Query 030048
Match_columns 183
No_of_seqs 167 out of 1182
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 07:42:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030048.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030048hhsearch_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 99.5 1.8E-14 3.9E-19 92.5 2.0 44 108-170 1-44 (44)
2 PF12678 zf-rbx1: RING-H2 zinc 99.4 4.7E-14 1E-18 100.4 2.7 58 104-170 16-73 (73)
3 PF12861 zf-Apc11: Anaphase-pr 99.4 8.6E-13 1.9E-17 97.1 4.9 65 106-176 20-84 (85)
4 KOG4628 Predicted E3 ubiquitin 99.3 1.1E-12 2.4E-17 117.5 3.2 52 108-177 230-281 (348)
5 COG5194 APC11 Component of SCF 99.2 7E-12 1.5E-16 91.5 4.6 70 102-177 15-84 (88)
6 KOG1493 Anaphase-promoting com 99.1 3.6E-11 7.7E-16 87.1 1.0 69 102-176 15-83 (84)
7 PHA02929 N1R/p28-like protein; 99.0 1.3E-10 2.8E-15 99.8 3.8 56 106-175 173-228 (238)
8 PF15227 zf-C3HC4_4: zinc fing 99.0 1.6E-10 3.5E-15 74.3 2.2 42 110-169 1-42 (42)
9 COG5243 HRD1 HRD ubiquitin lig 99.0 1.9E-10 4.1E-15 104.1 3.3 62 105-175 285-346 (491)
10 COG5540 RING-finger-containing 99.0 1.7E-10 3.7E-15 102.1 2.7 51 107-175 323-373 (374)
11 PF13923 zf-C3HC4_2: Zinc fing 99.0 2.5E-10 5.4E-15 71.6 2.5 39 110-169 1-39 (39)
12 cd00162 RING RING-finger (Real 99.0 4.7E-10 1E-14 69.3 3.6 45 109-173 1-45 (45)
13 KOG2930 SCF ubiquitin ligase, 99.0 3.7E-10 8E-15 86.0 3.4 70 101-175 40-109 (114)
14 PLN03208 E3 ubiquitin-protein 98.9 9.4E-10 2E-14 91.8 4.3 54 106-177 17-82 (193)
15 PF13920 zf-C3HC4_3: Zinc fing 98.9 1.2E-09 2.6E-14 71.8 2.2 47 107-175 2-49 (50)
16 PF00097 zf-C3HC4: Zinc finger 98.8 3.4E-09 7.4E-14 66.4 2.4 41 110-169 1-41 (41)
17 KOG0320 Predicted E3 ubiquitin 98.8 1.4E-08 3.1E-13 83.9 6.7 52 106-177 130-181 (187)
18 smart00184 RING Ring finger. E 98.7 1.1E-08 2.3E-13 61.0 3.2 29 138-169 11-39 (39)
19 smart00504 Ubox Modified RING 98.7 8.2E-09 1.8E-13 69.6 2.8 49 108-178 2-50 (63)
20 PF14634 zf-RING_5: zinc-RING 98.7 1.4E-08 3.1E-13 65.3 3.4 44 109-171 1-44 (44)
21 KOG0802 E3 ubiquitin ligase [P 98.7 7.6E-09 1.6E-13 97.3 2.0 53 106-175 290-342 (543)
22 PF13445 zf-RING_UBOX: RING-ty 98.6 1.7E-08 3.8E-13 65.4 2.1 43 110-167 1-43 (43)
23 PHA02926 zinc finger-like prot 98.6 4.4E-08 9.6E-13 83.7 4.3 63 106-177 169-233 (242)
24 KOG0317 Predicted E3 ubiquitin 98.6 4E-08 8.6E-13 86.3 3.3 50 106-177 238-287 (293)
25 TIGR00599 rad18 DNA repair pro 98.5 8.1E-08 1.8E-12 87.9 4.3 50 105-176 24-73 (397)
26 KOG0823 Predicted E3 ubiquitin 98.4 1.6E-07 3.4E-12 80.3 2.4 55 105-178 45-99 (230)
