Query 029012
Match_columns 200
No_of_seqs 277 out of 1783
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 06:05:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029012.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029012hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 5E-17 1.1E-21 98.8 1.8 44 136-179 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 6.1E-15 1.3E-19 124.6 2.6 50 136-185 230-280 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 1.7E-14 3.7E-19 97.0 3.3 46 134-179 18-73 (73)
4 KOG0320 Predicted E3 ubiquitin 99.4 1.4E-13 3E-18 105.3 2.5 61 131-196 127-187 (187)
5 KOG0317 Predicted E3 ubiquitin 99.4 1.5E-13 3.2E-18 112.4 2.3 56 130-188 234-289 (293)
6 PF13923 zf-C3HC4_2: Zinc fing 99.4 3.4E-13 7.3E-18 79.7 2.6 39 138-178 1-39 (39)
7 PHA02929 N1R/p28-like protein; 99.4 5.1E-13 1.1E-17 108.4 4.3 51 133-183 172-227 (238)
8 PLN03208 E3 ubiquitin-protein 99.3 4.9E-13 1.1E-17 104.5 3.3 50 133-185 16-81 (193)
9 COG5243 HRD1 HRD ubiquitin lig 99.3 5.2E-13 1.1E-17 112.4 3.0 53 133-186 285-348 (491)
10 PF13920 zf-C3HC4_3: Zinc fing 99.3 1.3E-12 2.9E-17 81.3 3.3 47 134-183 1-48 (50)
11 PF15227 zf-C3HC4_4: zinc fing 99.3 2E-12 4.2E-17 77.6 2.9 38 138-178 1-42 (42)
12 KOG0823 Predicted E3 ubiquitin 99.3 1.1E-12 2.3E-17 104.5 2.1 52 132-186 44-98 (230)
13 COG5540 RING-finger-containing 99.3 3.2E-12 6.8E-17 105.1 3.3 52 133-184 321-373 (374)
14 cd00162 RING RING-finger (Real 99.2 5.8E-12 1.3E-16 75.6 3.4 44 137-182 1-45 (45)
15 PF12861 zf-Apc11: Anaphase-pr 99.2 6.1E-12 1.3E-16 85.7 3.0 52 134-185 20-84 (85)
16 smart00504 Ubox Modified RING 99.2 1.3E-11 2.9E-16 80.2 3.9 52 135-189 1-52 (63)
17 PF00097 zf-C3HC4: Zinc finger 99.2 1.8E-11 3.8E-16 72.9 2.8 39 138-178 1-41 (41)
18 PF14634 zf-RING_5: zinc-RING 99.1 3E-11 6.6E-16 73.2 3.2 44 137-180 1-44 (44)
19 PHA02926 zinc finger-like prot 99.1 5.1E-11 1.1E-15 94.5 2.9 54 130-183 165-230 (242)
20 TIGR00599 rad18 DNA repair pro 99.1 6.9E-11 1.5E-15 102.4 3.4 53 131-186 22-74 (397)
21 smart00184 RING Ring finger. E 99.0 5.2E-10 1.1E-14 64.7 2.9 38 138-178 1-39 (39)
22 KOG0802 E3 ubiquitin ligase [P 98.9 2.4E-10 5.2E-15 103.7 0.9 53 133-185 289-343 (543)
23 COG5574 PEX10 RING-finger-cont 98.8 1.8E-09 3.9E-14 87.6 2.2 52 133-187 213-266 (271)
24 PF04564 U-box: U-box domain; 98.8 2.6E-09 5.7E-14 71.7 2.4 53 134-189 3-56 (73)
25 PF13445 zf-RING_UBOX: RING-ty 98.8 4E-09 8.6E-14 63.3 2.7 38 138-176 1-43 (43)
26 COG5194 APC11 Component of SCF 98.8 5.1E-09 1.1E-13 69.8 2.7 51 135-185 20-83 (88)
27 KOG0287 Postreplication repair 98.8 2.9E-09 6.2E-14 89.1 1.6 55 133-190 21-75 (442)
28 KOG2164 Predicted E3 ubiquitin 98.7 6.5E-09 1.4E-13 91.3 2.6 48 135-185 186-238 (513)
29 PF14835 zf-RING_6: zf-RING of 98.6 6.5E-09 1.4E-13 66.9 0.3 55 133-191 5-59 (65)
30 KOG1493 Anaphase-promoting com 98.6 5.2E-09 1.1E-13 69.2 -0.8 52 134-185 19-83 (84)
31 KOG2930 SCF ubiquitin ligase, 98.6 1.8E-08 3.8E-13 70.5 1.6 67 119-185 27-110 (114)
32 COG5432 RAD18 RING-finger-cont 98.6 1.8E-08 3.8E-13 82.9 1.6 51 133-186 23-73 (391)
33 smart00744 RINGv The RING-vari 98.6 3.2E-08 6.9E-13 61.2 2.4 42 137-179 1-49 (49)
34 TIGR00570 cdk7 CDK-activating 98.6 7.2E-08 1.6E-12 80.8 5.1 52 135-186 3-57 (309)
35 KOG2177 Predicted E3 ubiquitin 98.5 4.8E-08 1E-12 80.7 1.7 46 132-180 10-55 (386)
36 KOG0828 Predicted E3 ubiquitin 98.4 5.6E-08 1.2E-12 84.9 1.1 51 133-183 569-634 (636)
37 PF11793 FANCL_C: FANCL C-term 98.4 5.1E-08 1.1E-12 64.8 0.5 51 135-185 2-68 (70)
38 KOG1734 Predicted RING-contain 98.2 2.7E-07 5.8E-12 75.2 0.8 61 130-190 219-288 (328)
39 KOG0978 E3 ubiquitin ligase in 98.2 2.1E-07 4.6E-12 85.3 -0.2 57 133-196 641-698 (698)
40 KOG4265 Predicted E3 ubiquitin 98.1 1.1E-06 2.5E-11 74.3 2.5 48 133-183 288-336 (349)
41 COG5219 Uncharacterized conser 98.1 4.2E-07 9E-12 84.8 -0.3 55 130-184 1464-1524(1525)
42 KOG0827 Predicted E3 ubiquitin 98.1 7.2E-07 1.6E-11 76.1 1.0 48 136-183 5-56 (465)
43 KOG0824 Predicted E3 ubiquitin 98.1 9.8E-07 2.1E-11 73.1 1.8 49 134-185 6-55 (324)
44 KOG4172 Predicted E3 ubiquitin 98.1 5.2E-07 1.1E-11 55.9 -0.2 47 134-183 6-54 (62)
45 KOG1645 RING-finger-containing 98.1 2.5E-06 5.4E-11 73.3 3.2 53 134-186 3-59 (463)
46 PF11789 zf-Nse: Zinc-finger o 98.1 2.9E-06 6.2E-11 54.1 2.5 43 133-177 9-53 (57)
47 KOG1039 Predicted E3 ubiquitin 98.1 1.6E-06 3.4E-11 74.2 1.7 51 133-183 159-221 (344)
48 KOG0311 Predicted E3 ubiquitin 98.1 2.9E-07 6.2E-12 77.7 -2.9 51 132-184 40-91 (381)
49 KOG0804 Cytoplasmic Zn-finger 98.0 2.4E-06 5.1E-11 74.2 2.0 49 133-183 173-222 (493)
50 KOG4445 Uncharacterized conser 97.9 1.6E-06 3.4E-11 71.8 -0.4 53 133-185 113-188 (368)
51 KOG4159 Predicted E3 ubiquitin 97.9 5.3E-06 1.1E-10 72.3 2.2 49 133-184 82-130 (398)
52 KOG2660 Locus-specific chromos 97.9 1.5E-06 3.3E-11 72.8 -1.5 52 133-186 13-64 (331)
53 KOG0297 TNF receptor-associate 97.9 6E-06 1.3E-10 72.3 2.0 53 132-186 18-70 (391)
54 KOG0825 PHD Zn-finger protein 97.8 3.4E-06 7.4E-11 77.5 -0.8 52 133-184 121-172 (1134)
55 KOG1428 Inhibitor of type V ad 97.7 3.2E-05 6.9E-10 75.3 3.6 65 131-195 3482-3559(3738)
56 KOG1785 Tyrosine kinase negati 97.5 3E-05 6.6E-10 66.6 1.2 48 135-185 369-418 (563)
57 COG5152 Uncharacterized conser 97.5 3.5E-05 7.7E-10 60.4 1.4 48 133-183 194-241 (259)
58 KOG2879 Predicted E3 ubiquitin 97.5 9E-05 1.9E-09 60.9 3.6 51 131-183 235-287 (298)
59 KOG4275 Predicted E3 ubiquitin 97.5 2E-05 4.2E-10 65.2 -0.4 42 135-183 300-342 (350)
60 KOG1941 Acetylcholine receptor 97.5 2.3E-05 4.9E-10 67.2 -0.4 49 132-180 362-413 (518)
61 KOG1813 Predicted E3 ubiquitin 97.4 5.5E-05 1.2E-09 62.7 1.2 46 135-183 241-286 (313)
62 PF12906 RINGv: RING-variant d 97.4 7.8E-05 1.7E-09 45.5 1.4 40 138-178 1-47 (47)
63 KOG4739 Uncharacterized protei 97.2 0.00011 2.4E-09 59.4 0.8 59 137-198 5-66 (233)
64 KOG1952 Transcription factor N 97.2 0.00069 1.5E-08 63.3 6.0 52 130-181 186-245 (950)
65 PHA02862 5L protein; Provision 97.1 0.00025 5.5E-09 52.9 1.8 48 135-186 2-56 (156)
66 KOG1002 Nucleotide excision re 97.1 0.00014 3.1E-09 64.6 0.5 54 130-186 531-589 (791)
67 PHA02825 LAP/PHD finger-like p 97.1 0.00046 9.9E-09 52.5 2.9 51 131-185 4-61 (162)
68 KOG4692 Predicted E3 ubiquitin 97.1 0.00031 6.8E-09 59.7 2.1 50 132-184 419-468 (489)
69 PF05883 Baculo_RING: Baculovi 96.9 0.00026 5.7E-09 52.4 0.4 37 134-170 25-67 (134)
70 COG5222 Uncharacterized conser 96.8 0.00047 1E-08 57.4 1.4 50 136-187 275-326 (427)
71 PF14570 zf-RING_4: RING/Ubox 96.8 0.0016 3.4E-08 39.8 3.0 45 138-182 1-47 (48)
72 PF07800 DUF1644: Protein of u 96.8 0.0012 2.5E-08 50.2 2.9 61 134-198 1-105 (162)
73 KOG1814 Predicted E3 ubiquitin 96.7 0.00077 1.7E-08 58.4 1.7 47 134-180 183-237 (445)
74 KOG4185 Predicted E3 ubiquitin 96.7 0.0015 3.3E-08 55.0 3.3 46 136-182 4-54 (296)
75 KOG0826 Predicted E3 ubiquitin 96.7 0.0023 4.9E-08 54.0 4.1 55 131-187 296-350 (357)
76 PF10367 Vps39_2: Vacuolar sor 96.6 0.00085 1.8E-08 47.6 1.4 35 131-166 74-108 (109)
77 KOG3970 Predicted E3 ubiquitin 96.6 0.0015 3.2E-08 52.4 2.7 52 131-183 46-105 (299)
78 PF04641 Rtf2: Rtf2 RING-finge 96.5 0.0019 4.2E-08 53.6 2.9 54 132-186 110-164 (260)
79 KOG3039 Uncharacterized conser 96.5 0.002 4.4E-08 52.3 2.9 54 134-187 220-274 (303)
80 PHA03096 p28-like protein; Pro 96.4 0.0012 2.6E-08 55.4 1.2 46 136-181 179-232 (284)
81 KOG1571 Predicted E3 ubiquitin 96.4 0.0018 3.9E-08 55.3 2.0 46 133-184 303-348 (355)
82 PF03854 zf-P11: P-11 zinc fin 96.2 0.0019 4.1E-08 39.0 0.8 34 152-185 14-48 (50)
83 COG5236 Uncharacterized conser 96.2 0.0038 8.2E-08 53.1 2.7 51 130-183 56-108 (493)
84 COG5175 MOT2 Transcriptional r 96.1 0.0026 5.6E-08 54.0 1.2 59 130-188 9-69 (480)
85 KOG2114 Vacuolar assembly/sort 96.0 0.003 6.6E-08 59.2 1.4 44 135-183 840-883 (933)
86 PF14447 Prok-RING_4: Prokaryo 95.9 0.0037 8E-08 39.1 1.1 47 135-186 7-53 (55)
87 KOG3268 Predicted E3 ubiquitin 95.8 0.0062 1.3E-07 47.2 2.2 55 131-185 161-230 (234)
88 KOG1940 Zn-finger protein [Gen 95.8 0.0052 1.1E-07 51.1 1.9 47 134-180 157-204 (276)
89 KOG1001 Helicase-like transcri 95.6 0.0049 1.1E-07 57.6 1.4 50 136-189 455-506 (674)
90 PF08746 zf-RING-like: RING-li 95.2 0.014 3E-07 34.8 1.8 41 138-178 1-43 (43)
91 KOG4367 Predicted Zn-finger pr 94.9 0.013 2.8E-07 51.4 1.4 35 133-170 2-36 (699)
92 KOG0827 Predicted E3 ubiquitin 94.3 0.0028 6.1E-08 54.6 -3.9 55 134-188 195-250 (465)
93 KOG0801 Predicted E3 ubiquitin 94.2 0.017 3.6E-07 44.2 0.5 30 133-162 175-204 (205)
94 COG5183 SSM4 Protein involved 94.2 0.022 4.9E-07 53.4 1.4 55 133-188 10-71 (1175)
95 KOG3053 Uncharacterized conser 94.2 0.016 3.4E-07 47.5 0.4 53 130-183 15-82 (293)
96 KOG0298 DEAD box-containing he 94.1 0.0096 2.1E-07 58.3 -1.0 45 134-180 1152-1196(1394)
97 KOG2034 Vacuolar sorting prote 93.9 0.024 5.1E-07 53.7 1.1 40 130-170 812-851 (911)
98 KOG2932 E3 ubiquitin ligase in 93.4 0.051 1.1E-06 45.8 2.1 44 136-183 91-134 (389)
99 PF02891 zf-MIZ: MIZ/SP-RING z 93.3 0.085 1.8E-06 32.5 2.5 43 136-181 3-50 (50)
100 KOG3800 Predicted E3 ubiquitin 93.1 0.076 1.6E-06 44.3 2.6 51 137-187 2-55 (300)
101 KOG1609 Protein involved in mR 92.1 0.081 1.8E-06 44.5 1.7 51 135-185 78-136 (323)
102 KOG1812 Predicted E3 ubiquitin 92.0 0.064 1.4E-06 47.0 1.0 52 134-185 145-205 (384)
103 KOG3002 Zn finger protein [Gen 91.8 0.14 3E-06 43.4 2.8 46 133-183 46-91 (299)
104 KOG4362 Transcriptional regula 91.5 0.032 6.9E-07 51.8 -1.6 53 131-186 17-72 (684)
105 PF10272 Tmpp129: Putative tra 91.5 0.24 5.3E-06 42.9 3.9 53 131-185 267-353 (358)
106 KOG1100 Predicted E3 ubiquitin 91.2 0.14 3.1E-06 41.1 2.1 39 138-183 161-200 (207)
107 COG5220 TFB3 Cdk activating ki 90.7 0.059 1.3E-06 43.8 -0.5 50 134-183 9-64 (314)
108 PF05290 Baculo_IE-1: Baculovi 90.2 0.16 3.6E-06 37.6 1.4 50 134-185 79-134 (140)
109 KOG2817 Predicted E3 ubiquitin 90.1 0.3 6.5E-06 42.5 3.2 60 133-196 332-394 (394)
110 KOG0309 Conserved WD40 repeat- 89.4 0.19 4.1E-06 47.1 1.5 41 136-177 1029-1069(1081)
111 PF14446 Prok-RING_1: Prokaryo 88.4 0.7 1.5E-05 28.9 3.1 40 134-177 4-44 (54)
112 KOG3039 Uncharacterized conser 88.3 0.43 9.3E-06 39.1 2.7 39 130-171 38-76 (303)
113 KOG3899 Uncharacterized conser 87.8 0.24 5.2E-06 41.5 1.0 30 157-186 326-368 (381)
114 KOG3161 Predicted E3 ubiquitin 84.5 0.43 9.3E-06 44.1 1.0 40 134-176 10-51 (861)
115 KOG1815 Predicted E3 ubiquitin 83.1 0.67 1.4E-05 41.4 1.6 38 132-171 67-104 (444)
116 PF07191 zinc-ribbons_6: zinc- 82.4 0.13 2.9E-06 33.8 -2.3 41 135-183 1-41 (70)
117 PF07975 C1_4: TFIIH C1-like d 81.8 0.91 2E-05 28.1 1.4 42 138-179 2-50 (51)
118 KOG2066 Vacuolar assembly/sort 81.2 0.48 1E-05 44.7 -0.0 45 134-179 783-831 (846)
119 PF04710 Pellino: Pellino; In 81.0 0.49 1.1E-05 41.3 0.0 55 134-191 276-347 (416)
120 KOG0825 PHD Zn-finger protein 79.0 0.94 2E-05 42.9 1.1 50 133-182 94-153 (1134)
121 KOG2068 MOT2 transcription fac 78.9 1.7 3.7E-05 37.1 2.5 51 135-185 249-300 (327)
122 KOG4718 Non-SMC (structural ma 78.8 0.97 2.1E-05 36.2 1.0 47 134-182 180-226 (235)
123 COG5109 Uncharacterized conser 78.5 2.1 4.5E-05 36.4 2.9 48 133-180 334-384 (396)
124 KOG1812 Predicted E3 ubiquitin 77.8 1.2 2.6E-05 39.1 1.4 45 133-178 304-351 (384)
125 KOG3579 Predicted E3 ubiquitin 77.7 1.4 3.1E-05 36.8 1.7 56 133-191 266-336 (352)
126 KOG0802 E3 ubiquitin ligase [P 77.1 1.3 2.8E-05 40.7 1.5 48 132-186 476-523 (543)
127 PF13901 DUF4206: Domain of un 74.4 2.6 5.6E-05 33.6 2.4 42 134-180 151-197 (202)
128 smart00249 PHD PHD zinc finger 74.2 2 4.4E-05 24.7 1.4 31 137-167 1-31 (47)
129 PF06844 DUF1244: Protein of u 73.7 1.8 4E-05 28.1 1.1 12 159-170 11-22 (68)
130 KOG0269 WD40 repeat-containing 73.5 2.3 4.9E-05 40.2 2.1 42 135-177 779-820 (839)
131 TIGR00622 ssl1 transcription f 72.7 3.6 7.8E-05 29.7 2.5 44 136-179 56-110 (112)
132 KOG0824 Predicted E3 ubiquitin 71.9 1.2 2.6E-05 37.6 -0.1 49 133-183 103-151 (324)
133 PF04423 Rad50_zn_hook: Rad50 69.0 3.1 6.6E-05 25.7 1.3 14 174-187 22-35 (54)
134 KOG2807 RNA polymerase II tran 68.3 4.5 9.8E-05 34.6 2.5 46 134-179 329-374 (378)
135 PF00628 PHD: PHD-finger; Int 66.5 3.1 6.7E-05 25.0 1.0 44 137-180 1-50 (51)
136 KOG1829 Uncharacterized conser 66.3 1.5 3.3E-05 40.4 -0.6 43 134-179 510-557 (580)
137 KOG2979 Protein involved in DN 64.6 4.1 8.8E-05 33.7 1.6 46 134-181 175-222 (262)
138 COG5627 MMS21 DNA repair prote 62.3 5.4 0.00012 32.6 1.9 55 133-189 187-245 (275)
139 KOG3005 GIY-YIG type nuclease 62.0 5.2 0.00011 33.3 1.8 54 136-189 183-249 (276)
140 PF06906 DUF1272: Protein of u 61.6 5.5 0.00012 25.0 1.4 46 137-185 7-54 (57)
141 KOG3113 Uncharacterized conser 60.8 6 0.00013 32.7 1.9 52 133-186 109-161 (293)
142 PF14169 YdjO: Cold-inducible 60.1 4.4 9.5E-05 25.8 0.8 19 167-185 28-52 (59)
143 PF14569 zf-UDP: Zinc-binding 60.1 14 0.00029 24.9 3.2 51 133-183 7-62 (80)
144 smart00647 IBR In Between Ring 58.8 3.5 7.7E-05 25.7 0.2 21 149-169 38-59 (64)
145 PF10571 UPF0547: Uncharacteri 58.1 6.4 0.00014 20.7 1.1 8 138-145 3-10 (26)
146 PLN02189 cellulose synthase 57.8 9.4 0.0002 37.6 3.0 50 134-183 33-87 (1040)
147 PF01363 FYVE: FYVE zinc finge 57.4 5.7 0.00012 25.5 1.1 38 133-170 7-45 (69)
148 PF10497 zf-4CXXC_R1: Zinc-fin 53.8 16 0.00034 26.0 2.9 27 154-180 31-69 (105)
149 smart00064 FYVE Protein presen 53.1 7.2 0.00016 24.9 1.0 37 134-170 9-46 (68)
150 KOG1815 Predicted E3 ubiquitin 52.3 6 0.00013 35.4 0.7 35 152-186 180-240 (444)
151 smart00734 ZnF_Rad18 Rad18-lik 52.3 11 0.00023 19.7 1.4 11 174-184 3-13 (26)
152 smart00132 LIM Zinc-binding do 52.1 12 0.00026 20.4 1.8 37 137-182 1-37 (39)
153 KOG3842 Adaptor protein Pellin 49.8 18 0.00038 31.0 3.0 53 133-185 339-416 (429)
154 PF02318 FYVE_2: FYVE-type zin 49.3 13 0.00028 26.9 1.9 47 134-181 53-103 (118)
155 cd00065 FYVE FYVE domain; Zinc 46.3 18 0.00039 22.1 2.0 35 136-170 3-38 (57)
156 COG3813 Uncharacterized protei 46.2 11 0.00023 25.1 0.9 46 138-186 8-55 (84)
157 cd00350 rubredoxin_like Rubred 45.8 16 0.00034 20.1 1.5 10 171-180 16-25 (33)
158 KOG2169 Zn-finger transcriptio 44.9 22 0.00047 33.5 3.1 51 134-188 305-361 (636)
159 PF00412 LIM: LIM domain; Int 44.8 8.1 0.00018 23.6 0.2 39 138-185 1-39 (58)
