus 213 ~~d~kC~lC~e~~--~~p-s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEP--EVP-SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeeccc--CCc-ccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 5678899999998 677 6699999999999999 9877765 9999998765543
No 30
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.60 E-value=3.6e-08 Score=61.66 Aligned_cols=42 Identities=36% Similarity=0.928 Sum_probs=33.7
Q ss_pred cccccccccCCCCCeEEcCCC-----CccCHHHHHHHhhcCC--Cccccc
Q 028554 137 TCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNERSE--SCPICD 179 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~-----H~Fh~~CI~~Wl~~~~--~CP~Cr 179 (207)
.|.||++..+.+++ .+.||. |.||..||.+|+..+. +||+|+
T Consensus 1 ~CrIC~~~~~~~~~-l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDP-LVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCe-eEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 49999994444555 678996 8999999999996554 999995
No 31
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.56 E-value=3.4e-08 Score=82.17 Aligned_cols=52 Identities=25% Similarity=0.420 Sum_probs=44.5
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccch
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKD 187 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~ 187 (207)
+.-+.|.||-+.+ .-| ..++|||.||.-||++.|..+..||+||.+......
T Consensus 23 Ds~lrC~IC~~~i--~ip-~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrl 74 (391)
T COG5432 23 DSMLRCRICDCRI--SIP-CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL 74 (391)
T ss_pred hhHHHhhhhhhee--ecc-eecccccchhHHHHHHHhcCCCCCccccccHHhhhc
Confidence 4556899999998 666 669999999999999999999999999998765433
No 32
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.53 E-value=2.6e-08 Score=64.92 Aligned_cols=59 Identities=29% Similarity=0.547 Sum_probs=31.2
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchhhhhHHHHH
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDAVFRYVIVA 196 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 196 (207)
+-..|++|.+.+ .+|+.+..|.|.||..||.+-+.. .||+|+.+.-..+-++++-...+
T Consensus 6 ~lLrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~~NrqLd~~ 64 (65)
T PF14835_consen 6 ELLRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQINRQLDSM 64 (65)
T ss_dssp HTTS-SSS-S----SS-B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS----HHHHHH
T ss_pred HhcCCcHHHHHh--cCCceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHHhhhhhhcc
Confidence 456799999999 899888999999999999886543 69999999888888877766553
No 33
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.51 E-value=2.2e-08 Score=87.59 Aligned_cols=49 Identities=41% Similarity=0.961 Sum_probs=41.4
Q ss_pred CCCCcccccccccCC-CCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 133 EEEDTCPICLEEYDT-ENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 133 ee~~~C~ICle~~~~-~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
-|-.+|+||||.+++ .+.++.+.|.|.||..|+.+|... +||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~--scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS--SCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC--cChhhhhhcC
Confidence 456689999999955 345678899999999999999876 9999998665
No 34
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.50 E-value=5.2e-08 Score=82.59 Aligned_cols=53 Identities=26% Similarity=0.519 Sum_probs=38.5
Q ss_pred CCCcccccccc--cCCCCCeEEcCCCCccCHHHHHHHh-hcCCCcccccccccccc
Q 028554 134 EEDTCPICLEE--YDTENPKLITKCEHHFHLSCILEWN-ERSESCPICDQVLIILK 186 (207)
Q Consensus 134 e~~~C~ICle~--~~~~~~~~~lpC~H~Fh~~CI~~Wl-~~~~~CP~Cr~~~~~~~ 186 (207)
++..||||+.. +.+.-...+-+|||.||..||...+ .....||.|+..+....
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 34679999985 3222222334899999999999955 55669999998876554
No 35
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=6.7e-08 Score=85.96 Aligned_cols=49 Identities=41% Similarity=0.836 Sum_probs=40.3
Q ss_pred CCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC-----CCcccccccccccc
Q 028554 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS-----ESCPICDQVLIILK 186 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~-----~~CP~Cr~~~~~~~ 186 (207)
+..|+|||+.. .-+ ..+.|||.||..||...+... ..||+||..|...+
T Consensus 186 ~~~CPICL~~~--~~p-~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPP--SVP-VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCC--Ccc-cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 77899999987 556 447799999999999887655 39999999887643
No 36
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=5.4e-08 Score=86.02 Aligned_cols=52 Identities=31% Similarity=0.784 Sum_probs=40.8
Q ss_pred CCCCCcccccccccCC---CC-----------CeEEcCCCCccCHHHHHHHhh-cCCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDT---EN-----------PKLITKCEHHFHLSCILEWNE-RSESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~---~~-----------~~~~lpC~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~~ 183 (207)
.+....|+||+..++- +. ...++||.|.||..|+..||+ .+-.||+||.++.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 3455679999988733 11 135679999999999999999 5559999999875
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.40 E-value=5.4e-08 Score=65.50 Aligned_cols=51 Identities=29% Similarity=0.673 Sum_probs=25.2
Q ss_pred CCcccccccccCCC--CCeEEc---CCCCccCHHHHHHHhhcC-----------CCccccccccccc
Q 028554 135 EDTCPICLEEYDTE--NPKLIT---KCEHHFHLSCILEWNERS-----------ESCPICDQVLIIL 185 (207)
Q Consensus 135 ~~~C~ICle~~~~~--~~~~~l---pC~H~Fh~~CI~~Wl~~~-----------~~CP~Cr~~~~~~ 185 (207)
+..|.||+...... .+.++- .|++.||..||.+||... .+||.|+.+|...
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 45799999987422 232322 789999999999999631 2799999988654
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=1.8e-07 Score=77.95 Aligned_cols=46 Identities=41% Similarity=0.913 Sum_probs=40.5
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (207)
.+++..|+||++.| ..+ .+++|+|.||..||..|+.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~--~~p-~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYF--REP-VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHh--hcC-ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 35778899999999 666 77999999999999999985569999994
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.8e-06 Score=73.92 Aligned_cols=48 Identities=29% Similarity=0.702 Sum_probs=41.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCc-cCHHHHHHHhhcCCCccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~-Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
+...+|.|||.+. .+- +++||.|. .|..|.+...-..+.||+||+++.
T Consensus 288 ~~gkeCVIClse~--rdt-~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSES--RDT-VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCC--cce-EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 4477899999987 455 77999995 999999998888889999999873
No 40
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.07 E-value=6.3e-07 Score=84.63 Aligned_cols=55 Identities=25% Similarity=0.729 Sum_probs=40.9
Q ss_pred ccCCCCCcccccccccCCCC----CeEEcCCCCccCHHHHHHHhhcCC--Ccccccccccc
Q 028554 130 AASEEEDTCPICLEEYDTEN----PKLITKCEHHFHLSCILEWNERSE--SCPICDQVLII 184 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~----~~~~lpC~H~Fh~~CI~~Wl~~~~--~CP~Cr~~~~~ 184 (207)
...+.-.+|+||+..+...+ ..+...|.|.||..|+.+|+..++ +||+||.++.+
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 33455667999998874222 124456999999999999997654 99999987754
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=1.5e-06 Score=71.82 Aligned_cols=53 Identities=25% Similarity=0.652 Sum_probs=40.7
Q ss_pred cCCCCCcccccccccCCCC-------CeEEcCCCCccCHHHHHHHhh--cCCCccccccccc
Q 028554 131 ASEEEDTCPICLEEYDTEN-------PKLITKCEHHFHLSCILEWNE--RSESCPICDQVLI 183 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~-------~~~~lpC~H~Fh~~CI~~Wl~--~~~~CP~Cr~~~~ 183 (207)
...++..|+||-..++... ..-.+.|+|.||..||+-|-- .+++||.|++.+.
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 3456778999988773322 345689999999999999984 4569999988653
No 42
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.97 E-value=9.2e-07 Score=74.97 Aligned_cols=71 Identities=30% Similarity=0.537 Sum_probs=54.9
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccc------------hhhhhHHHHHhhhh
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILK------------DAVFRYVIVATDHS 200 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~------------~~~~~~~~~~~~~~ 200 (207)
..-.+|.+|-.++ .+...++.|-|.||..||.+.|...++||+|+..+.... +.+.+++..+.+++
T Consensus 13 n~~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~erE 90 (331)
T KOG2660|consen 13 NPHITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQERE 90 (331)
T ss_pred ccceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHHHHH
Confidence 4567899999999 888788999999999999999999999999988765432 12456666666555
Q ss_pred hhhcC
Q 028554 201 KVQGT 205 (207)
Q Consensus 201 ~~~~~ 205 (207)
..+.+
T Consensus 91 ~k~~r 95 (331)
T KOG2660|consen 91 MKRRR 95 (331)
T ss_pred HHHHH
Confidence 54433
No 43
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=4.8e-06 Score=69.86 Aligned_cols=49 Identities=22% Similarity=0.508 Sum_probs=39.8
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc-CCCccccccccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQVLIIL 185 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~~~ 185 (207)
....|+||+... .-| +.++|+|.||.-||+--... +.+|++||++|..+
T Consensus 6 ~~~eC~IC~nt~--n~P-v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTG--NCP-VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccC--CcC-ccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 345799999987 666 67999999999999876654 44799999988643
No 44
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.91 E-value=2.3e-06 Score=71.62 Aligned_cols=57 Identities=23% Similarity=0.672 Sum_probs=46.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhh-----------------------cCCCcccccccccccchhh
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-----------------------RSESCPICDQVLIILKDAV 189 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~-----------------------~~~~CP~Cr~~~~~~~~~~ 189 (207)
...-.|.|||.-|.+.....+++|.|.||..|+.++|. ....||+||..|..+...+
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~sl 192 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSL 192 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccce
Confidence 34456999999998888889999999999999987654 1238999999998776653
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=2.7e-06 Score=73.55 Aligned_cols=53 Identities=32% Similarity=0.828 Sum_probs=39.9
Q ss_pred CCCCcccccccccCCCC-----CeEEcCCCCccCHHHHHHHh--hc-----CCCccccccccccc
Q 028554 133 EEEDTCPICLEEYDTEN-----PKLITKCEHHFHLSCILEWN--ER-----SESCPICDQVLIIL 185 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~-----~~~~lpC~H~Fh~~CI~~Wl--~~-----~~~CP~Cr~~~~~~ 185 (207)
..+.+|.||++...... -.++.+|.|.||..||..|. .+ ++.||.||.....-
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 45678999999883222 11336799999999999999 44 46999999976543
No 46
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=1.3e-06 Score=74.72 Aligned_cols=50 Identities=28% Similarity=0.688 Sum_probs=41.4
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc-CCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~ 183 (207)
...+..|+|||+.+ .....+..|.|.||..||..-|+. .+.||.||+.+.
T Consensus 40 ~~~~v~c~icl~ll--k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 40 FDIQVICPICLSLL--KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhhhccHHHHHHH--HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 34667899999999 566566789999999999988855 559999999775
No 47
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=1.1e-05 Score=70.23 Aligned_cols=50 Identities=32% Similarity=0.816 Sum_probs=39.7
Q ss_pred CCCCccccccccc--CCCCCeEEcCCCCccCHHHHHHHhhc--CCCcccccccc
Q 028554 133 EEEDTCPICLEEY--DTENPKLITKCEHHFHLSCILEWNER--SESCPICDQVL 182 (207)
Q Consensus 133 ee~~~C~ICle~~--~~~~~~~~lpC~H~Fh~~CI~~Wl~~--~~~CP~Cr~~~ 182 (207)
....+|+||++.| ..+..++.+.|||.|...||++|+-. ...||.|...-
T Consensus 2 d~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 2 DCGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred CccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3467899999999 33456678999999999999999942 23999997644
No 48
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=3.9e-06 Score=52.73 Aligned_cols=46 Identities=28% Similarity=0.694 Sum_probs=36.4
Q ss_pred CCcccccccccCCCCCeEEcCCCCc-cCHHHHHHHhh-cCCCccccccccc
Q 028554 135 EDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNE-RSESCPICDQVLI 183 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~H~-Fh~~CI~~Wl~-~~~~CP~Cr~~~~ 183 (207)
.++|.||+|.- .+. ++--|||. .|..|-.+.++ .+..||+||.++.