27 KOG1734 Predicted RING-contain 98.3 9.8E-08 2.1E-12 83.6 0.2 64 105-178 222-285 (328)
28 KOG2164 Predicted E3 ubiquitin 98.2 6E-07 1.3E-11 83.9 2.1 54 107-178 186-240 (513)
29 KOG0828 Predicted E3 ubiquitin 98.2 6.2E-07 1.3E-11 83.9 2.0 65 106-175 570-635 (636)
30 KOG0827 Predicted E3 ubiquitin 98.2 9.3E-07 2E-11 80.7 2.7 53 108-175 5-57 (465)
31 COG5574 PEX10 RING-finger-cont 98.2 9.1E-07 2E-11 77.0 2.2 51 105-177 213-265 (271)
32 PF04564 U-box: U-box domain; 98.1 1.2E-06 2.6E-11 62.0 2.2 52 106-178 3-54 (73)
33 KOG2177 Predicted E3 ubiquitin 98.1 1.2E-06 2.5E-11 70.9 2.1 45 105-171 11-55 (386)
34 KOG0287 Postreplication repair 98.1 9.9E-07 2.2E-11 79.5 1.7 49 107-177 23-71 (442)
35 smart00744 RINGv The RING-vari 98.1 2.9E-06 6.2E-11 56.3 3.4 30 139-170 15-49 (49)
36 TIGR00570 cdk7 CDK-activating 98.1 2.1E-06 4.5E-11 76.4 3.3 56 106-177 2-57 (309)
37 PF11793 FANCL_C: FANCL C-term 97.9 1.2E-06 2.7E-11 61.9 -0.9 57 107-175 2-67 (70)
38 KOG0804 Cytoplasmic Zn-finger 97.9 5.1E-06 1.1E-10 77.0 2.6 51 104-174 172-222 (493)
39 KOG0825 PHD Zn-finger protein 97.7 2.6E-05 5.6E-10 76.6 3.7 38 137-178 138-175 (1134)
40 COG5432 RAD18 RING-finger-cont 97.7 2.2E-05 4.7E-10 69.9 2.1 47 108-176 26-72 (391)
41 KOG0978 E3 ubiquitin ligase in 97.5 4E-05 8.6E-10 74.5 2.0 51 107-178 643-693 (698)
42 KOG1645 RING-finger-containing 97.5 3.9E-05 8.5E-10 70.6 1.7 53 106-173 3-55 (463)
43 KOG1941 Acetylcholine receptor 97.5 5.7E-05 1.2E-09 69.5 2.1 53 106-174 364-416 (518)
44 COG5219 Uncharacterized conser 97.4 6.6E-05 1.4E-09 75.1 2.1 56 106-174 1468-1523(1525)
45 KOG1039 Predicted E3 ubiquitin 97.4 8.9E-05 1.9E-09 67.0 2.0 62 105-177 159-224 (344)
46 PF10367 Vps39_2: Vacuolar sor 97.3 5.6E-05 1.2E-09 55.3 -0.1 32 106-153 77-108 (109)
47 KOG0311 Predicted E3 ubiquitin 97.2 0.00012 2.6E-09 66.3 0.8 52 106-177 42-93 (381)
48 PF11789 zf-Nse: Zinc-finger o 97.0 0.00043 9.3E-09 47.3 1.9 45 105-168 9-53 (57)
49 KOG2879 Predicted E3 ubiquitin 96.9 0.00075 1.6E-08 59.5 3.1 61 102-181 234-294 (298)
50 KOG4265 Predicted E3 ubiquitin 96.9 0.00061 1.3E-08 61.6 2.4 48 106-175 289-337 (349)
51 KOG0824 Predicted E3 ubiquitin 96.8 0.00061 1.3E-08 60.7 2.0 51 105-176 5-55 (324)
52 KOG4159 Predicted E3 ubiquitin 96.7 0.00068 1.5E-08 62.4 1.5 49 105-175 82-130 (398)
53 KOG3039 Uncharacterized conser 96.7 0.001 2.2E-08 58.1 2.4 59 106-182 220-278 (303)
54 KOG1940 Zn-finger protein [Gen 96.6 0.0011 2.3E-08 58.5 2.2 47 107-171 158-204 (276)