160 COG3492 Uncharacterized protei 44.6 9 0.0002 26.5 0.4 13 159-171 42-54 (104)
161 KOG4185 Predicted E3 ubiquitin 41.1 3.3 7.2E-05 34.7 -2.6 46 135-181 207-265 (296)
162 PF13717 zinc_ribbon_4: zinc-r 41.0 16 0.00034 20.6 1.0 25 137-161 4-36 (36)
163 PF13832 zf-HC5HC2H_2: PHD-zin 40.6 28 0.00061 24.4 2.5 34 133-168 53-88 (110)
164 PF09723 Zn-ribbon_8: Zinc rib 40.6 7.4 0.00016 22.7 -0.4 28 152-180 7-34 (42)
165 PF10235 Cript: Microtubule-as 40.4 13 0.00029 25.7 0.8 37 135-183 44-80 (90)
166 PLN02638 cellulose synthase A 40.3 30 0.00064 34.5 3.3 50 134-183 16-70 (1079)
167 PF09237 GAGA: GAGA factor; I 40.0 13 0.00029 23.0 0.6 12 174-185 26-37 (54)
168 COG4647 AcxC Acetone carboxyla 39.4 16 0.00034 27.2 1.0 22 139-163 61-82 (165)
169 PF12660 zf-TFIIIC: Putative z 37.5 5.5 0.00012 28.0 -1.6 48 136-185 15-68 (99)
170 PF14311 DUF4379: Domain of un 36.7 24 0.00052 21.6 1.5 9 170-178 47-55 (55)
171 KOG1356 Putative transcription 36.2 14 0.00031 35.5 0.5 35 133-169 227-262 (889)
172 PF07649 C1_3: C1-like domain; 36.2 26 0.00056 18.6 1.4 29 137-165 2-30 (30)
173 PF01485 IBR: IBR domain; Int 35.3 5.5 0.00012 24.8 -1.7 33 136-168 19-58 (64)
174 KOG0289 mRNA splicing factor [ 34.9 31 0.00066 30.9 2.3 51 137-189 2-52 (506)
175 PLN02400 cellulose synthase 34.3 33 0.00072 34.2 2.6 50 134-183 35-89 (1085)
176 KOG0956 PHD finger protein AF1 33.7 30 0.00065 32.8 2.1 44 135-178 5-68 (900)
177 KOG3842 Adaptor protein Pellin 33.3 21 0.00045 30.6 1.0 47 134-183 289-352 (429)
178 KOG2071 mRNA cleavage and poly 33.0 30 0.00066 32.0 2.0 36 133-168 511-556 (579)
179 PF11809 DUF3330: Domain of un 31.9 11 0.00024 24.6 -0.7 37 134-172 10-51 (70)
180 COG4847 Uncharacterized protei 31.9 36 0.00078 23.8 1.8 35 135-170 6-40 (103)
181 KOG2231 Predicted E3 ubiquitin 31.7 37 0.0008 32.1 2.4 45 137-184 2-53 (669)
182 PRK11088 rrmA 23S rRNA methylt 31.6 33 0.00071 28.2 1.9 26 136-161 3-28 (272)
183 PF05605 zf-Di19: Drought indu 31.5 41 0.00088 20.5 1.9 10 174-183 33-42 (54)
184 PRK01343 zinc-binding protein; 31.4 26 0.00055 22.2 0.9 12 172-183 9-20 (57)
185 PLN02436 cellulose synthase A 31.4 48 0.001 33.1 3.2 50 134-183 35-89 (1094)
186 COG2824 PhnA Uncharacterized Z 31.1 23 0.00049 25.3 0.7 29 136-170 4-32 (112)
187 PF09889 DUF2116: Uncharacteri 30.2 33 0.00071 21.8 1.3 18 172-189 3-20 (59)
188 KOG2113 Predicted RNA binding 30.2 1.1E+02 0.0025 26.2 4.8 45 132-181 340-385 (394)
189 KOG1729 FYVE finger containing 29.9 9.8 0.00021 32.1 -1.5 38 136-173 215-252 (288)
190 KOG3799 Rab3 effector RIM1 and 29.2 17 0.00036 27.2 -0.2 47 130-182 60-117 (169)
191 PF10146 zf-C4H2: Zinc finger- 28.8 37 0.00079 27.7 1.7 24 160-183 196-219 (230)
192 PF13913 zf-C2HC_2: zinc-finge 28.4 38 0.00082 17.3 1.1 15 174-188 4-18 (25)
193 PF13719 zinc_ribbon_5: zinc-r 28.1 46 0.001 18.7 1.6 26 136-161 3-36 (37)
194 PF12773 DZR: Double zinc ribb 26.3 48 0.001 19.6 1.5 13 173-185 30-42 (50)
195 PRK00418 DNA gyrase inhibitor; 26.3 31 0.00068 22.2 0.7 12 172-183 6-17 (62)
196 PF03119 DNA_ligase_ZBD: NAD-d 26.2 26 0.00056 18.6 0.3 11 174-184 1-11 (28)
197 PF03884 DUF329: Domain of unk 26.0 22 0.00048 22.4 -0.0 12 173-184 3-14 (57)
198 PF13771 zf-HC5HC2H: PHD-like 25.4 66 0.0014 21.5 2.3 33 133-167 34-68 (90)
199 KOG4443 Putative transcription 25.0 28 0.00061 32.6 0.4 47 134-180 17-70 (694)
200 PRK03564 formate dehydrogenase 24.7 33 0.00072 29.3 0.8 45 134-180 186-234 (309)
201 PF04216 FdhE: Protein involve 24.7 15 0.00033 30.7 -1.2 47 133-181 170-220 (290)
202 PLN02915 cellulose synthase A 24.6 69 0.0015 31.9 3.0 50 134-183 14-68 (1044)
203 PF14353 CpXC: CpXC protein 23.7 72 0.0016 23.0 2.3 13 173-185 39-51 (128)
204 PF11023 DUF2614: Protein of u 23.5 59 0.0013 23.5 1.8 20 167-186 80-99 (114)
205 KOG4451 Uncharacterized conser 23.0 34 0.00074 27.9 0.5 24 160-183 251-274 (286)
206 PRK11595 DNA utilization prote 22.9 72 0.0016 25.7 2.4 23 160-182 22-44 (227)
207 cd00729 rubredoxin_SM Rubredox 22.7 57 0.0012 18.0 1.3 9 173-181 19-27 (34)
208 KOG2231 Predicted E3 ubiquitin 22.6 18 0.00039 34.1 -1.3 51 130-183 73-125 (669)
209 smart00834 CxxC_CXXC_SSSS Puta 22.2 29 0.00062 19.5 -0.1 12 171-182 25-36 (41)
210 PF09297 zf-NADH-PPase: NADH p 21.8 15 0.00033 19.9 -1.2 23 158-180 3-29 (32)
211 PF05715 zf-piccolo: Piccolo Z 21.3 47 0.001 21.2 0.8 12 172-183 2-13 (61)
212 KOG1814 Predicted E3 ubiquitin 21.0 55 0.0012 29.1 1.4 37 133-169 366-405 (445)
213 KOG3726 Uncharacterized conser 20.7 53 0.0012 31.0 1.3 44 135-181 654-698 (717)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.64 E-value=5e-17 Score=98.77 Aligned_cols=44 Identities=50% Similarity=1.158 Sum_probs=39.6
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccc
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR 179 (200)
+.|+||++.|..++.++.++|||.||.+||.+|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 46999999997777888999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=6.1e-15 Score=124.65 Aligned_cols=50 Identities=38% Similarity=0.931 Sum_probs=46.1
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCC-CCccccccccch
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE-SCPICDQVCLLQ 185 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~-tCP~CR~~l~~~ 185 (200)
+.|+||||+|..++.+++|||+|.||..||+.||.... .||+||+.+..+
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 58999999999999999999999999999999999875 599999987754
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=99.49 E-value=1.7e-14 Score=96.96 Aligned_cols=46 Identities=37% Similarity=1.007 Sum_probs=37.4
Q ss_pred CCCcccccccccCC----------CCCeeecCCCCeeCHhhHHHHhccCCCCcccc
Q 029012 134 EEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (200)
Q Consensus 134 ~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR 179 (200)
.++.|+||++.|.. +-++.+.+|||.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 45569999999922 23456779999999999999999999999998
No 4
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=1.4e-13 Score=105.27 Aligned_cols=61 Identities=30% Similarity=0.670 Sum_probs=52.0
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHHhhhhhhhh
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLVCAISRCFF 196 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~~~~~~~~~ 196 (200)
..+....|+|||+.+...-+ +.++|||.||..||+.-++....||+||+.|... .++++||
T Consensus 127 ~~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k----~~~rI~L 187 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK----QFHRIYL 187 (187)
T ss_pred ccccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchh----hheeccC
Confidence 34556889999999955445 6799999999999999999999999999988877 6778875
No 5
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=1.5e-13 Score=112.39 Aligned_cols=56 Identities=36% Similarity=0.815 Sum_probs=50.0
Q ss_pred ccccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHH
Q 029012 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLV 188 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~ 188 (200)
...+....|.+||+.. .+| ..+||||.||+.||.+|...+..||+||..+...++.
T Consensus 234 ~i~~a~~kC~LCLe~~--~~p-SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENR--SNP-SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred cCCCCCCceEEEecCC--CCC-CcCcCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 4556678999999998 788 7999999999999999999999999999999877544
No 6
>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=99.36 E-value=3.4e-13 Score=79.69 Aligned_cols=39 Identities=44% Similarity=1.161 Sum_probs=34.9
Q ss_pred ccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccc
Q 029012 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPIC 178 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~C 178 (200)
|+||++.+ .++++.++|||.||+.||.+|++.+..||+|
T Consensus 1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999 7788899999999999999999998899998
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.36 E-value=5.1e-13 Score=108.39 Aligned_cols=51 Identities=25% Similarity=0.839 Sum_probs=42.3
Q ss_pred cCCCcccccccccCCCCC-----eeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDTENP-----KLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~-----~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
..+..|+||++.+..... .++++|+|.||..||.+|++.+.+||+||..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 456889999998742221 256789999999999999999999999999876
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.35 E-value=4.9e-13 Score=104.53 Aligned_cols=50 Identities=30% Similarity=0.788 Sum_probs=42.8
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc----------------CCCCccccccccch
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER----------------SESCPICDQVCLLQ 185 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~----------------~~tCP~CR~~l~~~ 185 (200)
.++..|+||++.+ .++ ++++|||.||+.||.+|+.. ...||+||..+...
T Consensus 16 ~~~~~CpICld~~--~dP-VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 16 GGDFDCNICLDQV--RDP-VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCccCCccCCCcC--CCc-EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 3578899999998 788 57899999999999999852 24899999999766
No 9
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.33 E-value=5.2e-13 Score=112.39 Aligned_cols=53 Identities=34% Similarity=0.926 Sum_probs=44.8
Q ss_pred cCCCccccccccc-CCC----------CCeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 133 EEEDTCPICLEEY-DTE----------NPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 133 ~~~~~C~ICle~~-~~~----------~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
..+..|.||+|+. ..+ .| ..+||||.||.+|++.|++++.+||+||.++.+|.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~p-KrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~ 348 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTP-KRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQ 348 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCc-ccccccceeeHHHHHHHHHhccCCCcccCcccccc
Confidence 4677899999994 322 23 58999999999999999999999999999987664
No 10
>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=99.31 E-value=1.3e-12 Score=81.35 Aligned_cols=47 Identities=34% Similarity=0.791 Sum_probs=39.8
Q ss_pred CCCcccccccccCCCCCeeecCCCCe-eCHhhHHHHhccCCCCcccccccc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
++..|.||++.. .+ ++++||||. ||..|+.+|++....||+||+++.
T Consensus 1 ~~~~C~iC~~~~--~~-~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENP--RD-VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSB--SS-EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CcCCCccCCccC--Cc-eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 356799999997 44 479999999 999999999999999999999875
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.29 E-value=2e-12 Score=77.56 Aligned_cols=38 Identities=39% Similarity=0.970 Sum_probs=30.4
Q ss_pred ccccccccCCCCCeeecCCCCeeCHhhHHHHhccC----CCCccc
Q 029012 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERS----ESCPIC 178 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~----~tCP~C 178 (200)
|+||++.| .+| +.++|||.||+.||.+|++.. ..||+|
T Consensus 1 CpiC~~~~--~~P-v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF--KDP-VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB---SSE-EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh--CCc-cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 899 689999999999999999865 369987
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=1.1e-12 Score=104.48 Aligned_cols=52 Identities=29% Similarity=0.766 Sum_probs=45.4
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc---CCCCccccccccchh
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQVCLLQL 186 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCP~CR~~l~~~~ 186 (200)
......|-||||.- ++| +++.|||.||+-||++|+.. ++.||+||..|..+.
T Consensus 44 ~~~~FdCNICLd~a--kdP-VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA--KDP-VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeecccc--CCC-EEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 45678899999998 889 69999999999999999985 448999999998773
No 13
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=3.2e-12 Score=105.14 Aligned_cols=52 Identities=25% Similarity=0.751 Sum_probs=46.6
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc-cCCCCccccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPICDQVCLL 184 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~l~~ 184 (200)
..+-+|+|||+.|...+.++.+||.|.||..|+.+||. .+..||+||.+++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 44678999999997778889999999999999999998 78899999998863
No 14
>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=99.24 E-value=5.8e-12 Score=75.64 Aligned_cols=44 Identities=41% Similarity=1.050 Sum_probs=38.8
Q ss_pred cccccccccCCCCCeeecCCCCeeCHhhHHHHhcc-CCCCccccccc
Q 029012 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQVC 182 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~l 182 (200)
.|+||++.+ .+++.+++|||.||..|+..|++. ...||+||..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 677777789999999999999998 77899999764
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.22 E-value=6.1e-12 Score=85.70 Aligned_cols=52 Identities=37% Similarity=0.936 Sum_probs=42.7
Q ss_pred CCCcccccccccCC----------CCCeeecCCCCeeCHhhHHHHhcc---CCCCccccccccch
Q 029012 134 EEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNER---SESCPICDQVCLLQ 185 (200)
Q Consensus 134 ~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCP~CR~~l~~~ 185 (200)
+++.|.||...|+. .-|++.-.|+|.||.+||.+|+.. +.+||+||+++.+.
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 47889999998852 225677789999999999999985 45999999998754
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=99.21 E-value=1.3e-11 Score=80.17 Aligned_cols=52 Identities=25% Similarity=0.394 Sum_probs=45.2
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHHh
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLVC 189 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~~ 189 (200)
+..|+||++.+ .+| ++++|||.|++.||.+|++.+.+||+|++.+..+++..