T Consensus 7 ~dECTICye~p--vds-VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHP--VDS-VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCc--chH-HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 37899999876 455 55789994 89999877665 7789999999873
No 49
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.77 E-value=1.6e-05 Score=51.28 Aligned_cols=43 Identities=37% Similarity=0.796 Sum_probs=31.3
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc--CCCccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--SESCPI 177 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~--~~~CP~ 177 (207)
.-...|+|.+..| .+|++-..|+|.|-...|..|+++ ...||+
T Consensus 9 ~~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4557899999999 899998999999999999999944 449998
No 50
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=1.6e-05 Score=68.89 Aligned_cols=43 Identities=35% Similarity=0.956 Sum_probs=31.6
Q ss_pred cccccccccCCCCCe-EEcCCCCccCHHHHHHHhhcC---CCccccc
Q 028554 137 TCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERS---ESCPICD 179 (207)
Q Consensus 137 ~C~ICle~~~~~~~~-~~lpC~H~Fh~~CI~~Wl~~~---~~CP~Cr 179 (207)
.|.||-+.+.....+ .+-.|||.||..|+..|++.- .+||+|+
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 699994444222222 233599999999999999863 4899999
No 51
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.65 E-value=3.7e-05 Score=60.99 Aligned_cols=49 Identities=27% Similarity=0.728 Sum_probs=42.0
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
+.-...|.||.++| ..| +++.|||+||..|..+-++.-.+|-+|.+.+.
T Consensus 193 e~IPF~C~iCKkdy--~sp-vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 193 EKIPFLCGICKKDY--ESP-VVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred CCCceeehhchhhc--cch-hhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 34456899999999 777 55999999999999998888889999988764
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.63 E-value=2.3e-05 Score=69.45 Aligned_cols=54 Identities=33% Similarity=0.763 Sum_probs=46.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchh
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDA 188 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (207)
++...|+||...+ .+++..+.|||.||..|+..|+..+..||.|+..+......
T Consensus 19 ~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 19 DENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred cccccCccccccc--cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 5677899999999 78865579999999999999999999999998877654433
No 53
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.56 E-value=1.2e-05 Score=74.87 Aligned_cols=51 Identities=22% Similarity=0.538 Sum_probs=41.5
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
.....|+||+..+.........+|+|.||.+||..|-+...+||+||..+.
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 345579999988844434445789999999999999999999999999764
No 54
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.56 E-value=2e-05 Score=73.36 Aligned_cols=51 Identities=29% Similarity=0.671 Sum_probs=41.5
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhh-cCCCcccccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPICDQVLIILK 186 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~~~~~ 186 (207)
.+-..|+.|-..+ .+. +++.|+|.||..||..-+. +...||.|...+...+
T Consensus 641 K~~LkCs~Cn~R~--Kd~-vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 641 KELLKCSVCNTRW--KDA-VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HhceeCCCccCch--hhH-HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 3567899999776 444 6799999999999999885 5669999999876654
No 55
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=4.1e-05 Score=67.60 Aligned_cols=49 Identities=29% Similarity=0.704 Sum_probs=43.1
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLII 184 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (207)
..+..|.||+..+ ..+ +.+||||.||..||.+-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l--~~p-v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRAL--YPP-VVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhc--CCC-ccccccccccHHHHHHHhccCCCCccccccccc
Confidence 4677899999998 777 557999999999999999999999999998863
No 56
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.51 E-value=2.8e-05 Score=48.12 Aligned_cols=40 Identities=40% Similarity=1.010 Sum_probs=28.5
Q ss_pred ccccccccCCCCCeEEcCCC-----CccCHHHHHHHhhc--CCCcccc
Q 028554 138 CPICLEEYDTENPKLITKCE-----HHFHLSCILEWNER--SESCPIC 178 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~-----H~Fh~~CI~~Wl~~--~~~CP~C 178 (207)
|-||++..+..++ .+.||. ...|..||.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~~-li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEP-LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCc-eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 7899998865554 668888 47899999999974 4589887
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.49 E-value=3.8e-05 Score=66.78 Aligned_cols=47 Identities=28% Similarity=0.732 Sum_probs=38.9
Q ss_pred CCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc--CCCcccccccccc
Q 028554 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--SESCPICDQVLII 184 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~--~~~CP~Cr~~~~~ 184 (207)
-..|-||-|. +..+.+-||||..|..|+..|-.. .++||.||.+|.-
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 3469999886 455678999999999999999854 4699999998863
No 58
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=8.4e-05 Score=62.35 Aligned_cols=65 Identities=23% Similarity=0.399 Sum_probs=51.4
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchhhhhHHHHHhhhhh
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDAVFRYVIVATDHSK 201 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 201 (207)
-.+.|-||-..| .+| +++.|+|.||..|...-++....|.+|.+.+.-.-...+.+..-+..+..
T Consensus 240 ~Pf~c~icr~~f--~~p-Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL~~~L~~kks 304 (313)
T KOG1813|consen 240 LPFKCFICRKYF--YRP-VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKELLVSLKLKKS 304 (313)
T ss_pred CCcccccccccc--ccc-hhhcCCceeehhhhccccccCCcceecccccccccchHHHHHHHHHhhhh
Confidence 345699999999 888 55999999999999999999999999999886665555555554444443
No 59
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.35 E-value=0.00015 Score=71.67 Aligned_cols=54 Identities=33% Similarity=0.685 Sum_probs=44.6
Q ss_pred cCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCC----------Ccccccccccc
Q 028554 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE----------SCPICDQVLII 184 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~----------~CP~Cr~~~~~ 184 (207)
..+.++.|.||+.+--...|.+.+.|+|.||..|.++.|++.- .||+|.++|..
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 4567889999998876677778899999999999988776541 99999998753
No 60
>PHA02862 5L protein; Provisional
Probab=97.29 E-value=0.00015 Score=54.74 Aligned_cols=46 Identities=28% Similarity=0.650 Sum_probs=35.4
Q ss_pred CCcccccccccCCCCCeEEcCCC-----CccCHHHHHHHhhcC--CCcccccccccc
Q 028554 135 EDTCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNERS--ESCPICDQVLII 184 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~-----H~Fh~~CI~~Wl~~~--~~CP~Cr~~~~~ 184 (207)
.+.|-||++..+ +. .-||. ...|+.|+.+|++.+ ..|++|+.+...
T Consensus 2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 467999999862 22 35666 578999999999654 499999997754
No 61
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00034 Score=56.69 Aligned_cols=67 Identities=21% Similarity=0.414 Sum_probs=52.8
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC--------CCcccccccccccchhhhhHHHHHhhh
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS--------ESCPICDQVLIILKDAVFRYVIVATDH 199 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~--------~~CP~Cr~~~~~~~~~~~~~~~~~~~~ 199 (207)
.+....|..|-..+.+++.++ +-|-|.||+.|+.+|--.- ..||-|.++|......+.-+.+.+++.
T Consensus 47 sDY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~ 121 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQ 121 (299)
T ss_pred cCCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHH
Confidence 345567999999998888855 8999999999999998532 289999999988877766665555443
No 62
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.0003 Score=58.53 Aligned_cols=52 Identities=29% Similarity=0.663 Sum_probs=42.6
Q ss_pred ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhh--cCCCccccccccc
Q 028554 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE--RSESCPICDQVLI 183 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~--~~~~CP~Cr~~~~ 183 (207)
+....+.+|++|-+.- ..|-+..+|+|.||..||..-.. .+.+||.|.....
T Consensus 234 s~~t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3345677899999987 78888889999999999987664 4469999988764
No 63
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.21 E-value=0.00029 Score=54.17 Aligned_cols=51 Identities=35% Similarity=0.693 Sum_probs=37.9
Q ss_pred cCCCCCcccccccccCCCCCeEEcCCC--C---ccCHHHHHHHhhcCC--Cccccccccccc
Q 028554 131 ASEEEDTCPICLEEYDTENPKLITKCE--H---HFHLSCILEWNERSE--SCPICDQVLIIL 185 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~~~lpC~--H---~Fh~~CI~~Wl~~~~--~CP~Cr~~~~~~ 185 (207)
....+..|-||.+..+ .. .-||. . ..|.+|+.+|+..++ .|++|++.....
T Consensus 4 ~s~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 4 VSLMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred cCCCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 4567788999998863 22 24665 3 669999999997654 999999876543
No 64
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.13 E-value=0.00011 Score=63.74 Aligned_cols=49 Identities=35% Similarity=0.659 Sum_probs=39.6
Q ss_pred CCCCCcccccccccCCC-CCeEEcCCCCccCHHHHHHHhhcCC--Ccccccc
Q 028554 132 SEEEDTCPICLEEYDTE-NPKLITKCEHHFHLSCILEWNERSE--SCPICDQ 180 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~-~~~~~lpC~H~Fh~~CI~~Wl~~~~--~CP~Cr~ 180 (207)
.+.+.-|..|=+.+... +...-+||.|+||..|+.+.++... +||.||+
T Consensus 362 ~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 362 EETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 46677899999988433 3346799999999999999997654 9999994
No 65
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00057 Score=58.82 Aligned_cols=49 Identities=27% Similarity=0.649 Sum_probs=41.6
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
..|++.|+||.-.- .+. +..||+|.-|..||...|...+.|=.|+..+.
T Consensus 419 ~sEd~lCpICyA~p--i~A-vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYAGP--INA-VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceeccc--chh-hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 35777899998754 344 67999999999999999999999999988765
No 66
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.98 E-value=0.00026 Score=53.06 Aligned_cols=37 Identities=19% Similarity=0.474 Sum_probs=30.6
Q ss_pred CCCcccccccccCCCCCeEEcCCC------CccCHHHHHHHhh
Q 028554 134 EEDTCPICLEEYDTENPKLITKCE------HHFHLSCILEWNE 170 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~------H~Fh~~CI~~Wl~ 170 (207)
-..+|.||++.+.....++.+.|+ |.||..|+.+|-+
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 356799999999665577778888 8999999999943
No 67
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.76 E-value=0.00043 Score=62.41 Aligned_cols=56 Identities=29% Similarity=0.599 Sum_probs=44.6
Q ss_pred ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc-----CCCcccccccccccchh
Q 028554 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-----SESCPICDQVLIILKDA 188 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~-----~~~CP~Cr~~~~~~~~~ 188 (207)
+...++..|.+|-+.- ++. +...|.|.||..||.+++.. ..+||+|-..+..+...