55 COG5152 Uncharacterized conser 96.6 0.00083 1.8E-08 57.2 1.4 44 108-173 197-240 (259)
56 PF14835 zf-RING_6: zf-RING of 96.6 0.00057 1.2E-08 48.1 0.1 47 108-177 8-54 (65)
57 PF04641 Rtf2: Rtf2 RING-finge 96.5 0.0018 3.9E-08 55.9 2.6 55 105-178 111-165 (260)
58 KOG0297 TNF receptor-associate 96.4 0.001 2.2E-08 60.8 0.8 52 106-178 20-71 (391)
59 KOG1785 Tyrosine kinase negati 96.4 0.0013 2.8E-08 60.9 1.4 51 106-176 368-418 (563)
60 KOG1002 Nucleotide excision re 96.3 0.0027 5.9E-08 60.6 2.9 55 105-177 534-589 (791)
61 KOG4445 Uncharacterized conser 96.2 0.002 4.4E-08 57.6 1.1 58 105-177 113-189 (368)
62 KOG3970 Predicted E3 ubiquitin 96.0 0.0064 1.4E-07 52.7 3.4 54 108-177 51-108 (299)
63 PF05883 Baculo_RING: Baculovi 95.8 0.0068 1.5E-07 48.3 2.5 37 106-157 25-67 (134)
64 KOG1571 Predicted E3 ubiquitin 95.7 0.0052 1.1E-07 55.8 1.6 45 106-175 304-348 (355)
65 KOG2660 Locus-specific chromos 95.5 0.0044 9.6E-08 55.7 0.7 51 106-177 14-64 (331)
66 KOG4172 Predicted E3 ubiquitin 95.5 0.0045 9.8E-08 42.7 0.5 45 108-174 8-54 (62)
67 KOG1813 Predicted E3 ubiquitin 95.4 0.0037 8E-08 55.6 -0.2 45 107-173 241-285 (313)
68 KOG2034 Vacuolar sorting prote 95.4 0.0079 1.7E-07 60.0 1.8 36 106-157 816-851 (911)
69 PHA02825 LAP/PHD finger-like p 95.3 0.018 4E-07 47.2 3.4 52 105-177 6-62 (162)
70 KOG4185 Predicted E3 ubiquitin 95.2 0.012 2.5E-07 51.0 2.1 52 107-173 3-54 (296)
71 KOG1428 Inhibitor of type V ad 95.1 0.013 2.8E-07 61.7 2.5 56 104-174 3483-3544(3738)
72 PHA02862 5L protein; Provision 95.1 0.017 3.6E-07 46.9 2.6 49 107-176 2-55 (156)
73 PF12906 RINGv: RING-variant d 94.9 0.0077 1.7E-07 39.4 0.2 42 110-169 1-47 (47)
74 COG5222 Uncharacterized conser 94.9 0.016 3.5E-07 52.1 2.2 44 108-171 275-318 (427)
75 COG5236 Uncharacterized conser 94.9 0.02 4.4E-07 52.4 2.7 53 103-175 57-109 (493)
76 KOG2114 Vacuolar assembly/sort 94.5 0.02 4.4E-07 57.0 2.2 44 106-173 839-882 (933)
77 PF14447 Prok-RING_4: Prokaryo 94.5 0.012 2.7E-07 40.2 0.5 33 139-177 21-53 (55)
78 KOG0827 Predicted E3 ubiquitin 94.2 0.0038 8.3E-08 57.5 -3.5 55 104-176 193-247 (465)
79 PF14570 zf-RING_4: RING/Ubox 93.9 0.048 1E-06 36.3 2.3 48 110-174 1-48 (48)
80 KOG4692 Predicted E3 ubiquitin 93.9 0.049 1.1E-06 50.1 3.0 55 101-177 416-470 (489)
81 PHA03096 p28-like protein; Pro 93.8 0.047 1E-06 48.3 2.7 56 108-173 179-236 (284)
82 KOG1814 Predicted E3 ubiquitin 92.8 0.084 1.8E-06 49.1 2.9 50 106-170 183-236 (445)
83 KOG4275 Predicted E3 ubiquitin 92.8 0.015 3.2E-07 52.0 -2.0 43 107-175 300-343 (350)