T Consensus 1 ~~~Cpi~~~~~--~~P-v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~ 52 (63)
T smart00504 1 EFLCPISLEVM--KDP-VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIP 52 (63)
T ss_pred CcCCcCCCCcC--CCC-EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhcee
Confidence 35799999999 788 58899999999999999999889999999987665433
No 17
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.17 E-value=1.8e-11 Score=72.95 Aligned_cols=39 Identities=46% Similarity=1.226 Sum_probs=35.1
Q ss_pred ccccccccCCCCCeeecCCCCeeCHhhHHHHhc--cCCCCccc
Q 029012 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNE--RSESCPIC 178 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~--~~~tCP~C 178 (200)
|+||++.+ .+++.+++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~--~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF--EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC--SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc--cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999 67767999999999999999999 55599998
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.15 E-value=3e-11 Score=73.15 Aligned_cols=44 Identities=36% Similarity=0.875 Sum_probs=38.9
Q ss_pred cccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccc
Q 029012 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 180 (200)
.|.||++.|....+..+++|||+||..|+..++.....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999955556689999999999999999977779999985
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=99.09 E-value=5.1e-11 Score=94.47 Aligned_cols=54 Identities=30% Similarity=0.714 Sum_probs=41.5
Q ss_pred ccccCCCcccccccccCC----CC--CeeecCCCCeeCHhhHHHHhccC------CCCcccccccc
Q 029012 130 AASEEEDTCPICLEEYDT----EN--PKLITKCEHHFHLSCILEWNERS------ESCPICDQVCL 183 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~----~~--~~~~l~C~H~Fh~~CI~~Wl~~~------~tCP~CR~~l~ 183 (200)
.....+.+|+||||..-. .+ ..++.+|+|.||..||..|.+.+ .+||+||..+.
T Consensus 165 ~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 165 YRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred HhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 344567889999998621 11 23678999999999999999853 36999999875
No 20
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.07 E-value=6.9e-11 Score=102.40 Aligned_cols=53 Identities=25% Similarity=0.568 Sum_probs=46.3
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
..+....|+||++.| .+| ++++|||.||..||..|+.....||+||..+....
T Consensus 22 ~Le~~l~C~IC~d~~--~~P-vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~ 74 (397)
T TIGR00599 22 PLDTSLRCHICKDFF--DVP-VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESK 74 (397)
T ss_pred ccccccCCCcCchhh--hCc-cCCCCCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence 345678999999999 788 48999999999999999999889999999877543
No 21
>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=98.96 E-value=5.2e-10 Score=64.72 Aligned_cols=38 Identities=50% Similarity=1.276 Sum_probs=33.0
Q ss_pred ccccccccCCCCCeeecCCCCeeCHhhHHHHhc-cCCCCccc
Q 029012 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPIC 178 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~tCP~C 178 (200)
|+||++.. .++ +.++|||.||..|+..|++ ....||+|
T Consensus 1 C~iC~~~~--~~~-~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL--KDP-VVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC--CCc-EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999985 445 7899999999999999998 56689987
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=2.4e-10 Score=103.73 Aligned_cols=53 Identities=36% Similarity=0.743 Sum_probs=43.5
Q ss_pred cCCCcccccccccCCCCC--eeecCCCCeeCHhhHHHHhccCCCCccccccccch
Q 029012 133 EEEDTCPICLEEYDTENP--KLITKCEHHFHLSCILEWNERSESCPICDQVCLLQ 185 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~--~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~ 185 (200)
..+..|.||+|.+..... ...++|+|.||..|+..|++++.+||+||..+...
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 457889999999932211 36999999999999999999999999999954433
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=1.8e-09 Score=87.57 Aligned_cols=52 Identities=37% Similarity=0.792 Sum_probs=45.2
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHH-HhccCCC-CccccccccchhH
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILE-WNERSES-CPICDQVCLLQLL 187 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~-Wl~~~~t-CP~CR~~l~~~~~ 187 (200)
+.+..|.||++.. ..+ ..++|||.||+.||.. |-.++.. ||+||+.+....+
T Consensus 213 ~~d~kC~lC~e~~--~~p-s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEP--EVP-SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeeccc--CCc-ccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 5688899999998 677 6999999999999999 9887775 9999998776644
No 24
>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=98.80 E-value=2.6e-09 Score=71.67 Aligned_cols=53 Identities=28% Similarity=0.395 Sum_probs=42.0
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc-CCCCccccccccchhHHh
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQVCLLQLLVC 189 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~l~~~~~~~ 189 (200)
+.+.|+|+.+.+ .+| +++++||.|.+.+|.+|++. ..+||+|++.+..+++.-
T Consensus 3 ~~f~CpIt~~lM--~dP-Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p 56 (73)
T PF04564_consen 3 DEFLCPITGELM--RDP-VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP 56 (73)
T ss_dssp GGGB-TTTSSB---SSE-EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE
T ss_pred cccCCcCcCcHh--hCc-eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE
Confidence 467899999999 899 58899999999999999999 789999999998776443
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.79 E-value=4e-09 Score=63.31 Aligned_cols=38 Identities=39% Similarity=0.997 Sum_probs=22.7
Q ss_pred cccccccc-CCCCCeeecCCCCeeCHhhHHHHhccC----CCCc
Q 029012 138 CPICLEEY-DTENPKLITKCEHHFHLSCILEWNERS----ESCP 176 (200)
Q Consensus 138 C~ICle~~-~~~~~~~~l~C~H~Fh~~CI~~Wl~~~----~tCP 176 (200)
|+||.+ | +.+++-++|+|||.||++||.+|++.+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 7 334444789999999999999999854 2676
No 26
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.76 E-value=5.1e-09 Score=69.80 Aligned_cols=51 Identities=33% Similarity=0.717 Sum_probs=39.9
Q ss_pred CCcccccccccC-----------C--CCCeeecCCCCeeCHhhHHHHhccCCCCccccccccch
Q 029012 135 EDTCPICLEEYD-----------T--ENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQ 185 (200)
Q Consensus 135 ~~~C~ICle~~~-----------~--~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~ 185 (200)
-+.|+||..-|. + +=+++.-.|.|.||.+||.+||..+..||++|+.+...
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 466777765541 1 22456678999999999999999999999999987654
No 27
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.75 E-value=2.9e-09 Score=89.11 Aligned_cols=55 Identities=29% Similarity=0.580 Sum_probs=48.7
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHHhh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLVCA 190 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~~~ 190 (200)
+.-+.|.||.|.| .-| +++||+|.||.-||...|..+..||.|+..+....++++
T Consensus 21 D~lLRC~IC~eyf--~ip-~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n 75 (442)
T KOG0287|consen 21 DDLLRCGICFEYF--NIP-MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNN 75 (442)
T ss_pred HHHHHHhHHHHHh--cCc-eeccccchHHHHHHHHHhccCCCCCceecccchhhhhhh
Confidence 4567899999999 667 699999999999999999999999999999887766655
No 28
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=6.5e-09 Score=91.26 Aligned_cols=48 Identities=44% Similarity=0.851 Sum_probs=40.8
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccC-----CCCccccccccch
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS-----ESCPICDQVCLLQ 185 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~-----~tCP~CR~~l~~~ 185 (200)
+..|+|||+.. .-+ ..+.|||.||..||..+|... ..||+||..|...
T Consensus 186 ~~~CPICL~~~--~~p-~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPP--SVP-VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCC--Ccc-cccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 78899999998 556 577799999999999988765 3899999988764
No 29
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.63 E-value=6.5e-09 Score=66.89 Aligned_cols=55 Identities=31% Similarity=0.632 Sum_probs=28.4
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHHhhh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLVCAI 191 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~~~~ 191 (200)
++-..|++|.+.+ .+|+.+..|.|.||..||..-+. ..||+|+.+....+++.|.
T Consensus 5 e~lLrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~Nr 59 (65)
T PF14835_consen 5 EELLRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINR 59 (65)
T ss_dssp HHTTS-SSS-S----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----H
T ss_pred HHhcCCcHHHHHh--cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhh
Confidence 3467899999999 89988999999999999988555 3599999998877766653
No 30
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=5.2e-09 Score=69.18 Aligned_cols=52 Identities=35% Similarity=0.860 Sum_probs=40.5
Q ss_pred CCCcccccccccCC----------CCCeeecCCCCeeCHhhHHHHhccC---CCCccccccccch
Q 029012 134 EEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNERS---ESCPICDQVCLLQ 185 (200)
Q Consensus 134 ~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~~---~tCP~CR~~l~~~ 185 (200)
.++.|.||.-.|+. .=|++.-.|.|.||..||.+|+..+ ..||+||+.+.+.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 44589999988843 1255556799999999999999754 4899999987653
No 31
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1.8e-08 Score=70.49 Aligned_cols=67 Identities=27% Similarity=0.594 Sum_probs=47.2
Q ss_pred cchhhhccccc---ccccCCCccccccccc-------------CCCC-CeeecCCCCeeCHhhHHHHhccCCCCcccccc
Q 029012 119 RKSEVSQLNVF---AASEEEDTCPICLEEY-------------DTEN-PKLITKCEHHFHLSCILEWNERSESCPICDQV 181 (200)
Q Consensus 119 ~~~~~~~~~~~---~~~~~~~~C~ICle~~-------------~~~~-~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~ 181 (200)
+..+++|-... .-....+.|+||..-+ ..++ .+.--.|.|.||..||.+||+.+..||+|.++
T Consensus 27 krF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 27 KRFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred cceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 44456655544 3345678899985322 0011 23455899999999999999999999999998
Q ss_pred ccch
Q 029012 182 CLLQ 185 (200)
Q Consensus 182 l~~~ 185 (200)
..+.
T Consensus 107 W~~q 110 (114)
T KOG2930|consen 107 WVFQ 110 (114)
T ss_pred eeEe
Confidence 7655
No 32
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.58 E-value=1.8e-08 Score=82.89 Aligned_cols=51 Identities=25% Similarity=0.428 Sum_probs=44.8
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
+.-+.|.||-+.| .-| ..++|||.||.-||...|..+..||+||.+.....
T Consensus 23 Ds~lrC~IC~~~i--~ip-~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 23 DSMLRCRICDCRI--SIP-CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESR 73 (391)
T ss_pred hhHHHhhhhhhee--ecc-eecccccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence 3467899999999 677 69999999999999999999999999999866443
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=98.58 E-value=3.2e-08 Score=61.19 Aligned_cols=42 Identities=36% Similarity=0.928 Sum_probs=34.2
Q ss_pred cccccccccCCCCCeeecCCC-----CeeCHhhHHHHhccCC--CCcccc
Q 029012 137 TCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNERSE--SCPICD 179 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~~~--tCP~CR 179 (200)
.|.||++..+.+++ .+.||. |.||..|+.+|+..+. +||+|+
T Consensus 1 ~CrIC~~~~~~~~~-l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDP-LVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCe-eEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999995555666 588995 9999999999996554 999995
No 34
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.58 E-value=7.2e-08 Score=80.82 Aligned_cols=52 Identities=25% Similarity=0.477 Sum_probs=38.3
Q ss_pred CCcccccccc--cCCCCCeeecCCCCeeCHhhHHHHh-ccCCCCccccccccchh
Q 029012 135 EDTCPICLEE--YDTENPKLITKCEHHFHLSCILEWN-ERSESCPICDQVCLLQL 186 (200)
Q Consensus 135 ~~~C~ICle~--~~~~~~~~~l~C~H~Fh~~CI~~Wl-~~~~tCP~CR~~l~~~~ 186 (200)
+..|+||+.. +.+.-.+.+.+|||.||..||...+ .....||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4679999985 3222222333899999999999965 44568999999888665
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=4.8e-08 Score=80.71 Aligned_cols=46 Identities=41% Similarity=0.913 Sum_probs=41.0
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccc
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 180 (200)
..++..|+||++.| .+| .+++|||.||..||..|+.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~--~~p-~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYF--REP-VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHh--hcC-ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 45788899999999 677 79999999999999999996669999993
No 36
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=5.6e-08 Score=84.95 Aligned_cols=51 Identities=29% Similarity=0.773 Sum_probs=40.5
Q ss_pred cCCCcccccccccCC---CCC-----------eeecCCCCeeCHhhHHHHhc-cCCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDT---ENP-----------KLITKCEHHFHLSCILEWNE-RSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~---~~~-----------~~~l~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~l~ 183 (200)
+....|+|||..++- +.+ ..++||.|.||..|+.+||. .+-.||+||.+++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 456779999987732 111 25679999999999999999 5669999999886
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.43 E-value=5.1e-08 Score=64.83 Aligned_cols=51 Identities=31% Similarity=0.673 Sum_probs=25.1
Q ss_pred CCcccccccccCC--CCCeee---cCCCCeeCHhhHHHHhcc-----------CCCCccccccccch
Q 029012 135 EDTCPICLEEYDT--ENPKLI---TKCEHHFHLSCILEWNER-----------SESCPICDQVCLLQ 185 (200)
Q Consensus 135 ~~~C~ICle~~~~--~~~~~~---l~C~H~Fh~~CI~~Wl~~-----------~~tCP~CR~~l~~~ 185 (200)
+..|.||+..+.. ..+..+ ..|++.||..||.+||.. ..+||.|+++|...
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 4679999998742 223222 279999999999999973 12699999988754
No 38
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=2.7e-07 Score=75.24 Aligned_cols=61 Identities=23% Similarity=0.592 Sum_probs=46.9
Q ss_pred ccccCCCcccccccccCCCC-------CeeecCCCCeeCHhhHHHHhc--cCCCCccccccccchhHHhh
Q 029012 130 AASEEEDTCPICLEEYDTEN-------PKLITKCEHHFHLSCILEWNE--RSESCPICDQVCLLQLLVCA 190 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~-------~~~~l~C~H~Fh~~CI~~Wl~--~~~tCP~CR~~l~~~~~~~~ 190 (200)
....++..|+||-..+.... ....+.|+|.||..||..|-- .+.+||-|++.+....+..|
T Consensus 219 tkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsn 288 (328)
T KOG1734|consen 219 TKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSN 288 (328)
T ss_pred CCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccC
Confidence 34456788999987773322 447899999999999999975 56699999998876655554
No 39
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=2.1e-07 Score=85.32 Aligned_cols=57 Identities=28% Similarity=0.649 Sum_probs=47.9
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc-cCCCCccccccccchhHHhhhhhhhh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPICDQVCLLQLLVCAISRCFF 196 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~l~~~~~~~~~~~~~~ 196 (200)
.+-..|++|-..+ .+. ++++|||.||..||..-+. +...||.|...|-.. .++++||
T Consensus 641 K~~LkCs~Cn~R~--Kd~-vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan----Dv~~I~l 698 (698)
T KOG0978|consen 641 KELLKCSVCNTRW--KDA-VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN----DVHRIHL 698 (698)
T ss_pred HhceeCCCccCch--hhH-HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc----cccccCC
Confidence 3568899999877 444 7999999999999999886 566999999999877 6777775
No 40
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=1.1e-06 Score=74.34 Aligned_cols=48 Identities=29% Similarity=0.674 Sum_probs=42.1
Q ss_pred cCCCcccccccccCCCCCeeecCCCCe-eCHhhHHHHhccCCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
+...+|.|||.+. .+- ++|||.|. .|..|.+...-..+.||+||+++.
T Consensus 288 ~~gkeCVIClse~--rdt-~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSES--RDT-VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCC--cce-EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 4478899999998 555 79999998 899999998888889999999876
No 41
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.14 E-value=4.2e-07 Score=84.85 Aligned_cols=55 Identities=25% Similarity=0.700 Sum_probs=42.2
Q ss_pred ccccCCCcccccccccCCCCC----eeecCCCCeeCHhhHHHHhccCC--CCccccccccc
Q 029012 130 AASEEEDTCPICLEEYDTENP----KLITKCEHHFHLSCILEWNERSE--SCPICDQVCLL 184 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~----~~~l~C~H~Fh~~CI~~Wl~~~~--tCP~CR~~l~~ 184 (200)
...+...+|+||+..+...+. .+...|.|.||..|+.+|+..+. +||+||..+++
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 445567889999988742221 25667999999999999998654 99999987754
No 42
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=7.2e-07 Score=76.08 Aligned_cols=48 Identities=31% Similarity=0.794 Sum_probs=34.8
Q ss_pred CcccccccccCCCCCee-ecCCCCeeCHhhHHHHhccC---CCCcccccccc
Q 029012 136 DTCPICLEEYDTENPKL-ITKCEHHFHLSCILEWNERS---ESCPICDQVCL 183 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~~---~tCP~CR~~l~ 183 (200)
..|.||.+.+.....+. +-.|||+||.-|+..|++.- .+||+|+-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 46999966553333333 34599999999999999853 48999994443
No 43
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=9.8e-07 Score=73.05 Aligned_cols=49 Identities=22% Similarity=0.489 Sum_probs=41.1
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCC-CCccccccccch
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE-SCPICDQVCLLQ 185 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~-tCP~CR~~l~~~ 185 (200)
...+|+||+... .-| +.+.|+|.||.-||+.-..+.. +|++||++|..+
T Consensus 6 ~~~eC~IC~nt~--n~P-v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTG--NCP-VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccC--CcC-ccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 356799999987 567 7999999999999997766544 799999998854
No 44
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=5.2e-07 Score=55.93 Aligned_cols=47 Identities=28% Similarity=0.621 Sum_probs=38.4
Q ss_pred CCCcccccccccCCCCCeeecCCCCe-eCHhhHHHHhc-cCCCCcccccccc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNE-RSESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~-~~~tCP~CR~~l~ 183 (200)
..++|.||+|.- .+. ++-.|||. .|.+|-.+.++ .+..||+||+++.
T Consensus 6 ~~dECTICye~p--vds-VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHP--VDS-VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCc--chH-HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 448899999976 555 58899997 79999877666 6779999999875
No 45
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=2.5e-06 Score=73.28 Aligned_cols=53 Identities=30% Similarity=0.743 Sum_probs=42.8
Q ss_pred CCCcccccccccC--CCCCeeecCCCCeeCHhhHHHHhcc--CCCCccccccccchh
Q 029012 134 EEDTCPICLEEYD--TENPKLITKCEHHFHLSCILEWNER--SESCPICDQVCLLQL 186 (200)
Q Consensus 134 ~~~~C~ICle~~~--~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~tCP~CR~~l~~~~ 186 (200)
....|+||++.|. ....++.+.|||.|...||.+|+.. ...||.|...-.+..
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 4678999999993 3556788999999999999999963 228999988766653
No 46
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.06 E-value=2.9e-06 Score=54.08 Aligned_cols=43 Identities=37% Similarity=0.796 Sum_probs=31.4
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc--CCCCcc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--SESCPI 177 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~tCP~ 177 (200)
.-...|+|.+..| .+|++...|||.|-++.|.+|+.+ ...||+
T Consensus 9 ~~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4568899999999 899988999999999999999944 448998
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=1.6e-06 Score=74.15 Aligned_cols=51 Identities=33% Similarity=0.855 Sum_probs=39.1
Q ss_pred cCCCcccccccccCCCC-----CeeecCCCCeeCHhhHHHHh--cc-----CCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDTEN-----PKLITKCEHHFHLSCILEWN--ER-----SESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl--~~-----~~tCP~CR~~l~ 183 (200)
..+.+|.||++...... -.++.+|.|.||..||..|. .+ ++.||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45788999999983222 11346799999999999998 44 569999998654
No 48
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=2.9e-07 Score=77.68 Aligned_cols=51 Identities=25% Similarity=0.617 Sum_probs=42.4
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc-CCCCccccccccc
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQVCLL 184 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~l~~ 184 (200)
...+..|+|||+.+ ........|+|.||..||..-|+. .++||.||+.+..
