Query 044318
Match_columns 195
No_of_seqs 261 out of 1718
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 13:29:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044318.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044318hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.6 3E-16 6.4E-21 136.0 6.3 79 107-188 205-284 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 1.5E-16 3.2E-21 99.2 2.7 44 134-178 1-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 8.4E-14 1.8E-18 96.0 4.4 47 132-178 18-73 (73)
4 PHA02929 N1R/p28-like protein; 99.4 9.4E-14 2E-18 115.5 4.7 78 105-183 146-228 (238)
5 COG5540 RING-finger-containing 99.4 8.1E-14 1.8E-18 117.7 3.8 54 130-184 320-374 (374)
6 KOG0317 Predicted E3 ubiquitin 99.3 2.8E-12 6.1E-17 107.8 3.6 54 129-186 235-288 (293)
7 KOG0320 Predicted E3 ubiquitin 99.2 9E-12 2E-16 98.2 3.2 56 128-185 126-181 (187)
8 PF13920 zf-C3HC4_3: Zinc fing 99.2 1.4E-11 3E-16 78.6 3.3 46 133-182 2-48 (50)
9 COG5243 HRD1 HRD ubiquitin lig 99.2 1.2E-11 2.6E-16 107.2 3.6 52 130-182 284-345 (491)
10 PLN03208 E3 ubiquitin-protein 99.2 1.4E-11 3E-16 99.0 3.3 50 132-185 17-82 (193)
11 KOG0823 Predicted E3 ubiquitin 99.2 1.5E-11 3.3E-16 100.7 2.7 53 129-185 43-98 (230)
12 PF13923 zf-C3HC4_2: Zinc fing 99.2 3.6E-11 7.8E-16 72.9 3.7 39 136-177 1-39 (39)
13 cd00162 RING RING-finger (Real 99.1 2.6E-11 5.5E-16 74.1 2.9 44 135-181 1-45 (45)
14 PHA02926 zinc finger-like prot 99.1 2.8E-11 6.1E-16 98.7 2.6 53 130-182 167-230 (242)
15 PF12861 zf-Apc11: Anaphase-pr 99.1 4.3E-11 9.4E-16 84.1 2.9 52 132-183 20-83 (85)
16 smart00504 Ubox Modified RING 99.0 2.8E-10 6.1E-15 75.4 3.6 52 134-189 2-53 (63)
17 PF15227 zf-C3HC4_4: zinc fing 99.0 2.4E-10 5.2E-15 70.5 2.9 38 136-177 1-42 (42)
18 PF00097 zf-C3HC4: Zinc finger 99.0 5.3E-10 1.1E-14 68.2 3.3 39 136-177 1-41 (41)
19 COG5194 APC11 Component of SCF 99.0 3E-10 6.5E-15 78.3 2.3 52 133-184 20-83 (88)
20 PF14634 zf-RING_5: zinc-RING 98.9 4.7E-10 1E-14 69.7 2.7 44 135-179 1-44 (44)
21 KOG0802 E3 ubiquitin ligase [P 98.9 3.2E-10 6.8E-15 104.9 2.0 55 131-186 289-345 (543)
22 TIGR00599 rad18 DNA repair pro 98.9 6.1E-10 1.3E-14 98.9 2.3 56 130-189 23-78 (397)
23 smart00184 RING Ring finger. E 98.8 2.3E-09 4.9E-14 63.1 2.7 38 136-177 1-39 (39)
24 KOG0287 Postreplication repair 98.8 1.1E-09 2.4E-14 94.2 -0.6 57 132-192 22-78 (442)
25 KOG0828 Predicted E3 ubiquitin 98.7 2.5E-09 5.5E-14 95.7 1.4 53 131-183 569-635 (636)
26 KOG2164 Predicted E3 ubiquitin 98.7 4.5E-09 9.7E-14 94.6 2.5 52 133-188 186-242 (513)
27 COG5574 PEX10 RING-finger-cont 98.7 6.7E-09 1.5E-13 86.7 2.0 52 131-186 213-266 (271)
28 KOG1734 Predicted RING-contain 98.7 9.2E-09 2E-13 86.1 2.4 74 116-190 207-289 (328)
29 KOG1493 Anaphase-promoting com 98.7 3.5E-09 7.7E-14 72.4 -0.3 51 132-182 19-81 (84)
30 PF13445 zf-RING_UBOX: RING-ty 98.7 1.6E-08 3.5E-13 62.6 2.7 38 136-175 1-43 (43)
31 KOG2930 SCF ubiquitin ligase, 98.5 3.2E-08 7E-13 71.5 2.0 53 130-182 43-108 (114)
32 PF04564 U-box: U-box domain; 98.5 6.2E-08 1.3E-12 66.6 2.0 53 133-189 4-57 (73)
33 smart00744 RINGv The RING-vari 98.5 9.7E-08 2.1E-12 60.8 2.7 42 135-178 1-49 (49)
34 PF11793 FANCL_C: FANCL C-term 98.5 4.3E-08 9.4E-13 67.0 0.9 50 133-182 2-66 (70)
35 TIGR00570 cdk7 CDK-activating 98.5 1.3E-07 2.7E-12 81.4 3.7 54 133-187 3-59 (309)
36 COG5432 RAD18 RING-finger-cont 98.4 4.8E-08 1E-12 82.7 0.9 51 132-186 24-74 (391)
37 PF14835 zf-RING_6: zf-RING of 98.4 1E-07 2.2E-12 63.5 0.5 53 133-190 7-59 (65)
38 COG5219 Uncharacterized conser 98.4 1E-07 2.2E-12 91.1 0.6 54 129-182 1465-1523(1525)
39 KOG2177 Predicted E3 ubiquitin 98.3 2.8E-07 6.2E-12 76.3 1.1 46 130-179 10-55 (386)
40 KOG0827 Predicted E3 ubiquitin 98.2 4.5E-07 9.7E-12 79.4 1.3 53 132-184 3-58 (465)
41 KOG1039 Predicted E3 ubiquitin 98.2 6.3E-07 1.4E-11 78.4 2.2 54 130-183 158-222 (344)
42 KOG0804 Cytoplasmic Zn-finger 98.2 8.1E-07 1.7E-11 79.1 2.6 49 132-182 174-222 (493)
43 KOG0825 PHD Zn-finger protein 98.1 3.3E-07 7.1E-12 86.1 -0.9 52 131-183 121-172 (1134)
44 KOG4265 Predicted E3 ubiquitin 98.1 1.2E-06 2.6E-11 76.1 2.6 49 131-183 288-337 (349)
45 KOG0978 E3 ubiquitin ligase in 98.1 8.5E-07 1.8E-11 83.3 0.8 52 132-187 642-694 (698)
46 KOG0824 Predicted E3 ubiquitin 98.0 2E-06 4.4E-11 73.2 1.5 52 132-187 6-58 (324)
47 KOG4445 Uncharacterized conser 98.0 1.8E-06 4E-11 73.4 1.1 56 129-185 111-189 (368)
48 KOG4172 Predicted E3 ubiquitin 98.0 1.5E-06 3.3E-11 55.9 0.1 46 133-182 7-54 (62)
49 KOG1645 RING-finger-containing 97.9 6E-06 1.3E-10 72.9 2.6 49 133-181 4-55 (463)
50 KOG0311 Predicted E3 ubiquitin 97.9 1.3E-06 2.8E-11 75.8 -2.0 55 130-187 40-95 (381)
51 KOG1428 Inhibitor of type V ad 97.7 2.1E-05 4.6E-10 78.2 2.8 66 116-182 3469-3544(3738)
52 PF11789 zf-Nse: Zinc-finger o 97.7 2.6E-05 5.6E-10 51.1 2.1 43 131-176 9-53 (57)
53 KOG3970 Predicted E3 ubiquitin 97.6 2.5E-05 5.4E-10 64.3 1.9 63 131-195 48-118 (299)
54 KOG4159 Predicted E3 ubiquitin 97.6 3.4E-05 7.5E-10 68.8 2.9 51 129-183 80-130 (398)
55 KOG0297 TNF receptor-associate 97.5 6.9E-05 1.5E-09 67.0 3.4 55 130-187 18-72 (391)
56 KOG2660 Locus-specific chromos 97.5 2.1E-05 4.6E-10 67.8 0.0 57 130-189 12-68 (331)
57 KOG1941 Acetylcholine receptor 97.5 3.8E-05 8.3E-10 67.7 1.0 47 132-179 364-413 (518)
58 KOG2879 Predicted E3 ubiquitin 97.3 0.00022 4.7E-09 60.3 3.8 51 129-182 235-287 (298)
59 KOG1785 Tyrosine kinase negati 97.2 0.00011 2.3E-09 65.1 0.9 49 133-185 369-419 (563)
60 KOG3039 Uncharacterized conser 97.2 0.00033 7.2E-09 58.4 3.4 55 132-186 220-274 (303)
61 PF14570 zf-RING_4: RING/Ubox 97.0 0.00039 8.4E-09 43.9 2.0 45 136-181 1-47 (48)
62 PF04641 Rtf2: Rtf2 RING-finge 97.0 0.00065 1.4E-08 57.5 3.8 56 130-186 110-165 (260)
63 COG5152 Uncharacterized conser 97.0 0.0002 4.3E-09 58.0 0.6 45 134-182 197-241 (259)
64 PF12906 RINGv: RING-variant d 97.0 0.00073 1.6E-08 42.5 2.7 40 136-177 1-47 (47)
65 KOG1813 Predicted E3 ubiquitin 96.9 0.00047 1E-08 58.8 1.9 47 133-183 241-287 (313)
66 KOG4275 Predicted E3 ubiquitin 96.9 0.0004 8.7E-09 59.2 1.4 43 133-183 300-343 (350)
67 PHA02825 LAP/PHD finger-like p 96.8 0.00088 1.9E-08 52.5 2.5 51 130-183 5-60 (162)
68 PF05883 Baculo_RING: Baculovi 96.8 0.00072 1.6E-08 51.6 1.7 45 133-178 26-76 (134)
69 PHA02862 5L protein; Provision 96.7 0.00089 1.9E-08 51.6 2.2 46 133-183 2-54 (156)
70 PF10367 Vps39_2: Vacuolar sor 96.7 0.00097 2.1E-08 48.2 2.2 34 130-165 75-108 (109)
71 KOG4692 Predicted E3 ubiquitin 96.6 0.00095 2.1E-08 58.4 1.9 51 129-183 418-468 (489)
72 KOG1002 Nucleotide excision re 96.6 0.00079 1.7E-08 61.6 1.4 52 129-184 532-588 (791)
73 KOG1814 Predicted E3 ubiquitin 96.6 0.0011 2.5E-08 58.8 2.2 48 132-180 183-238 (445)
74 COG5236 Uncharacterized conser 96.4 0.0024 5.2E-08 55.8 3.1 56 123-182 51-108 (493)
75 KOG4739 Uncharacterized protei 96.4 0.0012 2.7E-08 54.8 1.2 51 135-189 5-55 (233)
76 PHA03096 p28-like protein; Pro 96.4 0.0014 3E-08 56.3 1.1 48 134-181 179-236 (284)
77 PF03854 zf-P11: P-11 zinc fin 96.3 0.0022 4.7E-08 40.2 1.7 32 153-184 16-48 (50)
78 KOG0801 Predicted E3 ubiquitin 96.3 0.0018 3.9E-08 50.9 1.6 32 129-161 173-204 (205)
79 KOG0827 Predicted E3 ubiquitin 96.3 0.00018 3.8E-09 63.5 -4.5 53 130-183 193-246 (465)
80 KOG1952 Transcription factor N 96.3 0.0023 5E-08 61.4 2.1 49 131-179 189-244 (950)
81 KOG1571 Predicted E3 ubiquitin 96.2 0.0025 5.4E-08 55.8 1.7 46 130-182 302-347 (355)
82 KOG3268 Predicted E3 ubiquitin 96.0 0.0039 8.4E-08 49.8 2.0 31 154-184 189-230 (234)
83 PF08746 zf-RING-like: RING-li 95.9 0.0044 9.6E-08 38.2 1.6 41 136-177 1-43 (43)
84 PF14447 Prok-RING_4: Prokaryo 95.8 0.0061 1.3E-07 39.5 1.9 46 134-185 8-53 (55)
85 KOG4185 Predicted E3 ubiquitin 95.7 0.0062 1.3E-07 52.1 2.0 49 133-181 3-54 (296)
86 KOG0826 Predicted E3 ubiquitin 95.6 0.0092 2E-07 51.8 2.9 48 131-181 298-345 (357)
87 KOG1940 Zn-finger protein [Gen 95.5 0.0059 1.3E-07 52.1 1.1 47 133-179 158-204 (276)
88 KOG2114 Vacuolar assembly/sort 95.3 0.0083 1.8E-07 57.7 1.7 43 133-181 840-882 (933)
89 PF05290 Baculo_IE-1: Baculovi 94.7 0.022 4.9E-07 43.3 2.3 55 132-186 79-136 (140)
90 KOG3002 Zn finger protein [Gen 94.7 0.019 4.2E-07 49.6 2.1 45 130-182 45-91 (299)
91 KOG1001 Helicase-like transcri 94.6 0.0076 1.6E-07 57.5 -0.6 50 134-188 455-506 (674)
92 PF14446 Prok-RING_1: Prokaryo 94.5 0.049 1.1E-06 35.2 3.2 44 132-179 4-49 (54)
93 PF07800 DUF1644: Protein of u 94.4 0.032 7E-07 43.7 2.6 51 133-187 2-96 (162)
94 COG5175 MOT2 Transcriptional r 94.4 0.024 5.3E-07 49.6 2.0 55 130-184 11-66 (480)
95 PF10272 Tmpp129: Putative tra 94.3 0.025 5.5E-07 50.0 1.9 29 155-183 311-352 (358)
96 KOG2034 Vacuolar sorting prote 94.3 0.018 3.9E-07 55.7 1.0 38 129-168 813-850 (911)
97 KOG2932 E3 ubiquitin ligase in 94.1 0.025 5.5E-07 48.8 1.6 45 133-182 90-134 (389)
98 COG5222 Uncharacterized conser 94.0 0.026 5.6E-07 48.6 1.4 44 133-179 274-318 (427)
99 KOG3800 Predicted E3 ubiquitin 94.0 0.039 8.4E-07 47.2 2.4 51 135-185 2-54 (300)
100 KOG3053 Uncharacterized conser 93.4 0.027 5.9E-07 47.4 0.5 54 129-182 16-82 (293)
101 KOG0298 DEAD box-containing he 92.9 0.025 5.3E-07 56.8 -0.5 45 132-179 1152-1196(1394)
102 KOG0309 Conserved WD40 repeat- 92.9 0.049 1.1E-06 52.1 1.4 24 153-176 1046-1069(1081)
103 KOG3899 Uncharacterized conser 92.6 0.051 1.1E-06 46.6 1.1 29 155-183 325-366 (381)
104 KOG2817 Predicted E3 ubiquitin 92.2 0.11 2.3E-06 46.3 2.6 48 132-180 333-383 (394)
105 KOG1609 Protein involved in mR 91.3 0.1 2.2E-06 44.5 1.4 53 132-184 77-136 (323)
106 KOG1100 Predicted E3 ubiquitin 90.8 0.17 3.6E-06 41.6 2.2 40 136-183 161-201 (207)
107 COG5220 TFB3 Cdk activating ki 90.5 0.12 2.5E-06 43.4 1.1 50 132-181 9-63 (314)
108 KOG4362 Transcriptional regula 90.4 0.05 1.1E-06 51.7 -1.3 47 132-182 20-69 (684)
109 KOG1812 Predicted E3 ubiquitin 90.2 0.11 2.3E-06 46.6 0.6 41 130-171 143-184 (384)
110 KOG3161 Predicted E3 ubiquitin 90.1 0.077 1.7E-06 50.0 -0.4 40 134-175 12-51 (861)
111 COG5183 SSM4 Protein involved 89.3 0.29 6.2E-06 47.5 2.7 53 130-184 9-68 (1175)
112 PF02891 zf-MIZ: MIZ/SP-RING z 88.4 0.38 8.2E-06 30.4 2.0 43 134-180 3-50 (50)
113 KOG1829 Uncharacterized conser 87.5 0.18 4E-06 47.2 0.2 44 132-179 510-558 (580)
114 KOG0825 PHD Zn-finger protein 86.4 0.34 7.4E-06 46.8 1.4 55 132-186 95-158 (1134)
115 PF14569 zf-UDP: Zinc-binding 86.2 1 2.2E-05 31.2 3.2 60 131-190 7-70 (80)
116 PF07975 C1_4: TFIIH C1-like d 85.9 0.83 1.8E-05 29.2 2.5 43 136-178 2-50 (51)
117 KOG2068 MOT2 transcription fac 85.3 0.76 1.7E-05 40.1 2.9 52 133-185 249-301 (327)
118 KOG4718 Non-SMC (structural ma 85.0 0.47 1E-05 39.0 1.3 49 132-183 180-228 (235)
119 KOG3113 Uncharacterized conser 84.3 1 2.3E-05 38.0 3.1 53 132-186 110-162 (293)
120 PF15295 CCDC50_N: Coiled-coil 84.1 0.6 1.3E-05 35.6 1.5 20 3-22 22-41 (132)
121 PF13901 DUF4206: Domain of un 83.9 0.83 1.8E-05 37.2 2.4 42 132-179 151-197 (202)
122 KOG0269 WD40 repeat-containing 82.9 0.92 2E-05 43.7 2.5 41 134-176 780-820 (839)
123 KOG1815 Predicted E3 ubiquitin 82.7 0.62 1.3E-05 42.4 1.3 39 130-171 67-105 (444)
124 PF06906 DUF1272: Protein of u 82.6 1.9 4E-05 28.1 3.1 47 134-184 6-54 (57)
125 PLN02189 cellulose synthase 81.5 2.1 4.5E-05 42.8 4.4 61 130-190 31-95 (1040)
126 KOG2066 Vacuolar assembly/sort 81.3 0.62 1.3E-05 45.0 0.8 44 133-178 784-831 (846)
127 KOG1812 Predicted E3 ubiquitin 81.3 0.94 2E-05 40.6 1.9 45 132-177 305-351 (384)
128 KOG3842 Adaptor protein Pellin 81.1 1.5 3.3E-05 38.3 3.0 55 132-186 340-418 (429)
129 PF00412 LIM: LIM domain; Int 81.0 2.3 5.1E-05 26.7 3.2 40 136-185 1-40 (58)
130 PF00628 PHD: PHD-finger; Int 80.7 1.6 3.4E-05 27.0 2.3 44 135-179 1-50 (51)
131 smart00249 PHD PHD zinc finger 80.2 1.2 2.7E-05 26.2 1.6 31 135-166 1-31 (47)
132 PLN02638 cellulose synthase A 79.4 2.7 5.9E-05 42.2 4.5 58 132-190 16-78 (1079)
133 KOG4367 Predicted Zn-finger pr 78.5 1.1 2.3E-05 40.8 1.3 35 132-170 3-37 (699)
134 TIGR00622 ssl1 transcription f 78.4 3.9 8.5E-05 30.3 4.1 46 133-178 55-110 (112)
135 KOG3579 Predicted E3 ubiquitin 78.2 1.5 3.2E-05 37.8 2.0 40 132-171 267-306 (352)
136 PLN02436 cellulose synthase A 78.1 3.1 6.8E-05 41.8 4.4 60 131-190 34-97 (1094)
137 smart00132 LIM Zinc-binding do 76.9 2.9 6.2E-05 23.7 2.5 38 135-182 1-38 (39)
138 PF01363 FYVE: FYVE zinc finge 76.9 1.6 3.4E-05 28.9 1.5 38 131-168 7-44 (69)
139 KOG0802 E3 ubiquitin ligase [P 76.5 1.4 3.1E-05 41.1 1.7 49 130-186 476-524 (543)
140 PLN02400 cellulose synthase 76.3 3.1 6.8E-05 41.8 3.9 59 131-190 34-97 (1085)
141 KOG3005 GIY-YIG type nuclease 75.7 1.7 3.6E-05 37.1 1.6 51 131-181 180-242 (276)
142 KOG0824 Predicted E3 ubiquitin 75.0 1.3 2.8E-05 38.3 0.8 53 129-184 101-153 (324)
143 PF13719 zinc_ribbon_5: zinc-r 73.7 2.3 5E-05 25.0 1.4 26 135-160 4-36 (37)
144 PF04710 Pellino: Pellino; In 73.2 1.1 2.4E-05 40.1 0.0 54 132-185 327-404 (416)
145 smart00064 FYVE Protein presen 73.0 0.98 2.1E-05 29.8 -0.3 38 132-169 9-46 (68)
146 PF04216 FdhE: Protein involve 72.1 1.1 2.3E-05 38.5 -0.4 50 130-180 169-220 (290)
147 COG5109 Uncharacterized conser 72.0 3.4 7.4E-05 36.1 2.7 47 131-178 334-383 (396)
148 PF06844 DUF1244: Protein of u 71.3 2 4.4E-05 28.8 0.9 12 158-169 11-22 (68)
149 PF04710 Pellino: Pellino; In 69.1 1.6 3.4E-05 39.2 0.0 26 153-181 307-338 (416)
150 KOG3039 Uncharacterized conser 69.0 3.4 7.4E-05 34.9 2.0 35 130-168 40-74 (303)
151 PF13717 zinc_ribbon_4: zinc-r 69.0 3.9 8.4E-05 23.9 1.7 26 135-160 4-36 (36)
152 KOG2113 Predicted RNA binding 67.8 3.6 7.7E-05 36.0 1.9 51 129-183 132-184 (394)
153 PLN02915 cellulose synthase A 67.6 9.2 0.0002 38.5 4.9 59 131-189 13-75 (1044)
154 KOG2807 RNA polymerase II tran 67.0 7.3 0.00016 34.2 3.6 47 132-179 329-375 (378)
155 cd00350 rubredoxin_like Rubred 66.6 4.4 9.5E-05 23.1 1.6 20 154-179 6-25 (33)
156 cd00065 FYVE FYVE domain; Zinc 66.3 3.7 8E-05 25.9 1.4 37 133-169 2-38 (57)
157 PF07191 zinc-ribbons_6: zinc- 65.9 1.3 2.9E-05 30.1 -0.8 40 134-182 2-41 (70)
158 PF04423 Rad50_zn_hook: Rad50 65.1 2.4 5.3E-05 26.9 0.3 12 172-183 21-32 (54)
159 KOG4185 Predicted E3 ubiquitin 61.5 1.5 3.1E-05 37.5 -1.6 48 132-180 206-265 (296)
160 PF10497 zf-4CXXC_R1: Zinc-fin 61.2 11 0.00023 27.6 3.2 24 156-179 37-69 (105)
161 PF13240 zinc_ribbon_2: zinc-r 61.1 2.1 4.6E-05 22.6 -0.4 10 171-180 13-22 (23)
162 PLN02195 cellulose synthase A 58.5 13 0.00028 37.2 4.1 51 131-182 4-59 (977)
163 smart00647 IBR In Between Ring 57.6 5 0.00011 25.6 0.8 19 149-167 40-58 (64)
164 COG3813 Uncharacterized protei 56.2 13 0.00028 25.5 2.6 29 156-186 28-56 (84)
165 PF02318 FYVE_2: FYVE-type zin 55.6 11 0.00023 27.9 2.4 46 132-179 53-102 (118)
166 KOG1356 Putative transcription 53.7 8.5 0.00018 37.7 2.0 50 130-181 226-281 (889)
167 PF10083 DUF2321: Uncharacteri 52.2 6.6 0.00014 30.8 0.8 45 137-184 8-52 (158)
168 PF10571 UPF0547: Uncharacteri 52.1 6.5 0.00014 21.4 0.5 8 136-143 3-10 (26)
169 PF05605 zf-Di19: Drought indu 51.9 2.3 5E-05 27.0 -1.5 40 133-181 2-41 (54)
170 PF09889 DUF2116: Uncharacteri 51.0 9 0.0002 25.1 1.2 16 170-185 2-17 (59)
171 PF09723 Zn-ribbon_8: Zinc rib 50.9 6.4 0.00014 23.7 0.4 26 153-179 9-34 (42)
172 KOG4577 Transcription factor L 50.3 4.2 9.1E-05 35.1 -0.6 43 132-184 91-133 (383)
173 COG5627 MMS21 DNA repair prote 50.1 4.9 0.00011 33.7 -0.2 52 133-187 189-244 (275)
174 KOG2789 Putative Zn-finger pro 50.1 5.9 0.00013 35.7 0.3 33 133-167 74-106 (482)
175 PF14311 DUF4379: Domain of un 49.1 12 0.00026 23.7 1.5 23 154-177 33-55 (55)
176 TIGR01562 FdhE formate dehydro 48.6 6.6 0.00014 34.2 0.3 47 132-179 183-232 (305)
177 COG3492 Uncharacterized protei 47.2 8 0.00017 27.7 0.5 12 158-169 42-53 (104)
178 PF10146 zf-C4H2: Zinc finger- 45.1 16 0.00034 30.5 2.1 26 160-185 197-222 (230)
179 PF10235 Cript: Microtubule-as 44.8 11 0.00024 26.9 0.9 39 133-184 44-82 (90)
180 PF11023 DUF2614: Protein of u 44.8 21 0.00046 26.5 2.4 32 150-187 70-101 (114)
181 PRK03564 formate dehydrogenase 44.7 15 0.00033 32.0 2.0 46 132-179 186-234 (309)
182 KOG4443 Putative transcription 43.1 11 0.00023 36.1 0.8 27 154-180 40-71 (694)
183 PF07649 C1_3: C1-like domain; 43.0 20 0.00044 19.7 1.7 29 135-164 2-30 (30)
184 KOG2041 WD40 repeat protein [G 42.8 32 0.00069 33.7 3.9 47 132-182 1130-1185(1189)
185 PF05715 zf-piccolo: Piccolo Z 42.7 18 0.00038 23.8 1.5 12 171-182 2-13 (61)
186 PF13832 zf-HC5HC2H_2: PHD-zin 42.7 14 0.0003 26.6 1.2 33 132-166 54-87 (110)
187 KOG1815 Predicted E3 ubiquitin 42.0 9.2 0.0002 34.8 0.2 39 133-171 226-268 (444)
188 KOG4451 Uncharacterized conser 41.2 18 0.00039 30.3 1.8 27 159-185 251-277 (286)
189 PRK11088 rrmA 23S rRNA methylt 41.1 16 0.00036 30.5 1.6 25 134-159 3-27 (272)
190 PF14169 YdjO: Cold-inducible 41.0 16 0.00034 24.0 1.1 14 172-185 40-53 (59)
191 smart00734 ZnF_Rad18 Rad18-lik 40.8 13 0.00028 20.1 0.6 10 173-182 3-12 (26)
192 cd00729 rubredoxin_SM Rubredox 40.7 21 0.00046 20.5 1.6 21 154-180 7-27 (34)
193 PF05191 ADK_lid: Adenylate ki 40.6 27 0.00059 20.4 2.0 28 153-182 5-32 (36)
194 KOG2169 Zn-finger transcriptio 40.4 54 0.0012 31.5 5.1 43 134-184 307-358 (636)
195 KOG2979 Protein involved in DN 39.7 12 0.00026 31.8 0.5 45 133-180 176-222 (262)
196 KOG4323 Polycomb-like PHD Zn-f 38.3 17 0.00036 33.5 1.3 48 133-180 168-224 (464)
197 COG4847 Uncharacterized protei 36.5 34 0.00073 24.7 2.3 36 132-169 5-40 (103)
198 PF13771 zf-HC5HC2H: PHD-like 36.4 23 0.00051 24.3 1.5 33 132-166 35-68 (90)
199 PF09943 DUF2175: Uncharacteri 36.3 31 0.00067 25.1 2.2 33 134-168 3-35 (101)
200 KOG3726 Uncharacterized conser 36.0 16 0.00036 35.0 0.9 44 133-179 654-697 (717)
201 PF06750 DiS_P_DiS: Bacterial 35.8 26 0.00057 24.8 1.8 39 132-183 32-70 (92)