T Consensus 531 ~enk~~~~C~lc~d~a--ed~-i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse 591 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPA--EDY-IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSE 591 (791)
T ss_pred ccccCceeecccCChh--hhh-HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccc
Confidence 4556777899999886 555 66999999999999888753 24999999988877544
No 68
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.68 E-value=0.0013 Score=57.69 Aligned_cols=61 Identities=23% Similarity=0.302 Sum_probs=46.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC--------CCcccccccccccchhhhhHH
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS--------ESCPICDQVLIILKDAVFRYV 193 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~--------~~CP~Cr~~~~~~~~~~~~~~ 193 (207)
..-..|.||+++.........+||+|.||..|++..+... -.||-+...-......+..++
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelv 250 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELV 250 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHH
Confidence 3446799999999777888899999999999999988532 288877665555555555444
No 69
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.60 E-value=0.0022 Score=39.58 Aligned_cols=45 Identities=27% Similarity=0.592 Sum_probs=23.4
Q ss_pred ccccccccCCCCC-eEEcCCCCccCHHHHHHHhh-cCCCcccccccc
Q 028554 138 CPICLEEYDTENP-KLITKCEHHFHLSCILEWNE-RSESCPICDQVL 182 (207)
Q Consensus 138 C~ICle~~~~~~~-~~~lpC~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~ 182 (207)
|++|.++++..+. ..--+|++.+|..|..+.++ ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999954443 23346789999999999886 577999999863
No 70
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.0023 Score=54.47 Aligned_cols=55 Identities=29% Similarity=0.593 Sum_probs=41.6
Q ss_pred CcccccccccCCCCC---eEEcCCCCccCHHHHHHHhhcCC-Ccccccccccccchhhh
Q 028554 136 DTCPICLEEYDTENP---KLITKCEHHFHLSCILEWNERSE-SCPICDQVLIILKDAVF 190 (207)
Q Consensus 136 ~~C~ICle~~~~~~~---~~~lpC~H~Fh~~CI~~Wl~~~~-~CP~Cr~~~~~~~~~~~ 190 (207)
..|-||-++|..++. .+++.|||.||..|+...+.... .||.||.........+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~ 62 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVK 62 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHh
Confidence 469999999965422 26788999999999988776554 89999998654444433
No 71
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.00058 Score=57.32 Aligned_cols=42 Identities=26% Similarity=0.675 Sum_probs=33.2
Q ss_pred CCCcccccccccCCCCCeEEcCCCCc-cCHHHHHHHhhcCCCcccccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQVL 182 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~-Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (207)
....|.||++.. .+. +.|+|||. -|..|-++ -+.||+||+.|
T Consensus 299 ~~~LC~ICmDaP--~DC-vfLeCGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 299 TRRLCAICMDAP--RDC-VFLECGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHHhcCC--cce-EEeecCcEEeehhhccc----cccCchHHHHH
Confidence 367899999987 666 66999996 58888644 34899999976
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.46 E-value=0.0023 Score=60.63 Aligned_cols=51 Identities=37% Similarity=0.821 Sum_probs=38.3
Q ss_pred ccCCCCCcccccccccCCCCCe-EEcCCCCccCHHHHHHHhhcCC-------Ccccccc
Q 028554 130 AASEEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSE-------SCPICDQ 180 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~-~~lpC~H~Fh~~CI~~Wl~~~~-------~CP~Cr~ 180 (207)
.......+|.||++.++...++ .-..|-|.||..||.+|-.... .||.|+.
T Consensus 186 ~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 186 QLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred HHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 3446677899999999666663 1224669999999999996432 8999973
No 73
>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=96.46 E-value=0.0012 Score=47.33 Aligned_cols=36 Identities=25% Similarity=0.558 Sum_probs=28.4
Q ss_pred cCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHH
Q 028554 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILE 167 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~ 167 (207)
...++..|++|-..+.. ....+.||||.||..|+.+
T Consensus 74 ~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred EECCCCCccCcCCcCCC-ceEEEeCCCeEEecccccC
Confidence 34567789999999944 4457789999999999853
No 74
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.34 E-value=0.0027 Score=53.45 Aligned_cols=61 Identities=28% Similarity=0.418 Sum_probs=46.8
Q ss_pred Cccccccccc-CCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchhhhhHHHHHhh
Q 028554 136 DTCPICLEEY-DTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDAVFRYVIVATD 198 (207)
Q Consensus 136 ~~C~ICle~~-~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~ 198 (207)
..|+||.+.+ .....+..++|||..|..|+.+.....-+||+|.+ ..+...+++.++....
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~--~~d~~~~~~~~d~~l~ 220 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK--PGDMSHYFRKLDKELA 220 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc--hHHHHHHHHHHHHHHh
Confidence 3499999988 33444577999999999999988876689999988 5666666666655443
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.04 E-value=0.0051 Score=52.97 Aligned_cols=50 Identities=22% Similarity=0.476 Sum_probs=40.9
Q ss_pred ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHH--HHhhcCCCcccccccc
Q 028554 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCIL--EWNERSESCPICDQVL 182 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~--~Wl~~~~~CP~Cr~~~ 182 (207)
+..++...|-||-+.+ .-..++||+|..|..|-. +.|...+.|++||...
T Consensus 56 dtDEen~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 56 DTDEENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 4556777899999886 556789999999999985 4567788999999864
No 76
>PHA03096 p28-like protein; Provisional
Probab=96.03 E-value=0.0029 Score=53.69 Aligned_cols=45 Identities=27% Similarity=0.582 Sum_probs=32.5
Q ss_pred CcccccccccCCCCC-----eEEcCCCCccCHHHHHHHhhcCC---Ccccccc
Q 028554 136 DTCPICLEEYDTENP-----KLITKCEHHFHLSCILEWNERSE---SCPICDQ 180 (207)
Q Consensus 136 ~~C~ICle~~~~~~~-----~~~lpC~H~Fh~~CI~~Wl~~~~---~CP~Cr~ 180 (207)
..|.||++....... ..+..|.|.||..||..|...+. +||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 679999998843211 14568999999999999996543 5555544
No 77
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.92 E-value=0.0078 Score=49.57 Aligned_cols=52 Identities=15% Similarity=0.312 Sum_probs=43.5
Q ss_pred CCCcccccccccCCCCCe-EEcCCCCccCHHHHHHHhhcCCCccccccccccc
Q 028554 134 EEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~-~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
....|+||.+.+....+. .+-+|||.|+..|+.+.+..-..||+|.+++..+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR 272 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence 567899999999554444 5568999999999999999999999999987544
No 78
>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=95.70 E-value=0.0043 Score=37.97 Aligned_cols=34 Identities=35% Similarity=0.696 Sum_probs=24.5
Q ss_pred EEcCCC-CccCHHHHHHHhhcCCCccccccccccc
Q 028554 152 LITKCE-HHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 152 ~~lpC~-H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
.+..|. |..|..|+...+.++..||+|.++++..
T Consensus 14 ~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 446787 8899999999999999999999988653
No 79
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.64 E-value=0.013 Score=49.11 Aligned_cols=51 Identities=24% Similarity=0.567 Sum_probs=40.8
Q ss_pred CCCCCcccccccccCCCCCe-EEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~-~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
......|||...+|...... .+.+|||.|...+|.+.- ....||+|.+++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence 46778999999999544443 566999999999999974 4568999999865
No 80
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.62 E-value=0.0049 Score=50.57 Aligned_cols=46 Identities=26% Similarity=0.743 Sum_probs=34.4
Q ss_pred cccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccccc
Q 028554 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
.|--|..--. .++..++.|+|.||..|...-.. ..||+|++.+...
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSP--DVCPLCKKSIRII 50 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccCCc--cccccccceeeee
Confidence 3666665554 67778999999999999755332 2899999987644
No 81
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.61 E-value=0.0073 Score=47.37 Aligned_cols=55 Identities=22% Similarity=0.530 Sum_probs=37.9
Q ss_pred CCCCCcccccccccCCCC----CeEEcCCCCccCHHHHHHHhhcC-----------CCcccccccccccc
Q 028554 132 SEEEDTCPICLEEYDTEN----PKLITKCEHHFHLSCILEWNERS-----------ESCPICDQVLIILK 186 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~----~~~~lpC~H~Fh~~CI~~Wl~~~-----------~~CP~Cr~~~~~~~ 186 (207)
.++...|.||+-.--.+. .---..||..||+-|+..||+.- ..||.|.+++..+.
T Consensus 162 dd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 162 DDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred chhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 345556888876542221 11235899999999999999731 38999999886543
No 82
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.47 E-value=0.016 Score=49.57 Aligned_cols=54 Identities=20% Similarity=0.546 Sum_probs=44.8
Q ss_pred ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccccc
Q 028554 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
....+...|+||+... .|+.++.--|-.||..||...+...+.||+=..++..+
T Consensus 295 ~l~~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~ 348 (357)
T KOG0826|consen 295 LLPPDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVD 348 (357)
T ss_pred cCCCccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHH
Confidence 3445667899999988 88877777899999999999999999999987766443
No 83
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.45 E-value=0.0083 Score=57.01 Aligned_cols=44 Identities=25% Similarity=0.687 Sum_probs=37.3
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVL 182 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (207)
....|.+|-..+ +-|.+...|||.||++|+. .....||.|+...
T Consensus 839 q~skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 346899999888 8899999999999999997 4556999998743
No 84
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.0086 Score=51.79 Aligned_cols=46 Identities=28% Similarity=0.668 Sum_probs=32.7
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
....+.|.||+++. .+ ...+||||.-| |+.--. .-..||+||+.|.
T Consensus 302 ~~~p~lcVVcl~e~--~~-~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEP--KS-AVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCc--cc-eeeecCCcEEE--chHHHh-hCCCCchhHHHHH
Confidence 34456799999998 44 57799999866 654332 2235999999873
No 85
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.26 E-value=0.018 Score=48.69 Aligned_cols=48 Identities=27% Similarity=0.506 Sum_probs=38.4
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhh-cCCCcccc-ccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPIC-DQVLIIL 185 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~-~~~~CP~C-r~~~~~~ 185 (207)
..|+.|-..+ .++...--|+|.||..||...|- .-..||.| |+.+..+
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld 324 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD 324 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence 7899999998 88877557999999999997774 45699999 4455433
No 86
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.24 E-value=0.0061 Score=52.37 Aligned_cols=52 Identities=25% Similarity=0.633 Sum_probs=36.4
Q ss_pred cCCCCCcccccccccCCCCCe-EEcCCCCccCHHHHHHHhh-cCCCcccccccc
Q 028554 131 ASEEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNE-RSESCPICDQVL 182 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~-~~lpC~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~ 182 (207)
.+++++.|+.|+|.++..+.- .-.+||-..|+-|....-+ ....||-||...
T Consensus 10 sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred cccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 456677799999999654442 3457887777777655443 345999999854
No 87
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.14 E-value=0.0096 Score=37.71 Aligned_cols=47 Identities=23% Similarity=0.472 Sum_probs=33.9
Q ss_pred CCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccc
Q 028554 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILK 186 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (207)
...|..|...- ..-.+++|+|..+..|..- ++-+-||+|..++..++
T Consensus 7 ~~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 34566665543 3346799999999999765 44559999998876543
No 88
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.88 E-value=0.017 Score=54.79 Aligned_cols=52 Identities=33% Similarity=0.753 Sum_probs=42.1
Q ss_pred CCCCcccccccccCCCCCeEEcCCC-----CccCHHHHHHHhhcCC--Cccccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNERSE--SCPICDQVLIIL 185 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~-----H~Fh~~CI~~Wl~~~~--~CP~Cr~~~~~~ 185 (207)
++...|.||..+-..++| ..-||. ...|.+|+.+|+.-++ .|-+|..++.++
T Consensus 10 ~d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk 68 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK 68 (1175)
T ss_pred ccchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence 556789999999888888 446776 4689999999997654 999999988765
No 89
>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=94.69 E-value=0.019 Score=34.70 Aligned_cols=41 Identities=22% Similarity=0.553 Sum_probs=21.5
Q ss_pred ccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCC--Ccccc
Q 028554 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCPIC 178 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~--~CP~C 178 (207)
|.+|.+....+..=....|+=.+|..|+..++.... .||.|
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 677877773222211224888999999999997665 79987
No 90
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.67 E-value=0.016 Score=48.03 Aligned_cols=54 Identities=31% Similarity=0.724 Sum_probs=38.6
Q ss_pred ccCCCCCcccccccccCCCCCe--EEcCCC-----CccCHHHHHHHhhcCC--------Ccccccccccc
Q 028554 130 AASEEEDTCPICLEEYDTENPK--LITKCE-----HHFHLSCILEWNERSE--------SCPICDQVLII 184 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~--~~lpC~-----H~Fh~~CI~~Wl~~~~--------~CP~Cr~~~~~ 184 (207)
+..+.+..|=||+..=+ ++.. -+-||. |..|..||.+|+..+. +||.|+.+...