T Consensus 40 ~~~~v~c~icl~ll--k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 40 FDIQVICPICLSLL--KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhhccHHHHHHH--HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 34578899999999 566667789999999999888875 5599999998763
No 49
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.02 E-value=2.4e-06 Score=74.22 Aligned_cols=49 Identities=41% Similarity=0.941 Sum_probs=39.9
Q ss_pred cCCCcccccccccCC-CCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDT-ENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
.+-..|+||||..+. ..-++.+.|.|.||-.|+..|. ..+||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 456789999999943 3345788999999999999994 458999998665
No 50
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.94 E-value=1.6e-06 Score=71.83 Aligned_cols=53 Identities=23% Similarity=0.679 Sum_probs=44.0
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc-----------------------cCCCCccccccccch
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-----------------------RSESCPICDQVCLLQ 185 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-----------------------~~~tCP~CR~~l~~~ 185 (200)
.....|.|||.-|...+..++++|.|.||..|+.++|. ....||+||..|..+
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 45667999999998777789999999999999988765 123799999988755
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=5.3e-06 Score=72.32 Aligned_cols=49 Identities=27% Similarity=0.657 Sum_probs=44.1
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLL 184 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~ 184 (200)
..+..|.||+..+ .+| +.+||||.||..||.+-+.....||.||.++..
T Consensus 82 ~sef~c~vc~~~l--~~p-v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRAL--YPP-VVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhc--CCC-ccccccccccHHHHHHHhccCCCCccccccccc
Confidence 4678899999999 788 577999999999999999989999999999884
No 52
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.88 E-value=1.5e-06 Score=72.78 Aligned_cols=52 Identities=35% Similarity=0.624 Sum_probs=45.9
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
..-..|.+|-..| .+...++-|-|.||+.||.+.|+...+||+|+..+-...
T Consensus 13 n~~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 13 NPHITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred ccceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 4567899999999 778788999999999999999999999999988776553
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.87 E-value=6e-06 Score=72.28 Aligned_cols=53 Identities=32% Similarity=0.699 Sum_probs=45.8
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
.++...|+||...+ .+|+..+.|||.||..|+..|+..+..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccc--cCCCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 35678899999999 788544799999999999999999999999988876544
No 54
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.80 E-value=3.4e-06 Score=77.54 Aligned_cols=52 Identities=21% Similarity=0.492 Sum_probs=43.6
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLL 184 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~ 184 (200)
.....|++|+..+..+......+|+|.||.+||..|-+...+||+||..+..
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 4567799999988544444667899999999999999999999999997753
No 55
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.68 E-value=3.2e-05 Score=75.27 Aligned_cols=65 Identities=32% Similarity=0.623 Sum_probs=48.3
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCC----------CCcccccccc---chhHHhhhhhhh
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE----------SCPICDQVCL---LQLLVCAISRCF 195 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~----------tCP~CR~~l~---~~~~~~~~~~~~ 195 (200)
+.+.++.|.||+.+--...|.+.+.|+|.||..|..+.|++.- +||+|+.+|. ..++...|..+|
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~LkDLldPiKel~ 3559 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLKDLLDPIKELY 3559 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHHHHHHHHHHHH
Confidence 4467899999998775567889999999999999987666432 8999999875 333444444444
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.53 E-value=3e-05 Score=66.64 Aligned_cols=48 Identities=27% Similarity=0.653 Sum_probs=39.8
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccC--CCCccccccccch
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS--ESCPICDQVCLLQ 185 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~--~tCP~CR~~l~~~ 185 (200)
-..|-||-|.- ..+.+-||||..|..|+..|-... .+||.||.+|...
T Consensus 369 FeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 369 FELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 35699998874 556789999999999999998654 5999999998754
No 57
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.52 E-value=3.5e-05 Score=60.41 Aligned_cols=48 Identities=27% Similarity=0.752 Sum_probs=42.2
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
.-...|.||-+.| ..| +++.|||+||..|..+-++.-.+|-+|.+...
T Consensus 194 ~IPF~C~iCKkdy--~sp-vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 194 KIPFLCGICKKDY--ESP-VVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred CCceeehhchhhc--cch-hhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 3456899999999 788 69999999999999999998999999988655
No 58
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=9e-05 Score=60.87 Aligned_cols=51 Identities=29% Similarity=0.656 Sum_probs=42.8
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc--cCCCCcccccccc
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE--RSESCPICDQVCL 183 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~--~~~tCP~CR~~l~ 183 (200)
....+.+|++|-+.- ..|-+..+|||.||..||..-+. .+.+||.|...+.
T Consensus 235 ~~t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 345678899999987 78888999999999999987665 4579999988765
No 59
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=2e-05 Score=65.20 Aligned_cols=42 Identities=26% Similarity=0.680 Sum_probs=34.7
Q ss_pred CCcccccccccCCCCCeeecCCCCee-CHhhHHHHhccCCCCcccccccc
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHF-HLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~F-h~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
...|.||++.. .+- +.|+|||.. |..|-++. ..||+||+-|.
T Consensus 300 ~~LC~ICmDaP--~DC-vfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP--RDC-VFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC--cce-EEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 67799999987 667 799999974 88887553 39999999775
No 60
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.47 E-value=2.3e-05 Score=67.22 Aligned_cols=49 Identities=35% Similarity=0.657 Sum_probs=40.3
Q ss_pred ccCCCcccccccccCC-CCCeeecCCCCeeCHhhHHHHhccCC--CCccccc
Q 029012 132 SEEEDTCPICLEEYDT-ENPKLITKCEHHFHLSCILEWNERSE--SCPICDQ 180 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~~~--tCP~CR~ 180 (200)
.+-+..|..|=+.+.. .+.+..+||.|+||..|+.+.++.+. +||.||+
T Consensus 362 ~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 362 EETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3557889999998832 33457899999999999999998765 9999994
No 61
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=5.5e-05 Score=62.67 Aligned_cols=46 Identities=33% Similarity=0.668 Sum_probs=41.8
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
.+.|-||-..| .+| +++.|+|.||..|-..-++....|.+|.+.+.
T Consensus 241 Pf~c~icr~~f--~~p-Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYF--YRP-VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred Ccccccccccc--ccc-hhhcCCceeehhhhccccccCCcceecccccc
Confidence 45699999999 789 69999999999999999999999999988765
No 62
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.39 E-value=7.8e-05 Score=45.54 Aligned_cols=40 Identities=40% Similarity=1.010 Sum_probs=28.5
Q ss_pred ccccccccCCCCCeeecCCC-----CeeCHhhHHHHhcc--CCCCccc
Q 029012 138 CPICLEEYDTENPKLITKCE-----HHFHLSCILEWNER--SESCPIC 178 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~--~~tCP~C 178 (200)
|-||++.....++ .+.||. ...|..|+.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~~-li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEP-LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCc-eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 7799998865555 578886 57899999999984 4589987
No 63
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.20 E-value=0.00011 Score=59.43 Aligned_cols=59 Identities=22% Similarity=0.616 Sum_probs=41.0
Q ss_pred cccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHHhhh---hhhhhcc
Q 029012 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLVCAI---SRCFFNS 198 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~~~~---~~~~~~~ 198 (200)
.|-.|..--. .++..++.|+|+||..|...-. ...||+||+.+....+..++ .++||+.
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i~l~~slp~~ik~~F~d 66 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRIIQLNRSLPTDIKSYFAD 66 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceeeeeecccccchhHHHHccC
Confidence 4666665554 7788999999999999975532 22899999998766544432 4444443
No 64
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.20 E-value=0.00069 Score=63.29 Aligned_cols=52 Identities=38% Similarity=0.827 Sum_probs=40.2
Q ss_pred ccccCCCcccccccccCCCCCe-eecCCCCeeCHhhHHHHhccCC-------CCcccccc
Q 029012 130 AASEEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSE-------SCPICDQV 181 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~~~~-------tCP~CR~~ 181 (200)
..+....+|.||++.+....++ .-..|-|+||..||.+|-.... .||-|...
T Consensus 186 ~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 186 QLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred HHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 3446778999999999776664 3345889999999999987422 79999843
No 65
>PHA02862 5L protein; Provisional
Probab=97.11 E-value=0.00025 Score=52.95 Aligned_cols=48 Identities=23% Similarity=0.591 Sum_probs=36.9
Q ss_pred CCcccccccccCCCCCeeecCCC-----CeeCHhhHHHHhccCC--CCccccccccchh
Q 029012 135 EDTCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNERSE--SCPICDQVCLLQL 186 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~~~--tCP~CR~~l~~~~ 186 (200)
.+.|-||++.- ++. .-||. ...|++|+.+|+..+. .|++|+.+.....
T Consensus 2 ~diCWIC~~~~--~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVC--DER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcC--CCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 46799999986 333 46664 6789999999998654 9999999876543
No 66
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.10 E-value=0.00014 Score=64.61 Aligned_cols=54 Identities=28% Similarity=0.645 Sum_probs=44.1
Q ss_pred ccccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc-----cCCCCccccccccchh
Q 029012 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-----RSESCPICDQVCLLQL 186 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-----~~~tCP~CR~~l~~~~ 186 (200)
....++..|.+|-+.- ++. +...|.|.||+.||++++. ...+||+|-..+..+.
T Consensus 531 ~enk~~~~C~lc~d~a--ed~-i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPA--EDY-IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred ccccCceeecccCChh--hhh-HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 4456778899999987 666 6999999999999998876 2459999998887653
No 67
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.07 E-value=0.00046 Score=52.50 Aligned_cols=51 Identities=33% Similarity=0.704 Sum_probs=38.2
Q ss_pred cccCCCcccccccccCCCCCeeecCCC--C---eeCHhhHHHHhccCC--CCccccccccch
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCE--H---HFHLSCILEWNERSE--SCPICDQVCLLQ 185 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~--H---~Fh~~CI~~Wl~~~~--tCP~CR~~l~~~ 185 (200)
.+..+..|-||.+... .. .-||. . ..|++|+.+|+..++ .|++|+.++...
T Consensus 4 ~s~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 4 VSLMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred cCCCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 3456788999998862 22 34664 3 569999999998655 899999987644
No 68
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00031 Score=59.68 Aligned_cols=50 Identities=24% Similarity=0.590 Sum_probs=42.6
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccc
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLL 184 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~ 184 (200)
..++..|+||.-.- .+. +..||+|.-|..||.+.|.+.+.|=.|+..+..
T Consensus 419 ~sEd~lCpICyA~p--i~A-vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAGP--INA-VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceeccc--chh-hccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 35778899998764 344 799999999999999999999999999987763
No 69
>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=96.91 E-value=0.00026 Score=52.43 Aligned_cols=37 Identities=19% Similarity=0.474 Sum_probs=30.7
Q ss_pred CCCcccccccccCCCCCeeecCCC------CeeCHhhHHHHhc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCE------HHFHLSCILEWNE 170 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~------H~Fh~~CI~~Wl~ 170 (200)
-..+|.||++.+...+.++.++|| |.||.+|+.+|-+
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 367899999999654567788887 8999999999943
No 70
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.84 E-value=0.00047 Score=57.40 Aligned_cols=50 Identities=34% Similarity=0.530 Sum_probs=39.5
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhccC-CCCccc-cccccchhH
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS-ESCPIC-DQVCLLQLL 187 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~-~tCP~C-R~~l~~~~~ 187 (200)
+.|+.|-..+ .+++..--|+|.||.+||..-|..+ ..||.| |+.+..+.+
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l 326 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGL 326 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhcc
Confidence 8899999999 7896554689999999999777654 599999 556655543
No 71
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.78 E-value=0.0016 Score=39.76 Aligned_cols=45 Identities=27% Similarity=0.589 Sum_probs=23.6
Q ss_pred ccccccccCCCCC-eeecCCCCeeCHhhHHHHhc-cCCCCccccccc
Q 029012 138 CPICLEEYDTENP-KLITKCEHHFHLSCILEWNE-RSESCPICDQVC 182 (200)
Q Consensus 138 C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~l 182 (200)
|++|.++++..+. ..--+||+.+|+.|..+-++ ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999954443 23346799999999999987 477999999864
No 72
>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=96.77 E-value=0.0012 Score=50.23 Aligned_cols=61 Identities=31% Similarity=0.668 Sum_probs=42.0
Q ss_pred CCCcccccccccCCCCCeeecCCC-C------------eeCHhhHHHHhcc-----------------------------
Q 029012 134 EEDTCPICLEEYDTENPKLITKCE-H------------HFHLSCILEWNER----------------------------- 171 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~-H------------~Fh~~CI~~Wl~~----------------------------- 171 (200)
++..|+||||-. .|. ++|-|. | .-|..|+.+.-+.
T Consensus 1 ed~~CpICme~P--HNA-VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (162)
T PF07800_consen 1 EDVTCPICMEHP--HNA-VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQE 77 (162)
T ss_pred CCccCceeccCC--Cce-EEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccc
Confidence 356799999987 566 577664 1 2377899887541
Q ss_pred --CCCCccccccccchhHHhhhhhhhhcc
Q 029012 172 --SESCPICDQVCLLQLLVCAISRCFFNS 198 (200)
Q Consensus 172 --~~tCP~CR~~l~~~~~~~~~~~~~~~~ 198 (200)
.-.||+||..|..=.++ ...|.|||.
T Consensus 78 ~~~L~CPLCRG~V~GWtvv-e~AR~~LN~ 105 (162)
T PF07800_consen 78 QPELACPLCRGEVKGWTVV-EPARRFLNA 105 (162)
T ss_pred cccccCccccCceeceEEc-hHHHHHhcc
Confidence 12699999988744433 337888874
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.00077 Score=58.37 Aligned_cols=47 Identities=26% Similarity=0.400 Sum_probs=38.6
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc--------CCCCccccc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--------SESCPICDQ 180 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------~~tCP~CR~ 180 (200)
.-..|.||+++.........+||+|.||+.|++.++.. .-.||-+..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 45779999999976678899999999999999999862 227877654
No 74
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.0015 Score=54.96 Aligned_cols=46 Identities=33% Similarity=0.754 Sum_probs=38.3
Q ss_pred CcccccccccCCC----CCeeecCCCCeeCHhhHHHHhccCC-CCccccccc
Q 029012 136 DTCPICLEEYDTE----NPKLITKCEHHFHLSCILEWNERSE-SCPICDQVC 182 (200)
Q Consensus 136 ~~C~ICle~~~~~----~~~~~l~C~H~Fh~~CI~~Wl~~~~-tCP~CR~~l 182 (200)
..|-||-++|+.+ .| +.+.|||.||..|+...+.... .||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p-~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIP-RVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCC-cccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 5799999999543 24 6888999999999988877665 899999984
No 75
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.65 E-value=0.0023 Score=54.02 Aligned_cols=55 Identities=22% Similarity=0.586 Sum_probs=47.8
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhH
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLL 187 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~ 187 (200)
.......|+||+... .||.++.--|-.||..||-..+...+.||+=..++..+++
T Consensus 296 l~~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l 350 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHL 350 (357)
T ss_pred CCCccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHH
Confidence 345667899999988 8887888889999999999999999999999998888843
No 76
>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=96.65 E-value=0.00085 Score=47.64 Aligned_cols=35 Identities=26% Similarity=0.570 Sum_probs=28.3
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHH
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCIL 166 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~ 166 (200)
...++..|++|-..+.. ...++.||||.||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 34567779999999953 455888999999999975
No 77
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.62 E-value=0.0015 Score=52.42 Aligned_cols=52 Identities=25% Similarity=0.565 Sum_probs=43.2
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc--------CCCCcccccccc
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--------SESCPICDQVCL 183 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------~~tCP~CR~~l~ 183 (200)
.++-.-.|..|-..+..++. +.+-|-|.||++|+.+|--. -..||-|.++|.
T Consensus 46 DsDY~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 46 DSDYNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred hcCCCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 34556779999999987888 69999999999999999763 228999999876
No 78
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.53 E-value=0.0019 Score=53.58 Aligned_cols=54 Identities=22% Similarity=0.492 Sum_probs=43.4
Q ss_pred ccCCCcccccccccCCCCC-eeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 132 SEEEDTCPICLEEYDTENP-KLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
......|||...+|..... +.+.+|||.|...+|.+.- ....||+|.+++...+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED 164 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence 4677899999999954333 4666999999999999983 4568999999988664
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.53 E-value=0.002 Score=52.32 Aligned_cols=54 Identities=13% Similarity=0.281 Sum_probs=46.2
Q ss_pred CCCcccccccccCCCCCe-eecCCCCeeCHhhHHHHhccCCCCccccccccchhH
Q 029012 134 EEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSESCPICDQVCLLQLL 187 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~ 187 (200)
....|+||.+.+....+. ++-+|||.|+.+|..+.+..-..||+|.+++..+++
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 567899999999554443 667999999999999999999999999999987653
No 80
>PHA03096 p28-like protein; Provisional
Probab=96.43 E-value=0.0012 Score=55.36 Aligned_cols=46 Identities=26% Similarity=0.579 Sum_probs=33.2
Q ss_pred CcccccccccCCCC-----CeeecCCCCeeCHhhHHHHhccCC---CCcccccc
Q 029012 136 DTCPICLEEYDTEN-----PKLITKCEHHFHLSCILEWNERSE---SCPICDQV 181 (200)
Q Consensus 136 ~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl~~~~---tCP~CR~~ 181 (200)
..|.||++...... -..+..|.|.||..||..|...+. +||.||.-
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~ 232 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL 232 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence 77999999873221 125668999999999999997533 55555543
No 81
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0018 Score=55.26 Aligned_cols=46 Identities=30% Similarity=0.685 Sum_probs=34.6
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLL 184 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~ 184 (200)
...+.|.||+++. .+ .+.+||||.-| |+..-. ...+||+||+.+..
T Consensus 303 ~~p~lcVVcl~e~--~~-~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 303 PQPDLCVVCLDEP--KS-AVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIRL 348 (355)
T ss_pred CCCCceEEecCCc--cc-eeeecCCcEEE--chHHHh-hCCCCchhHHHHHH
Confidence 3457799999998 45 57999999977 765543 33459999998753
No 82
>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=96.20 E-value=0.0019 Score=39.02 Aligned_cols=34 Identities=32% Similarity=0.674 Sum_probs=24.7
Q ss_pred eecCCC-CeeCHhhHHHHhccCCCCccccccccch
Q 029012 152 LITKCE-HHFHLSCILEWNERSESCPICDQVCLLQ 185 (200)
Q Consensus 152 ~~l~C~-H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~ 185 (200)
.+..|. |..|..|+...+.++..||+|.++++..