202 KOG1729 FYVE finger containing 35.7 11 0.00023 32.6 -0.4 39 132-171 213-251 (288)
203 smart00531 TFIIE Transcription 35.7 34 0.00074 26.2 2.5 15 172-186 124-138 (147)
204 KOG1538 Uncharacterized conser 35.6 15 0.00032 35.6 0.5 29 153-181 1048-1076(1081)
205 PRK01343 zinc-binding protein; 35.5 20 0.00044 23.3 1.0 12 171-182 9-20 (57)
206 PRK04023 DNA polymerase II lar 34.9 31 0.00066 34.9 2.5 48 132-185 625-677 (1121)
207 KOG2113 Predicted RNA binding 34.7 26 0.00056 30.8 1.8 44 132-181 342-386 (394)
208 COG4068 Uncharacterized protei 34.4 23 0.0005 23.3 1.1 16 170-185 7-22 (64)
209 PF03107 C1_2: C1 domain; Int 33.9 41 0.00089 18.5 2.0 29 135-164 2-30 (30)
210 COG2816 NPY1 NTP pyrophosphohy 33.6 15 0.00034 31.5 0.3 30 156-185 110-143 (279)
211 KOG2071 mRNA cleavage and poly 33.5 30 0.00065 32.7 2.1 37 131-168 511-557 (579)
212 PRK11827 hypothetical protein; 32.7 17 0.00037 23.9 0.3 18 166-183 3-20 (60)
213 KOG1245 Chromatin remodeling c 32.1 14 0.0003 38.6 -0.3 51 130-181 1105-1159(1404)
214 PF09237 GAGA: GAGA factor; I 32.1 16 0.00034 23.4 0.1 11 173-183 26-36 (54)
215 PRK00418 DNA gyrase inhibitor; 32.0 22 0.00047 23.6 0.7 11 172-182 7-17 (62)
216 PLN02248 cellulose synthase-li 32.0 32 0.00069 35.1 2.2 30 154-183 149-178 (1135)
217 PF12660 zf-TFIIIC: Putative z 31.9 13 0.00028 26.8 -0.4 49 134-184 15-68 (99)
218 PF13248 zf-ribbon_3: zinc-rib 31.6 13 0.00028 20.0 -0.4 9 172-180 17-25 (26)
219 COG4647 AcxC Acetone carboxyla 31.4 25 0.00055 26.9 1.1 24 135-162 59-82 (165)
220 smart00834 CxxC_CXXC_SSSS Puta 31.3 23 0.0005 20.5 0.7 28 153-181 9-36 (41)
221 KOG4218 Nuclear hormone recept 30.7 21 0.00045 31.8 0.6 50 130-180 12-76 (475)
222 PRK05978 hypothetical protein; 30.5 32 0.00068 26.8 1.5 24 157-185 43-66 (148)
223 PF01485 IBR: IBR domain; Int 29.6 13 0.00029 23.5 -0.6 34 134-167 19-58 (64)
224 COG1592 Rubrerythrin [Energy p 29.4 26 0.00057 27.8 0.9 10 171-180 149-158 (166)
225 PF03119 DNA_ligase_ZBD: NAD-d 28.8 23 0.00049 19.5 0.3 12 173-184 1-12 (28)
226 COG2835 Uncharacterized conser 27.8 26 0.00056 23.1 0.5 10 173-182 10-19 (60)
227 KOG4021 Mitochondrial ribosoma 27.3 30 0.00064 28.3 0.9 21 161-181 97-118 (239)
228 PF06677 Auto_anti-p27: Sjogre 27.3 39 0.00085 20.4 1.2 20 164-183 10-29 (41)
229 PF12773 DZR: Double zinc ribb 26.1 49 0.0011 20.1 1.6 13 171-183 29-41 (50)
230 PF09297 zf-NADH-PPase: NADH p 25.9 13 0.00029 20.8 -1.0 23 157-179 3-29 (32)
231 PF03884 DUF329: Domain of unk 25.6 25 0.00055 22.9 0.2 12 172-183 3-14 (57)
232 PTZ00303 phosphatidylinositol 25.5 43 0.00093 33.2 1.7 36 133-168 460-500 (1374)
233 PF12292 DUF3624: Protein of u 25.5 18 0.00039 25.0 -0.6 21 160-180 3-24 (77)
234 COG1545 Predicted nucleic-acid 25.5 50 0.0011 25.2 1.8 23 151-181 31-53 (140)
235 COG5574 PEX10 RING-finger-cont 25.5 55 0.0012 27.9 2.2 40 130-169 92-132 (271)
236 TIGR00373 conserved hypothetic 25.4 85 0.0018 24.4 3.2 16 169-184 126-141 (158)
237 PF07227 DUF1423: Protein of u 25.3 48 0.001 30.4 2.0 32 134-166 129-163 (446)
238 PF05502 Dynactin_p62: Dynacti 24.9 36 0.00079 31.5 1.1 15 132-146 25-39 (483)
239 KOG0957 PHD finger protein [Ge 24.7 2.3E+02 0.0051 26.7 6.2 33 133-165 119-152 (707)
240 PRK06266 transcription initiat 24.3 1E+02 0.0022 24.6 3.5 17 168-184 133-149 (178)
241 PRK08351 DNA-directed RNA poly 24.1 45 0.00098 22.0 1.2 17 170-186 14-30 (61)
242 KOG1819 FYVE finger-containing 23.1 22 0.00047 33.3 -0.7 35 130-164 898-932 (990)
243 PRK00420 hypothetical protein; 23.1 55 0.0012 24.2 1.6 9 173-181 42-50 (112)
244 TIGR02605 CxxC_CxxC_SSSS putat 22.4 39 0.00085 20.8 0.6 26 153-179 9-34 (52)
245 COG4357 Zinc finger domain con 22.0 59 0.0013 23.6 1.5 29 155-184 65-93 (105)
246 PF07282 OrfB_Zn_ribbon: Putat 21.7 1.1E+02 0.0025 19.7 2.8 34 132-165 27-62 (69)
247 PRK06393 rpoE DNA-directed RNA 21.6 53 0.0011 21.9 1.1 15 170-184 16-30 (64)
248 PRK00241 nudC NADH pyrophospha 21.4 63 0.0014 27.2 1.9 18 164-181 92-109 (256)
249 PF00130 C1_1: Phorbol esters/ 21.1 1.3E+02 0.0027 18.3 2.8 35 131-166 9-45 (53)
250 PF12756 zf-C2H2_2: C2H2 type 21.0 39 0.00084 23.0 0.4 49 135-183 1-62 (100)
251 KOG3799 Rab3 effector RIM1 and 20.9 24 0.00051 27.2 -0.8 43 131-180 63-116 (169)
252 PF13453 zf-TFIIB: Transcripti 20.7 44 0.00096 19.7 0.6 13 173-185 1-13 (41)
253 COG2824 PhnA Uncharacterized Z 20.6 39 0.00085 24.9 0.4 29 134-169 4-32 (112)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.63 E-value=3e-16 Score=135.96 Aligned_cols=79 Identities=28% Similarity=0.691 Sum_probs=65.7
Q ss_pred CCCCHHHHHhhcCcccCCCCCCCCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCC-CCCccccccCCCC
Q 044318 107 RGLSLNQISTCLHACKSPPADGTKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKK-ICPICSTEASPPK 185 (195)
Q Consensus 107 ~gls~~~i~~~l~~~~~~~~~~~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~-sCPvCR~~l~~~~ 185 (195)
..+.+..+ +.++..+|......... ..|+||+++|+.+++++.| ||+|.||..||..||...+ .||+||+.+....
T Consensus 205 ~r~~k~~l-~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 205 NRLIKRLL-KKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhHHHHH-hhCCcEEeccccccCCC-ceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 35566666 88898999887744444 8999999999999999999 9999999999999997775 5999999887665
Q ss_pred CCC
Q 044318 186 NHN 188 (195)
Q Consensus 186 ~~~ 188 (195)
...
T Consensus 282 ~~~ 284 (348)
T KOG4628|consen 282 GSE 284 (348)
T ss_pred CCC
Confidence 543
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.63 E-value=1.5e-16 Score=99.20 Aligned_cols=44 Identities=48% Similarity=1.260 Sum_probs=39.8
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccc
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICS 178 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR 178 (195)
+.|+||++.|..++.++.+ +|+|.||..||.+|++.+++||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHhCCcCCccC
Confidence 4799999999888888888 8999999999999999999999997
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=99.45 E-value=8.4e-14 Score=96.02 Aligned_cols=47 Identities=38% Similarity=0.978 Sum_probs=37.2
Q ss_pred CCcccccccccccCC---------ceeEEecCccceechhhHHHHhhcCCCCCccc
Q 044318 132 GIDRCVICQVEYEEG---------ESIVALLPCEHLYHSECISNWLQIKKICPICS 178 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~---------~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR 178 (195)
..+.|+||++.|... +..+.+.+|||.||..||.+||+.+.+||+||
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 355699999999432 23345558999999999999999999999998
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.43 E-value=9.4e-14 Score=115.47 Aligned_cols=78 Identities=24% Similarity=0.433 Sum_probs=57.2
Q ss_pred cCCCCCHHHHHhhcCcccCCCCC-CCCCCCcccccccccccCCc----eeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 105 EKRGLSLNQISTCLHACKSPPAD-GTKSGIDRCVICQVEYEEGE----SIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 105 ~~~gls~~~i~~~l~~~~~~~~~-~~~~~~~~C~ICl~~f~~~~----~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
.+.+.....+ ..+|........ .......+|+||++.+..+. .+.++++|+|.||..||.+|++.+.+||+||.
T Consensus 146 ~k~~~~~~~i-~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~ 224 (238)
T PHA02929 146 KKGKNYKKFL-KTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224 (238)
T ss_pred HhcchhHHHH-HhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCC
Confidence 3455566666 677766544322 13345689999999986543 23456689999999999999999999999999
Q ss_pred ccCC
Q 044318 180 EASP 183 (195)
Q Consensus 180 ~l~~ 183 (195)
++..
T Consensus 225 ~~~~ 228 (238)
T PHA02929 225 PFIS 228 (238)
T ss_pred EeeE
Confidence 8763
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=8.1e-14 Score=117.71 Aligned_cols=54 Identities=31% Similarity=0.899 Sum_probs=48.4
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhh-cCCCCCccccccCCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQ-IKKICPICSTEASPP 184 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvCR~~l~~~ 184 (195)
...+.+|+|||+.|..+++++++ ||.|.||..||.+|+. .+..||+||++++++
T Consensus 320 a~~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 320 ADKGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred cCCCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 33568999999999999998888 9999999999999997 678999999999864
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=2.8e-12 Score=107.84 Aligned_cols=54 Identities=26% Similarity=0.700 Sum_probs=46.6
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
.......|.|||+....+ ..+||||+||+.||..|...+..||+||..+.+...
T Consensus 235 i~~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 455678999999998776 556999999999999999999999999999877653
No 7
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=9e-12 Score=98.23 Aligned_cols=56 Identities=27% Similarity=0.568 Sum_probs=46.8
Q ss_pred CCCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCC
Q 044318 128 GTKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 128 ~~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
..+.+...|+|||..+..... +-++|||+||..||+..++....||+||++|..+.
T Consensus 126 ~~~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 126 LRKEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 456677999999999876533 43599999999999999999999999999876553
No 8
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.19 E-value=1.4e-11 Score=78.64 Aligned_cols=46 Identities=39% Similarity=0.850 Sum_probs=37.8
Q ss_pred CcccccccccccCCceeEEecCccce-echhhHHHHhhcCCCCCccccccC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHL-YHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~-FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
...|+||++.... ++. .||||. ||..|+.+|++....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~-~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVL-LPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEE-ETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEE-eCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4689999998654 344 499999 999999999999999999999875
No 9
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=1.2e-11 Score=107.17 Aligned_cols=52 Identities=33% Similarity=0.842 Sum_probs=42.9
Q ss_pred CCCCccccccccc-ccCCc---------eeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 130 KSGIDRCVICQVE-YEEGE---------SIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 130 ~~~~~~C~ICl~~-f~~~~---------~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
..++..|.|||++ |..+. +..+| ||||++|.+|++.|+.+..+||+||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCccc
Confidence 5567899999999 44331 23566 99999999999999999999999999953
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.17 E-value=1.4e-11 Score=99.02 Aligned_cols=50 Identities=28% Similarity=0.685 Sum_probs=40.8
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhc----------------CCCCCccccccCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI----------------KKICPICSTEASPPK 185 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~----------------~~sCPvCR~~l~~~~ 185 (195)
+...|+||++.++.+ ++++|||.||+.||.+|+.. ...||+||..+....
T Consensus 17 ~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 17 GDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 567899999998776 34589999999999999852 247999999886543
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=1.5e-11 Score=100.68 Aligned_cols=53 Identities=32% Similarity=0.716 Sum_probs=43.5
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcC---CCCCccccccCCCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK---KICPICSTEASPPK 185 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~---~sCPvCR~~l~~~~ 185 (195)
.......|.|||+.-+++ +++.|||.||+.||.+||..+ +.||+||..+...+
T Consensus 43 ~~~~~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCCceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 356778999999997776 445799999999999999754 57999999886554
No 12
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.15 E-value=3.6e-11 Score=72.87 Aligned_cols=39 Identities=38% Similarity=0.997 Sum_probs=32.2
Q ss_pred cccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcc
Q 044318 136 CVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPIC 177 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvC 177 (195)
|+||++.+..+ ++.+ +|||.||..||.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~~--~~~~-~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVT-PCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEEC-TTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--CEEC-CCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999988773 3344 999999999999999999999998
No 13
>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=99.15 E-value=2.6e-11 Score=74.13 Aligned_cols=44 Identities=45% Similarity=1.106 Sum_probs=35.9
Q ss_pred ccccccccccCCceeEEecCccceechhhHHHHhhc-CCCCCcccccc
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI-KKICPICSTEA 181 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~-~~sCPvCR~~l 181 (195)
.|+||++.+.. ...+++|+|.||..|+..|++. ...||+||..+
T Consensus 1 ~C~iC~~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE---PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC---ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 59999999832 2344479999999999999987 77899999764
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.12 E-value=2.8e-11 Score=98.71 Aligned_cols=53 Identities=28% Similarity=0.577 Sum_probs=41.6
Q ss_pred CCCCcccccccccccCC-----ceeEEecCccceechhhHHHHhhcC------CCCCccccccC
Q 044318 130 KSGIDRCVICQVEYEEG-----ESIVALLPCEHLYHSECISNWLQIK------KICPICSTEAS 182 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~-----~~~~~L~~C~H~FH~~CI~~Wl~~~------~sCPvCR~~l~ 182 (195)
...+.+|+|||+....+ ...+.|.+|+|.||..||..|.+.+ ++||+||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 44578999999886332 2345677999999999999999753 46999999775
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.11 E-value=4.3e-11 Score=84.13 Aligned_cols=52 Identities=29% Similarity=0.700 Sum_probs=40.1
Q ss_pred CCcccccccccccCC--------c-eeEEecCccceechhhHHHHhhc---CCCCCccccccCC
Q 044318 132 GIDRCVICQVEYEEG--------E-SIVALLPCEHLYHSECISNWLQI---KKICPICSTEASP 183 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~--------~-~~~~L~~C~H~FH~~CI~~Wl~~---~~sCPvCR~~l~~ 183 (195)
.++.|.||...|... + -..++..|+|.||..||.+|+.. +..||+||+++.-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 378899999988621 1 12344589999999999999975 4789999998753
No 16
>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=99.01 E-value=2.8e-10 Score=75.42 Aligned_cols=52 Identities=19% Similarity=0.315 Sum_probs=43.5
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCCCCc
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNHNN 189 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~~~ 189 (195)
..|+||+..+.++ ++.+|||+|++.||.+|++.+.+||+|+.++......++
T Consensus 2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeC
Confidence 4699999999886 334999999999999999888999999998866554443
No 17
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.01 E-value=2.4e-10 Score=70.51 Aligned_cols=38 Identities=32% Similarity=0.826 Sum_probs=29.3
Q ss_pred cccccccccCCceeEEecCccceechhhHHHHhhcC----CCCCcc
Q 044318 136 CVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK----KICPIC 177 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~----~sCPvC 177 (195)
|+||++.|..+ +.| +|||.||..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---ccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999987 344 999999999999999654 369988
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.96 E-value=5.3e-10 Score=68.16 Aligned_cols=39 Identities=38% Similarity=1.065 Sum_probs=33.3
Q ss_pred cccccccccCCceeEEecCccceechhhHHHHhh--cCCCCCcc
Q 044318 136 CVICQVEYEEGESIVALLPCEHLYHSECISNWLQ--IKKICPIC 177 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~--~~~sCPvC 177 (195)
|+||++.+..+. .+++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987763 3459999999999999998 55689998
No 19
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.96 E-value=3e-10 Score=78.31 Aligned_cols=52 Identities=33% Similarity=0.720 Sum_probs=39.1
Q ss_pred Cccccccccccc-----------CCc-eeEEecCccceechhhHHHHhhcCCCCCccccccCCC
Q 044318 133 IDRCVICQVEYE-----------EGE-SIVALLPCEHLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 133 ~~~C~ICl~~f~-----------~~~-~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
.+.|.||...|. .++ -.++...|.|.||..||.+||..++.||+||+++.-.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 466676665543 222 3344557999999999999999999999999987543
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.95 E-value=4.7e-10 Score=69.75 Aligned_cols=44 Identities=30% Similarity=0.741 Sum_probs=36.1
Q ss_pred ccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
.|+||+..|...... .+++|||+||..||..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~-~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRP-RLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCe-EEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 499999999443344 44599999999999999866789999985
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=3.2e-10 Score=104.93 Aligned_cols=55 Identities=29% Similarity=0.748 Sum_probs=45.5
Q ss_pred CCCcccccccccccCCce--eEEecCccceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 131 SGIDRCVICQVEYEEGES--IVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~--~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
.....|+||++.+..+.. ..++ +|+|+||..|+..|+++..+||+||..+.....