84 KOG1952 Transcription factor N 92.4 0.084 1.8E-06 52.8 2.4 56 105-174 189-247 (950)
85 KOG3268 Predicted E3 ubiquitin 92.3 0.1 2.2E-06 44.0 2.4 38 140-177 187-231 (234)
86 KOG1001 Helicase-like transcri 92.0 0.081 1.8E-06 51.8 1.7 48 108-176 455-502 (674)
87 PF07800 DUF1644: Protein of u 91.7 0.14 3E-06 42.0 2.6 12 163-174 80-91 (162)
88 KOG0801 Predicted E3 ubiquitin 90.8 0.055 1.2E-06 44.9 -0.6 29 106-149 176-204 (205)
89 KOG0826 Predicted E3 ubiquitin 90.6 0.16 3.4E-06 46.1 2.0 53 100-173 293-345 (357)
90 KOG3800 Predicted E3 ubiquitin 90.6 0.24 5.3E-06 44.1 3.1 34 139-175 19-52 (300)
91 COG5175 MOT2 Transcriptional r 89.4 0.33 7.1E-06 44.6 3.0 56 106-178 13-68 (480)
92 KOG0309 Conserved WD40 repeat- 89.2 0.19 4.2E-06 50.1 1.5 25 140-168 1045-1069(1081)
93 KOG2932 E3 ubiquitin ligase in 88.2 0.19 4.2E-06 45.5 0.8 47 106-175 89-135 (389)
94 PF08746 zf-RING-like: RING-li 87.2 0.26 5.6E-06 31.7 0.7 26 142-169 18-43 (43)
95 KOG3161 Predicted E3 ubiquitin 87.0 0.36 7.8E-06 47.5 1.8 45 106-171 10-54 (861)
96 KOG0298 DEAD box-containing he 86.4 0.28 6E-06 51.2 0.8 44 108-172 1154-1197(1394)
97 KOG1812 Predicted E3 ubiquitin 86.4 0.48 1E-05 43.5 2.2 54 106-174 145-203 (384)
98 smart00249 PHD PHD zinc finger 85.5 0.36 7.9E-06 29.3 0.7 29 141-169 18-47 (47)
99 KOG1829 Uncharacterized conser 84.6 0.52 1.1E-05 45.6 1.7 31 135-172 529-559 (580)
100 COG5183 SSM4 Protein involved 84.1 1 2.3E-05 45.4 3.5 57 104-178 9-70 (1175)
101 PF05290 Baculo_IE-1: Baculovi 83.9 1.8 3.8E-05 34.8 4.1 61 106-181 79-139 (140)
102 PF03854 zf-P11: P-11 zinc fin 83.0 0.4 8.8E-06 32.1 0.2 33 140-176 15-48 (50)
103 KOG3002 Zn finger protein [Gen 82.3 0.64 1.4E-05 41.5 1.2 46 104-175 45-92 (299)
104 KOG2066 Vacuolar assembly/sort 82.1 0.56 1.2E-05 46.8 0.8 50 107-172 784-833 (846)
105 KOG2817 Predicted E3 ubiquitin 81.9 0.89 1.9E-05 42.1 2.0 37 139-176 351-387 (394)
106 KOG0825 PHD Zn-finger protein 80.3 3.6 7.9E-05 41.6 5.6 59 105-174 94-154 (1134)
107 KOG1100 Predicted E3 ubiquitin 80.0 0.57 1.2E-05 39.6 0.1 30 137-174 170-200 (207)
108 PF14446 Prok-RING_1: Prokaryo 78.5 1.5 3.3E-05 29.9 1.8 36 106-155 4-39 (54)
109 KOG3053 Uncharacterized conser 78.2 1.5 3.3E-05 38.8 2.2 57 105-175 18-83 (293)
110 PF10272 Tmpp129: Putative tra 77.8 1.9 4.1E-05 39.5 2.7 37 142-178 310-355 (358)
111 PF04710 Pellino: Pellino; In 77.5 0.74 1.6E-05 42.8 0.0 69 107-175 328-402 (416)
112 KOG3113 Uncharacterized conser 77.1 1.7 3.8E-05 38.4 2.2 53 106-178 110-162 (293)
113 KOG1609 Protein involved in mR 76.7 1.9 4.1E-05 36.9 2.3 54 107-176 78-136 (323)