T Consensus 14 ~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 467785 9999999999999999999999998753
No 83
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.16 E-value=0.0038 Score=53.14 Aligned_cols=51 Identities=22% Similarity=0.454 Sum_probs=41.2
Q ss_pred ccccCCCcccccccccCCCCCeeecCCCCeeCHhhHHH--HhccCCCCcccccccc
Q 029012 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILE--WNERSESCPICDQVCL 183 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~--Wl~~~~tCP~CR~~l~ 183 (200)
+..++...|.||-+.+ .-..++||+|..|..|-.+ -|...+.||+||....
T Consensus 56 dtDEen~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 56 DTDEENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 4556778899999987 4458999999999999864 4667889999998643
No 84
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.05 E-value=0.0026 Score=53.97 Aligned_cols=59 Identities=22% Similarity=0.491 Sum_probs=42.6
Q ss_pred ccccCCCcccccccccCCCCC-eeecCCCCeeCHhhHHHHhcc-CCCCccccccccchhHH
Q 029012 130 AASEEEDTCPICLEEYDTENP-KLITKCEHHFHLSCILEWNER-SESCPICDQVCLLQLLV 188 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~l~~~~~~ 188 (200)
.++++++.|+.|+|+++..+. ..--+||-..|+-|....-+. +..||-||+....+.++
T Consensus 9 ~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 9 NSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred ccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 355677889999999965444 245578988888887665443 55999999977655433
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.97 E-value=0.003 Score=59.18 Aligned_cols=44 Identities=23% Similarity=0.616 Sum_probs=37.6
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
...|.+|--.+ +-|.+...|||.||++|+. .....||-|+..+.
T Consensus 840 ~skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 840 VSKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 46899999888 7899999999999999998 55679999987443
No 86
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.91 E-value=0.0037 Score=39.11 Aligned_cols=47 Identities=23% Similarity=0.462 Sum_probs=34.4
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
...|..|...- ...++++|||..|..|..- ++-+-||+|.+++..++
T Consensus 7 ~~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 34466665543 3347999999999999765 36678999999887653
No 87
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.78 E-value=0.0062 Score=47.20 Aligned_cols=55 Identities=24% Similarity=0.573 Sum_probs=37.5
Q ss_pred cccCCCcccccccccCC----CCCeeecCCCCeeCHhhHHHHhcc-----C------CCCccccccccch
Q 029012 131 ASEEEDTCPICLEEYDT----ENPKLITKCEHHFHLSCILEWNER-----S------ESCPICDQVCLLQ 185 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~----~~~~~~l~C~H~Fh~~CI~~Wl~~-----~------~tCP~CR~~l~~~ 185 (200)
..++...|.||+-.--. ...--...||..||+-|+..||+. + ..||.|.+++...
T Consensus 161 kdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 161 KDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred cchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 34455668888754311 111235689999999999999972 1 2799999887643
No 88
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.78 E-value=0.0052 Score=51.15 Aligned_cols=47 Identities=34% Similarity=0.613 Sum_probs=38.4
Q ss_pred CCCcccccccccCC-CCCeeecCCCCeeCHhhHHHHhccCCCCccccc
Q 029012 134 EEDTCPICLEEYDT-ENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (200)
Q Consensus 134 ~~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 180 (200)
....|+||.+.+.. ...+..++|||..|..|..+.....-+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 34459999988833 334479999999999999998887799999988
No 89
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.64 E-value=0.0049 Score=57.56 Aligned_cols=50 Identities=32% Similarity=0.747 Sum_probs=41.7
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCC--CCccccccccchhHHh
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCPICDQVCLLQLLVC 189 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--tCP~CR~~l~~~~~~~ 189 (200)
..|.||++ . +..+.+.|||.||..|+..-+.... .||+||..+..+.+..
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 78999999 4 4448999999999999999887654 7999999888776554
No 90
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.18 E-value=0.014 Score=34.84 Aligned_cols=41 Identities=22% Similarity=0.553 Sum_probs=22.2
Q ss_pred ccccccccCCCCCeeecCCCCeeCHhhHHHHhccCC--CCccc
Q 029012 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCPIC 178 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--tCP~C 178 (200)
|.+|.+....+..=....|+=.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 667877773322212235888999999999998766 79987
No 91
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=94.86 E-value=0.013 Score=51.44 Aligned_cols=35 Identities=34% Similarity=0.723 Sum_probs=31.3
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 170 (200)
+++..|+||...| ++| ++++|+|..|+.|...-+.
T Consensus 2 eeelkc~vc~~f~--~ep-iil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFY--REP-IILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhc--cCc-eEeecccHHHHHHHHhhcc
Confidence 6789999999999 899 6999999999999987664
No 92
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.26 E-value=0.0028 Score=54.60 Aligned_cols=55 Identities=16% Similarity=0.324 Sum_probs=45.0
Q ss_pred CCCcccccccccCCC-CCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHH
Q 029012 134 EEDTCPICLEEYDTE-NPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLV 188 (200)
Q Consensus 134 ~~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~ 188 (200)
-...|+||.+.|... +.+..+-|||.+|..||.+|+.....||.|+..+....+.
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e 250 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGFE 250 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhHH
Confidence 356799999988432 4456788999999999999999999999999998865433
No 93
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.18 E-value=0.017 Score=44.16 Aligned_cols=30 Identities=23% Similarity=0.595 Sum_probs=26.9
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCH
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHL 162 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~ 162 (200)
++.-+|.||||++..++.+..|||--+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 456779999999999999999999999986
No 94
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.16 E-value=0.022 Score=53.40 Aligned_cols=55 Identities=29% Similarity=0.686 Sum_probs=44.3
Q ss_pred cCCCcccccccccCCCCCeeecCCC-----CeeCHhhHHHHhccCC--CCccccccccchhHH
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNERSE--SCPICDQVCLLQLLV 188 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~~~--tCP~CR~~l~~~~~~ 188 (200)
++...|.||..+-..++|+ .-||. ...|++|+.+|+.-++ .|-+|..++.+.++.
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY 71 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY 71 (1175)
T ss_pred ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence 4557899999988778885 66765 4589999999998655 899999999877543
No 95
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.16 E-value=0.016 Score=47.46 Aligned_cols=53 Identities=28% Similarity=0.701 Sum_probs=38.0
Q ss_pred ccccCCCcccccccccCCCCCe--eecCCC-----CeeCHhhHHHHhccCC--------CCcccccccc
Q 029012 130 AASEEEDTCPICLEEYDTENPK--LITKCE-----HHFHLSCILEWNERSE--------SCPICDQVCL 183 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~--~~l~C~-----H~Fh~~CI~~Wl~~~~--------tCP~CR~~l~ 183 (200)
+..+.+..|=||+..=+ +++. -+-||. |..|+.|+.+|+..+. +||.|+.+..
T Consensus 15 ~~~e~eR~CWiCF~Tde-Dn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 15 DNQELERCCWICFATDE-DNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred CccccceeEEEEeccCc-ccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 34456777999997642 2332 244674 8899999999997543 7999998765
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.14 E-value=0.0096 Score=58.26 Aligned_cols=45 Identities=33% Similarity=0.633 Sum_probs=39.5
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 180 (200)
....|.||++.. .+-..+..|||.+|..|+..|+..+..||+|+.
T Consensus 1152 ~~~~c~ic~dil--~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDIL--RNQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHH--HhcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 345899999999 545568999999999999999999999999973
No 97
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.93 E-value=0.024 Score=53.71 Aligned_cols=40 Identities=25% Similarity=0.510 Sum_probs=32.3
Q ss_pred ccccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc
Q 029012 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 170 (200)
...+..+.|.+|...+- ..|-.+.+|||.||+.||.+-+.
T Consensus 812 ~v~ep~d~C~~C~~~ll-~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 812 RVLEPQDSCDHCGRPLL-IKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred EEecCccchHHhcchhh-cCcceeeeccchHHHHHHHHHHH
Confidence 44567889999998875 35668999999999999987653
No 98
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.39 E-value=0.051 Score=45.75 Aligned_cols=44 Identities=25% Similarity=0.560 Sum_probs=29.6
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
-.|--|=-.+. --.++.||.|.||++|... ..-+.||.|...|.
T Consensus 91 HfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 34555533331 1226899999999999643 45679999977654
No 99
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=93.25 E-value=0.085 Score=32.46 Aligned_cols=43 Identities=23% Similarity=0.590 Sum_probs=23.3
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc---CC--CCcccccc
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SE--SCPICDQV 181 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~--tCP~CR~~ 181 (200)
+.|+|-...+ ..|++...|.|.-|.+ +..||+. .. .||+|+++
T Consensus 3 L~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 5699999888 7899999999986544 2344432 22 79999864
No 100
>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=93.07 E-value=0.076 Score=44.29 Aligned_cols=51 Identities=22% Similarity=0.508 Sum_probs=36.6
Q ss_pred ccccccccc--CCCCCeeecCCCCeeCHhhHHHHhccCC-CCccccccccchhH
Q 029012 137 TCPICLEEY--DTENPKLITKCEHHFHLSCILEWNERSE-SCPICDQVCLLQLL 187 (200)
Q Consensus 137 ~C~ICle~~--~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~-tCP~CR~~l~~~~~ 187 (200)
.|++|.... .+.-.+.+-+|+|..|.+|....+.... .||.|...+.++.+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence 588887443 1111223339999999999999987654 99999988776643
No 101
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.13 E-value=0.081 Score=44.55 Aligned_cols=51 Identities=31% Similarity=0.658 Sum_probs=38.5
Q ss_pred CCcccccccccCCCCC-eeecCCC-----CeeCHhhHHHHhc--cCCCCccccccccch
Q 029012 135 EDTCPICLEEYDTENP-KLITKCE-----HHFHLSCILEWNE--RSESCPICDQVCLLQ 185 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~-~~~l~C~-----H~Fh~~CI~~Wl~--~~~tCP~CR~~l~~~ 185 (200)
+..|.||.++....+. ....||. +..|+.|+..|+. .+..|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 5779999998743321 2578886 6789999999998 555999998865533
No 102
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.03 E-value=0.064 Score=47.03 Aligned_cols=52 Identities=29% Similarity=0.661 Sum_probs=35.4
Q ss_pred CCCcccccc-cccCCCCCeeecCCCCeeCHhhHHHHhccCC------CCcc--ccccccch
Q 029012 134 EEDTCPICL-EEYDTENPKLITKCEHHFHLSCILEWNERSE------SCPI--CDQVCLLQ 185 (200)
Q Consensus 134 ~~~~C~ICl-e~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~------tCP~--CR~~l~~~ 185 (200)
....|.||+ +....+.-.....|+|.||..|.++.++.+. .||. |...+..+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~ 205 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLE 205 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHH
Confidence 467899999 4443333335789999999999999887442 5643 44444443
No 103
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=91.84 E-value=0.14 Score=43.41 Aligned_cols=46 Identities=24% Similarity=0.458 Sum_probs=36.0
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
.+-..|+||.+.+ ..|+..-.=||.-|..|-. +.+..||.||.++.
T Consensus 46 ~~lleCPvC~~~l--~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPL--SPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccC--cccceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 4567899999999 5674333338999999965 46779999999987
No 104
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=91.48 E-value=0.032 Score=51.78 Aligned_cols=53 Identities=30% Similarity=0.631 Sum_probs=41.5
Q ss_pred cccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc---CCCCccccccccchh
Q 029012 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQVCLLQL 186 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCP~CR~~l~~~~ 186 (200)
......+|+||+..+ ..| +.+.|.|.|+..|+..-|.. ...||+|+..+.+..
T Consensus 17 ~~~k~lEc~ic~~~~--~~p-~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 17 AMQKILECPICLEHV--KEP-SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred HHhhhccCCceeEEe--ecc-chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 345678899999999 667 79999999999998765543 458999997666443
No 105
>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=91.46 E-value=0.24 Score=42.92 Aligned_cols=53 Identities=25% Similarity=0.602 Sum_probs=33.7
Q ss_pred cccCCCcccccccccCCCCCee----------------ecCCCC-----eeCHhhHHHHhc-------------cCCCCc
Q 029012 131 ASEEEDTCPICLEEYDTENPKL----------------ITKCEH-----HFHLSCILEWNE-------------RSESCP 176 (200)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~----------------~l~C~H-----~Fh~~CI~~Wl~-------------~~~tCP 176 (200)
..++.+.|--|+..- .+-+. ..+|.. ..|.+|+.+|+- .+.+||
T Consensus 267 ~~~e~e~CigC~~~~--~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CP 344 (358)
T PF10272_consen 267 SGQELEPCIGCMQAQ--PNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCP 344 (358)
T ss_pred CccccCCccccccCC--CCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCC
Confidence 346777788888754 11111 123443 348899998874 344899
Q ss_pred cccccccch
Q 029012 177 ICDQVCLLQ 185 (200)
Q Consensus 177 ~CR~~l~~~ 185 (200)
+||+.+-.-
T Consensus 345 tCRa~FCil 353 (358)
T PF10272_consen 345 TCRAKFCIL 353 (358)
T ss_pred CCcccceee
Confidence 999987644
No 106
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.20 E-value=0.14 Score=41.08 Aligned_cols=39 Identities=28% Similarity=0.519 Sum_probs=29.8
Q ss_pred ccccccccCCCCCeeecCCCCe-eCHhhHHHHhccCCCCcccccccc
Q 029012 138 CPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
|-.|-+.- ..+.++||.|. +|..|-.. ..+||+|+....
T Consensus 161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 88998874 55789999976 78889533 557999987654
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=90.73 E-value=0.059 Score=43.84 Aligned_cols=50 Identities=28% Similarity=0.662 Sum_probs=35.8
Q ss_pred CCCccccccccc--CCCCCeeecC-CCCeeCHhhHHHHhccCC-CCc--ccccccc
Q 029012 134 EEDTCPICLEEY--DTENPKLITK-CEHHFHLSCILEWNERSE-SCP--ICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~--~~~~~~~~l~-C~H~Fh~~CI~~Wl~~~~-tCP--~CR~~l~ 183 (200)
.+..|+||..+. .+.-.+.+-| |-|..|.+|..+.|.+-. .|| -|.+-+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 456899998654 2222223334 999999999999998755 899 7876554
No 108
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=90.15 E-value=0.16 Score=37.58 Aligned_cols=50 Identities=18% Similarity=0.432 Sum_probs=38.2
Q ss_pred CCCcccccccccCCCCCeeec---CCCCeeCHhhHHHHhccCC---CCccccccccch
Q 029012 134 EEDTCPICLEEYDTENPKLIT---KCEHHFHLSCILEWNERSE---SCPICDQVCLLQ 185 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l---~C~H~Fh~~CI~~Wl~~~~---tCP~CR~~l~~~ 185 (200)
.-.+|-||.|.-. +...+- -||-..|..|....|+... .||+|+..+...
T Consensus 79 ~lYeCnIC~etS~--ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSA--EERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccc--hhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 6678999999873 332222 3899999999988777544 899999998765
No 109
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.09 E-value=0.3 Score=42.48 Aligned_cols=60 Identities=22% Similarity=0.469 Sum_probs=45.7
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccC---CCCccccccccchhHHhhhhhhhh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS---ESCPICDQVCLLQLLVCAISRCFF 196 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~---~tCP~CR~~l~~~~~~~~~~~~~~ 196 (200)
.....|||=-+.-+.+||-..+.|||+.++.=|.+..+.. ..||.|=.... ..+.+++||
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~----~~~~kql~F 394 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL----ASDTKQLYF 394 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC----HHhcccccC
Confidence 3467899988888888888999999999999999987653 48999944333 335566554
No 110
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=89.36 E-value=0.19 Score=47.13 Aligned_cols=41 Identities=29% Similarity=0.694 Sum_probs=29.9
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcc
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPI 177 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~ 177 (200)
..|.||--... +-..+...|+|..|.+|..+|++....||.
T Consensus 1029 ~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 33555433332 233467789999999999999999999985
No 111
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=88.41 E-value=0.7 Score=28.89 Aligned_cols=40 Identities=20% Similarity=0.605 Sum_probs=29.1
Q ss_pred CCCcccccccccCCCCC-eeecCCCCeeCHhhHHHHhccCCCCcc
Q 029012 134 EEDTCPICLEEYDTENP-KLITKCEHHFHLSCILEWNERSESCPI 177 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~~~~tCP~ 177 (200)
....|.+|-+.|..++. ++-..||-.+|+.|.. ....|-+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~----~~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE----KAGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHh----hCCceEe
Confidence 45679999999975454 4566799999999963 3455544
No 112
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.29 E-value=0.43 Score=39.11 Aligned_cols=39 Identities=26% Similarity=0.378 Sum_probs=33.3
Q ss_pred ccccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc
Q 029012 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER 171 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~ 171 (200)
++..+-+-|+.||..+ .+| ++++=||.|+++||.+++..
T Consensus 38 DsiK~FdcCsLtLqPc--~dP-vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPC--RDP-VITPDGYLFDREAILEYILA 76 (303)
T ss_pred cccCCcceeeeecccc--cCC-ccCCCCeeeeHHHHHHHHHH
Confidence 4455678899999999 899 69999999999999998753
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.83 E-value=0.24 Score=41.48 Aligned_cols=30 Identities=20% Similarity=0.393 Sum_probs=22.4
Q ss_pred CCeeCHhhHHHHhc-------------cCCCCccccccccchh
Q 029012 157 EHHFHLSCILEWNE-------------RSESCPICDQVCLLQL 186 (200)
Q Consensus 157 ~H~Fh~~CI~~Wl~-------------~~~tCP~CR~~l~~~~ 186 (200)
.-..|.+|+.+|+. .+-+||+||+.+-..+
T Consensus 326 rp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 326 RPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred ccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 34567899988874 4559999999887553
No 114
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.51 E-value=0.43 Score=44.09 Aligned_cols=40 Identities=28% Similarity=0.557 Sum_probs=30.6
Q ss_pred CCCcccccccccC--CCCCeeecCCCCeeCHhhHHHHhccCCCCc
Q 029012 134 EEDTCPICLEEYD--TENPKLITKCEHHFHLSCILEWNERSESCP 176 (200)
Q Consensus 134 ~~~~C~ICle~~~--~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP 176 (200)
+-..|.||+..|. .-.| +.+.|||..|..|+... .+.+||
T Consensus 10 ~~l~c~ic~n~f~~~~~~P-vsl~cghtic~~c~~~l--yn~scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEP-VSLQCGHTICGHCVQLL--YNASCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCc-ccccccchHHHHHHHhH--hhccCC
Confidence 3466999998883 2456 68999999999999775 455677
No 115
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.07 E-value=0.67 Score=41.44 Aligned_cols=38 Identities=26% Similarity=0.554 Sum_probs=31.5
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER 171 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~ 171 (200)
......|.||.+.+.. ....+.|||.||..|+...+..