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL 345 (543)
T ss_pred hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence 347899999999977543 4466 999999999999999999999999996654443
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.89 E-value=6.1e-10 Score=98.87 Aligned_cols=56 Identities=30% Similarity=0.599 Sum_probs=46.1
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCCCCc
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNHNN 189 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~~~ 189 (195)
......|+||+..|..+ ++++|+|.||..||..|+.....||+||..+.......+
T Consensus 23 Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N 78 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSN 78 (397)
T ss_pred cccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccc
Confidence 33567999999999776 345999999999999999988899999998876544443
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=98.83 E-value=2.3e-09 Score=63.14 Aligned_cols=38 Identities=45% Similarity=1.100 Sum_probs=31.1
Q ss_pred cccccccccCCceeEEecCccceechhhHHHHhh-cCCCCCcc
Q 044318 136 CVICQVEYEEGESIVALLPCEHLYHSECISNWLQ-IKKICPIC 177 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvC 177 (195)
|+||+.... ..+.+ +|+|.||..|+..|++ ....||+|
T Consensus 1 C~iC~~~~~---~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789988833 33445 9999999999999998 66789998
No 24
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.76 E-value=1.1e-09 Score=94.16 Aligned_cols=57 Identities=32% Similarity=0.661 Sum_probs=50.5
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCCCCcccc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNHNNAIT 192 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~~~~~~ 192 (195)
....|.||.+.|..+ +++||+|.||.-||+..|..+..||.|+.++..+.+..+.+.
T Consensus 22 ~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il 78 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRIL 78 (442)
T ss_pred HHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHH
Confidence 456899999999988 778999999999999999999999999999988877766554
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=2.5e-09 Score=95.68 Aligned_cols=53 Identities=32% Similarity=0.895 Sum_probs=41.9
Q ss_pred CCCcccccccccccCCce-------------eEEecCccceechhhHHHHhh-cCCCCCccccccCC
Q 044318 131 SGIDRCVICQVEYEEGES-------------IVALLPCEHLYHSECISNWLQ-IKKICPICSTEASP 183 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~-------------~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvCR~~l~~ 183 (195)
.....|+|||..+.-... -.+++||.|+||..|+.+|+. .+-.||+||.++++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 345689999998743211 146679999999999999998 56699999999875
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=4.5e-09 Score=94.61 Aligned_cols=52 Identities=21% Similarity=0.448 Sum_probs=42.6
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcC-----CCCCccccccCCCCCCC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK-----KICPICSTEASPPKNHN 188 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~-----~sCPvCR~~l~~~~~~~ 188 (195)
...||||++....+ .++.|||+||..||-++|... +.||+||..+..++..+
T Consensus 186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p 242 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP 242 (513)
T ss_pred CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence 67899999987665 556899999999999988644 68999999988765544
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=6.7e-09 Score=86.65 Aligned_cols=52 Identities=31% Similarity=0.688 Sum_probs=42.1
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHH-HhhcCCC-CCccccccCCCCC
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISN-WLQIKKI-CPICSTEASPPKN 186 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~-Wl~~~~s-CPvCR~~l~~~~~ 186 (195)
.++..|+||++..... ..++|||+||..||.. |-+.+.- ||+||+.+.++..
T Consensus 213 ~~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 3577899999887665 3459999999999999 8876654 9999998877643
No 28
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=9.2e-09 Score=86.09 Aligned_cols=74 Identities=19% Similarity=0.487 Sum_probs=54.0
Q ss_pred hhcCcccCCCCCCCCCCCcccccccccccCCc-------eeEEecCccceechhhHHHHh--hcCCCCCccccccCCCCC
Q 044318 116 TCLHACKSPPADGTKSGIDRCVICQVEYEEGE-------SIVALLPCEHLYHSECISNWL--QIKKICPICSTEASPPKN 186 (195)
Q Consensus 116 ~~l~~~~~~~~~~~~~~~~~C~ICl~~f~~~~-------~~~~L~~C~H~FH~~CI~~Wl--~~~~sCPvCR~~l~~~~~ 186 (195)
..+.-..-...+.+...+..|+||-..+.... .+..| .|+|+||..||+.|- ..+.+||.|+.++-.+..
T Consensus 207 s~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rm 285 (328)
T KOG1734|consen 207 STIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRM 285 (328)
T ss_pred HHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhhHhhh
Confidence 33333333444445567789999998886554 56778 899999999999998 466799999998876655
Q ss_pred CCcc
Q 044318 187 HNNA 190 (195)
Q Consensus 187 ~~~~ 190 (195)
..+|
T Consensus 286 fsnp 289 (328)
T KOG1734|consen 286 FSNP 289 (328)
T ss_pred ccCc
Confidence 5443
No 29
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=3.5e-09 Score=72.44 Aligned_cols=51 Identities=25% Similarity=0.698 Sum_probs=38.4
Q ss_pred CCcccccccccccCC---------ceeEEecCccceechhhHHHHhhcC---CCCCccccccC
Q 044318 132 GIDRCVICQVEYEEG---------ESIVALLPCEHLYHSECISNWLQIK---KICPICSTEAS 182 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~---------~~~~~L~~C~H~FH~~CI~~Wl~~~---~sCPvCR~~l~ 182 (195)
..+.|.||...|... +-..++..|.|.||..||.+|+... ..||+||+.+.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 445899999988632 1122344699999999999999653 67999998764
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.66 E-value=1.6e-08 Score=62.59 Aligned_cols=38 Identities=29% Similarity=0.835 Sum_probs=22.4
Q ss_pred cccccccccCCce-eEEecCccceechhhHHHHhhcC----CCCC
Q 044318 136 CVICQVEYEEGES-IVALLPCEHLYHSECISNWLQIK----KICP 175 (195)
Q Consensus 136 C~ICl~~f~~~~~-~~~L~~C~H~FH~~CI~~Wl~~~----~sCP 175 (195)
|+||.+ |...+. .++| +|||+|++.||.+|++.. ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 866443 4556 899999999999999743 3576
No 31
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=3.2e-08 Score=71.50 Aligned_cols=53 Identities=34% Similarity=0.738 Sum_probs=41.1
Q ss_pred CCCCccccccccccc-------------CCceeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 130 KSGIDRCVICQVEYE-------------EGESIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~-------------~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
+...+.|+||..-+- ..+-.+....|.|.||..||.+||++++.||+|.++..
T Consensus 43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 445678888875431 23344566689999999999999999999999988764
No 32
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.49 E-value=6.2e-08 Score=66.61 Aligned_cols=53 Identities=23% Similarity=0.313 Sum_probs=39.9
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhc-CCCCCccccccCCCCCCCc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI-KKICPICSTEASPPKNHNN 189 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~-~~sCPvCR~~l~~~~~~~~ 189 (195)
...|+|+.+-+.++ ++++|||.|.+.||.+|++. +.+||+|+.++......++
T Consensus 4 ~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn 57 (73)
T PF04564_consen 4 EFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPN 57 (73)
T ss_dssp GGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-
T ss_pred ccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceEC
Confidence 46899999999887 44599999999999999988 8899999998877655444
No 33
>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=98.48 E-value=9.7e-08 Score=60.77 Aligned_cols=42 Identities=38% Similarity=0.985 Sum_probs=31.4
Q ss_pred ccccccccccCCceeEEecCcc-----ceechhhHHHHhhcC--CCCCccc
Q 044318 135 RCVICQVEYEEGESIVALLPCE-----HLYHSECISNWLQIK--KICPICS 178 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~-----H~FH~~CI~~Wl~~~--~sCPvCR 178 (195)
.|.||+.....++. ... ||. |.+|..||.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~~~~~~~-l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDP-LVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCe-eEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999984334433 344 885 899999999999544 5899995
No 34
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.47 E-value=4.3e-08 Score=66.96 Aligned_cols=50 Identities=32% Similarity=0.594 Sum_probs=23.9
Q ss_pred Cccccccccccc-CCcee-EEe--cCccceechhhHHHHhhc-----------CCCCCccccccC
Q 044318 133 IDRCVICQVEYE-EGESI-VAL--LPCEHLYHSECISNWLQI-----------KKICPICSTEAS 182 (195)
Q Consensus 133 ~~~C~ICl~~f~-~~~~~-~~L--~~C~H~FH~~CI~~Wl~~-----------~~sCPvCR~~l~ 182 (195)
...|.||+..+. .+... .+. ..|++.||..||.+||.. .+.||.|+++|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 358999999876 33221 222 269999999999999952 136999999875
No 35
>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=98.46 E-value=1.3e-07 Score=81.37 Aligned_cols=54 Identities=17% Similarity=0.383 Sum_probs=39.5
Q ss_pred Ccccccccccc-cCCc-eeEEecCccceechhhHHHHh-hcCCCCCccccccCCCCCC
Q 044318 133 IDRCVICQVEY-EEGE-SIVALLPCEHLYHSECISNWL-QIKKICPICSTEASPPKNH 187 (195)
Q Consensus 133 ~~~C~ICl~~f-~~~~-~~~~L~~C~H~FH~~CI~~Wl-~~~~sCPvCR~~l~~~~~~ 187 (195)
...||||...- ..+. .+.+. +|||.||..||...| .....||.|+..+......
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 46899999863 3333 22333 799999999999966 5557899999988766533
No 36
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.45 E-value=4.8e-08 Score=82.70 Aligned_cols=51 Identities=25% Similarity=0.624 Sum_probs=44.3
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
....|-||-..|..+ .+++|||.||.-||+..|..+..||+||.+......
T Consensus 24 s~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrl 74 (391)
T COG5432 24 SMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL 74 (391)
T ss_pred hHHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHHhhhc
Confidence 457899999998887 668999999999999999999999999987655443
No 37
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.35 E-value=1e-07 Score=63.52 Aligned_cols=53 Identities=36% Similarity=0.638 Sum_probs=25.8
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCCCCcc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNHNNA 190 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~~~~ 190 (195)
.-.|++|...++.+ +.+..|.|.||..||..-+.. .||+|+++.-..+...|.
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~~Nr 59 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQINR 59 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS----H
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHHhhh
Confidence 35799999998876 345599999999999886553 499999988766655443
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.35 E-value=1e-07 Score=91.05 Aligned_cols=54 Identities=24% Similarity=0.688 Sum_probs=40.6
Q ss_pred CCCCCcccccccccccCCc---eeEEecCccceechhhHHHHhhcC--CCCCccccccC
Q 044318 129 TKSGIDRCVICQVEYEEGE---SIVALLPCEHLYHSECISNWLQIK--KICPICSTEAS 182 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~---~~~~L~~C~H~FH~~CI~~Wl~~~--~sCPvCR~~l~ 182 (195)
...+.++|+||...+..-+ .-.+++.|.|.||..||.+|++.. .+||+||..++
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4567899999997764111 112344799999999999999765 67999998764
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=2.8e-07 Score=76.28 Aligned_cols=46 Identities=28% Similarity=0.626 Sum_probs=39.4
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
......|+||++.|..+ .. ++|+|.||..||..|+.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~-l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VL-LPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC---cc-ccccchHhHHHHHHhcCCCcCCcccCC
Confidence 34667999999999988 34 499999999999999986678999994
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=4.5e-07 Score=79.42 Aligned_cols=53 Identities=23% Similarity=0.684 Sum_probs=39.1
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcC---CCCCccccccCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK---KICPICSTEASPP 184 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~---~sCPvCR~~l~~~ 184 (195)
....|.||-..+.....+..+-.|||+||..|+.+|+... +.||+||-.+...
T Consensus 3 i~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r 58 (465)
T KOG0827|consen 3 IMAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQER 58 (465)
T ss_pred ccceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccce
Confidence 3568999954444444566664699999999999999753 5799999555443
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=6.3e-07 Score=78.39 Aligned_cols=54 Identities=31% Similarity=0.629 Sum_probs=41.7
Q ss_pred CCCCcccccccccccCCc----eeEEecCccceechhhHHHHh--hc-----CCCCCccccccCC
Q 044318 130 KSGIDRCVICQVEYEEGE----SIVALLPCEHLYHSECISNWL--QI-----KKICPICSTEASP 183 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~----~~~~L~~C~H~FH~~CI~~Wl--~~-----~~sCPvCR~~l~~ 183 (195)
+.....|.|||+...... ..+.|++|.|.||..||..|- ++ .+.||.||....-
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 356789999999975543 234556899999999999999 34 4789999976543
No 42
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.19 E-value=8.1e-07 Score=79.09 Aligned_cols=49 Identities=22% Similarity=0.733 Sum_probs=39.1
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
+-.+|||||+........+..+.|.|.||-.|+.+|. ..+||+||.-..
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 4579999999986655444444899999999999994 468999997655
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.14 E-value=3.3e-07 Score=86.15 Aligned_cols=52 Identities=17% Similarity=0.426 Sum_probs=44.6
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCC
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
.....|+||+..|.++...... +|+|+||..||..|-+...+||+||..+..
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 3456899999999887666666 899999999999999999999999987643
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=1.2e-06 Score=76.10 Aligned_cols=49 Identities=33% Similarity=0.655 Sum_probs=40.1
Q ss_pred CCCcccccccccccCCceeEEecCccc-eechhhHHHHhhcCCCCCccccccCC
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEH-LYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H-~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
+...+|+|||.+-++- .+| ||.| ..|..|.+...-+++.||+||+++..
T Consensus 288 ~~gkeCVIClse~rdt---~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT---VVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcce---EEe-cchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 4477999999986654 445 9999 58999998877788999999998754
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=8.5e-07 Score=83.33 Aligned_cols=52 Identities=19% Similarity=0.701 Sum_probs=42.7
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhh-cCCCCCccccccCCCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQ-IKKICPICSTEASPPKNH 187 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvCR~~l~~~~~~ 187 (195)
+--.|+.|-..+++. +++.|+|+||..||..-+. +.+.||.|.+.+.+.+..
T Consensus 642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 456899999887765 5569999999999999985 568899999988776543
No 46
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=2e-06 Score=73.16 Aligned_cols=52 Identities=23% Similarity=0.435 Sum_probs=41.6
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcC-CCCCccccccCCCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK-KICPICSTEASPPKNH 187 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~-~sCPvCR~~l~~~~~~ 187 (195)
...+|+||+..-..+ +.| +|+|.||.-||+.-.+.. ++||+||.++.+....
T Consensus 6 ~~~eC~IC~nt~n~P---v~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNL-YCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred cCCcceeeeccCCcC---ccc-cccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 467899999886555 455 999999999999877654 5699999999766443
No 47
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.01 E-value=1.8e-06 Score=73.45 Aligned_cols=56 Identities=21% Similarity=0.661 Sum_probs=45.3
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhc-----------------------CCCCCccccccCCCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI-----------------------KKICPICSTEASPPK 185 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~-----------------------~~sCPvCR~~l~~~~ 185 (195)
.......|+|||..|..+...++. +|-|+||..|+.++|.. ...||+||.++.-..
T Consensus 111 nn~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 111 NNHPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 455678999999999988877777 99999999999887741 236999999886443
No 48
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=1.5e-06 Score=55.90 Aligned_cols=46 Identities=26% Similarity=0.569 Sum_probs=35.9
Q ss_pred CcccccccccccCCceeEEecCccc-eechhhHHHHh-hcCCCCCccccccC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEH-LYHSECISNWL-QIKKICPICSTEAS 182 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H-~FH~~CI~~Wl-~~~~sCPvCR~~l~ 182 (195)
.++|.||++.-.+. +|..||| ..|..|-.+.+ ..+..||+||+++.
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 48999999876554 5568999 47889965555 47899999999874
No 49
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=6e-06 Score=72.90 Aligned_cols=49 Identities=41% Similarity=0.895 Sum_probs=38.2
Q ss_pred Cccccccccccc-CCceeEEecCccceechhhHHHHhhc--CCCCCcccccc
Q 044318 133 IDRCVICQVEYE-EGESIVALLPCEHLYHSECISNWLQI--KKICPICSTEA 181 (195)
Q Consensus 133 ~~~C~ICl~~f~-~~~~~~~L~~C~H~FH~~CI~~Wl~~--~~sCPvCR~~l 181 (195)
.-.|+||+..|. .++.....+.|||.|...||++||.+ +..||.|..+.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 468999999985 34444444599999999999999952 35799998654
No 50
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=1.3e-06 Score=75.79 Aligned_cols=55 Identities=20% Similarity=0.386 Sum_probs=43.1
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhc-CCCCCccccccCCCCCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI-KKICPICSTEASPPKNH 187 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~-~~sCPvCR~~l~~~~~~ 187 (195)
......|+|||.-++.. +....|.|.||..||..-++. .+.||.||+.+.++...
T Consensus 40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL 95 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL 95 (381)
T ss_pred hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence 34568999999987654 222379999999999998864 57899999999876543
No 51
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.69 E-value=2.1e-05 Score=78.20 Aligned_cols=66 Identities=26% Similarity=0.619 Sum_probs=53.1
Q ss_pred hhcCcccCCCCCCCCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcC----------CCCCccccccC
Q 044318 116 TCLHACKSPPADGTKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK----------KICPICSTEAS 182 (195)
Q Consensus 116 ~~l~~~~~~~~~~~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~----------~sCPvCR~~l~ 182 (195)
..+|-...+.......+++.|.||+.+-......+.| .|+|+||..|.++-|.++ -+||+|+.++.
T Consensus 3469 ~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3469 HCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccccccChhhhhcccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 5677777666666777889999999887777788888 999999999997766543 27999998874
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.68 E-value=2.6e-05 Score=51.15 Aligned_cols=43 Identities=26% Similarity=0.552 Sum_probs=28.7
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHHHhhc--CCCCCc
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI--KKICPI 176 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~--~~sCPv 176 (195)
.-...|||.+..|+++ ++.. .|+|+|-+..|.+|++. ...||+
T Consensus 9 ~~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3467899999999876 3444 89999999999999943 457998
No 53
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=2.5e-05 Score=64.26 Aligned_cols=63 Identities=29% Similarity=0.604 Sum_probs=51.6
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHHHhhc--------CCCCCccccccCCCCCCCcccccCC
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI--------KKICPICSTEASPPKNHNNAITSKL 195 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~--------~~sCPvCR~~l~~~~~~~~~~~~~l 195 (195)
.-...|..|-..+..++.++ | .|-|.||..|+..|-.. .-.||.|..++.++.....|+.++|
T Consensus 48 DY~pNC~LC~t~La~gdt~R-L-vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aL 118 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-L-VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEAL 118 (299)
T ss_pred CCCCCCceeCCccccCccee-e-hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHH
Confidence 34678999998888887654 4 79999999999999853 2369999999999999888887654
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=3.4e-05 Score=68.84 Aligned_cols=51 Identities=25% Similarity=0.575 Sum_probs=43.6
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
.......|.||+..+..+ +. +||||.||..||.+-+.....||.||..+..
T Consensus 80 ~~~sef~c~vc~~~l~~p---v~-tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRALYPP---VV-TPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhcCCC---cc-ccccccccHHHHHHHhccCCCCccccccccc
Confidence 345678999999998776 34 4999999999999988888999999998875
No 55
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.52 E-value=6.9e-05 Score=67.01 Aligned_cols=55 Identities=20% Similarity=0.458 Sum_probs=45.4
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNH 187 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~ 187 (195)
...+..|+||+..+.++-.. +.|||.||..|+..|+..+..||.|+..+......
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~---~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT---TTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred CcccccCccccccccCCCCC---CCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 45678999999999887321 38999999999999999999999999887655444
No 56
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.51 E-value=2.1e-05 Score=67.77 Aligned_cols=57 Identities=21% Similarity=0.459 Sum_probs=45.0
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCCCCc
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNHNN 189 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~~~ 189 (195)
...-..|.+|-..|.+... .+-|-|.||+.||.+.|...+.||+|...+-......+
T Consensus 12 ~n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~n 68 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLN 68 (331)
T ss_pred cccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccCcccccc
Confidence 3456799999988877633 23799999999999999999999999987755443333
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.47 E-value=3.8e-05 Score=67.67 Aligned_cols=47 Identities=30% Similarity=0.715 Sum_probs=37.6
Q ss_pred CCcccccccccccC-CceeEEecCccceechhhHHHHhhcC--CCCCcccc
Q 044318 132 GIDRCVICQVEYEE-GESIVALLPCEHLYHSECISNWLQIK--KICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~f~~-~~~~~~L~~C~H~FH~~CI~~Wl~~~--~sCPvCR~ 179 (195)
-.-.|..|-+.+-. ++.+..| ||.|+||..|+...|.++ .+||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqAL-pCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQAL-PCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCccccccc-chhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 34679999888743 3456667 999999999999999654 68999994
No 58
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00022 Score=60.29 Aligned_cols=51 Identities=22% Similarity=0.473 Sum_probs=39.7
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhc--CCCCCccccccC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI--KKICPICSTEAS 182 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~--~~sCPvCR~~l~ 182 (195)
......+|++|-+.-..+- ...+|+|+||.-||..-+.. ..+||.|..++.