T Consensus 15 ~~~e~eR~CWiCF~Tde-Dn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 15 DNQELERCCWICFATDE-DNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred CccccceeEEEEeccCc-ccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 34467778999997642 2222 245776 8899999999997543 89999887553
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=94.33 E-value=0.048 Score=42.09 Aligned_cols=34 Identities=32% Similarity=0.767 Sum_probs=23.4
Q ss_pred CCCcccccccccCCCCCeEEcCCC------------C-ccCHHHHHHHhh
Q 028554 134 EEDTCPICLEEYDTENPKLITKCE------------H-HFHLSCILEWNE 170 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~------------H-~Fh~~CI~~Wl~ 170 (207)
|+-+|+||||.- -|. ++|-|. - .-|..||++.-+
T Consensus 1 ed~~CpICme~P--HNA-VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHP--HNA-VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCC--Cce-EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 356899999987 555 556665 1 237889987654
No 92
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.23 E-value=0.013 Score=57.98 Aligned_cols=50 Identities=30% Similarity=0.494 Sum_probs=41.3
Q ss_pred CCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccch
Q 028554 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKD 187 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~ 187 (207)
-..|.||++.+ .+...+..|||.+|..|+..|+..+..||+|+ .+..+-.
T Consensus 1153 ~~~c~ic~dil--~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~k-si~~dfg 1202 (1394)
T KOG0298|consen 1153 HFVCEICLDIL--RNQGGIAGCGHEPCCRCDELWLYASSRCPICK-SIKGDFG 1202 (1394)
T ss_pred ccchHHHHHHH--HhcCCeeeechhHhhhHHHHHHHHhccCcchh-hhhhhhc
Confidence 34899999999 65557789999999999999999999999996 3444433
No 93
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=94.21 E-value=0.029 Score=47.22 Aligned_cols=52 Identities=23% Similarity=0.498 Sum_probs=37.1
Q ss_pred ccccccccc--CCCCCeEEcCCCCccCHHHHHHHhh-cCCCcccccccccccchh
Q 028554 137 TCPICLEEY--DTENPKLITKCEHHFHLSCILEWNE-RSESCPICDQVLIILKDA 188 (207)
Q Consensus 137 ~C~ICle~~--~~~~~~~~lpC~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~~~~~~~ 188 (207)
.|++|.... .+.-...+-+|+|..|..|+.+.+. ....||.|...+..+.-.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 588887543 2222223449999999999999995 456999998877655443
No 94
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.10 E-value=0.015 Score=55.56 Aligned_cols=48 Identities=27% Similarity=0.495 Sum_probs=35.4
Q ss_pred hhcccccc-ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhh
Q 028554 122 EVSQLNVF-AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (207)
Q Consensus 122 ~~~k~~~~-~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~ 170 (207)
.+.++... ...+.++.|.||...+- ..|-.+.+|||.||+.||.+-..
T Consensus 803 ~~~~l~~ry~v~ep~d~C~~C~~~ll-~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 803 EISKLRQRYRVLEPQDSCDHCGRPLL-IKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred HHHHhhcceEEecCccchHHhcchhh-cCcceeeeccchHHHHHHHHHHH
Confidence 44455444 55678889999988773 33557799999999999976553
No 95
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.86 E-value=0.033 Score=49.54 Aligned_cols=36 Identities=33% Similarity=0.690 Sum_probs=30.9
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhh
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~ 170 (207)
.||+..|+||-..| .+| ++++|+|..|..|...-+.
T Consensus 1 meeelkc~vc~~f~--~ep-iil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 1 MEEELKCPVCGSFY--REP-IILPCSHNLCQACARNILV 36 (699)
T ss_pred CcccccCceehhhc--cCc-eEeecccHHHHHHHHhhcc
Confidence 36888999999999 888 5599999999999886654
No 96
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.85 E-value=0.028 Score=53.24 Aligned_cols=45 Identities=36% Similarity=0.832 Sum_probs=37.0
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCC--Ccccccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCPICDQVLII 184 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~--~CP~Cr~~~~~ 184 (207)
..|.||++ . +...+++|+|.||..|+..-++... .||+||..+..
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 78999999 3 4447799999999999999886654 69999987643
No 97
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.30 E-value=0.042 Score=46.77 Aligned_cols=52 Identities=33% Similarity=0.694 Sum_probs=39.3
Q ss_pred CCCcccccccccCCCCC-eEEcCCC-----CccCHHHHHHHhh--cCCCccccccccccc
Q 028554 134 EEDTCPICLEEYDTENP-KLITKCE-----HHFHLSCILEWNE--RSESCPICDQVLIIL 185 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~-~~~lpC~-----H~Fh~~CI~~Wl~--~~~~CP~Cr~~~~~~ 185 (207)
++..|.||.++....+. ....||. +..|..|+..|+. ....|.+|.......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 35679999998743321 3668887 6789999999997 555999998866544
No 98
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.16 E-value=0.028 Score=43.49 Aligned_cols=30 Identities=23% Similarity=0.595 Sum_probs=26.4
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCH
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHL 162 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~ 162 (207)
++.-+|.||||++..++.|..|||-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 455679999999999999999999998885
No 99
>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=92.56 E-value=0.15 Score=31.79 Aligned_cols=43 Identities=26% Similarity=0.628 Sum_probs=22.4
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhh---cCC--Cccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE---RSE--SCPICDQV 181 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~---~~~--~CP~Cr~~ 181 (207)
..|+|....+ ..|++...|.|.-|.+ +..||+ +.. .||+|+++
T Consensus 3 L~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4699999988 8899999999974322 233333 222 79999863
No 100
>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=92.19 E-value=0.045 Score=45.03 Aligned_cols=50 Identities=30% Similarity=0.700 Sum_probs=36.5
Q ss_pred CCCccccccccc--CCCCCeEEcC-CCCccCHHHHHHHhhc-CCCcc--ccccccc
Q 028554 134 EEDTCPICLEEY--DTENPKLITK-CEHHFHLSCILEWNER-SESCP--ICDQVLI 183 (207)
Q Consensus 134 e~~~C~ICle~~--~~~~~~~~lp-C~H~Fh~~CI~~Wl~~-~~~CP--~Cr~~~~ 183 (207)
++..||||..+- .+.-.+.+-| |-|..|.+|+.+.|.+ ...|| -|.+-+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 455899999764 3333334445 9999999999999965 45999 8876543
No 101
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.00 E-value=0.069 Score=45.49 Aligned_cols=44 Identities=25% Similarity=0.574 Sum_probs=29.5
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
-.|--|=-.+ .---+++||.|.||++|... ..-+.||.|...|.
T Consensus 91 HfCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 3455553332 22236789999999999654 44569999977664
No 102
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.74 E-value=0.016 Score=50.68 Aligned_cols=55 Identities=18% Similarity=0.325 Sum_probs=44.4
Q ss_pred CCCcccccccccCCC-CCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchh
Q 028554 134 EEDTCPICLEEYDTE-NPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDA 188 (207)
Q Consensus 134 e~~~C~ICle~~~~~-~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (207)
-...|+||.+.|+.. +.+..+-|||.+|..||.+|+.....||.|+..+......
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e 250 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGFE 250 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhHH
Confidence 345799999988544 4455688999999999999999888999999988655433
No 103
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.40 E-value=0.11 Score=42.08 Aligned_cols=38 Identities=29% Similarity=0.550 Sum_probs=29.2
Q ss_pred ccccccccCCCCCeEEcCCCCc-cCHHHHHHHhhcCCCcccccccc
Q 028554 138 CPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQVL 182 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~H~-Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (207)
|-+|-+.- -.++++||.|+ +|..|=.. ..+||+|+-..
T Consensus 161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChh
Confidence 99998774 55788999985 88889533 45799998754
No 104
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.96 E-value=0.13 Score=45.63 Aligned_cols=39 Identities=28% Similarity=0.632 Sum_probs=29.5
Q ss_pred CCCcccccc-cccCCCCCeEEcCCCCccCHHHHHHHhhcC
Q 028554 134 EEDTCPICL-EEYDTENPKLITKCEHHFHLSCILEWNERS 172 (207)
Q Consensus 134 e~~~C~ICl-e~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~ 172 (207)
...+|.||. +....+.-..+..|+|.||..|+++.++.+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 456899999 444443333468999999999999888754
No 105
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.35 E-value=0.21 Score=42.82 Aligned_cols=46 Identities=24% Similarity=0.486 Sum_probs=35.6
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
-+-..||||.+.+ ..|+..-.=||.-|..|=. +.++.||.||.++.
T Consensus 46 ~~lleCPvC~~~l--~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPL--SPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccC--cccceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 4556799999999 6665544446999999864 55678999999987
No 106
>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=89.75 E-value=0.44 Score=41.82 Aligned_cols=53 Identities=28% Similarity=0.701 Sum_probs=33.3
Q ss_pred cCCCCCcccccccccCCCCCeEE----------------cCCCC-----ccCHHHHHHHhh-------------cCCCcc
Q 028554 131 ASEEEDTCPICLEEYDTENPKLI----------------TKCEH-----HFHLSCILEWNE-------------RSESCP 176 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~~~----------------lpC~H-----~Fh~~CI~~Wl~-------------~~~~CP 176 (207)
..++.+.|--|+..- .+-++. .+|.. ..|.+|+-+|+- .+.+||
T Consensus 267 ~~~e~e~CigC~~~~--~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CP 344 (358)
T PF10272_consen 267 SGQELEPCIGCMQAQ--PNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCP 344 (358)
T ss_pred CccccCCccccccCC--CCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCC
Confidence 335677788888654 222111 23443 458899988773 334999
Q ss_pred ccccccccc
Q 028554 177 ICDQVLIIL 185 (207)
Q Consensus 177 ~Cr~~~~~~ 185 (207)
+||+.+-.-
T Consensus 345 tCRa~FCil 353 (358)
T PF10272_consen 345 TCRAKFCIL 353 (358)
T ss_pred CCcccceee
Confidence 999987543
No 107
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.51 E-value=0.4 Score=42.23 Aligned_cols=48 Identities=23% Similarity=0.508 Sum_probs=40.6
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC---CCcccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS---ESCPICDQ 180 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~---~~CP~Cr~ 180 (207)
..-..|||=.+.-.++||...+.|||....+=|.+..+.. ..||.|=.
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 4557899999999889999999999999999999977543 48999944
No 108
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=87.11 E-value=0.16 Score=47.88 Aligned_cols=49 Identities=31% Similarity=0.712 Sum_probs=38.3
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc---CCCccccccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQVLI 183 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~ 183 (207)
.....+|+||+..+ ..+ ..+.|.|.|+..|+..-|.. ...||+|+..+.
T Consensus 18 ~~k~lEc~ic~~~~--~~p-~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 18 MQKILECPICLEHV--KEP-SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred HhhhccCCceeEEe--ecc-chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 34566899999999 566 66999999999999765544 459999986554
No 109
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.06 E-value=0.3 Score=45.33 Aligned_cols=51 Identities=31% Similarity=0.666 Sum_probs=41.8
Q ss_pred cCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccchh
Q 028554 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILKDA 188 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (207)
..+..+.|.||+.+. ..++++|. |..|+.+|+..+..||+|+..+..++..