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 3456889999999943 5678999999999999998874
No 116
>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=82.43 E-value=0.13 Score=33.84 Aligned_cols=41 Identities=29% Similarity=0.601 Sum_probs=23.7
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
+..|+.|..+++ ... +|.+|..|-.. +.....||-|.+++.
T Consensus 1 e~~CP~C~~~L~------~~~-~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELE------WQG-GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEE------EET-TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CCcCCCCCCccE------EeC-CEEECcccccc-ceecccCCCcccHHH
Confidence 356999988872 222 88888889765 456678999998876
No 117
>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=81.79 E-value=0.91 Score=28.07 Aligned_cols=42 Identities=26% Similarity=0.640 Sum_probs=21.7
Q ss_pred ccccccccCCC-------CCeeecCCCCeeCHhhHHHHhccCCCCcccc
Q 029012 138 CPICLEEYDTE-------NPKLITKCEHHFHLSCILEWNERSESCPICD 179 (200)
Q Consensus 138 C~ICle~~~~~-------~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR 179 (200)
|--|+..|... ....-..|++.||.+|=.-.-+.-..||-|-
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 45566666332 1235568999999999544344566999883
No 118
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.22 E-value=0.48 Score=44.71 Aligned_cols=45 Identities=24% Similarity=0.602 Sum_probs=34.2
Q ss_pred CCCcccccccccCCC----CCeeecCCCCeeCHhhHHHHhccCCCCcccc
Q 029012 134 EEDTCPICLEEYDTE----NPKLITKCEHHFHLSCILEWNERSESCPICD 179 (200)
Q Consensus 134 ~~~~C~ICle~~~~~----~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR 179 (200)
.+..|.-|++..... +.++...|||.||..|+..-+.++. |-.|.
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 345799999887321 4568999999999999987776665 66663
No 119
>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=80.97 E-value=0.49 Score=41.28 Aligned_cols=55 Identities=29% Similarity=0.622 Sum_probs=0.0
Q ss_pred CCCccccccccc-----------CCCCCeeecCCCCeeCHhhHHHHhc------cCCCCccccccccchhHHhhh
Q 029012 134 EEDTCPICLEEY-----------DTENPKLITKCEHHFHLSCILEWNE------RSESCPICDQVCLLQLLVCAI 191 (200)
Q Consensus 134 ~~~~C~ICle~~-----------~~~~~~~~l~C~H~Fh~~CI~~Wl~------~~~tCP~CR~~l~~~~~~~~~ 191 (200)
...+|++=|..+ ....|-+-+.|||.+.+ ..|-. ...+||+||+.=..-++....
T Consensus 276 ~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g~~V~L~mG~ 347 (416)
T PF04710_consen 276 GRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVGPYVPLWMGC 347 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cCCCCCcCCCccccccccccccccccCceeeccccceeee---cccccccccccccccCCCccccCCceeEeecc
Confidence 456677765444 22456688999998774 36753 245899999875555544443
No 120
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.98 E-value=0.94 Score=42.93 Aligned_cols=50 Identities=20% Similarity=0.407 Sum_probs=34.8
Q ss_pred cCCCcccccccccCC-CCCeeec---CCCCeeCHhhHHHHhcc------CCCCccccccc
Q 029012 133 EEEDTCPICLEEYDT-ENPKLIT---KCEHHFHLSCILEWNER------SESCPICDQVC 182 (200)
Q Consensus 133 ~~~~~C~ICle~~~~-~~~~~~l---~C~H~Fh~~CI~~Wl~~------~~tCP~CR~~l 182 (200)
.+.+.|.||..++.. .+..-.. .|+|.||..||..|..+ .-.|++|..-|
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 356778888888743 1222344 49999999999999874 23788886644
No 121
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=78.89 E-value=1.7 Score=37.09 Aligned_cols=51 Identities=25% Similarity=0.559 Sum_probs=40.0
Q ss_pred CCcccccccccCC-CCCeeecCCCCeeCHhhHHHHhccCCCCccccccccch
Q 029012 135 EDTCPICLEEYDT-ENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQ 185 (200)
Q Consensus 135 ~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~ 185 (200)
...|+||-+.... .....-.+|++..|+.|+..-.....+||.||+.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 3679999998733 33335567899999999999999999999999776543
No 122
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=78.85 E-value=0.97 Score=36.21 Aligned_cols=47 Identities=21% Similarity=0.555 Sum_probs=38.6
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVC 182 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l 182 (200)
.-..|-+|.... -..++.-.|+-.+|..|+...+.+...||.|..-+
T Consensus 180 nlk~Cn~Ch~Lv--Iqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLV--IQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHh--heeeccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 456799999887 44456778889999999999999999999995533
No 123
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=78.50 E-value=2.1 Score=36.42 Aligned_cols=48 Identities=25% Similarity=0.519 Sum_probs=37.8
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc---CCCCccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQ 180 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCP~CR~ 180 (200)
..-..||+=-+.-..++|-+++.|||..-.+-+...-++ +..||.|-.
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 346789988888777888899999999999988776543 348999943
No 124
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.77 E-value=1.2 Score=39.14 Aligned_cols=45 Identities=24% Similarity=0.553 Sum_probs=32.9
Q ss_pred cCCCccccccccc---CCCCCeeecCCCCeeCHhhHHHHhccCCCCccc
Q 029012 133 EEEDTCPICLEEY---DTENPKLITKCEHHFHLSCILEWNERSESCPIC 178 (200)
Q Consensus 133 ~~~~~C~ICle~~---~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~C 178 (200)
..-..|++|.-.+ ..-+.+.-. |||.||..|...|......|..|
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 3456788887665 223343444 99999999999999988888665
No 125
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.67 E-value=1.4 Score=36.81 Aligned_cols=56 Identities=20% Similarity=0.504 Sum_probs=37.6
Q ss_pred cCCCcccccccccCCCCCeeecCC----CCeeCHhhHHHHhccCC-----------CCccccccccchhHHhhh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKC----EHHFHLSCILEWNERSE-----------SCPICDQVCLLQLLVCAI 191 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C----~H~Fh~~CI~~Wl~~~~-----------tCP~CR~~l~~~~~~~~~ 191 (200)
...+.|.+|.|.++ +. -...| .|.||+-|-.+-++.+. .||+-...|+--.++-.|
T Consensus 266 ~apLcCTLC~ERLE--DT-HFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vPWAFMQGEI 336 (352)
T KOG3579|consen 266 SAPLCCTLCHERLE--DT-HFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVPWAFMQGEI 336 (352)
T ss_pred CCceeehhhhhhhc--cC-ceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcccHHHhhhhH
Confidence 34588999999994 43 34455 69999999999998653 566655555433333333
No 126
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.07 E-value=1.3 Score=40.67 Aligned_cols=48 Identities=33% Similarity=0.732 Sum_probs=39.6
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
.+..+.|.||++.. ..+.++|. |.-|+.+|+..+..||+|++.+..+.
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred hcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccc
Confidence 45677899999986 33577777 89999999999999999999887664
No 127
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=74.40 E-value=2.6 Score=33.62 Aligned_cols=42 Identities=31% Similarity=0.760 Sum_probs=29.1
Q ss_pred CCCcccccccc-----cCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccc
Q 029012 134 EEDTCPICLEE-----YDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (200)
Q Consensus 134 ~~~~C~ICle~-----~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 180 (200)
.+..|-||-+. |.......-..|+-.||..|.. +..||.|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 46778888742 2222344566899999999965 277999943
No 128
>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 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=73.69 E-value=1.8 Score=28.06 Aligned_cols=12 Identities=25% Similarity=0.822 Sum_probs=8.9
Q ss_pred eeCHhhHHHHhc
Q 029012 159 HFHLSCILEWNE 170 (200)
Q Consensus 159 ~Fh~~CI~~Wl~ 170 (200)
.||+.|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 130
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=73.52 E-value=2.3 Score=40.18 Aligned_cols=42 Identities=19% Similarity=0.341 Sum_probs=31.9
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcc
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPI 177 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~ 177 (200)
...|.+|-..+. +.-+-.--|||.-|..|+..|+....-||.
T Consensus 779 ~~~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceee-eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 346888876663 222244579999999999999999998877
No 131
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.72 E-value=3.6 Score=29.72 Aligned_cols=44 Identities=20% Similarity=0.450 Sum_probs=33.8
Q ss_pred CcccccccccCCC-----------CCeeecCCCCeeCHhhHHHHhccCCCCcccc
Q 029012 136 DTCPICLEEYDTE-----------NPKLITKCEHHFHLSCILEWNERSESCPICD 179 (200)
Q Consensus 136 ~~C~ICle~~~~~-----------~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR 179 (200)
..|--|+..|... ....-..|.+.||.+|=.-|-+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 4588998887321 1224678999999999888888888999995
No 132
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.86 E-value=1.2 Score=37.60 Aligned_cols=49 Identities=27% Similarity=0.541 Sum_probs=39.6
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
...+.|-||...+ .-+...--|+|.|+..|...|....+.||.|+....
T Consensus 103 ~~~~~~~~~~g~l--~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKL--TVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeE--EecccccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 4567799998887 334345559999999999999999999999988654
No 133
>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=69.05 E-value=3.1 Score=25.70 Aligned_cols=14 Identities=21% Similarity=0.539 Sum_probs=8.3
Q ss_pred CCccccccccchhH
Q 029012 174 SCPICDQVCLLQLL 187 (200)
Q Consensus 174 tCP~CR~~l~~~~~ 187 (200)
.||+|.++|..+..
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 89999999987764
No 134
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=68.28 E-value=4.5 Score=34.61 Aligned_cols=46 Identities=24% Similarity=0.485 Sum_probs=36.0
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR 179 (200)
....|-.|.++.......+.-.|.|.||.+|=.-.-+.-..||-|.
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 4455999988876666778889999999999655545566899995
No 135
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=66.45 E-value=3.1 Score=25.01 Aligned_cols=44 Identities=23% Similarity=0.567 Sum_probs=28.9
Q ss_pred cccccccccCCCCCeeecCCCCeeCHhhHHHHhc------cCCCCccccc
Q 029012 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNE------RSESCPICDQ 180 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~------~~~tCP~CR~ 180 (200)
.|.||......++-+.--.|+..||..|+..=.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3888988444344445557899999999864332 2337887753
No 136
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=66.30 E-value=1.5 Score=40.37 Aligned_cols=43 Identities=28% Similarity=0.770 Sum_probs=27.0
Q ss_pred CCCccccccc-----ccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccc
Q 029012 134 EEDTCPICLE-----EYDTENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (200)
Q Consensus 134 ~~~~C~ICle-----~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR 179 (200)
....|-||.. .|...+......|++.||..|+.+ .+.-||.|-
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 3556667732 122233346678999999999644 333499993
No 137
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=64.57 E-value=4.1 Score=33.67 Aligned_cols=46 Identities=22% Similarity=0.361 Sum_probs=37.4
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCC--CCcccccc
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCPICDQV 181 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--tCP~CR~~ 181 (200)
-+..|+|=...+ .+|++-..|||+|-+.=|...+.... .||+=..+
T Consensus 175 fs~rdPis~~~I--~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 175 FSNRDPISKKPI--VNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred hcccCchhhhhh--hchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 357798887777 79999999999999999999987643 68875444
No 138
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=62.25 E-value=5.4 Score=32.57 Aligned_cols=55 Identities=31% Similarity=0.549 Sum_probs=42.5
Q ss_pred cCCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccC--CCCc--cccccccchhHHh
Q 029012 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS--ESCP--ICDQVCLLQLLVC 189 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~--~tCP--~CR~~l~~~~~~~ 189 (200)
.-+..|+|=+..+ ..|+...+|.|.|-.+=|...++.- ..|| .|-+.+..+++.+
T Consensus 187 ~~~nrCpitl~p~--~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~~~v~ 245 (275)
T COG5627 187 LLSNRCPITLNPD--FYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVDPYVC 245 (275)
T ss_pred hhcccCCcccCcc--hhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchheeccchhh
Confidence 3467899998888 7898899999999999999999844 4566 4766666555443
No 139
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=61.97 E-value=5.2 Score=33.26 Aligned_cols=54 Identities=24% Similarity=0.412 Sum_probs=37.6
Q ss_pred CcccccccccCCCCCee----ecCCCCeeCHhhHHHHhc---------cCCCCccccccccchhHHh
Q 029012 136 DTCPICLEEYDTENPKL----ITKCEHHFHLSCILEWNE---------RSESCPICDQVCLLQLLVC 189 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~----~l~C~H~Fh~~CI~~Wl~---------~~~tCP~CR~~l~~~~~~~ 189 (200)
..|-+|.+++...+..+ ...|+-++|..|+..-+. ....||.|++.+.-..++.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w~~lv~ 249 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSWTTLVD 249 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeHHHHHH
Confidence 58999999995444422 225788899999998443 2348999999776554443
No 140
>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=61.59 E-value=5.5 Score=25.03 Aligned_cols=46 Identities=20% Similarity=0.489 Sum_probs=31.4
Q ss_pred cccccccccCCCCCeeecCCC--CeeCHhhHHHHhccCCCCccccccccch
Q 029012 137 TCPICLEEYDTENPKLITKCE--HHFHLSCILEWNERSESCPICDQVCLLQ 185 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~--H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~ 185 (200)
.|-.|-..+.+... -..-|. ..||..|....| ...||.|...+...
T Consensus 7 nCE~C~~dLp~~s~-~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSP-EAYICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCC-cceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 46667666643332 233343 579999998876 77999998887654
No 141
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.84 E-value=6 Score=32.70 Aligned_cols=52 Identities=15% Similarity=0.263 Sum_probs=38.1
Q ss_pred cCCCcccccccccCCCC-CeeecCCCCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 133 EEEDTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
.....|+|=--++.... -..+..|||.|-..=+.+. ...+|++|.+.+..++
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 45677887765553222 2367799999999888775 3779999999888665
No 142
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=60.12 E-value=4.4 Score=25.80 Aligned_cols=19 Identities=21% Similarity=0.716 Sum_probs=14.1
Q ss_pred HHhccC------CCCccccccccch
Q 029012 167 EWNERS------ESCPICDQVCLLQ 185 (200)
Q Consensus 167 ~Wl~~~------~tCP~CR~~l~~~ 185 (200)
.|++.+ ..||+|..++...
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMVSG 52 (59)
T ss_pred cccccccccCCCccCCCcCCccccc
Confidence 577643 4899999988755
No 143
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=60.11 E-value=14 Score=24.93 Aligned_cols=51 Identities=20% Similarity=0.456 Sum_probs=21.8
Q ss_pred cCCCccccccccc---CCCCC-eeecCCCCeeCHhhHH-HHhccCCCCcccccccc
Q 029012 133 EEEDTCPICLEEY---DTENP-KLITKCEHHFHLSCIL-EWNERSESCPICDQVCL 183 (200)
Q Consensus 133 ~~~~~C~ICle~~---~~~~~-~~~l~C~H~Fh~~CI~-~Wl~~~~tCP~CR~~l~ 183 (200)
.....|-||=+.. ..+++ +..-.|+-..|+.|.. +.-+.++.||.|+....
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3466799999888 22343 2344688889999985 44456779999997655
No 144
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=58.75 E-value=3.5 Score=25.74 Aligned_cols=21 Identities=24% Similarity=0.760 Sum_probs=16.2
Q ss_pred CCeeec-CCCCeeCHhhHHHHh
Q 029012 149 NPKLIT-KCEHHFHLSCILEWN 169 (200)
Q Consensus 149 ~~~~~l-~C~H~Fh~~CI~~Wl 169 (200)
...+.- .|+|.||..|...|-
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCeeECCCCCCeECCCCCCcCC
Confidence 334455 799999999999883
No 145
>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=58.11 E-value=6.4 Score=20.67 Aligned_cols=8 Identities=50% Similarity=1.082 Sum_probs=4.3
Q ss_pred cccccccc
Q 029012 138 CPICLEEY 145 (200)
Q Consensus 138 C~ICle~~ 145 (200)
|+-|-..+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 55555554
No 146
>PLN02189 cellulose synthase
Probab=57.79 E-value=9.4 Score=37.65 Aligned_cols=50 Identities=20% Similarity=0.452 Sum_probs=35.3
Q ss_pred CCCcccccccccC---CCCCe-eecCCCCeeCHhhHHH-HhccCCCCcccccccc
Q 029012 134 EEDTCPICLEEYD---TENPK-LITKCEHHFHLSCILE-WNERSESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~~---~~~~~-~~l~C~H~Fh~~CI~~-Wl~~~~tCP~CR~~l~ 183 (200)
....|.||-+++. .+++. ..-.|+--.|+.|..- .-+.++.||.|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4557999999983 24443 3335888899999943 2234669999998776
No 147
>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=57.39 E-value=5.7 Score=25.51 Aligned_cols=38 Identities=18% Similarity=0.353 Sum_probs=19.7
Q ss_pred cCCCcccccccccCCCCCe-eecCCCCeeCHhhHHHHhc
Q 029012 133 EEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNE 170 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~ 170 (200)
.+...|.+|...|..-... .--.||+.||..|....+.
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 4567899999999443322 4457999999999876553
No 148
>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=53.82 E-value=16 Score=26.00 Aligned_cols=27 Identities=22% Similarity=0.592 Sum_probs=20.4
Q ss_pred cCC---CCeeCHhhHHHHhcc---------CCCCccccc
Q 029012 154 TKC---EHHFHLSCILEWNER---------SESCPICDQ 180 (200)
Q Consensus 154 l~C---~H~Fh~~CI~~Wl~~---------~~tCP~CR~ 180 (200)
..| .=.||..||..++.. .-.||.||.
T Consensus 31 ~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 31 SSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 455 677999999888753 227999987
No 149
>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 KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.35 E-value=6 Score=35.41 Aligned_cols=35 Identities=23% Similarity=0.454 Sum_probs=25.8
Q ss_pred eecCCCCeeCHhhHHHHhc--------------------------cCCCCccccccccchh
Q 029012 152 LITKCEHHFHLSCILEWNE--------------------------RSESCPICDQVCLLQL 186 (200)
Q Consensus 152 ~~l~C~H~Fh~~CI~~Wl~--------------------------~~~tCP~CR~~l~~~~ 186 (200)
+.-.|||.||+.|...|-. ....||.|..++.++.
T Consensus 180 v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~~ 240 (444)
T KOG1815|consen 180 VDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKDG 240 (444)
T ss_pred eeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhccC
Confidence 6778999999999876532 2236888888877664
No 151
>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=52.28 E-value=11 Score=19.74 Aligned_cols=11 Identities=27% Similarity=0.724 Sum_probs=8.4
Q ss_pred CCccccccccc
Q 029012 174 SCPICDQVCLL 184 (200)
Q Consensus 174 tCP~CR~~l~~ 184 (200)
.||+|.+.+..