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~---~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPH---VIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCCCCCe---eeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4567789999988765552 23389999999999887754 478999998776
No 59
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.22 E-value=0.00011 Score=65.11 Aligned_cols=49 Identities=27% Similarity=0.756 Sum_probs=37.5
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhc--CCCCCccccccCCCC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI--KKICPICSTEASPPK 185 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~--~~sCPvCR~~l~~~~ 185 (195)
-.-|-||-+.=+ .+... ||||..|..||..|-.. ..+||.||..+....
T Consensus 369 FeLCKICaendK---dvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 369 FELCKICAENDK---DVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHHhhccCC---Ccccc-cccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 467999976522 23344 99999999999999744 468999999987654
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.18 E-value=0.00033 Score=58.42 Aligned_cols=55 Identities=13% Similarity=0.253 Sum_probs=49.8
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
....|+||...+.+.-.+..|-||||+|+.+|+.+.++.-..||+|-.++...+.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 5678999999999998899999999999999999999999999999998876654
No 61
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.05 E-value=0.00039 Score=43.88 Aligned_cols=45 Identities=22% Similarity=0.507 Sum_probs=23.5
Q ss_pred cccccccccC-CceeEEecCccceechhhHHHHhh-cCCCCCcccccc
Q 044318 136 CVICQVEYEE-GESIVALLPCEHLYHSECISNWLQ-IKKICPICSTEA 181 (195)
Q Consensus 136 C~ICl~~f~~-~~~~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvCR~~l 181 (195)
|++|.+.+.. +..+... +|++.+|..|...-++ ..+.||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999833 3344445 7899999999998886 478999999864
No 62
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.03 E-value=0.00065 Score=57.51 Aligned_cols=56 Identities=20% Similarity=0.467 Sum_probs=46.1
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
......|||....|......+.+.+|||+|...+|..- +....||+|-.++...+.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDI 165 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCE
Confidence 45667999999999777777788899999999999996 345679999999875543
No 63
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.03 E-value=0.0002 Score=58.01 Aligned_cols=45 Identities=27% Similarity=0.550 Sum_probs=38.8
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
..|.||-.+|+.+ +.+.|||.||..|..+-++....|-+|.+...
T Consensus 197 F~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred eeehhchhhccch----hhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 4899999999987 44589999999999988888899999987543
No 64
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.97 E-value=0.00073 Score=42.46 Aligned_cols=40 Identities=35% Similarity=0.956 Sum_probs=26.9
Q ss_pred cccccccccCCceeEEecCcc-----ceechhhHHHHhh--cCCCCCcc
Q 044318 136 CVICQVEYEEGESIVALLPCE-----HLYHSECISNWLQ--IKKICPIC 177 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~-----H~FH~~CI~~Wl~--~~~sCPvC 177 (195)
|-||++.-.....++ .||+ -..|..||.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~~li--~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLI--SPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE---SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCcee--cccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779998876655333 3664 3789999999996 45679988
No 65
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=0.00047 Score=58.85 Aligned_cols=47 Identities=21% Similarity=0.487 Sum_probs=40.0
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
...|-||...|..+ +.+.|+|.||..|...=++....|++|.+....
T Consensus 241 Pf~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Cccccccccccccc----hhhcCCceeehhhhccccccCCcceeccccccc
Confidence 35699999999987 445999999999999888888999999876643
No 66
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.0004 Score=59.21 Aligned_cols=43 Identities=28% Similarity=0.569 Sum_probs=32.2
Q ss_pred CcccccccccccCCceeEEecCccc-eechhhHHHHhhcCCCCCccccccCC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEH-LYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H-~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
..-|.|||....+ ++.| +||| +-|..|-+.. +.||+||+.+..
T Consensus 300 ~~LC~ICmDaP~D---CvfL-eCGHmVtCt~CGkrm----~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFL-ECGHMVTCTKCGKRM----NECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc---eEEe-ecCcEEeehhhcccc----ccCchHHHHHHH
Confidence 5679999987544 4555 9999 5688887553 489999987653
No 67
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.80 E-value=0.00088 Score=52.45 Aligned_cols=51 Identities=27% Similarity=0.638 Sum_probs=35.5
Q ss_pred CCCCcccccccccccCCceeEEecCccc---eechhhHHHHhhc--CCCCCccccccCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEH---LYHSECISNWLQI--KKICPICSTEASP 183 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H---~FH~~CI~~Wl~~--~~sCPvCR~~l~~ 183 (195)
......|-||.++-.. ..... .|.. ..|..|+.+|+.. ..+||+|+++..-
T Consensus 5 s~~~~~CRIC~~~~~~--~~~PC-~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--VTNYC-NCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCCC--ccCCc-ccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 4567799999988432 22222 3444 5699999999964 4679999987653
No 68
>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=96.76 E-value=0.00072 Score=51.58 Aligned_cols=45 Identities=16% Similarity=0.448 Sum_probs=34.2
Q ss_pred CcccccccccccCCceeEEecCcc------ceechhhHHHHhhcCCCCCccc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCE------HLYHSECISNWLQIKKICPICS 178 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~------H~FH~~CI~~Wl~~~~sCPvCR 178 (195)
..+|.||++.+.....++.+ +|+ |.||..|+.+|-+.++.=|.=|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~v-t~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR 76 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYV-TDGGTLNLEKMFCADCDKRWRRERNRDPFNR 76 (134)
T ss_pred CeeehhhhhhhhcCCCEEEE-ecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence 67999999999885556666 675 8999999999955444445544
No 69
>PHA02862 5L protein; Provisional
Probab=96.75 E-value=0.00089 Score=51.59 Aligned_cols=46 Identities=30% Similarity=0.653 Sum_probs=34.1
Q ss_pred CcccccccccccCCceeEEecCcc-----ceechhhHHHHhhc--CCCCCccccccCC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCE-----HLYHSECISNWLQI--KKICPICSTEASP 183 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~-----H~FH~~CI~~Wl~~--~~sCPvCR~~l~~ 183 (195)
.+.|-||+..-.+. . .||. ...|..||.+|++. +..||+|+.+..-
T Consensus 2 ~diCWIC~~~~~e~--~---~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDER--N---NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCCC--c---ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 46799999885433 2 2554 56899999999964 4689999987643
No 70
>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=96.72 E-value=0.00097 Score=48.16 Aligned_cols=34 Identities=26% Similarity=0.709 Sum_probs=26.7
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHH
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECIS 165 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~ 165 (195)
-.....|++|-..+..+ ...+. ||||+||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~~-~f~~~-p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNS-VFVVF-PCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCCc-eEEEe-CCCeEEeccccc
Confidence 34567899999998774 34444 999999999985
No 71
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.00095 Score=58.39 Aligned_cols=51 Identities=27% Similarity=0.459 Sum_probs=42.2
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
...++..|+||...-... +..||+|.-|..||.+-+.+.+.|=.|++.+..
T Consensus 418 p~sEd~lCpICyA~pi~A----vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGPINA----VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CCcccccCcceecccchh----hccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 346778999998664333 446999999999999999999999999998864
No 72
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.64 E-value=0.00079 Score=61.63 Aligned_cols=52 Identities=23% Similarity=0.542 Sum_probs=39.7
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhc-----CCCCCccccccCCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI-----KKICPICSTEASPP 184 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~-----~~sCPvCR~~l~~~ 184 (195)
...+...|.+|-+.-++. ....|.|.||+-||.+++.. +-+||+|...+.-.
T Consensus 532 enk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 455677999998775543 33489999999999998843 35899998877544
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.62 E-value=0.0011 Score=58.84 Aligned_cols=48 Identities=25% Similarity=0.573 Sum_probs=37.7
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhc--------CCCCCccccc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI--------KKICPICSTE 180 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~--------~~sCPvCR~~ 180 (195)
....|.||++........+.+ ||+|+||+.|+..++.. .-.||-++-.
T Consensus 183 slf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred hcccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 457899999998766666666 99999999999999953 2368877653
No 74
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.45 E-value=0.0024 Score=55.82 Aligned_cols=56 Identities=32% Similarity=0.584 Sum_probs=40.8
Q ss_pred CCCCCCCCCCCcccccccccccCCceeEEecCccceechhhHHHH--hhcCCCCCccccccC
Q 044318 123 SPPADGTKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNW--LQIKKICPICSTEAS 182 (195)
Q Consensus 123 ~~~~~~~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~W--l~~~~sCPvCR~~l~ 182 (195)
.......++.+..|.||...+.- ..++||+|..|-.|..+. |...+.||+||+..-
T Consensus 51 tsSaddtDEen~~C~ICA~~~TY----s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 51 TSSADDTDEENMNCQICAGSTTY----SARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccccccccceeEEecCCceE----EEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 33334567778899999876543 244599999999997553 456789999998653
No 75
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.44 E-value=0.0012 Score=54.80 Aligned_cols=51 Identities=18% Similarity=0.507 Sum_probs=34.2
Q ss_pred ccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCCCCc
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNHNN 189 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~~~ 189 (195)
.|.-|...-. +.... |+.|+|+||..|...-. ...||+||+.+.......+
T Consensus 5 hCn~C~~~~~-~~~f~-LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i~l~~s 55 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFF-LTACRHVFCEPCLKASS--PDVCPLCKKSIRIIQLNRS 55 (233)
T ss_pred EeccccccCC-CCcee-eeechhhhhhhhcccCC--ccccccccceeeeeecccc
Confidence 4666654433 44444 44999999999986632 2289999998765554443
No 76
>PHA03096 p28-like protein; Provisional
Probab=96.36 E-value=0.0014 Score=56.28 Aligned_cols=48 Identities=19% Similarity=0.254 Sum_probs=35.1
Q ss_pred cccccccccccCC----ceeEEecCccceechhhHHHHhhcC------CCCCcccccc
Q 044318 134 DRCVICQVEYEEG----ESIVALLPCEHLYHSECISNWLQIK------KICPICSTEA 181 (195)
Q Consensus 134 ~~C~ICl~~f~~~----~~~~~L~~C~H~FH~~CI~~Wl~~~------~sCPvCR~~l 181 (195)
..|.||++..... .....|..|.|.||..||..|...+ +.||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 7899999987543 2345677899999999999999543 3455555544
No 77
>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=96.35 E-value=0.0022 Score=40.20 Aligned_cols=32 Identities=25% Similarity=0.651 Sum_probs=23.2
Q ss_pred cCcc-ceechhhHHHHhhcCCCCCccccccCCC
Q 044318 153 LPCE-HLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 153 ~~C~-H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
..|. |+.|..|+...+.....||+|..+++..
T Consensus 16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred eeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 3686 9999999999999999999999998754
No 78
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.34 E-value=0.0018 Score=50.90 Aligned_cols=32 Identities=41% Similarity=0.876 Sum_probs=28.4
Q ss_pred CCCCCcccccccccccCCceeEEecCccceech
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHS 161 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~ 161 (195)
.....-+|+||++++..++.+.+| ||-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARL-PCLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARL-PCLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence 345667999999999999999999 99999997
No 79
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.33 E-value=0.00018 Score=63.47 Aligned_cols=53 Identities=30% Similarity=0.606 Sum_probs=45.0
Q ss_pred CCCCcccccccccccCC-ceeEEecCccceechhhHHHHhhcCCCCCccccccCC
Q 044318 130 KSGIDRCVICQVEYEEG-ESIVALLPCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~-~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
......|+||...++.. +.+..+ .|||.+|.+||.+||.....||.||+.+.-
T Consensus 193 ~slv~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 193 SSLVGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHHHhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 44567899999998765 556666 899999999999999999999999998864
No 80
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.26 E-value=0.0023 Score=61.39 Aligned_cols=49 Identities=24% Similarity=0.697 Sum_probs=39.4
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHHHhhcC-------CCCCcccc
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK-------KICPICST 179 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~-------~sCPvCR~ 179 (195)
....+|.||.+.+.....+-....|-|+||..||.+|-+.. ..||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 35689999999998776655555789999999999998642 36999984
No 81
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.16 E-value=0.0025 Score=55.79 Aligned_cols=46 Identities=26% Similarity=0.610 Sum_probs=32.3
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
..-...|+||+...... ...||||.-| |..-- +.-.+||+||..+.
T Consensus 302 ~~~p~lcVVcl~e~~~~----~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKSA----VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCccce----eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 33457899999987763 3349999865 65443 33455999998774
No 82
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.01 E-value=0.0039 Score=49.83 Aligned_cols=31 Identities=29% Similarity=0.792 Sum_probs=25.6
Q ss_pred CccceechhhHHHHhhcC-----------CCCCccccccCCC
Q 044318 154 PCEHLYHSECISNWLQIK-----------KICPICSTEASPP 184 (195)
Q Consensus 154 ~C~H~FH~~CI~~Wl~~~-----------~sCPvCR~~l~~~ 184 (195)
.||..||.-||..||+.- +.||.|..++.-+
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 799999999999999631 4699999887543
No 83
>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=95.93 E-value=0.0044 Score=38.17 Aligned_cols=41 Identities=22% Similarity=0.693 Sum_probs=23.2
Q ss_pred cccccccccCCceeEEecCccceechhhHHHHhhcCC--CCCcc
Q 044318 136 CVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKK--ICPIC 177 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~--sCPvC 177 (195)
|.+|.+-...+...... .|+=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 67787777666333222 4888999999999997665 79988
No 84
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.81 E-value=0.0061 Score=39.45 Aligned_cols=46 Identities=30% Similarity=0.632 Sum_probs=31.1
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCC
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
..|..|... +.+-+.+ ||+|..+..|..-+ +-+-||+|.+++...+
T Consensus 8 ~~~~~~~~~---~~~~~~~-pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVL-PCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---ccccccc-cccceeeccccChh--hccCCCCCCCcccCCC
Confidence 345555433 2222344 99999999997654 4567999999886553
No 85
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.67 E-value=0.0062 Score=52.11 Aligned_cols=49 Identities=29% Similarity=0.710 Sum_probs=38.0
Q ss_pred CcccccccccccCC--ceeEEecCccceechhhHHHHhhcC-CCCCcccccc
Q 044318 133 IDRCVICQVEYEEG--ESIVALLPCEHLYHSECISNWLQIK-KICPICSTEA 181 (195)
Q Consensus 133 ~~~C~ICl~~f~~~--~~~~~L~~C~H~FH~~CI~~Wl~~~-~sCPvCR~~l 181 (195)
...|-||-.+|... ..+...+.|||.||..|+.+.+... ..||.||...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 35799999999765 3333334899999999998887554 5799999885
No 86
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.65 E-value=0.0092 Score=51.76 Aligned_cols=48 Identities=17% Similarity=0.361 Sum_probs=37.7
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccccc
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEA 181 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l 181 (195)
.....|+||+....++. ++..-|-+||..||.++++.++.||+=..++
T Consensus 298 ~~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 34568999998876653 3324689999999999999999999865544
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.46 E-value=0.0059 Score=52.09 Aligned_cols=47 Identities=30% Similarity=0.538 Sum_probs=38.3
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
...||||.+.+..........+|||.-|..|+.......-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 34499999888666554444599999999999999877799999987
No 88
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.30 E-value=0.0083 Score=57.70 Aligned_cols=43 Identities=28% Similarity=0.761 Sum_probs=33.6
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccccc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEA 181 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l 181 (195)
...|.+|-..+..+ .+-. .|||.||..|+. .....||-|+..+
T Consensus 840 ~skCs~C~~~LdlP--~VhF-~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLP--FVHF-LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCccccc--eeee-ecccHHHHHhhc---cCcccCCccchhh
Confidence 35899998887766 2333 799999999998 4567899998743
No 89
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.75 E-value=0.022 Score=43.35 Aligned_cols=55 Identities=20% Similarity=0.445 Sum_probs=42.9
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhc---CCCCCccccccCCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI---KKICPICSTEASPPKN 186 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~---~~sCPvCR~~l~~~~~ 186 (195)
...+|-||.+...+...+..---||-..|..|-...|+. ...||+|++.+.+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 778999999987776554433248999999998887764 5689999999887654
No 90
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.68 E-value=0.019 Score=49.63 Aligned_cols=45 Identities=22% Similarity=0.566 Sum_probs=36.0
Q ss_pred CCCCcccccccccccCCceeEEecCc--cceechhhHHHHhhcCCCCCccccccC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPC--EHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C--~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
.....+||||...+..+ .. .| ||.-|..|-. +..+.||.||.++.
T Consensus 45 ~~~lleCPvC~~~l~~P----i~-QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPP----IF-QCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCccc----ce-ecCCCcEehhhhhh---hhcccCCccccccc
Confidence 44567999999999887 33 56 7999999975 45778999998886
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.61 E-value=0.0076 Score=57.49 Aligned_cols=50 Identities=26% Similarity=0.518 Sum_probs=37.7
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcC--CCCCccccccCCCCCCC
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK--KICPICSTEASPPKNHN 188 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~--~sCPvCR~~l~~~~~~~ 188 (195)
..|.||++ .+.... ++|+|.||..|+..-+... ..||+||..+.......
T Consensus 455 ~~c~ic~~----~~~~~i-t~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFI-TRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc----ccccee-ecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 89999998 233333 4899999999999988543 36999998876554443
No 92
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.51 E-value=0.049 Score=35.16 Aligned_cols=44 Identities=27% Similarity=0.668 Sum_probs=35.2
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCc--ccc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPI--CST 179 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPv--CR~ 179 (195)
....|++|-..|+.++.+++.+.|+-.||+.|..+ .+.|-+ |..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~ 49 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGT 49 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCC
Confidence 46789999999998888888888999999999654 555654 544
No 93
>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=94.42 E-value=0.032 Score=43.74 Aligned_cols=51 Identities=25% Similarity=0.541 Sum_probs=33.6
Q ss_pred CcccccccccccCCceeEEecCc------------cc-eechhhHHHHhhc-----------------------------
Q 044318 133 IDRCVICQVEYEEGESIVALLPC------------EH-LYHSECISNWLQI----------------------------- 170 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C------------~H-~FH~~CI~~Wl~~----------------------------- 170 (195)
...|+|||+---+. +|+-| +- .-|..||.+.-+.
T Consensus 2 d~~CpICme~PHNA----VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (162)
T PF07800_consen 2 DVTCPICMEHPHNA----VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQE 77 (162)
T ss_pred CccCceeccCCCce----EEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccc
Confidence 46899999874443 22233 32 2478899887641
Q ss_pred --CCCCCccccccCCCCCC
Q 044318 171 --KKICPICSTEASPPKNH 187 (195)
Q Consensus 171 --~~sCPvCR~~l~~~~~~ 187 (195)
+..||+||..|..+...
T Consensus 78 ~~~L~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 78 QPELACPLCRGEVKGWTVV 96 (162)
T ss_pred cccccCccccCceeceEEc
Confidence 12599999999876544
No 94
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.39 E-value=0.024 Score=49.56 Aligned_cols=55 Identities=20% Similarity=0.391 Sum_probs=37.8
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhh-cCCCCCccccccCCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQ-IKKICPICSTEASPP 184 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvCR~~l~~~ 184 (195)
..+.+.|+.|++.+...++--.-.+||-..|.-|...--+ .++.||-||+.....
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 4456679999999866554322238998888888655432 457899999866543
No 95
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.26 E-value=0.025 Score=50.02 Aligned_cols=29 Identities=28% Similarity=0.826 Sum_probs=22.1
Q ss_pred ccceechhhHHHHhhc-------------CCCCCccccccCC
Q 044318 155 CEHLYHSECISNWLQI-------------KKICPICSTEASP 183 (195)
Q Consensus 155 C~H~FH~~CI~~Wl~~-------------~~sCPvCR~~l~~ 183 (195)
|.-..|.+|+.+|+.. +..||+||+++.-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 4556788999999943 3479999998753
No 96
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.26 E-value=0.018 Score=55.71 Aligned_cols=38 Identities=21% Similarity=0.482 Sum_probs=29.6
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHh
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWL 168 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl 168 (195)
.-...+.|.+|...+..... .+ .||||.||++||.+-.
T Consensus 813 v~ep~d~C~~C~~~ll~~pF-~v-f~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLIKPF-YV-FPCGHCFHRDCLIRHV 850 (911)
T ss_pred EecCccchHHhcchhhcCcc-ee-eeccchHHHHHHHHHH
Confidence 34578999999998876633 33 4899999999997655
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.12 E-value=0.025 Score=48.84 Aligned_cols=45 Identities=27% Similarity=0.704 Sum_probs=30.6
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
.-.|.-|--.+. -..+++ ||.|+||.+|... ..-+.||.|--+|.
T Consensus 90 VHfCd~Cd~PI~--IYGRmI-PCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 90 VHFCDRCDFPIA--IYGRMI-PCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred eEeecccCCcce--eeeccc-ccchhhhhhhhhc--CccccCcCcccHHH
Confidence 456777754432 233444 9999999999754 33578999976654
No 98
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.00 E-value=0.026 Score=48.61 Aligned_cols=44 Identities=27% Similarity=0.565 Sum_probs=34.2
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHh-hcCCCCCcccc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWL-QIKKICPICST 179 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl-~~~~sCPvCR~ 179 (195)
...|+.|..-++.+-+ ..-|+|.||.+||...| .....||.|.+
T Consensus 274 ~LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCccc
Confidence 3789999887776632 23689999999999777 45689999954
No 99
>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=93.99 E-value=0.039 Score=47.20 Aligned_cols=51 Identities=16% Similarity=0.393 Sum_probs=38.0
Q ss_pred ccccccccc-cCCceeEEecCccceechhhHHHHhh-cCCCCCccccccCCCC
Q 044318 135 RCVICQVEY-EEGESIVALLPCEHLYHSECISNWLQ-IKKICPICSTEASPPK 185 (195)
Q Consensus 135 ~C~ICl~~f-~~~~~~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvCR~~l~~~~ 185 (195)
.|++|.... ..++...+..+|+|..|..|+...+. ....||.|.+.+.-.+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence 599998664 44444444459999999999999885 4578999987665443
No 100
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.39 E-value=0.027 Score=47.41 Aligned_cols=54 Identities=30% Similarity=0.612 Sum_probs=36.5
Q ss_pred CCCCCcccccccccccCCceeEEecCc-----cceechhhHHHHhhcC--------CCCCccccccC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPC-----EHLYHSECISNWLQIK--------KICPICSTEAS 182 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C-----~H~FH~~CI~~Wl~~~--------~sCPvCR~~l~ 182 (195)
....+..|=||+..=++.......-|| .|..|..||..|+-.+ -+||.|+++..