T Consensus 475 l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 475 LREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred hhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 345677899999987 33557788 8999999999999999999988766555
No 110
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=86.31 E-value=0.4 Score=45.60 Aligned_cols=26 Identities=35% Similarity=0.864 Sum_probs=23.2
Q ss_pred EEcCCCCccCHHHHHHHhhcCCCccc
Q 028554 152 LITKCEHHFHLSCILEWNERSESCPI 177 (207)
Q Consensus 152 ~~lpC~H~Fh~~CI~~Wl~~~~~CP~ 177 (207)
+..-|+|..|..|..+|++....||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 45689999999999999999999984
No 111
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=86.01 E-value=0.45 Score=35.70 Aligned_cols=52 Identities=17% Similarity=0.404 Sum_probs=36.4
Q ss_pred CCCcccccccccCCCCCeEE---cCCCCccCHHHHHHHhhc---CCCcccccccccccch
Q 028554 134 EEDTCPICLEEYDTENPKLI---TKCEHHFHLSCILEWNER---SESCPICDQVLIILKD 187 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~---lpC~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~~~ 187 (207)
.-.+|-||.|.- .+...+ .=||-..|..|.-..++. ...||+|+.++.....
T Consensus 79 ~lYeCnIC~etS--~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETS--AEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCccccc--chhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 556899999987 333222 239999999987655544 3499999998865543
No 112
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.41 E-value=0.62 Score=43.58 Aligned_cols=40 Identities=28% Similarity=0.557 Sum_probs=30.6
Q ss_pred CCCcccccccccCC--CCCeEEcCCCCccCHHHHHHHhhcCCCcc
Q 028554 134 EEDTCPICLEEYDT--ENPKLITKCEHHFHLSCILEWNERSESCP 176 (207)
Q Consensus 134 e~~~C~ICle~~~~--~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP 176 (207)
+-..|.||+..|.. -.| +.+-|||..|..|+..-..+ +||
T Consensus 10 ~~l~c~ic~n~f~~~~~~P-vsl~cghtic~~c~~~lyn~--scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEP-VSLQCGHTICGHCVQLLYNA--SCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCc-ccccccchHHHHHHHhHhhc--cCC
Confidence 34569999888822 345 55899999999999887666 677
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.16 E-value=0.66 Score=39.39 Aligned_cols=29 Identities=24% Similarity=0.462 Sum_probs=21.4
Q ss_pred CccCHHHHHHHhh-------------cCCCcccccccccccc
Q 028554 158 HHFHLSCILEWNE-------------RSESCPICDQVLIILK 186 (207)
Q Consensus 158 H~Fh~~CI~~Wl~-------------~~~~CP~Cr~~~~~~~ 186 (207)
-..|.+|+-+|+- .+.+||+||+.+-..+
T Consensus 327 p~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 327 PLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 4567889977663 4559999999876544
No 114
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.98 E-value=0.58 Score=44.74 Aligned_cols=54 Identities=19% Similarity=0.338 Sum_probs=37.4
Q ss_pred CCCCCcccccccccCC-CCCeEEcC---CCCccCHHHHHHHhhcC------CCccccccccccc
Q 028554 132 SEEEDTCPICLEEYDT-ENPKLITK---CEHHFHLSCILEWNERS------ESCPICDQVLIIL 185 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~-~~~~~~lp---C~H~Fh~~CI~~Wl~~~------~~CP~Cr~~~~~~ 185 (207)
.-+.+.|.||..++.. .+..-+.| |+|.||..||..|..+- -.|++|..-|..+
T Consensus 93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 3456788888888833 22223344 99999999999999742 2788887755433
No 115
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=79.53 E-value=2.9 Score=26.48 Aligned_cols=44 Identities=20% Similarity=0.599 Sum_probs=30.9
Q ss_pred CCCcccccccccCCCCCe-EEcCCCCccCHHHHHHHhhcCCCccc--cccc
Q 028554 134 EEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSESCPI--CDQV 181 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~-~~lpC~H~Fh~~CI~~Wl~~~~~CP~--Cr~~ 181 (207)
+...|.+|-+.|..++.+ +-..|+-.+|+.|..+ ...|-+ |...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 456799999999755544 5556999999999643 445655 5443
No 116
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.20 E-value=2.6 Score=35.09 Aligned_cols=38 Identities=26% Similarity=0.393 Sum_probs=32.8
Q ss_pred ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhh
Q 028554 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~ 170 (207)
+...+-+-|..||..+ .+| ++++=||.|+.+||.+.+-
T Consensus 38 DsiK~FdcCsLtLqPc--~dP-vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPC--RDP-VITPDGYLFDREAILEYIL 75 (303)
T ss_pred cccCCcceeeeecccc--cCC-ccCCCCeeeeHHHHHHHHH
Confidence 5556788899999999 888 5699999999999998774
No 117
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.17 E-value=1.2 Score=42.57 Aligned_cols=48 Identities=23% Similarity=0.497 Sum_probs=34.7
Q ss_pred CCCcccccccccCC----CCCeEEcCCCCccCHHHHHHHhhcCCCcccccccc
Q 028554 134 EEDTCPICLEEYDT----ENPKLITKCEHHFHLSCILEWNERSESCPICDQVL 182 (207)
Q Consensus 134 e~~~C~ICle~~~~----~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (207)
.+..|.-|.+.... -+.+.++.|+|.||..|+..-+.+.+ |-.|..-.
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~~~ 834 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESGKN 834 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhcee
Confidence 34479999988722 15668899999999999977666554 76665433
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 KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=73.44 E-value=1.7 Score=35.29 Aligned_cols=47 Identities=21% Similarity=0.557 Sum_probs=37.6
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVL 182 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (207)
.-..|.+|.+.. ...++--.|+-.+|..|+...+.+...||.|..=+
T Consensus 180 nlk~Cn~Ch~Lv--Iqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLV--IQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHh--heeeccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 446799999887 55555566777899999999999999999995433
No 120
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.15 E-value=2.2 Score=38.57 Aligned_cols=38 Identities=26% Similarity=0.554 Sum_probs=31.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS 172 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~ 172 (207)
.....|.||.+.+.. .+..+.|+|.||..|+...+..+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 455789999999843 56778999999999998888643
No 121
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=72.04 E-value=3.3 Score=35.78 Aligned_cols=51 Identities=25% Similarity=0.528 Sum_probs=39.1
Q ss_pred CCcccccccccCCCC-CeEEcCCCCccCHHHHHHHhhcCCCccccccccccc
Q 028554 135 EDTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 135 ~~~C~ICle~~~~~~-~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
...|+||.+.....+ ..+-.+|++..|+.|+..-.....+||.||+.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 367999999874433 334457888899999998888899999999766543
No 122
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=70.31 E-value=2.8 Score=26.17 Aligned_cols=42 Identities=26% Similarity=0.640 Sum_probs=20.2
Q ss_pred ccccccccCCC-------CCeEEcCCCCccCHHHHHHHhhcCCCccccc
Q 028554 138 CPICLEEYDTE-------NPKLITKCEHHFHLSCILEWNERSESCPICD 179 (207)
Q Consensus 138 C~ICle~~~~~-------~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (207)
|--|+..+... ....-..|+++||.+|=.-.-+.-.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 44566666332 1234567999999999332224555999883
No 123
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=69.06 E-value=4 Score=22.73 Aligned_cols=37 Identities=19% Similarity=0.509 Sum_probs=24.9
Q ss_pred cccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccc
Q 028554 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVL 182 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (207)
.|..|-..+..... .+..=+..||..|+ .|..|+..|
T Consensus 1 ~C~~C~~~i~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGEL-VLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcE-EEEeCCccccccCC--------CCcccCCcC
Confidence 37788877743322 33445788998886 788888765
No 124
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=68.65 E-value=4.1 Score=32.84 Aligned_cols=43 Identities=30% Similarity=0.756 Sum_probs=29.0
Q ss_pred CCCCcccccccc-----cCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccc
Q 028554 133 EEEDTCPICLEE-----YDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (207)
Q Consensus 133 ee~~~C~ICle~-----~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (207)
..+..|-||-.. |+....+.-..|+-.||..|.. +..||.|..
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 356788888742 1222334555789999999975 267999943
No 125
>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=68.27 E-value=0.41 Score=31.91 Aligned_cols=41 Identities=29% Similarity=0.654 Sum_probs=22.6
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLII 184 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (207)
..|+.|..+++..+ +|.+|..|-.. +.....||-|.+++..
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHHH
Confidence 46999988772222 67777777654 4556699999988753
No 126
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=68.13 E-value=2.3 Score=26.58 Aligned_cols=25 Identities=16% Similarity=0.300 Sum_probs=12.6
Q ss_pred CcccccccccccchhhhhHHHHHhhhh
Q 028554 174 SCPICDQVLIILKDAVFRYVIVATDHS 200 (207)
Q Consensus 174 ~CP~Cr~~~~~~~~~~~~~~~~~~~~~ 200 (207)
.||+|..++..+.. ..++..+....
T Consensus 22 ~CPlC~r~l~~e~~--~~li~~~~~~i 46 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR--QELIKKYKSEI 46 (54)
T ss_dssp E-TTT--EE-HHHH--HHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHH--HHHHHHHHHHH
Confidence 99999998866555 34444444433
No 127
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.94 E-value=3.1 Score=37.00 Aligned_cols=44 Identities=25% Similarity=0.583 Sum_probs=32.0
Q ss_pred CCCccccccccc---CCCCCeEEcCCCCccCHHHHHHHhhcCCCcccc
Q 028554 134 EEDTCPICLEEY---DTENPKLITKCEHHFHLSCILEWNERSESCPIC 178 (207)
Q Consensus 134 e~~~C~ICle~~---~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~C 178 (207)
.-..|++|.-.+ ..-+.+. -.|||.||..|...|......|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~-CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMT-CRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEE-eeccccchhhcCcchhhCCccccCc
Confidence 445688887665 3334434 4499999999999999888877555
No 128
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=66.77 E-value=3.3 Score=22.06 Aligned_cols=9 Identities=56% Similarity=1.054 Sum_probs=4.9
Q ss_pred ccccccccc
Q 028554 137 TCPICLEEY 145 (207)
Q Consensus 137 ~C~ICle~~ 145 (207)
.|+-|-..+
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 355565554
No 129
>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=65.08 E-value=2.1 Score=37.92 Aligned_cols=46 Identities=33% Similarity=0.771 Sum_probs=0.0
Q ss_pred CCCccccccccc-----------CCCCCeEEcCCCCccCHHHHHHHhh------cCCCcccccccc
Q 028554 134 EEDTCPICLEEY-----------DTENPKLITKCEHHFHLSCILEWNE------RSESCPICDQVL 182 (207)
Q Consensus 134 e~~~C~ICle~~-----------~~~~~~~~lpC~H~Fh~~CI~~Wl~------~~~~CP~Cr~~~ 182 (207)
.-..|++=|..+ ...+|-+-+.|||.+.. ..|-. ...+||+||+.=
T Consensus 276 ~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 276 GRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp ------------------------------------------------------------------
T ss_pred cCCCCCcCCCccccccccccccccccCceeeccccceeee---cccccccccccccccCCCccccC
Confidence 344677665443 22456678899997764 36653 245999999853
No 130
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=64.73 E-value=5.4 Score=34.42 Aligned_cols=49 Identities=24% Similarity=0.489 Sum_probs=38.3
Q ss_pred CCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhc---CCCcccccc
Q 028554 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQ 180 (207)
Q Consensus 132 ~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~---~~~CP~Cr~ 180 (207)
...-..||+=.+.-..++|...+.|||..-..-+...-+. +..||.|-.
T Consensus 333 fHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 333 FHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 3456789998888888898899999999988887665432 348999943
No 131
>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=64.35 E-value=4.1 Score=26.79 Aligned_cols=13 Identities=23% Similarity=0.769 Sum_probs=9.3
Q ss_pred ccCHHHHHHHhhc
Q 028554 159 HFHLSCILEWNER 171 (207)
Q Consensus 159 ~Fh~~CI~~Wl~~ 171 (207)
.||..||.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999963
No 132
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=63.61 E-value=4.8 Score=38.51 Aligned_cols=40 Identities=20% Similarity=0.382 Sum_probs=28.6
Q ss_pred cccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccc
Q 028554 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPI 177 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~ 177 (207)
.|.+|-..+....- ----|||.-|..|++.|+....-||.