T Consensus 3 ~CPiC~~~v~~ 13 (26)
T smart00734 3 QCPVCFREVPE 13 (26)
T ss_pred cCCCCcCcccH
Confidence 69999888743
No 152
>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=52.14 E-value=12 Score=20.39 Aligned_cols=37 Identities=16% Similarity=0.459 Sum_probs=22.9
Q ss_pred cccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccc
Q 029012 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVC 182 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l 182 (200)
.|..|-+.+..... .+..=+..||..|. .|..|+..|
T Consensus 1 ~C~~C~~~i~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGEL-VLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcE-EEEeCCccccccCC--------CCcccCCcC
Confidence 37778777743322 33334677887774 677777665
No 153
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=49.83 E-value=18 Score=31.02 Aligned_cols=53 Identities=21% Similarity=0.523 Sum_probs=35.6
Q ss_pred cCCCcccccccccC---------------CCCC-eeecCCCCeeCHhhHHHHhcc---------CCCCccccccccch
Q 029012 133 EEEDTCPICLEEYD---------------TENP-KLITKCEHHFHLSCILEWNER---------SESCPICDQVCLLQ 185 (200)
Q Consensus 133 ~~~~~C~ICle~~~---------------~~~~-~~~l~C~H~Fh~~CI~~Wl~~---------~~tCP~CR~~l~~~ 185 (200)
..+.+|++|+..-. .+-| -...||||.--..=..=|-+. +..||.|-..+..+
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 34788999987531 0111 145599998777777778652 34899998877654
No 154
>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=49.32 E-value=13 Score=26.90 Aligned_cols=47 Identities=17% Similarity=0.546 Sum_probs=30.8
Q ss_pred CCCcccccccccCC--CCCeeecCCCCeeCHhhHHHHhccCC--CCcccccc
Q 029012 134 EEDTCPICLEEYDT--ENPKLITKCEHHFHLSCILEWNERSE--SCPICDQV 181 (200)
Q Consensus 134 ~~~~C~ICle~~~~--~~~~~~l~C~H~Fh~~CI~~Wl~~~~--tCP~CR~~ 181 (200)
.+..|.+|...|.. .....-..|.|.+|..|-.. ..... .|-+|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHHH
Confidence 56789999988722 23457788999999999644 11122 68998653
No 155
>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=46.26 E-value=18 Score=22.07 Aligned_cols=35 Identities=14% Similarity=0.307 Sum_probs=25.0
Q ss_pred CcccccccccCCCC-CeeecCCCCeeCHhhHHHHhc
Q 029012 136 DTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWNE 170 (200)
Q Consensus 136 ~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~ 170 (200)
..|.+|-..|.... ...-..||+.||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 56899988884322 124558999999999876654
No 156
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.21 E-value=11 Score=25.07 Aligned_cols=46 Identities=20% Similarity=0.437 Sum_probs=28.9
Q ss_pred ccccccccCCCCCeeecCC--CCeeCHhhHHHHhccCCCCccccccccchh
Q 029012 138 CPICLEEYDTENPKLITKC--EHHFHLSCILEWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C--~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~ 186 (200)
|--|-.++-++.. -.+-| .|.||..|...- ....||.|...+...+
T Consensus 8 CECCDrDLpp~s~-dA~ICtfEcTFCadCae~~--l~g~CPnCGGelv~RP 55 (84)
T COG3813 8 CECCDRDLPPDST-DARICTFECTFCADCAENR--LHGLCPNCGGELVARP 55 (84)
T ss_pred CcccCCCCCCCCC-ceeEEEEeeehhHhHHHHh--hcCcCCCCCchhhcCc
Confidence 5445555522221 23334 589999998764 3578999988777554
No 157
>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=45.81 E-value=16 Score=20.12 Aligned_cols=10 Identities=30% Similarity=0.936 Sum_probs=7.3
Q ss_pred cCCCCccccc
Q 029012 171 RSESCPICDQ 180 (200)
Q Consensus 171 ~~~tCP~CR~ 180 (200)
....||+|..
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 3448999966
No 158
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=44.93 E-value=22 Score=33.49 Aligned_cols=51 Identities=18% Similarity=0.390 Sum_probs=28.4
Q ss_pred CCCcccccccccCCCCCeeecCCCCeeCHhhHHHHhcc---CC---CCccccccccchhHH
Q 029012 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SE---SCPICDQVCLLQLLV 188 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~---tCP~CR~~l~~~~~~ 188 (200)
-.+.|+|+.... .-|.+-..|.|.-|++= .|+.. .. .||+|.+....+.+.
T Consensus 305 vSL~CPl~~~Rm--~~P~r~~~CkHlQcFD~--~~~lq~n~~~pTW~CPVC~~~~~~e~l~ 361 (636)
T KOG2169|consen 305 VSLNCPLSKMRM--SLPARGHTCKHLQCFDA--LSYLQMNEQKPTWRCPVCQKAAPFEGLI 361 (636)
T ss_pred eEecCCccccee--ecCCcccccccceecch--hhhHHhccCCCeeeCccCCccccccchh
Confidence 346677776554 33334444555444332 33321 11 799999988877543
No 159
>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=44.75 E-value=8.1 Score=23.57 Aligned_cols=39 Identities=18% Similarity=0.401 Sum_probs=22.1
Q ss_pred ccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccch
Q 029012 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQ 185 (200)
Q Consensus 138 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~ 185 (200)
|..|...+..... ++..-+..||..|. .|-.|++.|...
T Consensus 1 C~~C~~~I~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEI-VIKAMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSE-EEEETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEE-EEEeCCcEEEcccc--------ccCCCCCccCCC
Confidence 5556666642222 33355667776663 677777766544
No 160
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.63 E-value=9 Score=26.54 Aligned_cols=13 Identities=23% Similarity=0.761 Sum_probs=11.3
Q ss_pred eeCHhhHHHHhcc
Q 029012 159 HFHLSCILEWNER 171 (200)
Q Consensus 159 ~Fh~~CI~~Wl~~ 171 (200)
.||+.|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999864
No 161
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.07 E-value=3.3 Score=34.68 Aligned_cols=46 Identities=28% Similarity=0.559 Sum_probs=35.7
Q ss_pred CCcccccccccCC----CCCeeecC--------CCCeeCHhhHHHHhccCC-CCcccccc
Q 029012 135 EDTCPICLEEYDT----ENPKLITK--------CEHHFHLSCILEWNERSE-SCPICDQV 181 (200)
Q Consensus 135 ~~~C~ICle~~~~----~~~~~~l~--------C~H~Fh~~CI~~Wl~~~~-tCP~CR~~ 181 (200)
...|.||...|+. ..| .++. |||..|..|+..-+.... .||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p-~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAP-LVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccch-hHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 4669999999952 123 3444 999999999999887665 99999874
No 162
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=41.05 E-value=16 Score=20.61 Aligned_cols=25 Identities=36% Similarity=0.873 Sum_probs=13.8
Q ss_pred cccccccccCCCCC--------eeecCCCCeeC
Q 029012 137 TCPICLEEYDTENP--------KLITKCEHHFH 161 (200)
Q Consensus 137 ~C~ICle~~~~~~~--------~~~l~C~H~Fh 161 (200)
.|+=|.-.|...+. +.-..|+|.|.
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 57777777743221 33445667663
No 163
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=40.64 E-value=28 Score=24.42 Aligned_cols=34 Identities=21% Similarity=0.335 Sum_probs=23.4
Q ss_pred cCCCcccccccccCCCCCeeec--CCCCeeCHhhHHHH
Q 029012 133 EEEDTCPICLEEYDTENPKLIT--KCEHHFHLSCILEW 168 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l--~C~H~Fh~~CI~~W 168 (200)
.....|.||.... +-.+.-. .|...||-.|...+
T Consensus 53 ~~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 53 RFKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred hcCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHHC
Confidence 3567899999874 3333222 37789999998653
No 164
>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=40.55 E-value=7.4 Score=22.72 Aligned_cols=28 Identities=21% Similarity=0.548 Sum_probs=16.8
Q ss_pred eecCCCCeeCHhhHHHHhccCCCCccccc
Q 029012 152 LITKCEHHFHLSCILEWNERSESCPICDQ 180 (200)
Q Consensus 152 ~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 180 (200)
.-..|||.|-..--..= .....||.|..
T Consensus 7 ~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 7 RCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 45678888864421111 23448999987
No 165
>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=40.44 E-value=13 Score=25.72 Aligned_cols=37 Identities=22% Similarity=0.661 Sum_probs=27.8
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCcccccccc
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
...|-||-... .++ ||.||..|- ..+..|.||-+.|.
T Consensus 44 ~~~C~~CK~~v--~q~------g~~YCq~CA----YkkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKV--HQP------GAKYCQTCA----YKKGICAMCGKKIL 80 (90)
T ss_pred Ccccccccccc--ccC------CCccChhhh----cccCcccccCCeec
Confidence 45699997765 222 788999995 34779999988874
No 166
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=40.26 E-value=30 Score=34.48 Aligned_cols=50 Identities=22% Similarity=0.506 Sum_probs=35.8
Q ss_pred CCCcccccccccC---CCCC-eeecCCCCeeCHhhHH-HHhccCCCCcccccccc
Q 029012 134 EEDTCPICLEEYD---TENP-KLITKCEHHFHLSCIL-EWNERSESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~~---~~~~-~~~l~C~H~Fh~~CI~-~Wl~~~~tCP~CR~~l~ 183 (200)
....|-||=++.. .+++ +..-.|+--.|+.|.. +.-+.+..||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4557999999872 2444 2444688889999984 33345679999998766
No 167
>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=40.00 E-value=13 Score=22.96 Aligned_cols=12 Identities=42% Similarity=0.963 Sum_probs=7.1
Q ss_pred CCccccccccch
Q 029012 174 SCPICDQVCLLQ 185 (200)
Q Consensus 174 tCP~CR~~l~~~ 185 (200)
+||+|...+...
T Consensus 26 tCP~C~a~~~~s 37 (54)
T PF09237_consen 26 TCPICGAVIRQS 37 (54)
T ss_dssp E-TTT--EESSH
T ss_pred CCCcchhhccch
Confidence 899998887755
No 168
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=39.36 E-value=16 Score=27.16 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=16.4
Q ss_pred cccccccCCCCCeeecCCCCeeCHh
Q 029012 139 PICLEEYDTENPKLITKCEHHFHLS 163 (200)
Q Consensus 139 ~ICle~~~~~~~~~~l~C~H~Fh~~ 163 (200)
-||++. +..++.-.|||.|+..
T Consensus 61 fi~qs~---~~rv~rcecghsf~d~ 82 (165)
T COG4647 61 FICQSA---QKRVIRCECGHSFGDY 82 (165)
T ss_pred EEEecc---cccEEEEeccccccCh
Confidence 477775 3567888999999853
No 169
>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=37.49 E-value=5.5 Score=28.04 Aligned_cols=48 Identities=21% Similarity=0.521 Sum_probs=13.8
Q ss_pred CcccccccccCCCCCeeecCC--CCeeCHhhHHHHhcc----CCCCccccccccch
Q 029012 136 DTCPICLEEYDTENPKLITKC--EHHFHLSCILEWNER----SESCPICDQVCLLQ 185 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C--~H~Fh~~CI~~Wl~~----~~tCP~CR~~l~~~ 185 (200)
..|.||.+.+...+. ....| ||.|-+-.+ ..+-- .+.|++|+..+...
T Consensus 15 E~C~~C~~~i~~~~~-~~~~C~~GH~w~RC~l-T~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 15 EKCPICGAPIPFDDL-DEAQCENGHVWPRCAL-TFLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp --------------S-SEEE-TTS-EEEB-SS-S-SBS-SS-EEE-TTT--EEE-G
T ss_pred ccccccccccccCCc-CEeECCCCCEEeeeee-eeeeeccCCeeEcCCCCCEEecC
Confidence 679999998754444 23445 798854333 22221 15899998766533
No 170
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=36.66 E-value=24 Score=21.63 Aligned_cols=9 Identities=44% Similarity=1.368 Sum_probs=6.4
Q ss_pred ccCCCCccc
Q 029012 170 ERSESCPIC 178 (200)
Q Consensus 170 ~~~~tCP~C 178 (200)
.....||.|
T Consensus 47 ~~~~~CP~C 55 (55)
T PF14311_consen 47 RRGKGCPYC 55 (55)
T ss_pred cCCCCCCCC
Confidence 456678887
No 171
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=36.24 E-value=14 Score=35.49 Aligned_cols=35 Identities=20% Similarity=0.437 Sum_probs=26.8
Q ss_pred cCCCcccccccccCCCC-CeeecCCCCeeCHhhHHHHh
Q 029012 133 EEEDTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWN 169 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl 169 (200)
.....|..|.... .+ --+...|||.||..|+..|.
T Consensus 227 g~~~mC~~C~~tl--fn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 227 GIREMCDRCETTL--FNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred Ccchhhhhhcccc--cceeEEccccCCeeeecchhhcc
Confidence 4456788887765 33 23677899999999999995
No 172
>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=36.20 E-value=26 Score=18.60 Aligned_cols=29 Identities=21% Similarity=0.463 Sum_probs=10.3
Q ss_pred cccccccccCCCCCeeecCCCCeeCHhhH
Q 029012 137 TCPICLEEYDTENPKLITKCEHHFHLSCI 165 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI 165 (200)
.|.+|.+.........-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 47788777733233466778888888885
No 173
>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=35.31 E-value=5.5 Score=24.80 Aligned_cols=33 Identities=21% Similarity=0.564 Sum_probs=18.0
Q ss_pred Ccccc--cccccCCCC---C--eeecCCCCeeCHhhHHHH
Q 029012 136 DTCPI--CLEEYDTEN---P--KLITKCEHHFHLSCILEW 168 (200)
Q Consensus 136 ~~C~I--Cle~~~~~~---~--~~~l~C~H~Fh~~CI~~W 168 (200)
..|+- |-..+...+ . +.-..|++.||..|-..|
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 46766 776663211 2 233349999999998887
No 174
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=34.92 E-value=31 Score=30.89 Aligned_cols=51 Identities=24% Similarity=0.287 Sum_probs=44.3
Q ss_pred cccccccccCCCCCeeecCCCCeeCHhhHHHHhccCCCCccccccccchhHHh
Q 029012 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQVCLLQLLVC 189 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~l~~~~~~~ 189 (200)
.|+|=-+.. ++|++-..-||.|-++-|.+.+....+||+=.+++..++++.
T Consensus 2 ~CaISgEvP--~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~ 52 (506)
T KOG0289|consen 2 VCAISGEVP--EEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVE 52 (506)
T ss_pred eecccCCCC--CCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeee
Confidence 467666665 889888889999999999999999999999999999887654
No 175
>PLN02400 cellulose synthase
Probab=34.26 E-value=33 Score=34.17 Aligned_cols=50 Identities=20% Similarity=0.516 Sum_probs=35.5
Q ss_pred CCCccccccccc---CCCCC-eeecCCCCeeCHhhHH-HHhccCCCCcccccccc
Q 029012 134 EEDTCPICLEEY---DTENP-KLITKCEHHFHLSCIL-EWNERSESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~---~~~~~-~~~l~C~H~Fh~~CI~-~Wl~~~~tCP~CR~~l~ 183 (200)
....|-||=|+. ..+++ +..-.|+--.|+.|.. +.-+.+..||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 456799999988 22444 2445788889999983 23334669999998776
No 176
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=33.73 E-value=30 Score=32.78 Aligned_cols=44 Identities=23% Similarity=0.435 Sum_probs=24.4
Q ss_pred CCccccccccc-CCCCCe-------------------eecCCCCeeCHhhHHHHhccCCCCccc
Q 029012 135 EDTCPICLEEY-DTENPK-------------------LITKCEHHFHLSCILEWNERSESCPIC 178 (200)
Q Consensus 135 ~~~C~ICle~~-~~~~~~-------------------~~l~C~H~Fh~~CI~~Wl~~~~tCP~C 178 (200)
.--|.+|-|+- ..++|+ +..|=|-.||++|-.+--.....|-+|
T Consensus 5 VGGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLC 68 (900)
T KOG0956|consen 5 VGGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELC 68 (900)
T ss_pred ccceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecc
Confidence 34588998876 456663 333445556666654433333456666
No 177
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=33.33 E-value=21 Score=30.58 Aligned_cols=47 Identities=28% Similarity=0.686 Sum_probs=30.2
Q ss_pred CCCccccccccc-----------CCCCCeeecCCCCeeCHhhHHHHhcc------CCCCcccccccc
Q 029012 134 EEDTCPICLEEY-----------DTENPKLITKCEHHFHLSCILEWNER------SESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~-----------~~~~~~~~l~C~H~Fh~~CI~~Wl~~------~~tCP~CR~~l~ 183 (200)
..-+|++=|..+ ...+|-+-+.|||.-.. ..|=.+ ...||+||..=+
T Consensus 289 ~RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~---H~WG~~e~~g~~~r~CPmC~~~gp 352 (429)
T KOG3842|consen 289 ARPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGY---HNWGVRENTGQRERECPMCRVVGP 352 (429)
T ss_pred cCCCCCcccceeecccccccccccccCCeEEEeccccccc---cccccccccCcccCcCCeeeeecc
Confidence 456688777554 22456788999986432 256432 448999987533
No 178
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=33.05 E-value=30 Score=31.99 Aligned_cols=36 Identities=31% Similarity=0.713 Sum_probs=25.1
Q ss_pred cCCCcccccccccCC----CC------CeeecCCCCeeCHhhHHHH
Q 029012 133 EEEDTCPICLEEYDT----EN------PKLITKCEHHFHLSCILEW 168 (200)
Q Consensus 133 ~~~~~C~ICle~~~~----~~------~~~~l~C~H~Fh~~CI~~W 168 (200)
+....|+||.|.|+. +. ..+-+.=|-+||..|+.+-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 677889999999843 11 1123336889999998764
No 179
>PF11809 DUF3330: Domain of unknown function (DUF3330); InterPro: IPR021767 This family of proteins are functionally uncharacterised. This family is only found in bacteria.
Probab=31.90 E-value=11 Score=24.56 Aligned_cols=37 Identities=27% Similarity=0.619 Sum_probs=25.1
Q ss_pred CCCcccccccccCCCCCeeecCCC----CeeC-HhhHHHHhccC
Q 029012 134 EEDTCPICLEEYDTENPKLITKCE----HHFH-LSCILEWNERS 172 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l~C~----H~Fh-~~CI~~Wl~~~ 172 (200)
....|-+|+.++- -....++=| ++|| ++|..+|..+.