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 355667899999875554322111255 3889999999999322 26999998754
No 101
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.94 E-value=0.025 Score=56.76 Aligned_cols=45 Identities=29% Similarity=0.569 Sum_probs=37.5
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
....|.||+........ + ..|||.||..|+..|+..+..||+|+.
T Consensus 1152 ~~~~c~ic~dil~~~~~--I-~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGG--I-AGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCC--e-eeechhHhhhHHHHHHHHhccCcchhh
Confidence 45589999998874322 2 379999999999999999999999984
No 102
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.88 E-value=0.049 Score=52.14 Aligned_cols=24 Identities=29% Similarity=0.948 Sum_probs=22.1
Q ss_pred cCccceechhhHHHHhhcCCCCCc
Q 044318 153 LPCEHLYHSECISNWLQIKKICPI 176 (195)
Q Consensus 153 ~~C~H~FH~~CI~~Wl~~~~sCPv 176 (195)
..|+|+-|..|.+.|+.....||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcCCcCCC
Confidence 379999999999999999999985
No 103
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.64 E-value=0.051 Score=46.64 Aligned_cols=29 Identities=21% Similarity=0.590 Sum_probs=22.8
Q ss_pred ccceechhhHHHHhh-------------cCCCCCccccccCC
Q 044318 155 CEHLYHSECISNWLQ-------------IKKICPICSTEASP 183 (195)
Q Consensus 155 C~H~FH~~CI~~Wl~-------------~~~sCPvCR~~l~~ 183 (195)
|....|.+||.+|+. .+.+||+||+.+.-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 667788999999984 34589999998753
No 104
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.23 E-value=0.11 Score=46.35 Aligned_cols=48 Identities=17% Similarity=0.408 Sum_probs=39.2
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcC---CCCCccccc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK---KICPICSTE 180 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~---~sCPvCR~~ 180 (195)
....|||=.+.-.+.....+| .|||+..++-|.+..+.. ..||.|=..
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ceeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 567899988777777777888 899999999999988654 479999543
No 105
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.26 E-value=0.1 Score=44.50 Aligned_cols=53 Identities=26% Similarity=0.610 Sum_probs=36.8
Q ss_pred CCcccccccccccCCceeEEecCcc-----ceechhhHHHHhh--cCCCCCccccccCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCE-----HLYHSECISNWLQ--IKKICPICSTEASPP 184 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~-----H~FH~~CI~~Wl~--~~~sCPvCR~~l~~~ 184 (195)
....|-||............+.||. +..|..|+..|+. .+..|.+|.......
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 3578999998765432111223664 5679999999997 556899998865544
No 106
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.81 E-value=0.17 Score=41.62 Aligned_cols=40 Identities=33% Similarity=0.814 Sum_probs=27.4
Q ss_pred cccccccccCCceeEEecCccc-eechhhHHHHhhcCCCCCccccccCC
Q 044318 136 CVICQVEYEEGESIVALLPCEH-LYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~H-~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
|-+|-+. ...+ .+.||.| .+|..|-.. .+.||+|+.....
T Consensus 161 Cr~C~~~---~~~V-lllPCrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATV-LLLPCRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceE-EeecccceEeccccccc----CccCCCCcChhhc
Confidence 7777543 3334 4459998 689999754 4569999976543
No 107
>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=90.54 E-value=0.12 Score=43.35 Aligned_cols=50 Identities=20% Similarity=0.499 Sum_probs=36.0
Q ss_pred CCcccccccccc-cCCceeEEecC-ccceechhhHHHHhhc-CCCCC--cccccc
Q 044318 132 GIDRCVICQVEY-EEGESIVALLP-CEHLYHSECISNWLQI-KKICP--ICSTEA 181 (195)
Q Consensus 132 ~~~~C~ICl~~f-~~~~~~~~L~~-C~H~FH~~CI~~Wl~~-~~sCP--vCR~~l 181 (195)
....||||..+. ..++...-..| |-|..|..|+.+-|.. ...|| -|.+-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 456899999775 34443333335 9999999999999965 46899 786644
No 108
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=90.43 E-value=0.05 Score=51.66 Aligned_cols=47 Identities=28% Similarity=0.724 Sum_probs=37.2
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhc---CCCCCccccccC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI---KKICPICSTEAS 182 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~---~~sCPvCR~~l~ 182 (195)
...+|+||+..+..+ .++.|-|.|+..|+..-|.. ...||+|+..+.
T Consensus 20 k~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 347899999998887 45599999999998776643 457999996554
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.23 E-value=0.11 Score=46.59 Aligned_cols=41 Identities=29% Similarity=0.656 Sum_probs=29.5
Q ss_pred CCCCcccccccccccCC-ceeEEecCccceechhhHHHHhhcC
Q 044318 130 KSGIDRCVICQVEYEEG-ESIVALLPCEHLYHSECISNWLQIK 171 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~-~~~~~L~~C~H~FH~~CI~~Wl~~~ 171 (195)
......|.||+...... ....+. .|+|.||.+|+.+.+..+
T Consensus 143 ~~~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 143 KLPKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhhh
Confidence 33567999999555444 333344 899999999999888643
No 110
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.11 E-value=0.077 Score=49.99 Aligned_cols=40 Identities=23% Similarity=0.419 Sum_probs=30.5
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcCCCCC
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICP 175 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCP 175 (195)
..|.||+..|......-+.+.|||+.|..|+....+ .+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 469999999876654444448999999999988654 4566
No 111
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.27 E-value=0.29 Score=47.46 Aligned_cols=53 Identities=28% Similarity=0.700 Sum_probs=37.5
Q ss_pred CCCCcccccccccccCCceeEEecCcc-----ceechhhHHHHhhcC--CCCCccccccCCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCE-----HLYHSECISNWLQIK--KICPICSTEASPP 184 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~-----H~FH~~CI~~Wl~~~--~sCPvCR~~l~~~ 184 (195)
......|-||..+=..++.+- -||+ ...|.+|+.+|+..+ +.|-+|+.++.-+
T Consensus 9 N~d~~~CRICr~e~~~d~pLf--hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk 68 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLF--HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK 68 (1175)
T ss_pred CccchhceeecCCCCCCCcCc--ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence 345589999997765554432 2444 457999999999644 5799999877543
No 112
>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=88.42 E-value=0.38 Score=30.43 Aligned_cols=43 Identities=26% Similarity=0.522 Sum_probs=19.6
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhc-----CCCCCccccc
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI-----KKICPICSTE 180 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~-----~~sCPvCR~~ 180 (195)
..|+|....+..+ ++.. .|.|.-|.+ +..|+.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3688888777665 3333 899975543 4556632 2469999864
No 113
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=87.52 E-value=0.18 Score=47.23 Aligned_cols=44 Identities=23% Similarity=0.578 Sum_probs=28.8
Q ss_pred CCccccccccc-----ccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 132 GIDRCVICQVE-----YEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~-----f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
....|.||... |. .+.++....|+++||+.|+.. .+.-||.|-+
T Consensus 510 ~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 45678888532 33 233344447999999999765 3334999943
No 114
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=86.42 E-value=0.34 Score=46.81 Aligned_cols=55 Identities=9% Similarity=0.069 Sum_probs=38.1
Q ss_pred CCcccccccccccCCce-eEEe--cCccceechhhHHHHhhc------CCCCCccccccCCCCC
Q 044318 132 GIDRCVICQVEYEEGES-IVAL--LPCEHLYHSECISNWLQI------KKICPICSTEASPPKN 186 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~-~~~L--~~C~H~FH~~CI~~Wl~~------~~sCPvCR~~l~~~~~ 186 (195)
....|.||...+..... ...+ -.|+|-||..||..|..+ +-.|++|..-|..+..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR 158 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR 158 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh
Confidence 45678888877766321 1222 249999999999999943 3568999887765543
No 115
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=86.16 E-value=1 Score=31.22 Aligned_cols=60 Identities=23% Similarity=0.388 Sum_probs=23.7
Q ss_pred CCCccccccccccc---CCceeEEecCccceechhhHHHHhh-cCCCCCccccccCCCCCCCcc
Q 044318 131 SGIDRCVICQVEYE---EGESIVALLPCEHLYHSECISNWLQ-IKKICPICSTEASPPKNHNNA 190 (195)
Q Consensus 131 ~~~~~C~ICl~~f~---~~~~~~~L~~C~H~FH~~CI~~Wl~-~~~sCPvCR~~l~~~~~~~~~ 190 (195)
.....|-||-+.+- .++..+....|+-..|+.|..-=.+ .+..||.|+++....+..+..
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kgsp~V 70 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKGSPRV 70 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT----
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccCCCCC
Confidence 35678999988873 4455555557888899999865443 457899999988766655543
No 116
>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=85.95 E-value=0.83 Score=29.16 Aligned_cols=43 Identities=23% Similarity=0.517 Sum_probs=22.2
Q ss_pred cccccccccCC------ceeEEecCccceechhhHHHHhhcCCCCCccc
Q 044318 136 CVICQVEYEEG------ESIVALLPCEHLYHSECISNWLQIKKICPICS 178 (195)
Q Consensus 136 C~ICl~~f~~~------~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR 178 (195)
|--|+..|..+ ....+.+.|++.||.+|=.--=..-..||-|-
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 55577777654 23456668999999999433223346799884
No 117
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=85.35 E-value=0.76 Score=40.12 Aligned_cols=52 Identities=17% Similarity=0.352 Sum_probs=39.0
Q ss_pred CcccccccccccCCc-eeEEecCccceechhhHHHHhhcCCCCCccccccCCCC
Q 044318 133 IDRCVICQVEYEEGE-SIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~-~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
...|+||-+...... ..... +|+|..|..|+..-...+.+||.||++.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~-~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPC-PCGFRLCLFCHKTISDGDGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCCcccccccccccc-cccccchhhhhhcccccCCCCCccCCccccCc
Confidence 478999998763332 33334 78888888999888888999999997665443
No 118
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=84.97 E-value=0.47 Score=39.05 Aligned_cols=49 Identities=29% Similarity=0.704 Sum_probs=38.1
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
....|.+|..-...+ +....|+-.||..|+..+++....||.|.--++.
T Consensus 180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~h 228 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWTH 228 (235)
T ss_pred HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhcccCc
Confidence 456899998776555 2333788899999999999999999999654443
No 119
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.27 E-value=1 Score=38.02 Aligned_cols=53 Identities=13% Similarity=0.296 Sum_probs=40.7
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
....|+|---.+...-....+.+|||+|-..-+.+. ...+|++|...+...+.
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDV 162 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCe
Confidence 446799987777766666677799999988887773 36789999998876543
No 120
>PF15295 CCDC50_N: Coiled-coil domain-containing protein 50 N-terminus
Probab=84.13 E-value=0.6 Score=35.62 Aligned_cols=20 Identities=45% Similarity=0.282 Sum_probs=16.6
Q ss_pred ccchHHHHHHHHHHHHhhhh
Q 044318 3 QVSSDFAMAMALQEQERLAT 22 (195)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~ 22 (195)
.|.-|++||.-||+||+-.+
T Consensus 22 ~V~EDgaLA~~LQeqEIe~h 41 (132)
T PF15295_consen 22 AVLEDGALAHRLQEQEIEHH 41 (132)
T ss_pred HHhhhHHHHHHHHHHHHHHH
Confidence 36789999999999998433
No 121
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.88 E-value=0.83 Score=37.24 Aligned_cols=42 Identities=26% Similarity=0.720 Sum_probs=30.2
Q ss_pred CCccccccccc-----ccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 132 GIDRCVICQVE-----YEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~-----f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
.+..|-||-.. |.. +.++....|+-+||+.|..+ ..||-|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 46788899753 223 24555668999999999862 67999954
No 122
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=82.94 E-value=0.92 Score=43.67 Aligned_cols=41 Identities=20% Similarity=0.441 Sum_probs=30.4
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCc
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPI 176 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPv 176 (195)
..|.+|--.++. .......|+|.-|..|+.+|+..+..||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 467788655432 22334479999999999999998888876
No 123
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.71 E-value=0.62 Score=42.39 Aligned_cols=39 Identities=33% Similarity=0.722 Sum_probs=30.9
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK 171 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~ 171 (195)
......|.||.+.+.. .+..+ .|+|.||..|+...+..+
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~-~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGL-GCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CCccccCCcccCCCcc--hhhhc-CCCcHHHHHHHHHHhhhe
Confidence 4566899999999866 33444 899999999999999643
No 124
>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=82.55 E-value=1.9 Score=28.05 Aligned_cols=47 Identities=19% Similarity=0.528 Sum_probs=31.9
Q ss_pred cccccccccccCCceeEEecCcc--ceechhhHHHHhhcCCCCCccccccCCC
Q 044318 134 DRCVICQVEYEEGESIVALLPCE--HLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~--H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
..|-.|-.++.....-.. -|. ..||..|....| ++.||.|...+...
T Consensus 6 pnCE~C~~dLp~~s~~A~--ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAY--ICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcce--EEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 346667666655432222 355 479999999876 78899999887654
No 125
>PLN02189 cellulose synthase
Probab=81.46 E-value=2.1 Score=42.84 Aligned_cols=61 Identities=23% Similarity=0.339 Sum_probs=43.4
Q ss_pred CCCCccccccccccc---CCceeEEecCccceechhhHHHHh-hcCCCCCccccccCCCCCCCcc
Q 044318 130 KSGIDRCVICQVEYE---EGESIVALLPCEHLYHSECISNWL-QIKKICPICSTEASPPKNHNNA 190 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~---~~~~~~~L~~C~H~FH~~CI~~Wl-~~~~sCPvCR~~l~~~~~~~~~ 190 (195)
......|.||-+.+. .++..+...-|+-..|+.|.+-=. ..+..||.|+++....+..+..
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~kgs~~v 95 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLKGSPRV 95 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCCCc
Confidence 335569999998873 455566665699999999994322 2356899999998866655443
No 126
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.33 E-value=0.62 Score=44.99 Aligned_cols=44 Identities=32% Similarity=0.603 Sum_probs=31.5
Q ss_pred CcccccccccccCC----ceeEEecCccceechhhHHHHhhcCCCCCccc
Q 044318 133 IDRCVICQVEYEEG----ESIVALLPCEHLYHSECISNWLQIKKICPICS 178 (195)
Q Consensus 133 ~~~C~ICl~~f~~~----~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR 178 (195)
...|.-|+...... ..++++ .|+|.||+.|+..-.-+++ |-.|.
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhcc-cChhh
Confidence 45899998876432 345666 9999999999987765444 66654
No 127
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.26 E-value=0.94 Score=40.59 Aligned_cols=45 Identities=22% Similarity=0.507 Sum_probs=33.3
Q ss_pred CCcccccccccccCCc--eeEEecCccceechhhHHHHhhcCCCCCcc
Q 044318 132 GIDRCVICQVEYEEGE--SIVALLPCEHLYHSECISNWLQIKKICPIC 177 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~--~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvC 177 (195)
....|++|...+.-.. .-... .|||.||..|...|......|.-|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~C-rC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTC-RCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEe-eccccchhhcCcchhhCCccccCc
Confidence 3568999987764433 22444 599999999999998877777555
No 128
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=81.09 E-value=1.5 Score=38.25 Aligned_cols=55 Identities=27% Similarity=0.648 Sum_probs=36.8
Q ss_pred CCccccccccccc---------------CCceeEEecCccceechhhHHHHhhc---------CCCCCccccccCCCCC
Q 044318 132 GIDRCVICQVEYE---------------EGESIVALLPCEHLYHSECISNWLQI---------KKICPICSTEASPPKN 186 (195)
Q Consensus 132 ~~~~C~ICl~~f~---------------~~~~~~~L~~C~H~FH~~CI~~Wl~~---------~~sCPvCR~~l~~~~~ 186 (195)
...+|++|+..-. .+.......||||+--..-..-|.+. +..||.|-+.+.....
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~~ 418 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQG 418 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCCc
Confidence 4679999986411 11111244589998888888888864 3479999887765443
No 129
>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=81.02 E-value=2.3 Score=26.71 Aligned_cols=40 Identities=20% Similarity=0.540 Sum_probs=28.7
Q ss_pred cccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCC
Q 044318 136 CVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 136 C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
|..|...+.....++. .-+..||..|+ +|-.|+++|....
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEcccc--------ccCCCCCccCCCe
Confidence 6778888776554332 46788999886 6899988886553
No 130
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=80.75 E-value=1.6 Score=27.02 Aligned_cols=44 Identities=23% Similarity=0.587 Sum_probs=29.9
Q ss_pred ccccccccccCCceeEEecCccceechhhHHHHhh------cCCCCCcccc
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECISNWLQ------IKKICPICST 179 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~------~~~sCPvCR~ 179 (195)
.|.||...- ....++.--.|+..||..|+..-.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 488998843 3344444558999999999865442 2357888864
No 131
>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 PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=79.45 E-value=2.7 Score=42.23 Aligned_cols=58 Identities=26% Similarity=0.451 Sum_probs=42.6
Q ss_pred CCcccccccccc---cCCceeEEecCccceechhhHHHHh--hcCCCCCccccccCCCCCCCcc
Q 044318 132 GIDRCVICQVEY---EEGESIVALLPCEHLYHSECISNWL--QIKKICPICSTEASPPKNHNNA 190 (195)
Q Consensus 132 ~~~~C~ICl~~f---~~~~~~~~L~~C~H~FH~~CI~~Wl--~~~~sCPvCR~~l~~~~~~~~~ 190 (195)
....|-||-+++ .+++..+...-|+-..|+.|.+ += ..+..||.|+++....+..+..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktrYkr~kgsprv 78 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKTKYKRHKGSPAI 78 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCchhhhcCCCCc
Confidence 456899999887 3455666666799999999983 33 3456899999998866555443
No 133
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=78.47 E-value=1.1 Score=40.82 Aligned_cols=35 Identities=31% Similarity=0.614 Sum_probs=28.8
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI 170 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~ 170 (195)
+...|+||-.-|+++ +.| ||+|..|..|...-+.+
T Consensus 3 eelkc~vc~~f~~ep---iil-~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 3 EELKCPVCGSFYREP---IIL-PCSHNLCQACARNILVQ 37 (699)
T ss_pred ccccCceehhhccCc---eEe-ecccHHHHHHHHhhccc
Confidence 456899999999887 455 99999999999877643
No 134
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.39 E-value=3.9 Score=30.35 Aligned_cols=46 Identities=17% Similarity=0.366 Sum_probs=34.9
Q ss_pred CcccccccccccCC----------ceeEEecCccceechhhHHHHhhcCCCCCccc
Q 044318 133 IDRCVICQVEYEEG----------ESIVALLPCEHLYHSECISNWLQIKKICPICS 178 (195)
Q Consensus 133 ~~~C~ICl~~f~~~----------~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR 178 (195)
...|--|+..|... ........|++.||.+|=.-|-..-..||-|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 45699999998643 12234568999999999777766667899996
No 135
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.25 E-value=1.5 Score=37.79 Aligned_cols=40 Identities=13% Similarity=0.238 Sum_probs=30.0
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK 171 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~ 171 (195)
....|.+|.+.+++...+..-.-=.|.||..|-++-++..
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 4478999999998875543222237999999999998754
No 136
>PLN02436 cellulose synthase A
Probab=78.06 E-value=3.1 Score=41.79 Aligned_cols=60 Identities=25% Similarity=0.385 Sum_probs=43.4
Q ss_pred CCCcccccccccc---cCCceeEEecCccceechhhHHHHh-hcCCCCCccccccCCCCCCCcc
Q 044318 131 SGIDRCVICQVEY---EEGESIVALLPCEHLYHSECISNWL-QIKKICPICSTEASPPKNHNNA 190 (195)
Q Consensus 131 ~~~~~C~ICl~~f---~~~~~~~~L~~C~H~FH~~CI~~Wl-~~~~sCPvCR~~l~~~~~~~~~ 190 (195)
.....|-||-+++ .+++..+...-|+-..|+.|.+-=. ..+..||.|+++....+..+..
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~kgs~~~ 97 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIKGSPRV 97 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCCCc
Confidence 3556999999886 4566667775699999999994322 2346899999998866544443
No 137
>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=76.92 E-value=2.9 Score=23.68 Aligned_cols=38 Identities=24% Similarity=0.656 Sum_probs=25.5
Q ss_pred ccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
.|..|-..+......+. .=+..||..|+ .|..|+.+|.
T Consensus 1 ~C~~C~~~i~~~~~~~~--~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLR--ALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEE--eCCccccccCC--------CCcccCCcCc
Confidence 37788887766533222 34678998886 6888887663
No 138
>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=76.88 E-value=1.6 Score=28.88 Aligned_cols=38 Identities=21% Similarity=0.379 Sum_probs=20.8
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHHHh
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWL 168 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl 168 (195)
.....|.+|...|..-..-.-.-.||++||..|.....
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 45678999999996544434444799999999987665
No 139
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.54 E-value=1.4 Score=41.05 Aligned_cols=49 Identities=33% Similarity=0.805 Sum_probs=37.6
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
......|.||+... ..+. ++|. |..|+.+|+..+..||.|+..+.....