T Consensus 781 ~CtVC~~vi~G~~~-~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDV-WCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred CceeecceeeeeEe-ecccccccccHHHHHHHHhcCCCCcc
Confidence 57777655421111 22469999999999999999888876
No 133
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.90 E-value=2 Score=36.69 Aligned_cols=50 Identities=26% Similarity=0.541 Sum_probs=39.7
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccc
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLII 184 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (207)
...+.|.||...+ .-+.+.--|.|.|+..|...|....+.|+.|+.....
T Consensus 103 ~~~~~~~~~~g~l--~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKL--TVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeE--EecccccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 4566799999887 3343444599999999999999999999999886543
No 134
>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=62.30 E-value=2.9 Score=25.99 Aligned_cols=39 Identities=21% Similarity=0.422 Sum_probs=25.5
Q ss_pred ccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccccc
Q 028554 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 138 C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
|..|...+..... .+..-+..||..|+ +|-.|++.|...
T Consensus 1 C~~C~~~I~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEI-VIKAMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSE-EEEETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEE-EEEeCCcEEEcccc--------ccCCCCCccCCC
Confidence 5667777743333 33456778888876 788888877544
No 135
>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=62.27 E-value=3.3 Score=25.19 Aligned_cols=44 Identities=23% Similarity=0.567 Sum_probs=27.6
Q ss_pred cccccccccCCCCCeEEcCCCCccCHHHHHHHhh------cCCCcccccc
Q 028554 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNE------RSESCPICDQ 180 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~------~~~~CP~Cr~ 180 (207)
.|.||......+.-+.--.|+..||..|+..=.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3889988443333334447889999999854322 1237887753
No 136
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=62.01 E-value=4.2 Score=34.15 Aligned_cols=47 Identities=28% Similarity=0.571 Sum_probs=33.2
Q ss_pred CcccccccccCCCCCeEE----cCCCCccCHHHHHHHh-h--------cCCCcccccccc
Q 028554 136 DTCPICLEEYDTENPKLI----TKCEHHFHLSCILEWN-E--------RSESCPICDQVL 182 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~----lpC~H~Fh~~CI~~Wl-~--------~~~~CP~Cr~~~ 182 (207)
..|-||..++...+..+. ..|+-++|..|+.+-+ . ....||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 579999999954444331 2477899999998833 2 234999998843
No 137
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=61.10 E-value=6.3 Score=20.88 Aligned_cols=19 Identities=16% Similarity=0.462 Sum_probs=11.9
Q ss_pred CcccccccccccchhhhhHHH
Q 028554 174 SCPICDQVLIILKDAVFRYVI 194 (207)
Q Consensus 174 ~CP~Cr~~~~~~~~~~~~~~~ 194 (207)
.||+|.+.+ ....+++.++
T Consensus 3 ~CPiC~~~v--~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV--PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc--cHHHHHHHHH
Confidence 699998876 3344444443
No 138
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.41 E-value=4.9 Score=34.15 Aligned_cols=38 Identities=24% Similarity=0.549 Sum_probs=29.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCC----CccCHHHHHHHhhcCC
Q 028554 133 EEEDTCPICLEEYDTENPKLITKCE----HHFHLSCILEWNERSE 173 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~~~lpC~----H~Fh~~CI~~Wl~~~~ 173 (207)
.....|.+|.|.+ ++. ....|- |.||.-|-++-++.+.
T Consensus 266 ~apLcCTLC~ERL--EDT-HFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 266 SAPLCCTLCHERL--EDT-HFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CCceeehhhhhhh--ccC-ceeecCCCcccceecccCHHHHHhhc
Confidence 4557899999999 444 335564 9999999999888653
No 139
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=55.94 E-value=10 Score=27.66 Aligned_cols=44 Identities=20% Similarity=0.450 Sum_probs=32.6
Q ss_pred CcccccccccCCC-----------CCeEEcCCCCccCHHHHHHHhhcCCCccccc
Q 028554 136 DTCPICLEEYDTE-----------NPKLITKCEHHFHLSCILEWNERSESCPICD 179 (207)
Q Consensus 136 ~~C~ICle~~~~~-----------~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (207)
..|--|+..|... ....-..|.+.||.+|=.-|-+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 4588888877321 1223568999999999777777778999995
No 140
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=55.30 E-value=10 Score=32.93 Aligned_cols=47 Identities=23% Similarity=0.483 Sum_probs=35.6
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (207)
....|-.|.++.......+--.|.|.||.+|=.-.-+.-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 34459999888877777787889999999995443355568999963
No 141
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=53.69 E-value=4 Score=38.12 Aligned_cols=45 Identities=27% Similarity=0.751 Sum_probs=27.5
Q ss_pred CCCCcccccccc-----cCCCCCeEEcCCCCccCHHHHHHHhhcCCCcccccc
Q 028554 133 EEEDTCPICLEE-----YDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (207)
Q Consensus 133 ee~~~C~ICle~-----~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (207)
.....|.||... |...+...-..|++.||..|+.+ .+..||.|-+
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 345667777421 11223335567999999999644 2334999933
No 142
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=50.94 E-value=5.6 Score=25.64 Aligned_cols=16 Identities=19% Similarity=0.617 Sum_probs=12.0
Q ss_pred CCcccccccccccchh
Q 028554 173 ESCPICDQVLIILKDA 188 (207)
Q Consensus 173 ~~CP~Cr~~~~~~~~~ 188 (207)
..||+|..++......
T Consensus 40 p~CPlC~s~M~~~~r~ 55 (59)
T PF14169_consen 40 PVCPLCKSPMVSGTRM 55 (59)
T ss_pred ccCCCcCCccccceee
Confidence 4999999988765443
No 143
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=44.89 E-value=13 Score=31.16 Aligned_cols=46 Identities=22% Similarity=0.361 Sum_probs=36.6
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC--CCccccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS--ESCPICDQV 181 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~--~~CP~Cr~~ 181 (207)
-+..|+|=...+ .+|++-..|||.|-..=|...+... -.||+=..+
T Consensus 175 fs~rdPis~~~I--~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 175 FSNRDPISKKPI--VNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred hcccCchhhhhh--hchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 346788877777 8999999999999999999888653 378876554
No 144
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=44.10 E-value=28 Score=24.99 Aligned_cols=24 Identities=21% Similarity=0.484 Sum_probs=18.1
Q ss_pred CCccCHHHHHHHhhcC---------CCcccccc
Q 028554 157 EHHFHLSCILEWNERS---------ESCPICDQ 180 (207)
Q Consensus 157 ~H~Fh~~CI~~Wl~~~---------~~CP~Cr~ 180 (207)
.=.||..||..++... -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 5679999998877432 27998876
No 145
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.40 E-value=25 Score=29.52 Aligned_cols=51 Identities=16% Similarity=0.270 Sum_probs=35.8
Q ss_pred CCCCcccccccccCCCCC-eEEcCCCCccCHHHHHHHhhcCCCccccccccccc
Q 028554 133 EEEDTCPICLEEYDTENP-KLITKCEHHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~-~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
.-...|+|=--+|..... ..+..|||.|-..=+++.- ..+|++|.+.+..+
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQED 160 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCccccc
Confidence 455679887777733222 2567999999887776643 56999999876544
No 146
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=42.59 E-value=27 Score=30.28 Aligned_cols=51 Identities=24% Similarity=0.596 Sum_probs=34.2
Q ss_pred CCCCcccccccccC---------------CCCCe-EEcCCCCccCHHHHHHHhhc---------CCCccccccccc
Q 028554 133 EEEDTCPICLEEYD---------------TENPK-LITKCEHHFHLSCILEWNER---------SESCPICDQVLI 183 (207)
Q Consensus 133 ee~~~C~ICle~~~---------------~~~~~-~~lpC~H~Fh~~CI~~Wl~~---------~~~CP~Cr~~~~ 183 (207)
..+..|++|+..-. .+-+. ...||||.--..-..-|-+. +..||.|-+.+.
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 34678999997531 01111 23599998888888888874 248999977553
No 147
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=42.08 E-value=26 Score=24.87 Aligned_cols=32 Identities=22% Similarity=0.389 Sum_probs=21.9
Q ss_pred CCCcccccccccCCCCCeEEc--CCCCccCHHHHHH
Q 028554 134 EEDTCPICLEEYDTENPKLIT--KCEHHFHLSCILE 167 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~l--pC~H~Fh~~CI~~ 167 (207)
....|.||.... +-.+.-. .|...||..|...
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHH
Confidence 456899999874 3332222 3777999999865
No 148
>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 PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=41.63 E-value=45 Score=21.22 Aligned_cols=47 Identities=21% Similarity=0.520 Sum_probs=31.6
Q ss_pred CcccccccccCCCCCeEEcCCC--CccCHHHHHHHhhcCCCccccccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCE--HHFHLSCILEWNERSESCPICDQVLIIL 185 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~--H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (207)
..|-.|-.++..+..-. .-|. ..||..|....| ...||.|.-.+...
T Consensus 6 pnCE~C~~dLp~~s~~A-~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEA-YICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcc-eEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 35777777774444211 2355 479999999877 45999998877543
No 150
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=40.87 E-value=35 Score=23.27 Aligned_cols=50 Identities=20% Similarity=0.458 Sum_probs=20.9
Q ss_pred CCCcccccccccCC---CCC-eEEcCCCCccCHHHHH-HHhhcCCCccccccccc
Q 028554 134 EEDTCPICLEEYDT---ENP-KLITKCEHHFHLSCIL-EWNERSESCPICDQVLI 183 (207)
Q Consensus 134 e~~~C~ICle~~~~---~~~-~~~lpC~H~Fh~~CI~-~Wl~~~~~CP~Cr~~~~ 183 (207)
....|-||=+.+.. ++. +..-.|+--.|..|.. +.-+..+.||.|+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 45679999988822 222 1223567778999984 45567789999986553
No 151
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=40.16 E-value=8.4 Score=24.22 Aligned_cols=21 Identities=24% Similarity=0.760 Sum_probs=15.9
Q ss_pred CCeEEc-CCCCccCHHHHHHHh
Q 028554 149 NPKLIT-KCEHHFHLSCILEWN 169 (207)
Q Consensus 149 ~~~~~l-pC~H~Fh~~CI~~Wl 169 (207)
...+.- .|+|.||..|..+|-
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCeeECCCCCCeECCCCCCcCC
Confidence 344445 799999999988884
No 152
>PLN02189 cellulose synthase
Probab=39.36 E-value=28 Score=34.91 Aligned_cols=50 Identities=22% Similarity=0.517 Sum_probs=33.8
Q ss_pred CCCcccccccccC---CCCCeE-EcCCCCccCHHHHH-HHhhcCCCccccccccc
Q 028554 134 EEDTCPICLEEYD---TENPKL-ITKCEHHFHLSCIL-EWNERSESCPICDQVLI 183 (207)
Q Consensus 134 e~~~C~ICle~~~---~~~~~~-~lpC~H~Fh~~CI~-~Wl~~~~~CP~Cr~~~~ 183 (207)
....|.||-+++. .+++-+ .-.|+--.|..|.. +.-+.++.||.|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4457999999983 233322 22466678999984 33356779999988765
No 153
>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=39.18 E-value=24 Score=18.98 Aligned_cols=29 Identities=21% Similarity=0.463 Sum_probs=10.4
Q ss_pred cccccccccCCCCCeEEcCCCCccCHHHH
Q 028554 137 TCPICLEEYDTENPKLITKCEHHFHLSCI 165 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H~Fh~~CI 165 (207)
.|.+|.+.........-..|.-.+|..|+
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 57888877743234455678888888885
No 154
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=38.18 E-value=16 Score=34.09 Aligned_cols=36 Identities=28% Similarity=0.693 Sum_probs=25.4
Q ss_pred CCCCcccccccccCC-----------CCCeEEcCCCCccCHHHHHHHh
Q 028554 133 EEEDTCPICLEEYDT-----------ENPKLITKCEHHFHLSCILEWN 169 (207)
Q Consensus 133 ee~~~C~ICle~~~~-----------~~~~~~lpC~H~Fh~~CI~~Wl 169 (207)
+....|+||.|.|+. .+.+. +.=|-+||..|+.+-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~-le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVY-LEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceee-eccCceeeccccchHH
Confidence 677889999999944 12222 2257899999997643
No 155
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.77 E-value=23 Score=23.82 Aligned_cols=46 Identities=22% Similarity=0.437 Sum_probs=28.7
Q ss_pred ccccccccCC--CCCeEEcCCCCccCHHHHHHHhhcCCCcccccccccccc
Q 028554 138 CPICLEEYDT--ENPKLITKCEHHFHLSCILEWNERSESCPICDQVLIILK 186 (207)
Q Consensus 138 C~ICle~~~~--~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (207)
|--|-.++-+ .+. ++-.=.|.||..|...-|. ..||.|.-.+....