T Consensus 10 ~~~sC~vC~KEIP--l~~a~t~E~~eYV~hFCGLeCY~~w~a~~ 51 (70)
T PF11809_consen 10 KTTSCCVCCKEIP--LDAAFTPEAAEYVEHFCGLECYQRWQARA 51 (70)
T ss_pred ccchHHHHhhhCC--hhhccCcchHHHHHHHhhHHHHHHHHHHH
Confidence 3467999999882 222466665 4454 67999998764
No 180
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=31.87 E-value=36 Score=23.80 Aligned_cols=35 Identities=23% Similarity=0.320 Sum_probs=28.2
Q ss_pred CCcccccccccCCCCCeeecCCCCeeCHhhHHHHhc
Q 029012 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (200)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 170 (200)
+..|.||-..+..++....++ .-..|++|+.+-..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 567999999998788877777 66789999977543
No 181
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.68 E-value=37 Score=32.09 Aligned_cols=45 Identities=22% Similarity=0.526 Sum_probs=34.4
Q ss_pred cccccccccCCCCCeeecCCCC-eeCHhhHHHHhc--c----CCCCccccccccc
Q 029012 137 TCPICLEEYDTENPKLITKCEH-HFHLSCILEWNE--R----SESCPICDQVCLL 184 (200)
Q Consensus 137 ~C~ICle~~~~~~~~~~l~C~H-~Fh~~CI~~Wl~--~----~~tCP~CR~~l~~ 184 (200)
.|.||-..+ +-...-.||| ..|..|..+... . ...||+||..+..
T Consensus 2 ~c~ic~~s~---~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSP---DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCc---cccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 599998887 3346788999 899999987653 2 4478999996653
No 182
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=31.63 E-value=33 Score=28.24 Aligned_cols=26 Identities=27% Similarity=0.611 Sum_probs=18.4
Q ss_pred CcccccccccCCCCCeeecCCCCeeC
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFH 161 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh 161 (200)
..||||...+...+....-..+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCc
Confidence 57999999995444434445589983
No 183
>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=31.48 E-value=41 Score=20.49 Aligned_cols=10 Identities=40% Similarity=1.032 Sum_probs=7.3
Q ss_pred CCcccccccc
Q 029012 174 SCPICDQVCL 183 (200)
Q Consensus 174 tCP~CR~~l~ 183 (200)
.||+|...+.
T Consensus 33 ~CPiC~~~~~ 42 (54)
T PF05605_consen 33 VCPICSSRVT 42 (54)
T ss_pred cCCCchhhhh
Confidence 6999987543
No 184
>PRK01343 zinc-binding protein; Provisional
Probab=31.40 E-value=26 Score=22.16 Aligned_cols=12 Identities=25% Similarity=0.800 Sum_probs=9.4
Q ss_pred CCCCcccccccc
Q 029012 172 SESCPICDQVCL 183 (200)
Q Consensus 172 ~~tCP~CR~~l~ 183 (200)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 458999998765
No 185
>PLN02436 cellulose synthase A
Probab=31.38 E-value=48 Score=33.08 Aligned_cols=50 Identities=24% Similarity=0.476 Sum_probs=35.0
Q ss_pred CCCccccccccc---CCCCCe-eecCCCCeeCHhhHHHH-hccCCCCcccccccc
Q 029012 134 EEDTCPICLEEY---DTENPK-LITKCEHHFHLSCILEW-NERSESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~---~~~~~~-~~l~C~H~Fh~~CI~~W-l~~~~tCP~CR~~l~ 183 (200)
....|-||-|+. ..+++. ..-.|+--.|+.|..-= -+.+..||.|+....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 455799999997 234443 23358888999999432 234669999998776
No 186
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=31.08 E-value=23 Score=25.33 Aligned_cols=29 Identities=38% Similarity=0.788 Sum_probs=20.6
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhc
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 170 (200)
..|+.|..+|.-++.. +.+|-.|..+|-.
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 4599999999544442 4577788888863
No 187
>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=30.23 E-value=33 Score=21.80 Aligned_cols=18 Identities=22% Similarity=0.671 Sum_probs=11.4
Q ss_pred CCCCccccccccchhHHh
Q 029012 172 SESCPICDQVCLLQLLVC 189 (200)
Q Consensus 172 ~~tCP~CR~~l~~~~~~~ 189 (200)
++.||+|.++++.+...+
T Consensus 3 HkHC~~CG~~Ip~~~~fC 20 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFC 20 (59)
T ss_pred CCcCCcCCCcCCcchhhh
Confidence 456777777777655443
No 188
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=30.15 E-value=1.1e+02 Score=26.23 Aligned_cols=45 Identities=9% Similarity=-0.104 Sum_probs=32.7
Q ss_pred ccCCCcccccccccCCCCCeeecCCCCe-eCHhhHHHHhccCCCCcccccc
Q 029012 132 SEEEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQV 181 (200)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~ 181 (200)
.-...+|..|-+.. -. .++.+|+|. ||.+|.. +....+||+|...
T Consensus 340 ~~s~~~~~~~~~~~--~s-t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 340 LMSSLKGTSAGFGL--LS-TIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred chhhcccccccCce--ee-eEeecCCcccChhhhhh--cccCCcccccccc
Confidence 33456788887665 22 267899985 8999977 6777899999654
No 189
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.87 E-value=9.8 Score=32.14 Aligned_cols=38 Identities=24% Similarity=0.462 Sum_probs=28.1
Q ss_pred CcccccccccCCCCCeeecCCCCeeCHhhHHHHhccCC
Q 029012 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE 173 (200)
Q Consensus 136 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~ 173 (200)
..|.+|+++|..+.....+.|--.||..|+..|+....
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 48999999995433334555555999999999997544
No 190
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.24 E-value=17 Score=27.21 Aligned_cols=47 Identities=28% Similarity=0.571 Sum_probs=28.7
Q ss_pred ccccCCCcccccccccCCCCCeeecCCCC-------eeCHhhHHHHhccCC----CCccccccc
Q 029012 130 AASEEEDTCPICLEEYDTENPKLITKCEH-------HFHLSCILEWNERSE----SCPICDQVC 182 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H-------~Fh~~CI~~Wl~~~~----tCP~CR~~l 182 (200)
....++..|.||+..- ..--||| .||..|-.+.-.+++ .|-+|++..
T Consensus 60 aGv~ddatC~IC~KTK------FADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTK------FADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred cccCcCcchhhhhhcc------cccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 3446788899998642 3344565 456666555443433 688887653
No 191
>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=28.83 E-value=37 Score=27.74 Aligned_cols=24 Identities=21% Similarity=0.491 Sum_probs=16.9
Q ss_pred eCHhhHHHHhccCCCCcccccccc
Q 029012 160 FHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 160 Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
-|..|-...-++...||+|+..-.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsR 219 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSR 219 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccc
Confidence 356776666567779999987543
No 192
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=28.40 E-value=38 Score=17.32 Aligned_cols=15 Identities=33% Similarity=0.658 Sum_probs=10.5
Q ss_pred CCccccccccchhHH
Q 029012 174 SCPICDQVCLLQLLV 188 (200)
Q Consensus 174 tCP~CR~~l~~~~~~ 188 (200)
.||+|.+.+..+.+.
T Consensus 4 ~C~~CgR~F~~~~l~ 18 (25)
T PF13913_consen 4 PCPICGRKFNPDRLE 18 (25)
T ss_pred cCCCCCCEECHHHHH
Confidence 688888877666443
No 193
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=28.09 E-value=46 Score=18.71 Aligned_cols=26 Identities=31% Similarity=0.663 Sum_probs=14.6
Q ss_pred CcccccccccCCCC--------CeeecCCCCeeC
Q 029012 136 DTCPICLEEYDTEN--------PKLITKCEHHFH 161 (200)
Q Consensus 136 ~~C~ICle~~~~~~--------~~~~l~C~H~Fh 161 (200)
..|+-|...|...+ .+.-..|+|.|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 35788877773322 234445667664
No 194
>PF12773 DZR: Double zinc ribbon
Probab=26.32 E-value=48 Score=19.60 Aligned_cols=13 Identities=23% Similarity=0.501 Sum_probs=8.3
Q ss_pred CCCccccccccch
Q 029012 173 ESCPICDQVCLLQ 185 (200)
Q Consensus 173 ~tCP~CR~~l~~~ 185 (200)
..||.|...+..+
T Consensus 30 ~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 30 KICPNCGAENPPN 42 (50)
T ss_pred CCCcCCcCCCcCC
Confidence 4688887765543
No 195
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=26.31 E-value=31 Score=22.15 Aligned_cols=12 Identities=25% Similarity=0.764 Sum_probs=9.5
Q ss_pred CCCCcccccccc
Q 029012 172 SESCPICDQVCL 183 (200)
Q Consensus 172 ~~tCP~CR~~l~ 183 (200)
...||+|++.+.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 357999999864
No 196
>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=26.21 E-value=26 Score=18.59 Aligned_cols=11 Identities=27% Similarity=0.966 Sum_probs=6.0
Q ss_pred CCccccccccc
Q 029012 174 SCPICDQVCLL 184 (200)
Q Consensus 174 tCP~CR~~l~~ 184 (200)
.||.|...+..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 58999888773
No 197
>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=26.04 E-value=22 Score=22.43 Aligned_cols=12 Identities=33% Similarity=0.808 Sum_probs=6.2
Q ss_pred CCCccccccccc
Q 029012 173 ESCPICDQVCLL 184 (200)
Q Consensus 173 ~tCP~CR~~l~~ 184 (200)
..||+|++.+..
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 198
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.38 E-value=66 Score=21.47 Aligned_cols=33 Identities=21% Similarity=0.478 Sum_probs=23.6
Q ss_pred cCCCcccccccccCCCCCe--eecCCCCeeCHhhHHH
Q 029012 133 EEEDTCPICLEEYDTENPK--LITKCEHHFHLSCILE 167 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~--~~l~C~H~Fh~~CI~~ 167 (200)
.....|.+|.... +-.+ ....|.-.||..|...
T Consensus 34 ~~~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 34 RRKLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HhCCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 4567899999874 3222 4456889999999764
No 199
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=25.00 E-value=28 Score=32.62 Aligned_cols=47 Identities=21% Similarity=0.592 Sum_probs=31.2
Q ss_pred CCCcccccccccCCCC--CeeecCCCCeeCHhhHHHHhccC-----CCCccccc
Q 029012 134 EEDTCPICLEEYDTEN--PKLITKCEHHFHLSCILEWNERS-----ESCPICDQ 180 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~--~~~~l~C~H~Fh~~CI~~Wl~~~-----~tCP~CR~ 180 (200)
....|.||-..-.... -+..-.|+-.||..|+..|+... -.||-||.
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 4566777765542211 22445689999999999999753 25877765
No 200
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=24.72 E-value=33 Score=29.31 Aligned_cols=45 Identities=20% Similarity=0.396 Sum_probs=30.9
Q ss_pred CCCcccccccccCCCCCeeec--CCC--CeeCHhhHHHHhccCCCCccccc
Q 029012 134 EEDTCPICLEEYDTENPKLIT--KCE--HHFHLSCILEWNERSESCPICDQ 180 (200)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~l--~C~--H~Fh~~CI~~Wl~~~~tCP~CR~ 180 (200)
....|+||=..-. -.++.. .=| |.+|.-|-.+|-.....||.|..
T Consensus 186 ~~~~CPvCGs~P~--~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPV--SSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcch--hheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4678999976541 111111 222 56788899999999999999975
No 201
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=24.66 E-value=15 Score=30.74 Aligned_cols=47 Identities=21% Similarity=0.352 Sum_probs=21.4
Q ss_pred cCCCcccccccccCCCCCeeecC----CCCeeCHhhHHHHhccCCCCcccccc
Q 029012 133 EEEDTCPICLEEYDTENPKLITK----CEHHFHLSCILEWNERSESCPICDQV 181 (200)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~l~----C~H~Fh~~CI~~Wl~~~~tCP~CR~~ 181 (200)
.....|+||=..... .++.-. =.|.+|.-|-.+|-.....||.|...
T Consensus 170 w~~g~CPvCGs~P~~--s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVL--SVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEE--EEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCce--EEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 345689999655410 101111 13668999999999889999999553
No 202
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=24.58 E-value=69 Score=31.93 Aligned_cols=50 Identities=22% Similarity=0.498 Sum_probs=35.4
Q ss_pred CCCcccccccccC---CCCCe-eecCCCCeeCHhhHHH-HhccCCCCcccccccc
Q 029012 134 EEDTCPICLEEYD---TENPK-LITKCEHHFHLSCILE-WNERSESCPICDQVCL 183 (200)
Q Consensus 134 ~~~~C~ICle~~~---~~~~~-~~l~C~H~Fh~~CI~~-Wl~~~~tCP~CR~~l~ 183 (200)
....|-||=+... .+++. ..-.|+--.|+.|..- .-+.+..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4567999999872 24442 3446888899999942 2334669999988766
No 203
>PF14353 CpXC: CpXC protein
Probab=23.69 E-value=72 Score=23.05 Aligned_cols=13 Identities=31% Similarity=0.736 Sum_probs=9.3
Q ss_pred CCCccccccccch
Q 029012 173 ESCPICDQVCLLQ 185 (200)
Q Consensus 173 ~tCP~CR~~l~~~ 185 (200)
.+||.|...+..+
T Consensus 39 ~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 39 FTCPSCGHKFRLE 51 (128)
T ss_pred EECCCCCCceecC
Confidence 3899998876543
No 204
>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=23.49 E-value=59 Score=23.47 Aligned_cols=20 Identities=20% Similarity=0.376 Sum_probs=16.0
Q ss_pred HHhccCCCCccccccccchh
Q 029012 167 EWNERSESCPICDQVCLLQL 186 (200)
Q Consensus 167 ~Wl~~~~tCP~CR~~l~~~~ 186 (200)
..+.+...|+.|++++..|+
T Consensus 80 KmLGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 80 KMLGRVDACMHCKEPLTLDP 99 (114)
T ss_pred hhhchhhccCcCCCcCccCc
Confidence 44667779999999998775
No 205
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=23.04 E-value=34 Score=27.92 Aligned_cols=24 Identities=25% Similarity=0.600 Sum_probs=17.3
Q ss_pred eCHhhHHHHhccCCCCcccccccc
Q 029012 160 FHLSCILEWNERSESCPICDQVCL 183 (200)
Q Consensus 160 Fh~~CI~~Wl~~~~tCP~CR~~l~ 183 (200)
.|..|-...-++..+||+|+..-.
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsR 274 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSR 274 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccc
Confidence 456676666667779999987544
No 206
>PRK11595 DNA utilization protein GntX; Provisional
Probab=22.95 E-value=72 Score=25.65 Aligned_cols=23 Identities=17% Similarity=0.398 Sum_probs=11.8
Q ss_pred eCHhhHHHHhccCCCCccccccc
Q 029012 160 FHLSCILEWNERSESCPICDQVC 182 (200)
Q Consensus 160 Fh~~CI~~Wl~~~~tCP~CR~~l 182 (200)
.|..|...|-.....||.|..++
T Consensus 22 lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 22 ICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred ccHHHHhhCCcccCcCccCCCcC
Confidence 56666655432233566665543
No 207
>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=22.68 E-value=57 Score=18.03 Aligned_cols=9 Identities=56% Similarity=1.346 Sum_probs=6.8
Q ss_pred CCCcccccc
Q 029012 173 ESCPICDQV 181 (200)
Q Consensus 173 ~tCP~CR~~ 181 (200)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 489999764
No 208
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.56 E-value=18 Score=34.09 Aligned_cols=51 Identities=24% Similarity=0.363 Sum_probs=35.8
Q ss_pred ccccCCCcccccccccCCCCCeeecCCCCeeCHhhHHHH--hccCCCCcccccccc
Q 029012 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEW--NERSESCPICDQVCL 183 (200)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~W--l~~~~tCP~CR~~l~ 183 (200)
.....++.|.||.+.- ..-..+.+|-|.+|..|...- +...+.|+.| ..+.
T Consensus 73 ~~~~~e~~~~if~~d~--~~y~~~~~~~~~~C~~C~~~~~~~~~~~~~~~c-~~~~ 125 (669)
T KOG2231|consen 73 DFDEHEDTCVIFFADK--LTYTKLEACLHHSCHICDRRFRALYNKKECLHC-TEFK 125 (669)
T ss_pred ccccccceeeeeeccc--cHHHHHHHHHhhhcCccccchhhhcccCCCccc-cchh
Confidence 3445678899995543 122357789999999999775 3466799999 5544
No 209
>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=22.20 E-value=29 Score=19.52 Aligned_cols=12 Identities=25% Similarity=0.628 Sum_probs=8.4
Q ss_pred cCCCCccccccc
Q 029012 171 RSESCPICDQVC 182 (200)
Q Consensus 171 ~~~tCP~CR~~l 182 (200)
....||.|...+
T Consensus 25 ~~~~CP~Cg~~~ 36 (41)
T smart00834 25 PLATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCCcc
Confidence 344799998754
No 210
>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=21.84 E-value=15 Score=19.91 Aligned_cols=23 Identities=26% Similarity=0.589 Sum_probs=8.3
Q ss_pred CeeCHhhHHHHhcc----CCCCccccc
Q 029012 158 HHFHLSCILEWNER----SESCPICDQ 180 (200)
Q Consensus 158 H~Fh~~CI~~Wl~~----~~tCP~CR~ 180 (200)
|.||..|-..-... ...||.|+.
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 45555554433221 225666654
No 211
>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=21.35 E-value=47 Score=21.16 Aligned_cols=12 Identities=25% Similarity=0.766 Sum_probs=9.4
Q ss_pred CCCCcccccccc
Q 029012 172 SESCPICDQVCL 183 (200)
Q Consensus 172 ~~tCP~CR~~l~ 183 (200)
+..||+|+..+-
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 468999988763
No 212
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.97 E-value=55 Score=29.07 Aligned_cols=37 Identities=24% Similarity=0.371 Sum_probs=27.6
Q ss_pred cCCCcccccccccC---CCCCeeecCCCCeeCHhhHHHHh
Q 029012 133 EEEDTCPICLEEYD---TENPKLITKCEHHFHLSCILEWN 169 (200)
Q Consensus 133 ~~~~~C~ICle~~~---~~~~~~~l~C~H~Fh~~CI~~Wl 169 (200)
.+...|+-|.-.++ .-+...-+.|||.||+-|-....
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 45677999987773 24456788999999999976543
No 213
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.71 E-value=53 Score=31.05 Aligned_cols=44 Identities=18% Similarity=0.368 Sum_probs=29.6
Q ss_pred CCcccccccccCC-CCCeeecCCCCeeCHhhHHHHhccCCCCcccccc
Q 029012 135 EDTCPICLEEYDT-ENPKLITKCEHHFHLSCILEWNERSESCPICDQV 181 (200)
Q Consensus 135 ~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCP~CR~~ 181 (200)
...|-+|.-.-+. .+--..+.|+-.||..| |+.-...||+|--.
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~~~ 698 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCGPD 698 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccCch
Confidence 3458888765421 12225678888888887 66778889999543
Done!