T Consensus 476 ~~~~~~~~~~~~~~----~~~~-~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARI-TPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred hcccCcchHHHHHH----Hhcc-cccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 33567899998887 2223 3788 899999999999999999887765433
No 140
>PLN02400 cellulose synthase
Probab=76.28 E-value=3.1 Score=41.84 Aligned_cols=59 Identities=24% Similarity=0.422 Sum_probs=43.0
Q ss_pred CCCcccccccccc---cCCceeEEecCccceechhhHHHHh--hcCCCCCccccccCCCCCCCcc
Q 044318 131 SGIDRCVICQVEY---EEGESIVALLPCEHLYHSECISNWL--QIKKICPICSTEASPPKNHNNA 190 (195)
Q Consensus 131 ~~~~~C~ICl~~f---~~~~~~~~L~~C~H~FH~~CI~~Wl--~~~~sCPvCR~~l~~~~~~~~~ 190 (195)
.....|-||-+++ .+++..+...-|+-..|+.|.+ += ..+..||.||++....+..+..
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERkeGnq~CPQCkTrYkR~KgsprV 97 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERKDGTQCCPQCKTRYRRHKGSPRV 97 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecccCCccCcccCCccccccCCCCC
Confidence 3556999999887 3455566666799899999983 32 2346899999999866655543
No 141
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=75.68 E-value=1.7 Score=37.06 Aligned_cols=51 Identities=25% Similarity=0.494 Sum_probs=35.6
Q ss_pred CCCcccccccccccCCceeEEe---cCccceechhhHHHHhh---------cCCCCCcccccc
Q 044318 131 SGIDRCVICQVEYEEGESIVAL---LPCEHLYHSECISNWLQ---------IKKICPICSTEA 181 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L---~~C~H~FH~~CI~~Wl~---------~~~sCPvCR~~l 181 (195)
.....|-+|...+...+..+.. +.|.-.+|..|+..-+. ..+.||.|++.+
T Consensus 180 ~~~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 180 ALNVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred ccchhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 3447999999999544433322 24788899999998442 246899999854
No 142
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.96 E-value=1.3 Score=38.34 Aligned_cols=53 Identities=23% Similarity=0.416 Sum_probs=41.7
Q ss_pred CCCCCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
.......|-||...+..+.. . -.|.|.|+..|...|....+.||.||....+.
T Consensus 101 ~~~~~~~~~~~~g~l~vpt~--~-qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv 153 (324)
T KOG0824|consen 101 FQQDHDICYICYGKLTVPTR--I-QGCWHQFCYVCPKSNFAMGNDCPDCRGKISPV 153 (324)
T ss_pred ccCCccceeeeeeeEEeccc--c-cCceeeeeecCCchhhhhhhccchhhcCcCce
Confidence 34456789999988876633 2 26999999999999999999999998766543
No 143
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=73.67 E-value=2.3 Score=25.02 Aligned_cols=26 Identities=23% Similarity=0.603 Sum_probs=16.5
Q ss_pred ccccccccccCCce-------eEEecCccceec
Q 044318 135 RCVICQVEYEEGES-------IVALLPCEHLYH 160 (195)
Q Consensus 135 ~C~ICl~~f~~~~~-------~~~L~~C~H~FH 160 (195)
.|+-|...|..++. .+....|+|+|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 68888888865542 233446777774
No 144
>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=73.21 E-value=1.1 Score=40.12 Aligned_cols=54 Identities=26% Similarity=0.578 Sum_probs=0.0
Q ss_pred CCccccccccccc-------------C--CceeEEecCccceechhhHHHHhhc---------CCCCCccccccCCCC
Q 044318 132 GIDRCVICQVEYE-------------E--GESIVALLPCEHLYHSECISNWLQI---------KKICPICSTEASPPK 185 (195)
Q Consensus 132 ~~~~C~ICl~~f~-------------~--~~~~~~L~~C~H~FH~~CI~~Wl~~---------~~sCPvCR~~l~~~~ 185 (195)
....|++|+..-. . +.......||||+--.....-|-+. +..||.|-.+|....
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~ 404 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQ 404 (416)
T ss_dssp ------------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCC
Confidence 3678999985421 0 0111234589999988899999864 246999998886543
No 145
>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 PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=72.05 E-value=1.1 Score=38.45 Aligned_cols=50 Identities=18% Similarity=0.281 Sum_probs=22.8
Q ss_pred CCCCcccccccccccCCceeEEec--CccceechhhHHHHhhcCCCCCccccc
Q 044318 130 KSGIDRCVICQVEYEEGESIVALL--PCEHLYHSECISNWLQIKKICPICSTE 180 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~--~C~H~FH~~CI~~Wl~~~~sCPvCR~~ 180 (195)
......||||=..-.... +..-. .=.|.+|.-|-..|--....||.|-..
T Consensus 169 ~w~~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 169 GWQRGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -TT-SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CccCCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 344579999976533221 11110 136789999999999888899999653
No 147
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=72.01 E-value=3.4 Score=36.11 Aligned_cols=47 Identities=23% Similarity=0.398 Sum_probs=36.0
Q ss_pred CCCcccccccccccCCceeEEecCccceechhhHHHHhhcC---CCCCccc
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK---KICPICS 178 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~---~sCPvCR 178 (195)
.....||+=-+.-.+....+++ .|||+.-+.-+....+.. ..||.|-
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVML-ECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cceeeccccHhhhcccCCCeee-eccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 3457899876666666667777 899999999998876543 5799994
No 148
>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=71.26 E-value=2 Score=28.78 Aligned_cols=12 Identities=25% Similarity=0.919 Sum_probs=8.9
Q ss_pred eechhhHHHHhh
Q 044318 158 LYHSECISNWLQ 169 (195)
Q Consensus 158 ~FH~~CI~~Wl~ 169 (195)
-||+.||.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999995
No 149
>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=69.11 E-value=1.6 Score=39.21 Aligned_cols=26 Identities=35% Similarity=0.833 Sum_probs=0.0
Q ss_pred cCccceechhhHHHHhh------cCCCCCcccccc
Q 044318 153 LPCEHLYHSECISNWLQ------IKKICPICSTEA 181 (195)
Q Consensus 153 ~~C~H~FH~~CI~~Wl~------~~~sCPvCR~~l 181 (195)
+.|||++. ...|-. ..+.||+||..-
T Consensus 307 l~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 307 LNCGHVHG---YHNWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp -----------------------------------
T ss_pred ccccceee---ecccccccccccccccCCCccccC
Confidence 48999876 346653 246899999753
No 150
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.02 E-value=3.4 Score=34.93 Aligned_cols=35 Identities=17% Similarity=0.346 Sum_probs=29.4
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHh
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWL 168 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl 168 (195)
...-+-|+.||..+.++ +++|=||+|+++||-+++
T Consensus 40 iK~FdcCsLtLqPc~dP----vit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDP----VITPDGYLFDREAILEYI 74 (303)
T ss_pred cCCcceeeeecccccCC----ccCCCCeeeeHHHHHHHH
Confidence 33557899999999988 556889999999998887
No 151
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=68.99 E-value=3.9 Score=23.94 Aligned_cols=26 Identities=31% Similarity=0.691 Sum_probs=15.8
Q ss_pred ccccccccccCCce-------eEEecCccceec
Q 044318 135 RCVICQVEYEEGES-------IVALLPCEHLYH 160 (195)
Q Consensus 135 ~C~ICl~~f~~~~~-------~~~L~~C~H~FH 160 (195)
.|+=|...|..++. .+....|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 57788877765442 133346777764
No 152
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=67.78 E-value=3.6 Score=35.98 Aligned_cols=51 Identities=12% Similarity=0.171 Sum_probs=37.5
Q ss_pred CCCCCcccccccccccCCceeEEecCccc-eechhhHHHH-hhcCCCCCccccccCC
Q 044318 129 TKSGIDRCVICQVEYEEGESIVALLPCEH-LYHSECISNW-LQIKKICPICSTEASP 183 (195)
Q Consensus 129 ~~~~~~~C~ICl~~f~~~~~~~~L~~C~H-~FH~~CI~~W-l~~~~sCPvCR~~l~~ 183 (195)
.......|.+|+.. ..+..+.+|+| +||..|..+- +++..+||+|-+.+..
T Consensus 132 ~~~~ti~~iqq~tn----t~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~r 184 (394)
T KOG2113|consen 132 PKGATIKRIQQFTN----TYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVTR 184 (394)
T ss_pred cccCccchheeccc----ceEeeeccCCCceEEEecCCcchhhhccccchhhhhhhh
Confidence 44556789998743 44556669998 8999998766 6777889999876543
No 153
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=67.63 E-value=9.2 Score=38.49 Aligned_cols=59 Identities=22% Similarity=0.412 Sum_probs=42.1
Q ss_pred CCCccccccccccc---CCceeEEecCccceechhhHHHHh-hcCCCCCccccccCCCCCCCc
Q 044318 131 SGIDRCVICQVEYE---EGESIVALLPCEHLYHSECISNWL-QIKKICPICSTEASPPKNHNN 189 (195)
Q Consensus 131 ~~~~~C~ICl~~f~---~~~~~~~L~~C~H~FH~~CI~~Wl-~~~~sCPvCR~~l~~~~~~~~ 189 (195)
-....|-||-+.+. +++..+...-|+-..|+.|.+-=. ..+..||.|+++....+..+.
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~~~~~~ 75 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRHKGCPR 75 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCCC
Confidence 35678999998863 455556666788899999994322 235689999998885554443
No 154
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=67.00 E-value=7.3 Score=34.24 Aligned_cols=47 Identities=21% Similarity=0.429 Sum_probs=32.9
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
+...|-.|..+.......+.- .|.|+||.+|=.--=.+-..||-|-.
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 445699997776665544444 89999999995443344467999973
No 155
>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=66.61 E-value=4.4 Score=23.10 Aligned_cols=20 Identities=30% Similarity=0.860 Sum_probs=13.5
Q ss_pred CccceechhhHHHHhhcCCCCCcccc
Q 044318 154 PCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 154 ~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
.|||+|-..- ....||+|..
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCC
Confidence 5777765443 3448999976
No 156
>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=66.25 E-value=3.7 Score=25.88 Aligned_cols=37 Identities=19% Similarity=0.415 Sum_probs=26.6
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhh
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQ 169 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~ 169 (195)
...|.+|-..|.....-.....||++||..|......
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 3578999888865443333347999999999877654
No 157
>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=65.86 E-value=1.3 Score=30.07 Aligned_cols=40 Identities=25% Similarity=0.528 Sum_probs=21.9
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
..||.|...+... . +|++|..|-.. +.....||-|..+|.
T Consensus 2 ~~CP~C~~~L~~~-------~-~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ-------G-GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE-------T-TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe-------C-CEEECcccccc-ceecccCCCcccHHH
Confidence 4689998664332 2 78888888776 455667999987763
No 158
>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=65.07 E-value=2.4 Score=26.87 Aligned_cols=12 Identities=25% Similarity=0.825 Sum_probs=6.2
Q ss_pred CCCCccccccCC
Q 044318 172 KICPICSTEASP 183 (195)
Q Consensus 172 ~sCPvCR~~l~~ 183 (195)
..||+|.+++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999988753
No 159
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.48 E-value=1.5 Score=37.46 Aligned_cols=48 Identities=31% Similarity=0.538 Sum_probs=36.2
Q ss_pred CCcccccccccccCC-c--eeEEecC--------ccceechhhHHHHhhcC-CCCCccccc
Q 044318 132 GIDRCVICQVEYEEG-E--SIVALLP--------CEHLYHSECISNWLQIK-KICPICSTE 180 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~-~--~~~~L~~--------C~H~FH~~CI~~Wl~~~-~sCPvCR~~ 180 (195)
....|.||...|... . ..+++ . |+|..|..|+..-+.+. ..||.||..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl-~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVL-SLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHH-HHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 346799999999732 2 22333 5 99999999999988655 589999874
No 160
>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=61.17 E-value=11 Score=27.57 Aligned_cols=24 Identities=21% Similarity=0.491 Sum_probs=19.0
Q ss_pred cceechhhHHHHhhc---------CCCCCcccc
Q 044318 156 EHLYHSECISNWLQI---------KKICPICST 179 (195)
Q Consensus 156 ~H~FH~~CI~~Wl~~---------~~sCPvCR~ 179 (195)
.=.||..||..++.. ...||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988842 246999986
No 161
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=61.09 E-value=2.1 Score=22.57 Aligned_cols=10 Identities=50% Similarity=1.132 Sum_probs=5.0
Q ss_pred CCCCCccccc
Q 044318 171 KKICPICSTE 180 (195)
Q Consensus 171 ~~sCPvCR~~ 180 (195)
.+.||.|.++
T Consensus 13 ~~fC~~CG~~ 22 (23)
T PF13240_consen 13 AKFCPNCGTP 22 (23)
T ss_pred CcchhhhCCc
Confidence 3445555543
No 162
>PLN02195 cellulose synthase A
Probab=58.53 E-value=13 Score=37.22 Aligned_cols=51 Identities=27% Similarity=0.535 Sum_probs=38.0
Q ss_pred CCCccccccccccc---CCceeEEecCccceechhhHHHHhh--cCCCCCccccccC
Q 044318 131 SGIDRCVICQVEYE---EGESIVALLPCEHLYHSECISNWLQ--IKKICPICSTEAS 182 (195)
Q Consensus 131 ~~~~~C~ICl~~f~---~~~~~~~L~~C~H~FH~~CI~~Wl~--~~~sCPvCR~~l~ 182 (195)
.....|-||-+.+. .++..+...-|+-..|+.|. ++=+ .+..||.|+++..
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 35668999988763 44555666689999999998 3332 3468999999887
No 163
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=57.58 E-value=5 Score=25.60 Aligned_cols=19 Identities=21% Similarity=0.506 Sum_probs=15.0
Q ss_pred eEEecCccceechhhHHHH
Q 044318 149 IVALLPCEHLYHSECISNW 167 (195)
Q Consensus 149 ~~~L~~C~H~FH~~CI~~W 167 (195)
.+....|+|.||..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3444479999999999888
No 164
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.19 E-value=13 Score=25.55 Aligned_cols=29 Identities=24% Similarity=0.590 Sum_probs=22.7
Q ss_pred cceechhhHHHHhhcCCCCCccccccCCCCC
Q 044318 156 EHLYHSECISNWLQIKKICPICSTEASPPKN 186 (195)
Q Consensus 156 ~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~ 186 (195)
.|.||.+|...- .+..||.|...+.....
T Consensus 28 EcTFCadCae~~--l~g~CPnCGGelv~RP~ 56 (84)
T COG3813 28 ECTFCADCAENR--LHGLCPNCGGELVARPI 56 (84)
T ss_pred eeehhHhHHHHh--hcCcCCCCCchhhcCcC
Confidence 489999999863 47899999888765543
No 165
>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=55.60 E-value=11 Score=27.89 Aligned_cols=46 Identities=17% Similarity=0.469 Sum_probs=29.2
Q ss_pred CCccccccccccc--CCceeEEecCccceechhhHHHHhhcC--CCCCcccc
Q 044318 132 GIDRCVICQVEYE--EGESIVALLPCEHLYHSECISNWLQIK--KICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~f~--~~~~~~~L~~C~H~FH~~CI~~Wl~~~--~sCPvCR~ 179 (195)
+...|.+|...|. .+.. .....|+|.+|..|-.. .... -.|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~-~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRG-RVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTC-EEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCC-CcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 5679999998763 2223 44458999999999765 2112 24888864
No 166
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=53.73 E-value=8.5 Score=37.74 Aligned_cols=50 Identities=14% Similarity=0.298 Sum_probs=34.1
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHh-h-----cCCCCCcccccc
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWL-Q-----IKKICPICSTEA 181 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl-~-----~~~sCPvCR~~l 181 (195)
......|-.|......-. -+...|+|.||..|+..|. + ....|+.|+..-
T Consensus 226 ~g~~~mC~~C~~tlfn~h--w~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C 281 (889)
T KOG1356|consen 226 KGIREMCDRCETTLFNIH--WRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKC 281 (889)
T ss_pred cCcchhhhhhccccccee--EEccccCCeeeecchhhccccchHhHhhhhhhHHHHhc
Confidence 445678999987754322 2345899999999999995 2 124677776543
No 167
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=52.22 E-value=6.6 Score=30.83 Aligned_cols=45 Identities=22% Similarity=0.269 Sum_probs=29.0
Q ss_pred ccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCC
Q 044318 137 VICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 137 ~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
.||++.-......-.-+.=.+.||..|-.+-+. .||.|.+++...
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCCc
Confidence 477776554433332223457799999877543 699999888654
No 168
>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=52.06 E-value=6.5 Score=21.39 Aligned_cols=8 Identities=38% Similarity=0.837 Sum_probs=3.5
Q ss_pred cccccccc
Q 044318 136 CVICQVEY 143 (195)
Q Consensus 136 C~ICl~~f 143 (195)
||-|...+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 44444443
No 169
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=51.92 E-value=2.3 Score=26.95 Aligned_cols=40 Identities=28% Similarity=0.556 Sum_probs=20.9
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccccc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEA 181 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l 181 (195)
...||.|-..|... .| +.|+.-...-. .....||+|...+
T Consensus 2 ~f~CP~C~~~~~~~----~L--~~H~~~~H~~~---~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----SL--VEHCEDEHRSE---SKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHH----HH--HHHHHhHCcCC---CCCccCCCchhhh
Confidence 35799998755443 23 34422111111 1235799998643
No 170
>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=50.97 E-value=9 Score=25.13 Aligned_cols=16 Identities=31% Similarity=0.841 Sum_probs=12.7
Q ss_pred cCCCCCccccccCCCC
Q 044318 170 IKKICPICSTEASPPK 185 (195)
Q Consensus 170 ~~~sCPvCR~~l~~~~ 185 (195)
.|+.||+|.+++++..
T Consensus 2 ~HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDE 17 (59)
T ss_pred CCCcCCcCCCcCCcch
Confidence 4788999999887653
No 171
>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=50.85 E-value=6.4 Score=23.72 Aligned_cols=26 Identities=19% Similarity=0.321 Sum_probs=16.5
Q ss_pred cCccceechhhHHHHhhcCCCCCcccc
Q 044318 153 LPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 153 ~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
..|||.|-...-..= .....||.|+.
T Consensus 9 ~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 9 EECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 379998865432111 23467999987
No 172
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=50.30 E-value=4.2 Score=35.13 Aligned_cols=43 Identities=21% Similarity=0.482 Sum_probs=30.0
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
-...|+-|...+.....++. .=.|+||..|. .|-+|++.+...
T Consensus 91 fGTKCsaC~~GIpPtqVVRk--Aqd~VYHl~CF--------~C~iC~R~L~TG 133 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRK--AQDFVYHLHCF--------ACFICKRQLATG 133 (383)
T ss_pred hCCcchhhcCCCChHHHHHH--hhcceeehhhh--------hhHhhhcccccC
Confidence 35678888888765544442 35799999997 477887776544
No 173
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=50.10 E-value=4.9 Score=33.74 Aligned_cols=52 Identities=25% Similarity=0.409 Sum_probs=35.9
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcC--CCCCc--cccccCCCCCC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK--KICPI--CSTEASPPKNH 187 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~--~sCPv--CR~~l~~~~~~ 187 (195)
.-.|+|-+..+.-+ +.. .+|.|.|-++-|...++.. ..||. |.+.+......
T Consensus 189 ~nrCpitl~p~~~p--ils-~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~~~v 244 (275)
T COG5627 189 SNRCPITLNPDFYP--ILS-SKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVDPYV 244 (275)
T ss_pred cccCCcccCcchhH--HHH-hhhcccccHHHHHHHhcCCceeecchhhcchheeccchh
Confidence 45899988776554 222 3899999999999999844 56774 55544444333
No 174
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=50.08 E-value=5.9 Score=35.67 Aligned_cols=33 Identities=24% Similarity=0.624 Sum_probs=23.2
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHH
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNW 167 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~W 167 (195)
..+|+||+-.+-.....++ -|.-..|.+|+.+.
T Consensus 74 ~~ecpicflyyps~~n~~r--cC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLVR--CCSETICGECFAPF 106 (482)
T ss_pred cccCceeeeecccccchhh--hhccchhhhheecc
Confidence 3689999988865433332 47888888887654
No 175
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=49.14 E-value=12 Score=23.68 Aligned_cols=23 Identities=26% Similarity=0.713 Sum_probs=13.9
Q ss_pred CccceechhhHHHHhhcCCCCCcc
Q 044318 154 PCEHLYHSECISNWLQIKKICPIC 177 (195)
Q Consensus 154 ~C~H~FH~~CI~~Wl~~~~sCPvC 177 (195)
.|||.|-.. |..-......||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 567766543 33323566789988
No 176
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=48.55 E-value=6.6 Score=34.17 Aligned_cols=47 Identities=17% Similarity=0.318 Sum_probs=30.6
Q ss_pred CCcccccccccccCCceeEEe---cCccceechhhHHHHhhcCCCCCcccc
Q 044318 132 GIDRCVICQVEYEEGESIVAL---LPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L---~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
....||||-..-.... ++.. ..=.|.+|.-|-..|--.+..||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4558999976632210 1100 012366888899999888889999975
No 177
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.15 E-value=8 Score=27.68 Aligned_cols=12 Identities=33% Similarity=1.002 Sum_probs=10.8
Q ss_pred eechhhHHHHhh
Q 044318 158 LYHSECISNWLQ 169 (195)
Q Consensus 158 ~FH~~CI~~Wl~ 169 (195)
-||+.||..|++
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999996
No 178
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=45.06 E-value=16 Score=30.51 Aligned_cols=26 Identities=19% Similarity=0.562 Sum_probs=18.0
Q ss_pred chhhHHHHhhcCCCCCccccccCCCC
Q 044318 160 HSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 160 H~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
|..|-..-=++...||+|++.-.+.+
T Consensus 197 C~sC~qqIHRNAPiCPlCK~KsRSrn 222 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAKSRSRN 222 (230)
T ss_pred hHhHHHHHhcCCCCCcccccccccCC
Confidence 55666554466789999998765554
No 179
>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=44.77 E-value=11 Score=26.90 Aligned_cols=39 Identities=23% Similarity=0.582 Sum_probs=28.6
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCCC
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
...|-||-..+. .=+|.||..|-.+ ++.|.+|.+.+...