114 PF04710 Pellino: Pellino; In 76.3 0.83 1.8E-05 42.5 0.0 36 134-172 300-337 (416)
115 PF13901 DUF4206: Domain of un 73.9 1.7 3.7E-05 36.3 1.3 48 106-172 151-198 (202)
116 KOG3842 Adaptor protein Pellin 73.6 3.1 6.7E-05 38.0 2.9 72 106-177 340-417 (429)
117 KOG4367 Predicted Zn-finger pr 72.6 2.4 5.1E-05 40.4 2.0 34 106-157 3-36 (699)
118 KOG3899 Uncharacterized conser 71.4 3.2 6.9E-05 37.6 2.4 37 142-178 324-369 (381)
119 PF00628 PHD: PHD-finger; Int 70.0 0.36 7.7E-06 31.0 -2.9 34 138-171 15-50 (51)
120 KOG2068 MOT2 transcription fac 66.2 3.7 8E-05 37.3 1.8 50 108-175 250-299 (327)
121 PF04423 Rad50_zn_hook: Rad50 65.9 2.1 4.5E-05 28.3 0.1 27 151-177 8-34 (54)
122 PF05605 zf-Di19: Drought indu 64.9 6.4 0.00014 25.8 2.3 14 107-120 2-15 (54)
123 KOG0269 WD40 repeat-containing 64.5 3.9 8.5E-05 41.0 1.7 18 141-158 797-814 (839)
124 PLN02189 cellulose synthase 64.2 7 0.00015 40.5 3.5 56 105-174 32-87 (1040)
125 PF14569 zf-UDP: Zinc-binding 63.2 8.1 0.00018 28.3 2.8 57 105-175 7-63 (80)
126 COG5220 TFB3 Cdk activating ki 61.9 4.1 8.9E-05 36.0 1.2 52 106-173 9-63 (314)
127 KOG4185 Predicted E3 ubiquitin 61.5 1.8 4E-05 37.3 -1.0 51 107-172 207-265 (296)
128 KOG4718 Non-SMC (structural ma 59.4 5.8 0.00013 34.3 1.7 46 107-173 181-226 (235)
129 PLN02436 cellulose synthase A 58.1 10 0.00022 39.4 3.5 57 104-174 33-89 (1094)
130 KOG1815 Predicted E3 ubiquitin 56.0 8.2 0.00018 35.8 2.2 36 105-157 68-103 (444)
131 KOG4739 Uncharacterized protei 55.1 5.6 0.00012 34.5 0.9 20 138-157 18-37 (233)
132 KOG4362 Transcriptional regula 52.5 4.8 0.0001 39.9 0.1 50 107-175 21-70 (684)
133 PF07191 zinc-ribbons_6: zinc- 51.3 1.1 2.3E-05 32.2 -3.4 44 108-178 2-45 (70)
134 COG5109 Uncharacterized conser 51.0 8.5 0.00018 35.2 1.4 32 139-171 353-384 (396)
135 cd00350 rubredoxin_like Rubred 44.4 7.4 0.00016 23.3 0.0 11 162-172 16-26 (33)
136 PLN02400 cellulose synthase 44.1 20 0.00043 37.4 3.0 57 104-174 33-89 (1085)
137 PF02891 zf-MIZ: MIZ/SP-RING z 43.8 21 0.00046 23.3 2.1 35 137-172 15-50 (50)
138 PF10571 UPF0547: Uncharacteri 43.5 10 0.00022 21.9 0.5 11 109-119 2-12 (26)
139 KOG0802 E3 ubiquitin ligase [P 42.8 15 0.00032 35.0 1.8 47 106-178 478-524 (543)
140 PLN02638 cellulose synthase A 41.1 30 0.00065 36.2 3.7 57 104-174 14-70 (1079)
141 KOG3842 Adaptor protein Pellin 40.1 18 0.00039 33.3 1.7 57 109-172 292-350 (429)
142 PLN02195 cellulose synthase A 39.2 33 0.0007 35.6 3.6 56 106-175 5-60 (977)
143 KOG3005 GIY-YIG type nuclease 39.0 56 0.0012 29.1 4.6 55 108-173 183-242 (276)