T Consensus 8 CECCDrDLpp~s~dA-~ICtfEcTFCadCae~~l~--g~CPnCGGelv~RP 55 (84)
T COG3813 8 CECCDRDLPPDSTDA-RICTFECTFCADCAENRLH--GLCPNCGGELVARP 55 (84)
T ss_pred CcccCCCCCCCCCce-eEEEEeeehhHhHHHHhhc--CcCCCCCchhhcCc
Confidence 5555555522 222 2222237899999987664 49999988776543
No 156
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=37.39 E-value=19 Score=25.24 Aligned_cols=37 Identities=16% Similarity=0.590 Sum_probs=28.0
Q ss_pred CCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCCCccccccccc
Q 028554 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVLI 183 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (207)
...|.||-..+ -.=||+||..|- ..+..|.+|.+.|.
T Consensus 44 ~~~C~~CK~~v--------~q~g~~YCq~CA----YkkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKV--------HQPGAKYCQTCA----YKKGICAMCGKKIL 80 (90)
T ss_pred Ccccccccccc--------ccCCCccChhhh----cccCcccccCCeec
Confidence 45799997654 223788999996 44779999998874
No 157
>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=37.03 E-value=14 Score=23.88 Aligned_cols=37 Identities=19% Similarity=0.367 Sum_probs=18.9
Q ss_pred CCCCcccccccccCCCCCe-EEcCCCCccCHHHHHHHh
Q 028554 133 EEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWN 169 (207)
Q Consensus 133 ee~~~C~ICle~~~~~~~~-~~lpC~H~Fh~~CI~~Wl 169 (207)
.+...|.+|...|...... .--.||+.||..|....+
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 4567899999999443332 334799999999986554
No 158
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=35.50 E-value=28 Score=28.97 Aligned_cols=25 Identities=28% Similarity=0.630 Sum_probs=18.9
Q ss_pred CcccccccccCCCCCeEEcCCCCcc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHF 160 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~F 160 (207)
..||||...+...+....-+.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 5799999999655554556667998
No 159
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=35.44 E-value=18 Score=29.99 Aligned_cols=49 Identities=31% Similarity=0.539 Sum_probs=37.9
Q ss_pred CCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCC--Ccc--cccccccc
Q 028554 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCP--ICDQVLII 184 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~--~CP--~Cr~~~~~ 184 (207)
-+.+|+|=+..+ ..|++-.+|+|.|-.+=|...++.-- .|| .|.+.+..
T Consensus 188 ~~nrCpitl~p~--~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~ 240 (275)
T COG5627 188 LSNRCPITLNPD--FYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVV 240 (275)
T ss_pred hcccCCcccCcc--hhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchheec
Confidence 456899988888 78888899999999999999998443 565 45554443
No 160
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=34.55 E-value=16 Score=19.71 Aligned_cols=15 Identities=27% Similarity=0.822 Sum_probs=7.8
Q ss_pred Ccccccccccccchh
Q 028554 174 SCPICDQVLIILKDA 188 (207)
Q Consensus 174 ~CP~Cr~~~~~~~~~ 188 (207)
+||+|...+...+..
T Consensus 1 ~CP~C~s~l~~~~~e 15 (28)
T PF03119_consen 1 TCPVCGSKLVREEGE 15 (28)
T ss_dssp B-TTT--BEEE-CCT
T ss_pred CcCCCCCEeEcCCCC
Confidence 599998888755544
No 161
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.49 E-value=5.8 Score=33.55 Aligned_cols=47 Identities=26% Similarity=0.535 Sum_probs=35.8
Q ss_pred CCcccccccccCCCC---CeEEcC--------CCCccCHHHHHHHhhcCC-Cccccccc
Q 028554 135 EDTCPICLEEYDTEN---PKLITK--------CEHHFHLSCILEWNERSE-SCPICDQV 181 (207)
Q Consensus 135 ~~~C~ICle~~~~~~---~~~~lp--------C~H~Fh~~CI~~Wl~~~~-~CP~Cr~~ 181 (207)
...|.||...|+..+ .-+++. |+|..|..|+..-+.... .||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 356999999995321 114455 999999999999886654 99999874
No 162
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=34.46 E-value=23 Score=25.83 Aligned_cols=47 Identities=17% Similarity=0.546 Sum_probs=30.6
Q ss_pred CCCcccccccccCC--CCCeEEcCCCCccCHHHHHHHhhcCC--Cccccccc
Q 028554 134 EEDTCPICLEEYDT--ENPKLITKCEHHFHLSCILEWNERSE--SCPICDQV 181 (207)
Q Consensus 134 e~~~C~ICle~~~~--~~~~~~lpC~H~Fh~~CI~~Wl~~~~--~CP~Cr~~ 181 (207)
.+..|.+|...|.. .....-..|.|.+|..|-.. ..... .|-+|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHHH
Confidence 55689999987732 33456778999999999543 21122 79999664
No 163
>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=33.64 E-value=31 Score=19.10 Aligned_cols=8 Identities=38% Similarity=1.178 Sum_probs=6.0
Q ss_pred CCcccccc
Q 028554 173 ESCPICDQ 180 (207)
Q Consensus 173 ~~CP~Cr~ 180 (207)
..||+|..
T Consensus 18 ~~CP~Cg~ 25 (33)
T cd00350 18 WVCPVCGA 25 (33)
T ss_pred CcCcCCCC
Confidence 37898865
No 164
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=33.17 E-value=45 Score=31.76 Aligned_cols=54 Identities=15% Similarity=0.286 Sum_probs=32.6
Q ss_pred CcccccccccCCCCCeEEcCCCCccCH--HHHHH-HhhcC---C---CcccccccccccchhhhhHHHHH
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHL--SCILE-WNERS---E---SCPICDQVLIILKDAVFRYVIVA 196 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~--~CI~~-Wl~~~---~---~CP~Cr~~~~~~~~~~~~~~~~~ 196 (207)
..|+|+... ..+||.++.|. .|.+. |+-.. . .||+|.+...++...+..++...
T Consensus 307 L~CPl~~~R-------m~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~iD~~~~~i 369 (636)
T KOG2169|consen 307 LNCPLSKMR-------MSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLIIDGYFLNI 369 (636)
T ss_pred ecCCcccce-------eecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchhhhHHHHHH
Confidence 456666544 34566665554 56643 33221 1 99999999988877766555333
No 165
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=33.16 E-value=36 Score=20.89 Aligned_cols=35 Identities=14% Similarity=0.307 Sum_probs=24.7
Q ss_pred CcccccccccCCCC-CeEEcCCCCccCHHHHHHHhh
Q 028554 136 DTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWNE 170 (207)
Q Consensus 136 ~~C~ICle~~~~~~-~~~~lpC~H~Fh~~CI~~Wl~ 170 (207)
..|.+|-..|.... ...-..||+.||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 46899988884432 223457999999999876554
No 166
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.96 E-value=20 Score=25.15 Aligned_cols=13 Identities=23% Similarity=0.761 Sum_probs=11.3
Q ss_pred ccCHHHHHHHhhc
Q 028554 159 HFHLSCILEWNER 171 (207)
Q Consensus 159 ~Fh~~CI~~Wl~~ 171 (207)
.||..|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999964
No 167
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=31.10 E-value=26 Score=19.97 Aligned_cols=10 Identities=50% Similarity=1.345 Sum_probs=6.8
Q ss_pred cccccccccC
Q 028554 137 TCPICLEEYD 146 (207)
Q Consensus 137 ~C~ICle~~~ 146 (207)
+|+-|.-.|.
T Consensus 4 ~Cp~C~~~y~ 13 (36)
T PF13717_consen 4 TCPNCQAKYE 13 (36)
T ss_pred ECCCCCCEEe
Confidence 5777777773
No 168
>PF14353 CpXC: CpXC protein
Probab=30.70 E-value=55 Score=23.96 Aligned_cols=47 Identities=23% Similarity=0.369 Sum_probs=22.6
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC---CCccccccccccc
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS---ESCPICDQVLIIL 185 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~---~~CP~Cr~~~~~~ 185 (207)
.+|+-|...++.. +.+--.=.....=..+-+..+ .+||.|...+..+
T Consensus 2 itCP~C~~~~~~~---v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 2 ITCPHCGHEFEFE---VWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred cCCCCCCCeeEEE---EEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecC
Confidence 3677777766221 111111112233334444332 3899998876543
No 169
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.97 E-value=8.6 Score=32.85 Aligned_cols=37 Identities=24% Similarity=0.474 Sum_probs=27.6
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcC
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS 172 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~ 172 (207)
.+|.||+++|..+.....+.|.-.||..|+..|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 3899999999543333445566699999999999654
No 170
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.76 E-value=18 Score=32.78 Aligned_cols=38 Identities=18% Similarity=0.546 Sum_probs=26.5
Q ss_pred CCcccccccccCCCCCe-----EEcCCCCccCHHHHHHHhhcC
Q 028554 135 EDTCPICLEEYDTENPK-----LITKCEHHFHLSCILEWNERS 172 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~-----~~lpC~H~Fh~~CI~~Wl~~~ 172 (207)
...|+.|....+....- ....|.|.||+.|+..|....
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 33499999888433211 122599999999999998764
No 171
>PF11809 DUF3330: Domain of unknown function (DUF3330); InterPro: IPR021767 This family of proteins are functionally uncharacterised. This family is only found in bacteria.
Probab=27.07 E-value=17 Score=24.04 Aligned_cols=37 Identities=27% Similarity=0.619 Sum_probs=23.9
Q ss_pred CCCcccccccccCCCCCeEEcCCC----CccC-HHHHHHHhhcC
Q 028554 134 EEDTCPICLEEYDTENPKLITKCE----HHFH-LSCILEWNERS 172 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~~~lpC~----H~Fh-~~CI~~Wl~~~ 172 (207)
+...|-+|+.++- -....++-+ ++|| ++|..+|..+.
T Consensus 10 ~~~sC~vC~KEIP--l~~a~t~E~~eYV~hFCGLeCY~~w~a~~ 51 (70)
T PF11809_consen 10 KTTSCCVCCKEIP--LDAAFTPEAAEYVEHFCGLECYQRWQARA 51 (70)
T ss_pred ccchHHHHhhhCC--hhhccCcchHHHHHHHhhHHHHHHHHHHH
Confidence 3357999998872 222334555 4555 56999999764
No 172
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=26.68 E-value=34 Score=21.42 Aligned_cols=10 Identities=50% Similarity=1.325 Sum_probs=5.0
Q ss_pred Cccccccccc
Q 028554 174 SCPICDQVLI 183 (207)
Q Consensus 174 ~CP~Cr~~~~ 183 (207)
+||+|...+.