T Consensus 44 ~~~C~~CK~~v~---------q~g~~YCq~CAYk----kGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVH---------QPGAKYCQTCAYK----KGICAMCGKKILDT 82 (90)
T ss_pred Cccccccccccc---------cCCCccChhhhcc----cCcccccCCeeccc
Confidence 468999964421 3477899999644 78999999888544
No 180
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=44.77 E-value=21 Score=26.49 Aligned_cols=32 Identities=16% Similarity=0.227 Sum_probs=21.8
Q ss_pred EEecCccceechhhHHHHhhcCCCCCccccccCCCCCC
Q 044318 150 VALLPCEHLYHSECISNWLQIKKICPICSTEASPPKNH 187 (195)
Q Consensus 150 ~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~~~ 187 (195)
+..+.|+| ..+.+.+...|+.|++++.-.+..
T Consensus 70 V~CP~C~K------~TKmLGr~D~CM~C~~pLTLd~~l 101 (114)
T PF11023_consen 70 VECPNCGK------QTKMLGRVDACMHCKEPLTLDPSL 101 (114)
T ss_pred eECCCCCC------hHhhhchhhccCcCCCcCccCchh
Confidence 34456777 445666677899999998755443
No 181
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=44.70 E-value=15 Score=31.99 Aligned_cols=46 Identities=20% Similarity=0.413 Sum_probs=31.3
Q ss_pred CCcccccccccccCCceeEEe---cCccceechhhHHHHhhcCCCCCcccc
Q 044318 132 GIDRCVICQVEYEEGESIVAL---LPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L---~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
....||||=..-... ++.+ ..=.|.+|.-|-..|--.+..||.|..
T Consensus 186 ~~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 567899997663222 1111 122466888899999888889999975
No 182
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=43.10 E-value=11 Score=36.13 Aligned_cols=27 Identities=33% Similarity=0.869 Sum_probs=21.4
Q ss_pred CccceechhhHHHHhhcC-----CCCCccccc
Q 044318 154 PCEHLYHSECISNWLQIK-----KICPICSTE 180 (195)
Q Consensus 154 ~C~H~FH~~CI~~Wl~~~-----~sCPvCR~~ 180 (195)
.|+-.||..|+..|++.. ..||-||.-
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 588999999999999643 358888753
No 183
>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=42.95 E-value=20 Score=19.68 Aligned_cols=29 Identities=24% Similarity=0.503 Sum_probs=10.7
Q ss_pred ccccccccccCCceeEEecCccceechhhH
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECI 164 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI 164 (195)
.|.+|...... .....-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 57788777655 344455588888898885
No 184
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=42.80 E-value=32 Score=33.73 Aligned_cols=47 Identities=28% Similarity=0.502 Sum_probs=29.6
Q ss_pred CCcccccccccccC----Cc-----eeEEecCccceechhhHHHHhhcCCCCCccccccC
Q 044318 132 GIDRCVICQVEYEE----GE-----SIVALLPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 132 ~~~~C~ICl~~f~~----~~-----~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
....|+-|...|.. +. ..-..+.|.|.-|..=|.+ .+.||+|...+.
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChhh
Confidence 34567777777632 11 1123356889888776644 578999976553
No 185
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=42.71 E-value=18 Score=23.84 Aligned_cols=12 Identities=42% Similarity=1.157 Sum_probs=8.0
Q ss_pred CCCCCccccccC
Q 044318 171 KKICPICSTEAS 182 (195)
Q Consensus 171 ~~sCPvCR~~l~ 182 (195)
+..||+|++.+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 456788877663
No 186
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=42.69 E-value=14 Score=26.60 Aligned_cols=33 Identities=24% Similarity=0.511 Sum_probs=21.7
Q ss_pred CCcccccccccccCCceeEEe-cCccceechhhHHH
Q 044318 132 GIDRCVICQVEYEEGESIVAL-LPCEHLYHSECISN 166 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L-~~C~H~FH~~CI~~ 166 (195)
....|.||... .+..+.-. ..|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 46799999877 33221111 13778999999865
No 187
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.05 E-value=9.2 Score=34.81 Aligned_cols=39 Identities=18% Similarity=0.413 Sum_probs=27.1
Q ss_pred CcccccccccccCCceeE--Ee--cCccceechhhHHHHhhcC
Q 044318 133 IDRCVICQVEYEEGESIV--AL--LPCEHLYHSECISNWLQIK 171 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~--~L--~~C~H~FH~~CI~~Wl~~~ 171 (195)
...||.|...+....... .. .+|.|.||..|+..|....
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 345999998886554211 11 1599999999999987653
No 188
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=41.17 E-value=18 Score=30.31 Aligned_cols=27 Identities=19% Similarity=0.500 Sum_probs=18.8
Q ss_pred echhhHHHHhhcCCCCCccccccCCCC
Q 044318 159 YHSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 159 FH~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
.|..|-.+--++...||+|+....+.+
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrN 277 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRN 277 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCC
Confidence 456666665567789999988765443
No 189
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=41.14 E-value=16 Score=30.55 Aligned_cols=25 Identities=20% Similarity=0.422 Sum_probs=18.5
Q ss_pred cccccccccccCCceeEEecCcccee
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLY 159 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~F 159 (195)
..||||...+......... ..+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C-~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWIC-PQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEc-CCCCCC
Confidence 4799999999755554444 568988
No 190
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=41.04 E-value=16 Score=24.03 Aligned_cols=14 Identities=21% Similarity=0.814 Sum_probs=10.5
Q ss_pred CCCCccccccCCCC
Q 044318 172 KICPICSTEASPPK 185 (195)
Q Consensus 172 ~sCPvCR~~l~~~~ 185 (195)
..||+|+.+.....
T Consensus 40 p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 40 PVCPLCKSPMVSGT 53 (59)
T ss_pred ccCCCcCCccccce
Confidence 57999988776554
No 191
>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=40.84 E-value=13 Score=20.08 Aligned_cols=10 Identities=40% Similarity=1.095 Sum_probs=7.8
Q ss_pred CCCccccccC
Q 044318 173 ICPICSTEAS 182 (195)
Q Consensus 173 sCPvCR~~l~ 182 (195)
.||+|.+.+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5999987763
No 192
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, 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), 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=40.69 E-value=21 Score=20.48 Aligned_cols=21 Identities=29% Similarity=0.659 Sum_probs=12.8
Q ss_pred CccceechhhHHHHhhcCCCCCccccc
Q 044318 154 PCEHLYHSECISNWLQIKKICPICSTE 180 (195)
Q Consensus 154 ~C~H~FH~~CI~~Wl~~~~sCPvCR~~ 180 (195)
.|||++=... .-..||+|..+
T Consensus 7 ~CG~i~~g~~------~p~~CP~Cg~~ 27 (34)
T cd00729 7 VCGYIHEGEE------APEKCPICGAP 27 (34)
T ss_pred CCCCEeECCc------CCCcCcCCCCc
Confidence 5777654321 23589999763
No 193
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=40.56 E-value=27 Score=20.38 Aligned_cols=28 Identities=25% Similarity=0.587 Sum_probs=18.5
Q ss_pred cCccceechhhHHHHhhcCCCCCccccccC
Q 044318 153 LPCEHLYHSECISNWLQIKKICPICSTEAS 182 (195)
Q Consensus 153 ~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~ 182 (195)
..||++||..=-- -+....|..|..+|.
T Consensus 5 ~~Cg~~Yh~~~~p--P~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 5 PKCGRIYHIEFNP--PKVEGVCDNCGGELV 32 (36)
T ss_dssp TTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CCCCCccccccCC--CCCCCccCCCCCeeE
Confidence 4899999943221 144578999987664
No 194
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=40.42 E-value=54 Score=31.47 Aligned_cols=43 Identities=21% Similarity=0.482 Sum_probs=24.1
Q ss_pred cccccccccccCCceeEEecCccceech--hhHHHHh--hc-----CCCCCccccccCCC
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHS--ECISNWL--QI-----KKICPICSTEASPP 184 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~--~CI~~Wl--~~-----~~sCPvCR~~l~~~ 184 (195)
..|+|+..... +||.+..|+ .|...-+ .. ...||+|.+...-.
T Consensus 307 L~CPl~~~Rm~--------~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e 358 (636)
T KOG2169|consen 307 LNCPLSKMRMS--------LPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFE 358 (636)
T ss_pred ecCCcccceee--------cCCcccccccceecchhhhHHhccCCCeeeCccCCcccccc
Confidence 46777765433 355555544 5654333 21 13699998766543
No 195
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=39.69 E-value=12 Score=31.78 Aligned_cols=45 Identities=22% Similarity=0.395 Sum_probs=32.8
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhc--CCCCCccccc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQI--KKICPICSTE 180 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~--~~sCPvCR~~ 180 (195)
...|||=...+..+ ++.- .|||+|-++=|...+.. ...||+=...
T Consensus 176 s~rdPis~~~I~nP--viSk-kC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VISK-KCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhch--hhhc-CcCcchhhhhHHHHhccCceeecccccCC
Confidence 45788877776665 3333 89999999999999866 3468875443
No 196
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=38.27 E-value=17 Score=33.49 Aligned_cols=48 Identities=19% Similarity=0.539 Sum_probs=32.7
Q ss_pred Cccccccccc-ccCCceeEEecCccceechhhHHHHhhc--------CCCCCccccc
Q 044318 133 IDRCVICQVE-YEEGESIVALLPCEHLYHSECISNWLQI--------KKICPICSTE 180 (195)
Q Consensus 133 ~~~C~ICl~~-f~~~~~~~~L~~C~H~FH~~CI~~Wl~~--------~~sCPvCR~~ 180 (195)
+..|++|+.. +-...+++..-.|+-.||..|.....+. ...|=+|+..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 4459999954 3444466666689999999997665432 2358888653
No 197
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=36.49 E-value=34 Score=24.70 Aligned_cols=36 Identities=19% Similarity=0.338 Sum_probs=28.8
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhh
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQ 169 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~ 169 (195)
....|.||-..+..+++.... + .-..|.+|+..-..
T Consensus 5 kewkC~VCg~~iieGqkFTF~-~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFTFT-K-KGSVHYECLAESKR 40 (103)
T ss_pred ceeeEeeeCCEeeeccEEEEe-e-CCcchHHHHHHHHh
Confidence 356899999999999887766 6 66689999987554
No 198
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=36.43 E-value=23 Score=24.27 Aligned_cols=33 Identities=24% Similarity=0.556 Sum_probs=21.8
Q ss_pred CCcccccccccccCCceeEE-ecCccceechhhHHH
Q 044318 132 GIDRCVICQVEYEEGESIVA-LLPCEHLYHSECISN 166 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~-L~~C~H~FH~~CI~~ 166 (195)
....|.+|... .|..+.- ...|.-.||..|...
T Consensus 35 ~~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 45689999866 2332221 236889999999755
No 199
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=36.33 E-value=31 Score=25.15 Aligned_cols=33 Identities=24% Similarity=0.325 Sum_probs=26.1
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHh
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWL 168 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl 168 (195)
-.|.||-.++..++....+ += -..|..|+..=.
T Consensus 3 WkC~iCg~~I~~gqlFTF~-~k-G~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFT-KK-GPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEe-cC-CcEeHHHHHHHH
Confidence 4799999999999877766 33 568999997754
No 200
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.04 E-value=16 Score=35.04 Aligned_cols=44 Identities=23% Similarity=0.533 Sum_probs=28.7
Q ss_pred CcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCcccc
Q 044318 133 IDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
...|.+|...=...-.+..++.|+-.||..| |+--+..||+|--
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~~ 697 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCGP 697 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccCc
Confidence 4678899765332222333347999998887 4555778999953
No 201
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=35.80 E-value=26 Score=24.82 Aligned_cols=39 Identities=18% Similarity=0.341 Sum_probs=28.1
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcCCCCCccccccCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
....|+-|...+.--+. -=|-.|+..++.|..|+++++.
T Consensus 32 ~rS~C~~C~~~L~~~~l-------------IPi~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDL-------------IPILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCccccc-------------chHHHHHHhCCCCcccCCCCCh
Confidence 44678777766544322 1277999999999999998864
No 202
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=35.73 E-value=11 Score=32.63 Aligned_cols=39 Identities=31% Similarity=0.558 Sum_probs=29.5
Q ss_pred CCcccccccccccCCceeEEecCccceechhhHHHHhhcC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK 171 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~ 171 (195)
....|.+|+..+..+...... .|.-+||..|+..|++..
T Consensus 213 ~~rvC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 213 PIRVCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred CceecHHHHHHHhcccccchh-hccccccccccccccccc
Confidence 445999999999764444444 566699999999999654
No 203
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=35.68 E-value=34 Score=26.20 Aligned_cols=15 Identities=33% Similarity=0.674 Sum_probs=11.8
Q ss_pred CCCCccccccCCCCC
Q 044318 172 KICPICSTEASPPKN 186 (195)
Q Consensus 172 ~sCPvCR~~l~~~~~ 186 (195)
..||.|...+.....
T Consensus 124 f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 124 FTCPRCGEELEEDDN 138 (147)
T ss_pred EECCCCCCEEEEcCc
Confidence 689999999876544
No 204
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=35.56 E-value=15 Score=35.63 Aligned_cols=29 Identities=31% Similarity=0.607 Sum_probs=20.3
Q ss_pred cCccceechhhHHHHhhcCCCCCcccccc
Q 044318 153 LPCEHLYHSECISNWLQIKKICPICSTEA 181 (195)
Q Consensus 153 ~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l 181 (195)
+.|.-.||.+=.+--.-+++.||.||+.-
T Consensus 1048 p~C~~~F~~eDFEl~vLqKGHCPFCrTS~ 1076 (1081)
T KOG1538|consen 1048 PSCFQMFHSEDFELLVLQKGHCPFCRTSK 1076 (1081)
T ss_pred chHHhhhccchhhHHHHhcCCCCcccccc
Confidence 34556666665555556788999999864
No 205
>PRK01343 zinc-binding protein; Provisional
Probab=35.50 E-value=20 Score=23.32 Aligned_cols=12 Identities=25% Similarity=0.852 Sum_probs=9.3
Q ss_pred CCCCCccccccC
Q 044318 171 KKICPICSTEAS 182 (195)
Q Consensus 171 ~~sCPvCR~~l~ 182 (195)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 467999998764
No 206
>PRK04023 DNA polymerase II large subunit; Validated
Probab=34.90 E-value=31 Score=34.89 Aligned_cols=48 Identities=21% Similarity=0.330 Sum_probs=31.4
Q ss_pred CCcccccccccccCCceeEEecCcc-----ceechhhHHHHhhcCCCCCccccccCCCC
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCE-----HLYHSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~-----H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
+...|+=|=..... ..++.|| ..||..| .+......||-|...+.+..
T Consensus 625 g~RfCpsCG~~t~~----frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 625 GRRKCPSCGKETFY----RRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPYS 677 (1121)
T ss_pred cCccCCCCCCcCCc----ccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCccc
Confidence 45678888665321 2444587 4699999 33344567999988876553
No 207
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=34.68 E-value=26 Score=30.78 Aligned_cols=44 Identities=7% Similarity=-0.051 Sum_probs=31.2
Q ss_pred CCcccccccccccCCceeEEecCccc-eechhhHHHHhhcCCCCCcccccc
Q 044318 132 GIDRCVICQVEYEEGESIVALLPCEH-LYHSECISNWLQIKKICPICSTEA 181 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~~~~~~L~~C~H-~FH~~CI~~Wl~~~~sCPvCR~~l 181 (195)
...+|..|-..... ..+.+|+| .||..|.. +....+||+|....
T Consensus 342 s~~~~~~~~~~~~s----t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS----TIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceee----eEeecCCcccChhhhhh--cccCCccccccccc
Confidence 34577777544333 35569998 68999987 56678999998654
No 208
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=34.42 E-value=23 Score=23.28 Aligned_cols=16 Identities=19% Similarity=0.646 Sum_probs=12.6
Q ss_pred cCCCCCccccccCCCC
Q 044318 170 IKKICPICSTEASPPK 185 (195)
Q Consensus 170 ~~~sCPvCR~~l~~~~ 185 (195)
-++.||+|.+.+++..
T Consensus 7 PH~HC~VCg~aIp~de 22 (64)
T COG4068 7 PHRHCVVCGKAIPPDE 22 (64)
T ss_pred CCccccccCCcCCCcc
Confidence 4678999999987654
No 209
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=33.93 E-value=41 Score=18.51 Aligned_cols=29 Identities=17% Similarity=0.390 Sum_probs=18.8
Q ss_pred ccccccccccCCceeEEecCccceechhhH
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECI 164 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI 164 (195)
.|.||........ ...-..|...+|..|+
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 5888876655443 4444577777887773
No 210
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=33.59 E-value=15 Score=31.50 Aligned_cols=30 Identities=23% Similarity=0.561 Sum_probs=17.9
Q ss_pred cceechhhHHHHhhc----CCCCCccccccCCCC
Q 044318 156 EHLYHSECISNWLQI----KKICPICSTEASPPK 185 (195)
Q Consensus 156 ~H~FH~~CI~~Wl~~----~~sCPvCR~~l~~~~ 185 (195)
.|.||..|-.+.... +..||.|+....+..
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fPR~ 143 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFPRI 143 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCCCC
Confidence 466666666555432 346777777665543
No 211
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=33.46 E-value=30 Score=32.71 Aligned_cols=37 Identities=30% Similarity=0.481 Sum_probs=25.5
Q ss_pred CCCcccccccccccCC------ce----eEEecCccceechhhHHHHh
Q 044318 131 SGIDRCVICQVEYEEG------ES----IVALLPCEHLYHSECISNWL 168 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~------~~----~~~L~~C~H~FH~~CI~~Wl 168 (195)
.....|+||.+.|..- .. .+.+ .=|-+||..|+..-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~l-e~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYL-EFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeee-ccCceeeccccchHH
Confidence 5678999999999631 11 1333 358899999986643
No 212
>PRK11827 hypothetical protein; Provisional
Probab=32.72 E-value=17 Score=23.89 Aligned_cols=18 Identities=22% Similarity=0.397 Sum_probs=11.5
Q ss_pred HHhhcCCCCCccccccCC
Q 044318 166 NWLQIKKICPICSTEASP 183 (195)
Q Consensus 166 ~Wl~~~~sCPvCR~~l~~ 183 (195)
+||..--.||+|+.++.-
T Consensus 3 ~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWY 20 (60)
T ss_pred hHHHhheECCCCCCcCeE
Confidence 445445568888877753
No 213
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=32.09 E-value=14 Score=38.64 Aligned_cols=51 Identities=20% Similarity=0.456 Sum_probs=38.1
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhHHHHhhcC----CCCCcccccc
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQIK----KICPICSTEA 181 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~~~----~sCPvCR~~l 181 (195)
......|.||.........+... -|.-.||..|++.-+... ..||-||..-
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 33567899999887765443333 688899999999988543 4799998754
No 214
>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=32.08 E-value=16 Score=23.42 Aligned_cols=11 Identities=36% Similarity=0.966 Sum_probs=5.2
Q ss_pred CCCccccccCC
Q 044318 173 ICPICSTEASP 183 (195)
Q Consensus 173 sCPvCR~~l~~ 183 (195)
+||+|...+..
T Consensus 26 tCP~C~a~~~~ 36 (54)
T PF09237_consen 26 TCPICGAVIRQ 36 (54)
T ss_dssp E-TTT--EESS
T ss_pred CCCcchhhccc
Confidence 68888776643
No 215
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=32.00 E-value=22 Score=23.62 Aligned_cols=11 Identities=27% Similarity=0.782 Sum_probs=9.0
Q ss_pred CCCCccccccC
Q 044318 172 KICPICSTEAS 182 (195)
Q Consensus 172 ~sCPvCR~~l~ 182 (195)
..||+|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 57999999874
No 216
>PLN02248 cellulose synthase-like protein
Probab=31.99 E-value=32 Score=35.10 Aligned_cols=30 Identities=20% Similarity=0.458 Sum_probs=26.2
Q ss_pred CccceechhhHHHHhhcCCCCCccccccCC
Q 044318 154 PCEHLYHSECISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 154 ~C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~ 183 (195)
.|++..|++|...-++....||-|+.+...
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 577888999999999999999999987743
No 217
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=31.85 E-value=13 Score=26.78 Aligned_cols=49 Identities=24% Similarity=0.644 Sum_probs=14.7
Q ss_pred cccccccccccCCce-eEEecCccceechhhHHHHhhc----CCCCCccccccCCC
Q 044318 134 DRCVICQVEYEEGES-IVALLPCEHLYHSECISNWLQI----KKICPICSTEASPP 184 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~-~~~L~~C~H~FH~~CI~~Wl~~----~~sCPvCR~~l~~~ 184 (195)
+.|+||...+...+. .... .=||.|- .|....+.. -+.||+|+..+...
T Consensus 15 E~C~~C~~~i~~~~~~~~~C-~~GH~w~-RC~lT~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQC-ENGHVWP-RCALTFLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp --------------SSEEE--TTS-EEE-B-SSS-SBS-SS-EEE-TTT--EEE-G
T ss_pred ccccccccccccCCcCEeEC-CCCCEEe-eeeeeeeeeccCCeeEcCCCCCEEecC
Confidence 899999988754332 2323 4589884 454444422 16899998876543
No 218
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=31.57 E-value=13 Score=19.96 Aligned_cols=9 Identities=44% Similarity=1.265 Sum_probs=4.3
Q ss_pred CCCCccccc
Q 044318 172 KICPICSTE 180 (195)
Q Consensus 172 ~sCPvCR~~ 180 (195)
+.||.|.++
T Consensus 17 ~fC~~CG~~ 25 (26)
T PF13248_consen 17 KFCPNCGAK 25 (26)
T ss_pred ccChhhCCC
Confidence 445555443
No 219
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=31.41 E-value=25 Score=26.86 Aligned_cols=24 Identities=21% Similarity=0.502 Sum_probs=15.4
Q ss_pred ccccccccccCCceeEEecCccceechh
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSE 162 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~ 162 (195)
.=-||+.. ..+++.. .|||.|+..
T Consensus 59 hlfi~qs~---~~rv~rc-ecghsf~d~ 82 (165)
T COG4647 59 HLFICQSA---QKRVIRC-ECGHSFGDY 82 (165)
T ss_pred cEEEEecc---cccEEEE-eccccccCh
Confidence 33467654 2346666 899999753
No 220
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS 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=31.34 E-value=23 Score=20.50 Aligned_cols=28 Identities=18% Similarity=0.337 Sum_probs=15.2
Q ss_pred cCccceechhhHHHHhhcCCCCCcccccc
Q 044318 153 LPCEHLYHSECISNWLQIKKICPICSTEA 181 (195)
Q Consensus 153 ~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l 181 (195)
..|||.|-..--..= .....||.|...+
T Consensus 9 ~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (41)
T smart00834 9 EDCGHTFEVLQKISD-DPLATCPECGGDV 36 (41)
T ss_pred CCCCCEEEEEEecCC-CCCCCCCCCCCcc
Confidence 367776643221100 2345799998754
No 221
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=30.71 E-value=21 Score=31.83 Aligned_cols=50 Identities=18% Similarity=0.386 Sum_probs=25.6
Q ss_pred CCCCcccccccccccCCceeEEe--cCcccee--------chhhHHHHh-----hcCCCCCccccc
Q 044318 130 KSGIDRCVICQVEYEEGESIVAL--LPCEHLY--------HSECISNWL-----QIKKICPICSTE 180 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L--~~C~H~F--------H~~CI~~Wl-----~~~~sCPvCR~~ 180 (195)
...++.||+|-.....- .-.-| -.|+-.| |..|+..-- ..++.||.||..
T Consensus 12 edl~ElCPVCGDkVSGY-HYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 12 EDLGELCPVCGDKVSGY-HYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred cccccccccccCccccc-eeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 34567899997665332 22222 1233333 334443321 124679999963
No 222
>PRK05978 hypothetical protein; Provisional
Probab=30.49 E-value=32 Score=26.81 Aligned_cols=24 Identities=17% Similarity=0.533 Sum_probs=19.0
Q ss_pred ceechhhHHHHhhcCCCCCccccccCCCC
Q 044318 157 HLYHSECISNWLQIKKICPICSTEASPPK 185 (195)
Q Consensus 157 H~FH~~CI~~Wl~~~~sCPvCR~~l~~~~ 185 (195)
|.|+ .+++.+..||.|..++...+
T Consensus 43 ~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 43 KLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred cccc-----cccccCCCccccCCccccCC
Confidence 5564 78899999999998886543
No 223
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=29.57 E-value=13 Score=23.47 Aligned_cols=34 Identities=21% Similarity=0.499 Sum_probs=18.5
Q ss_pred ccccc--ccccccCCce--e--EEecCccceechhhHHHH
Q 044318 134 DRCVI--CQVEYEEGES--I--VALLPCEHLYHSECISNW 167 (195)
Q Consensus 134 ~~C~I--Cl~~f~~~~~--~--~~L~~C~H~FH~~CI~~W 167 (195)
..|+- |-..+..... . +....|++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36766 7666643322 1 334349999999998888
No 224
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=29.35 E-value=26 Score=27.78 Aligned_cols=10 Identities=40% Similarity=1.291 Sum_probs=6.7
Q ss_pred CCCCCccccc
Q 044318 171 KKICPICSTE 180 (195)
Q Consensus 171 ~~sCPvCR~~ 180 (195)
...||+|.++
T Consensus 149 P~~CPiCga~ 158 (166)
T COG1592 149 PEVCPICGAP 158 (166)
T ss_pred CCcCCCCCCh
Confidence 3478888753
No 225
>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=28.78 E-value=23 Score=19.48 Aligned_cols=12 Identities=25% Similarity=0.905 Sum_probs=6.2
Q ss_pred CCCccccccCCC
Q 044318 173 ICPICSTEASPP 184 (195)
Q Consensus 173 sCPvCR~~l~~~ 184 (195)
.||+|...+...
T Consensus 1 ~CP~C~s~l~~~ 12 (28)
T PF03119_consen 1 TCPVCGSKLVRE 12 (28)
T ss_dssp B-TTT--BEEE-
T ss_pred CcCCCCCEeEcC
Confidence 599999988743
No 226
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=27.84 E-value=26 Score=23.09 Aligned_cols=10 Identities=30% Similarity=0.972 Sum_probs=8.2
Q ss_pred CCCccccccC
Q 044318 173 ICPICSTEAS 182 (195)
Q Consensus 173 sCPvCR~~l~ 182 (195)
.||+||.++.
T Consensus 10 aCP~~kg~L~ 19 (60)
T COG2835 10 ACPVCKGPLV 19 (60)
T ss_pred eccCcCCcce
Confidence 5999998864
No 227
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=27.34 E-value=30 Score=28.34 Aligned_cols=21 Identities=33% Similarity=0.719 Sum_probs=13.7
Q ss_pred hhhHHHHhh-cCCCCCcccccc
Q 044318 161 SECISNWLQ-IKKICPICSTEA 181 (195)
Q Consensus 161 ~~CI~~Wl~-~~~sCPvCR~~l 181 (195)
+.||.+--. ..+-||+||-..
T Consensus 97 ktCIrkn~~~~gnpCPICRDey 118 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEY 118 (239)
T ss_pred hHHHhhcCeecCCCCCccccce
Confidence 457766332 346799999754
No 228
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=27.29 E-value=39 Score=20.39 Aligned_cols=20 Identities=25% Similarity=0.722 Sum_probs=14.8
Q ss_pred HHHHhhcCCCCCccccccCC
Q 044318 164 ISNWLQIKKICPICSTEASP 183 (195)
Q Consensus 164 I~~Wl~~~~sCPvCR~~l~~ 183 (195)
+.-|--...+||.|..++..
T Consensus 10 L~G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 10 LQGWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HHhHhHhcCccCCCCCeeEE
Confidence 34565667889999888876
No 229
>PF12773 DZR: Double zinc ribbon
Probab=26.11 E-value=49 Score=20.10 Aligned_cols=13 Identities=62% Similarity=1.293 Sum_probs=8.3
Q ss_pred CCCCCccccccCC
Q 044318 171 KKICPICSTEASP 183 (195)
Q Consensus 171 ~~sCPvCR~~l~~ 183 (195)
...||.|.+.+..
T Consensus 29 ~~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 29 KKICPNCGAENPP 41 (50)
T ss_pred CCCCcCCcCCCcC
Confidence 3568888776543
No 230
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=25.88 E-value=13 Score=20.80 Aligned_cols=23 Identities=22% Similarity=0.534 Sum_probs=8.9
Q ss_pred ceechhhHHHHhh----cCCCCCcccc
Q 044318 157 HLYHSECISNWLQ----IKKICPICST 179 (195)
Q Consensus 157 H~FH~~CI~~Wl~----~~~sCPvCR~ 179 (195)
|.||..|-.+-.. ....||.|..
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 4555555443321 1235666654
No 231
>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=25.62 E-value=25 Score=22.85 Aligned_cols=12 Identities=33% Similarity=0.725 Sum_probs=6.2
Q ss_pred CCCCccccccCC
Q 044318 172 KICPICSTEASP 183 (195)
Q Consensus 172 ~sCPvCR~~l~~ 183 (195)
..||+|++.+..
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 369999998765
No 232
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=25.54 E-value=43 Score=33.20 Aligned_cols=36 Identities=19% Similarity=0.269 Sum_probs=25.0
Q ss_pred CcccccccccccCCce---eEE--ecCccceechhhHHHHh
Q 044318 133 IDRCVICQVEYEEGES---IVA--LLPCEHLYHSECISNWL 168 (195)
Q Consensus 133 ~~~C~ICl~~f~~~~~---~~~--L~~C~H~FH~~CI~~Wl 168 (195)
...|..|...|..-.+ .++ .-.||.+||..|-.+..
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 3679999999953210 111 23799999999987665
No 233
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=25.51 E-value=18 Score=25.04 Aligned_cols=21 Identities=24% Similarity=0.659 Sum_probs=16.3
Q ss_pred chhhHHHHhhcC-CCCCccccc
Q 044318 160 HSECISNWLQIK-KICPICSTE 180 (195)
Q Consensus 160 H~~CI~~Wl~~~-~sCPvCR~~ 180 (195)
|..|-..|+..+ +.|+.|-..
T Consensus 3 C~~C~~~~F~~KiGRC~rCM~Q 24 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRCMWQ 24 (77)
T ss_pred hhhHHHHHHHHHhccHHHHHHH
Confidence 567899999665 789988554
No 234
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=25.49 E-value=50 Score=25.24 Aligned_cols=23 Identities=26% Similarity=0.727 Sum_probs=16.0
Q ss_pred EecCccceechhhHHHHhhcCCCCCcccccc
Q 044318 151 ALLPCEHLYHSECISNWLQIKKICPICSTEA 181 (195)
Q Consensus 151 ~L~~C~H~FH~~CI~~Wl~~~~sCPvCR~~l 181 (195)
...+|||+|+- -+..||.|+.+.
T Consensus 31 kC~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 31 KCKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred EcCCCCeEEcC--------CcccCCCCCCCC
Confidence 33478998864 355699998763
No 235
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.47 E-value=55 Score=27.94 Aligned_cols=40 Identities=18% Similarity=0.200 Sum_probs=29.7
Q ss_pred CCCCcccccccc-cccCCceeEEecCccceechhhHHHHhh
Q 044318 130 KSGIDRCVICQV-EYEEGESIVALLPCEHLYHSECISNWLQ 169 (195)
Q Consensus 130 ~~~~~~C~ICl~-~f~~~~~~~~L~~C~H~FH~~CI~~Wl~ 169 (195)
......|++|.. ++....+...+.+|+|.|+..|..-|..
T Consensus 92 ~~~~~~ls~~~s~e~~~~~e~~~~y~~~~~f~i~~~~i~~~ 132 (271)
T COG5574 92 FNREETLSIEYSRETNIDKEGEVLYPCGIFFCIGCDYIWSI 132 (271)
T ss_pred cccccccccccCcccccccccceeeecccccchhhhHHHHH
Confidence 445677888887 5544444445568999999999999987
No 236
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=25.37 E-value=85 Score=24.42 Aligned_cols=16 Identities=19% Similarity=0.470 Sum_probs=12.3
Q ss_pred hcCCCCCccccccCCC
Q 044318 169 QIKKICPICSTEASPP 184 (195)
Q Consensus 169 ~~~~sCPvCR~~l~~~ 184 (195)
.....||.|...+..-
T Consensus 126 ~~~F~Cp~Cg~~L~~~ 141 (158)
T TIGR00373 126 ELNFTCPRCGAMLDYL 141 (158)
T ss_pred HcCCcCCCCCCEeeec
Confidence 3578999999887644
No 237
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=25.31 E-value=48 Score=30.37 Aligned_cols=32 Identities=25% Similarity=0.630 Sum_probs=20.2
Q ss_pred cccccccccccCCc---eeEEecCccceechhhHHH
Q 044318 134 DRCVICQVEYEEGE---SIVALLPCEHLYHSECISN 166 (195)
Q Consensus 134 ~~C~ICl~~f~~~~---~~~~L~~C~H~FH~~CI~~ 166 (195)
-.|+||.. |.... ..+..--|||.-|.+|--+
T Consensus 129 C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 129 CMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred CCccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 47889955 63322 1222236899999999654
No 238
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=24.87 E-value=36 Score=31.50 Aligned_cols=15 Identities=20% Similarity=0.295 Sum_probs=8.8
Q ss_pred CCcccccccccccCC
Q 044318 132 GIDRCVICQVEYEEG 146 (195)
Q Consensus 132 ~~~~C~ICl~~f~~~ 146 (195)
....|+-||..+...
T Consensus 25 ~~~yCp~CL~~~p~~ 39 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSS 39 (483)
T ss_pred ceeECccccccCChh
Confidence 345677777666443
No 239
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=24.65 E-value=2.3e+02 Score=26.70 Aligned_cols=33 Identities=18% Similarity=0.338 Sum_probs=23.6
Q ss_pred CcccccccccccCC-ceeEEecCccceechhhHH
Q 044318 133 IDRCVICQVEYEEG-ESIVALLPCEHLYHSECIS 165 (195)
Q Consensus 133 ~~~C~ICl~~f~~~-~~~~~L~~C~H~FH~~CI~ 165 (195)
...|.+|+..-... ..++..-.||-..|..|.-
T Consensus 119 ~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYG 152 (707)
T KOG0957|consen 119 AVICCVCLGQRSVDAGEILQCDKCGINVHEGCYG 152 (707)
T ss_pred ceEEEEeecCccccccceeeccccCceecccccc
Confidence 34899999875332 3455556899999999963
No 240
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=24.35 E-value=1e+02 Score=24.56 Aligned_cols=17 Identities=18% Similarity=0.382 Sum_probs=13.0
Q ss_pred hhcCCCCCccccccCCC
Q 044318 168 LQIKKICPICSTEASPP 184 (195)
Q Consensus 168 l~~~~sCPvCR~~l~~~ 184 (195)
+.....||.|...+..-
T Consensus 133 ~~~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEY 149 (178)
T ss_pred hhcCCcCCCCCCCCeec
Confidence 34578999999988654
No 241
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=24.13 E-value=45 Score=22.00 Aligned_cols=17 Identities=18% Similarity=0.581 Sum_probs=10.9
Q ss_pred cCCCCCccccccCCCCC
Q 044318 170 IKKICPICSTEASPPKN 186 (195)
Q Consensus 170 ~~~sCPvCR~~l~~~~~ 186 (195)
....||+|...-.+.++
T Consensus 14 ~~~~CP~Cgs~~~T~~W 30 (61)
T PRK08351 14 TEDRCPVCGSRDLSDEW 30 (61)
T ss_pred CCCcCCCCcCCcccccc
Confidence 35579999876544443
No 242
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=23.13 E-value=22 Score=33.30 Aligned_cols=35 Identities=14% Similarity=0.479 Sum_probs=23.7
Q ss_pred CCCCcccccccccccCCceeEEecCccceechhhH
Q 044318 130 KSGIDRCVICQVEYEEGESIVALLPCEHLYHSECI 164 (195)
Q Consensus 130 ~~~~~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI 164 (195)
+.....|..|...|..-....-...||-+||..|-
T Consensus 898 d~~a~~cmacq~pf~afrrrhhcrncggifcg~cs 932 (990)
T KOG1819|consen 898 DEDAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCS 932 (990)
T ss_pred CCcchhhhhccCcHHHHHHhhhhcccCceeecccc
Confidence 44567899999888543221122389999999985
No 243
>PRK00420 hypothetical protein; Validated
Probab=23.10 E-value=55 Score=24.25 Aligned_cols=9 Identities=22% Similarity=0.755 Sum_probs=5.0
Q ss_pred CCCcccccc
Q 044318 173 ICPICSTEA 181 (195)
Q Consensus 173 sCPvCR~~l 181 (195)
.||.|...+
T Consensus 42 ~Cp~Cg~~~ 50 (112)
T PRK00420 42 VCPVHGKVY 50 (112)
T ss_pred ECCCCCCee
Confidence 466665544
No 244
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=22.41 E-value=39 Score=20.76 Aligned_cols=26 Identities=19% Similarity=0.368 Sum_probs=14.6
Q ss_pred cCccceechhhHHHHhhcCCCCCcccc
Q 044318 153 LPCEHLYHSECISNWLQIKKICPICST 179 (195)
Q Consensus 153 ~~C~H~FH~~CI~~Wl~~~~sCPvCR~ 179 (195)
..|+|.|-..--.. -.....||.|..
T Consensus 9 ~~Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 9 TACGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCCCEeEEEEecC-CCCCCCCCCCCC
Confidence 37888876321100 012347999987
No 245
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=21.96 E-value=59 Score=23.56 Aligned_cols=29 Identities=17% Similarity=0.412 Sum_probs=17.7
Q ss_pred ccceechhhHHHHhhcCCCCCccccccCCC
Q 044318 155 CEHLYHSECISNWLQIKKICPICSTEASPP 184 (195)
Q Consensus 155 C~H~FH~~CI~~Wl~~~~sCPvCR~~l~~~ 184 (195)
||+--|.--+.++ ....+||.|+.++.+.
T Consensus 65 CGvC~~~LT~~EY-~~~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEY-GMCGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHH-hhcCCCCCcCCCCCcc
Confidence 5554444444443 2345699999988665
No 246
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=21.74 E-value=1.1e+02 Score=19.74 Aligned_cols=34 Identities=9% Similarity=0.220 Sum_probs=22.2
Q ss_pred CCcccccccccccC--CceeEEecCccceechhhHH
Q 044318 132 GIDRCVICQVEYEE--GESIVALLPCEHLYHSECIS 165 (195)
Q Consensus 132 ~~~~C~ICl~~f~~--~~~~~~L~~C~H~FH~~CI~ 165 (195)
....|+.|-..... .......+.||+.+|.+-..
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~na 62 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNA 62 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHH
Confidence 56779988777655 33444554588888877543
No 247
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=21.57 E-value=53 Score=21.92 Aligned_cols=15 Identities=27% Similarity=0.609 Sum_probs=10.0
Q ss_pred cCCCCCccccccCCC
Q 044318 170 IKKICPICSTEASPP 184 (195)
Q Consensus 170 ~~~sCPvCR~~l~~~ 184 (195)
....||+|...-.+.
T Consensus 16 ~~~~Cp~Cgs~~~S~ 30 (64)
T PRK06393 16 PEKTCPVHGDEKTTT 30 (64)
T ss_pred CCCcCCCCCCCcCCc
Confidence 456899998764333
No 248
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=21.42 E-value=63 Score=27.20 Aligned_cols=18 Identities=11% Similarity=0.593 Sum_probs=8.5
Q ss_pred HHHHhhcCCCCCcccccc
Q 044318 164 ISNWLQIKKICPICSTEA 181 (195)
Q Consensus 164 I~~Wl~~~~sCPvCR~~l 181 (195)
|..|.+.++.||.|..++
T Consensus 92 l~~w~~~~~fC~~CG~~~ 109 (256)
T PRK00241 92 LAEFYRSHRFCGYCGHPM 109 (256)
T ss_pred HHHHhhcCccccccCCCC
Confidence 444444444455554443
No 249
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=21.05 E-value=1.3e+02 Score=18.31 Aligned_cols=35 Identities=20% Similarity=0.333 Sum_probs=22.8
Q ss_pred CCCcccccccccc--cCCceeEEecCccceechhhHHH
Q 044318 131 SGIDRCVICQVEY--EEGESIVALLPCEHLYHSECISN 166 (195)
Q Consensus 131 ~~~~~C~ICl~~f--~~~~~~~~L~~C~H~FH~~CI~~ 166 (195)
.....|.+|-..+ ...... .-..|+-..|..|+..
T Consensus 9 ~~~~~C~~C~~~i~g~~~~g~-~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 9 SKPTYCDVCGKFIWGLGKQGY-RCSWCGLVCHKKCLSK 45 (53)
T ss_dssp SSTEB-TTSSSBECSSSSCEE-EETTTT-EEETTGGCT
T ss_pred CCCCCCcccCcccCCCCCCeE-EECCCCChHhhhhhhh
Confidence 3456899998887 223333 3347999999999865
No 250
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=21.01 E-value=39 Score=22.97 Aligned_cols=49 Identities=12% Similarity=0.363 Sum_probs=8.7
Q ss_pred ccccccccccCCceeEEecCccceechhhH----------HHHh---hcCCCCCccccccCC
Q 044318 135 RCVICQVEYEEGESIVALLPCEHLYHSECI----------SNWL---QIKKICPICSTEASP 183 (195)
Q Consensus 135 ~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI----------~~Wl---~~~~sCPvCR~~l~~ 183 (195)
.|.+|-..|.....++.=+.=.|.|..... ..+- .....|++|...+..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s 62 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRS 62 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESS
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcC
Confidence 488888887665544433345555554421 1110 112579999887643
No 251
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.85 E-value=24 Score=27.24 Aligned_cols=43 Identities=19% Similarity=0.441 Sum_probs=23.4
Q ss_pred CCCcccccccccccCCceeEEecCccce-------echhhHHHHhhc-C---CCCCccccc
Q 044318 131 SGIDRCVICQVEYEEGESIVALLPCEHL-------YHSECISNWLQI-K---KICPICSTE 180 (195)
Q Consensus 131 ~~~~~C~ICl~~f~~~~~~~~L~~C~H~-------FH~~CI~~Wl~~-~---~sCPvCR~~ 180 (195)
.....|.||+..-... .|||. ||..|--+--.+ + ..|-+|+..
T Consensus 63 ~ddatC~IC~KTKFAD-------G~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 63 GDDATCGICHKTKFAD-------GCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred CcCcchhhhhhccccc-------ccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 4567999998652222 46663 445554332212 2 247777653
No 252
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=20.69 E-value=44 Score=19.69 Aligned_cols=13 Identities=46% Similarity=1.027 Sum_probs=9.1
Q ss_pred CCCccccccCCCC
Q 044318 173 ICPICSTEASPPK 185 (195)
Q Consensus 173 sCPvCR~~l~~~~ 185 (195)
.||.|+..+....
T Consensus 1 ~CP~C~~~l~~~~ 13 (41)
T PF13453_consen 1 KCPRCGTELEPVR 13 (41)
T ss_pred CcCCCCcccceEE
Confidence 4999988765443
No 253
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=20.57 E-value=39 Score=24.90 Aligned_cols=29 Identities=28% Similarity=0.676 Sum_probs=18.5
Q ss_pred cccccccccccCCceeEEecCccceechhhHHHHhh
Q 044318 134 DRCVICQVEYEEGESIVALLPCEHLYHSECISNWLQ 169 (195)
Q Consensus 134 ~~C~ICl~~f~~~~~~~~L~~C~H~FH~~CI~~Wl~ 169 (195)
..|+.|..+|.-.+. ++.+|..|..+|-.
T Consensus 4 p~cp~c~sEytYed~-------~~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDG-------GQLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecC-------ceEeCchhcccccc
Confidence 468899877754322 24466777777763
Done!