T Consensus 26 tCP~C~a~~~ 35 (54)
T PF09237_consen 26 TCPICGAVIR 35 (54)
T ss_dssp E-TTT--EES
T ss_pred CCCcchhhcc
Confidence 8888877553
No 173
>PLN02436 cellulose synthase A
Probab=26.59 E-value=60 Score=32.78 Aligned_cols=50 Identities=26% Similarity=0.559 Sum_probs=32.9
Q ss_pred CCCccccccccc---CCCCCeE-EcCCCCccCHHHHH-HHhhcCCCccccccccc
Q 028554 134 EEDTCPICLEEY---DTENPKL-ITKCEHHFHLSCIL-EWNERSESCPICDQVLI 183 (207)
Q Consensus 134 e~~~C~ICle~~---~~~~~~~-~lpC~H~Fh~~CI~-~Wl~~~~~CP~Cr~~~~ 183 (207)
....|.||-+++ ..+++-+ .-.|+--.|..|.. +.-+.++.||.|+....
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 344799999998 2233321 12466668999984 33355679999988665
No 174
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=26.34 E-value=44 Score=22.60 Aligned_cols=32 Identities=22% Similarity=0.488 Sum_probs=22.1
Q ss_pred CCCcccccccccCCCCCe--EEcCCCCccCHHHHHH
Q 028554 134 EEDTCPICLEEYDTENPK--LITKCEHHFHLSCILE 167 (207)
Q Consensus 134 e~~~C~ICle~~~~~~~~--~~lpC~H~Fh~~CI~~ 167 (207)
....|.+|.... +-.+ ..-.|...||..|...
T Consensus 35 ~~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 445799999774 2222 3346888999999754
No 175
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.57 E-value=52 Score=23.30 Aligned_cols=34 Identities=24% Similarity=0.326 Sum_probs=27.0
Q ss_pred CCcccccccccCCCCCeEEcCCCCccCHHHHHHHh
Q 028554 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWN 169 (207)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl 169 (207)
+..|.||-..+..++.-..++ .-..|.+|+.+=.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHH
Confidence 457999999987788777777 6678999997744
No 176
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=25.15 E-value=41 Score=20.81 Aligned_cols=9 Identities=44% Similarity=1.368 Sum_probs=6.1
Q ss_pred hcCCCcccc
Q 028554 170 ERSESCPIC 178 (207)
Q Consensus 170 ~~~~~CP~C 178 (207)
.....||.|
T Consensus 47 ~~~~~CP~C 55 (55)
T PF14311_consen 47 RRGKGCPYC 55 (55)
T ss_pred cCCCCCCCC
Confidence 455678877
No 177
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=24.81 E-value=31 Score=24.93 Aligned_cols=29 Identities=38% Similarity=0.788 Sum_probs=20.2
Q ss_pred CcccccccccCCCCCeEEcCCCCccCHHHHHHHhh
Q 028554 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (207)
Q Consensus 136 ~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~ 170 (207)
..|+.|..+|.-++.. +..|..|..+|-.
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 3599999998444442 3567778888874
No 178
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=24.29 E-value=41 Score=21.63 Aligned_cols=14 Identities=21% Similarity=0.665 Sum_probs=10.8
Q ss_pred CCCccccccccccc
Q 028554 172 SESCPICDQVLIIL 185 (207)
Q Consensus 172 ~~~CP~Cr~~~~~~ 185 (207)
++.||+|.+++..+
T Consensus 3 HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 3 HKHCPVCGKPIPPD 16 (59)
T ss_pred CCcCCcCCCcCCcc
Confidence 56789998888755
No 179
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=23.76 E-value=26 Score=36.45 Aligned_cols=52 Identities=25% Similarity=0.490 Sum_probs=39.2
Q ss_pred cCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHHhhcCC----Ccccccccc
Q 028554 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE----SCPICDQVL 182 (207)
Q Consensus 131 ~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~Wl~~~~----~CP~Cr~~~ 182 (207)
.......|.||........-+....|.-.||..|++.-+.... .||-||..-
T Consensus 1104 ~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3456667999999885544445556778999999998776544 899998865
No 180
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=23.72 E-value=45 Score=25.08 Aligned_cols=21 Identities=24% Similarity=0.468 Sum_probs=14.8
Q ss_pred cccccccCCCCCeEEcCCCCccCH
Q 028554 139 PICLEEYDTENPKLITKCEHHFHL 162 (207)
Q Consensus 139 ~ICle~~~~~~~~~~lpC~H~Fh~ 162 (207)
-||+.. ...+....|||.|+.
T Consensus 61 fi~qs~---~~rv~rcecghsf~d 81 (165)
T COG4647 61 FICQSA---QKRVIRCECGHSFGD 81 (165)
T ss_pred EEEecc---cccEEEEeccccccC
Confidence 466654 345677889999974
No 181
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.44 E-value=60 Score=31.07 Aligned_cols=44 Identities=23% Similarity=0.570 Sum_probs=32.9
Q ss_pred cccccccccCCCCCeEEcCCCC-ccCHHHHHHHhh--c----CCCccccccccc
Q 028554 137 TCPICLEEYDTENPKLITKCEH-HFHLSCILEWNE--R----SESCPICDQVLI 183 (207)
Q Consensus 137 ~C~ICle~~~~~~~~~~lpC~H-~Fh~~CI~~Wl~--~----~~~CP~Cr~~~~ 183 (207)
.|+||-.-+ .-. ..-.||| ..|..|..+... . .+.||+||..+.
T Consensus 2 ~c~ic~~s~--~~~-~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSP--DFV-GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCc--ccc-ccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 599998877 333 5588999 899999977653 2 347899998654
No 182
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.98 E-value=18 Score=34.42 Aligned_cols=49 Identities=24% Similarity=0.397 Sum_probs=35.6
Q ss_pred ccCCCCCcccccccccCCCCCeEEcCCCCccCHHHHHHH--hhcCCCccccccc
Q 028554 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEW--NERSESCPICDQV 181 (207)
Q Consensus 130 ~~~ee~~~C~ICle~~~~~~~~~~lpC~H~Fh~~CI~~W--l~~~~~CP~Cr~~ 181 (207)
+..+.++.|.||..+- ..-..+.+|.|++|..|...- +...+.|+.| ..
T Consensus 73 ~~~~~e~~~~if~~d~--~~y~~~~~~~~~~C~~C~~~~~~~~~~~~~~~c-~~ 123 (669)
T KOG2231|consen 73 DFDEHEDTCVIFFADK--LTYTKLEACLHHSCHICDRRFRALYNKKECLHC-TE 123 (669)
T ss_pred ccccccceeeeeeccc--cHHHHHHHHHhhhcCccccchhhhcccCCCccc-cc
Confidence 4456778899996554 234456789999999999765 3456799999 44
No 183
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=22.58 E-value=25 Score=22.43 Aligned_cols=11 Identities=36% Similarity=0.963 Sum_probs=5.2
Q ss_pred Ccccccccccc
Q 028554 174 SCPICDQVLII 184 (207)
Q Consensus 174 ~CP~Cr~~~~~ 184 (207)
.||+|++.+..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 68888877665
No 184
>PF12132 DUF3587: Protein of unknown function (DUF3587); InterPro: IPR021982 This entry is represented by Hyposoter fugitivus ichnovirus, Gp7; it is a family of uncharacterised viral proteins.
Probab=22.43 E-value=47 Score=26.83 Aligned_cols=19 Identities=26% Similarity=0.784 Sum_probs=14.6
Q ss_pred EcCCC----CccCHHHHHHHhhc
Q 028554 153 ITKCE----HHFHLSCILEWNER 171 (207)
Q Consensus 153 ~lpC~----H~Fh~~CI~~Wl~~ 171 (207)
...|. |+||..++..||..
T Consensus 156 ~~~C~~gHfHHyCs~HV~~WL~~ 178 (199)
T PF12132_consen 156 VDECEYGHFHHYCSQHVNSWLNN 178 (199)
T ss_pred CCCCCCCCcChhhHHHHHHHHHH
Confidence 34566 78888999999963
No 185
>PRK11595 DNA utilization protein GntX; Provisional
Probab=21.85 E-value=78 Score=25.71 Aligned_cols=22 Identities=18% Similarity=0.409 Sum_probs=11.5
Q ss_pred cCHHHHHHHhhcCCCccccccc
Q 028554 160 FHLSCILEWNERSESCPICDQV 181 (207)
Q Consensus 160 Fh~~CI~~Wl~~~~~CP~Cr~~ 181 (207)
+|..|...|-.....|+.|..+
T Consensus 22 lC~~C~~~l~~~~~~C~~Cg~~ 43 (227)
T PRK11595 22 ICSVCSRALRTLKTCCPQCGLP 43 (227)
T ss_pred ccHHHHhhCCcccCcCccCCCc
Confidence 5666665543223456666554
No 186
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=21.78 E-value=1.3e+02 Score=29.48 Aligned_cols=48 Identities=23% Similarity=0.605 Sum_probs=31.0
Q ss_pred cCCCCCccccccccc----CCCCCe------EEcCCCCccCHHHHHHHhhcCCCcccccccc
Q 028554 131 ASEEEDTCPICLEEY----DTENPK------LITKCEHHFHLSCILEWNERSESCPICDQVL 182 (207)
Q Consensus 131 ~~ee~~~C~ICle~~----~~~~~~------~~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (207)
....+..|+-|...| ..+.|+ ....|.|.-|..=|. +.+.||+|...+
T Consensus 1127 i~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1127 IDPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSME 1184 (1189)
T ss_pred CCccCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccChh
Confidence 344566788888777 223332 234688988877763 456999997654
No 187
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=21.65 E-value=36 Score=22.14 Aligned_cols=11 Identities=27% Similarity=0.845 Sum_probs=7.7
Q ss_pred CCccccccccc
Q 028554 173 ESCPICDQVLI 183 (207)
Q Consensus 173 ~~CP~Cr~~~~ 183 (207)
..||+|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 36888877664
No 188
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=20.67 E-value=38 Score=26.03 Aligned_cols=23 Identities=35% Similarity=0.820 Sum_probs=16.0
Q ss_pred CCCCccCHHHHHHHhhcC-----------CCcccccccc
Q 028554 155 KCEHHFHLSCILEWNERS-----------ESCPICDQVL 182 (207)
Q Consensus 155 pC~H~Fh~~CI~~Wl~~~-----------~~CP~Cr~~~ 182 (207)
.++|.|- .||..+ -+||+|...-
T Consensus 9 ~~gH~FE-----gWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 9 ENGHEFE-----GWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred CCCCccc-----eecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 4568884 788743 2999997643
No 189
>PRK01343 zinc-binding protein; Provisional
Probab=20.60 E-value=49 Score=21.13 Aligned_cols=12 Identities=25% Similarity=0.758 Sum_probs=9.4
Q ss_pred CCCccccccccc
Q 028554 172 SESCPICDQVLI 183 (207)
Q Consensus 172 ~~~CP~Cr~~~~ 183 (207)
...||+|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 458999999764
No 190
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=20.53 E-value=18 Score=21.29 Aligned_cols=27 Identities=22% Similarity=0.596 Sum_probs=14.5
Q ss_pred EcCCCCccCHHHHHHHhhcCCCcccccc
Q 028554 153 ITKCEHHFHLSCILEWNERSESCPICDQ 180 (207)
Q Consensus 153 ~lpC~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (207)
-..|||.|-..--..= .....||.|..
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred eCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 3567777753211000 22348999987
Done!