144 PRK11088 rrmA 23S rRNA methylt 37.5 13 0.00027 31.7 0.3 12 108-119 3-14 (272)
145 KOG0824 Predicted E3 ubiquitin 37.5 8.7 0.00019 34.7 -0.6 57 101-178 99-155 (324)
146 PLN02915 cellulose synthase A 35.9 30 0.00064 36.1 2.7 56 105-174 13-68 (1044)
147 PF12088 DUF3565: Protein of u 34.9 23 0.00049 24.8 1.2 22 134-155 8-29 (61)
148 smart00734 ZnF_Rad18 Rad18-lik 34.5 18 0.00039 20.7 0.6 10 164-173 2-11 (26)
149 KOG1729 FYVE finger containing 33.2 9.8 0.00021 33.9 -1.0 61 101-175 162-226 (288)
150 COG4357 Zinc finger domain con 32.7 38 0.00083 25.9 2.2 30 142-176 64-93 (105)
151 PF14169 YdjO: Cold-inducible 29.8 30 0.00064 24.0 1.1 14 162-175 38-51 (59)
152 KOG2071 mRNA cleavage and poly 28.1 26 0.00057 34.2 0.8 41 105-155 511-556 (579)
153 smart00064 FYVE Protein presen 27.8 21 0.00046 24.0 0.1 39 106-158 9-47 (68)
154 KOG1815 Predicted E3 ubiquitin 27.5 31 0.00068 32.0 1.2 38 140-177 181-240 (444)
155 PF13717 zinc_ribbon_4: zinc-r 26.3 28 0.00061 21.3 0.5 34 108-148 3-36 (36)
156 PF06844 DUF1244: Protein of u 26.1 39 0.00085 24.0 1.2 11 147-157 12-22 (68)
157 PF15353 HECA: Headcase protei 25.6 44 0.00096 25.8 1.5 16 142-157 39-54 (107)
158 KOG4021 Mitochondrial ribosoma 25.6 32 0.0007 29.5 0.9 27 148-177 96-122 (239)
159 PF00412 LIM: LIM domain; Int 25.0 13 0.00029 23.7 -1.2 39 110-176 1-39 (58)
160 PF13832 zf-HC5HC2H_2: PHD-zin 24.8 40 0.00087 24.7 1.2 35 106-155 54-88 (110)
161 PF06906 DUF1272: Protein of u 24.7 56 0.0012 22.5 1.8 48 108-177 6-55 (57)
162 smart00132 LIM Zinc-binding do 24.4 26 0.00057 20.1 0.1 36 110-173 2-37 (39)
163 PF14311 DUF4379: Domain of un 23.9 34 0.00074 22.4 0.6 23 142-169 33-55 (55)
164 PF09723 Zn-ribbon_8: Zinc rib 23.5 19 0.00041 22.7 -0.7 26 141-171 9-34 (42)
165 PRK11827 hypothetical protein; 22.7 41 0.0009 23.3 0.8 15 163-177 8-22 (60)
166 COG3813 Uncharacterized protei 22.2 57 0.0012 23.8 1.5 27 144-176 28-54 (84)
167 COG1645 Uncharacterized Zn-fin 22.0 32 0.0007 27.4 0.2 15 106-120 27-41 (131)
168 KOG3039 Uncharacterized conser 21.9 47 0.001 29.6 1.2 34 106-157 42-75 (303)
169 PF05191 ADK_lid: Adenylate ki 21.2 25 0.00055 21.7 -0.4 30 141-176 5-34 (36)
170 KOG2113 Predicted RNA binding 21.1 70 0.0015 29.4 2.1 30 138-173 356-386 (394)
171 KOG3970 Predicted E3 ubiquitin 20.5 69 0.0015 28.2 1.9 39 139-178 20-65 (299)
172 TIGR02605 CxxC_CxxC_SSSS putat 20.3 28 0.00061 22.3 -0.4 26 141-171 9-34 (52)
173 cd00065 FYVE FYVE domain; Zinc 20.3 50 0.0011 21.2 0.8 36 108-157 3-38 (57)
174 KOG4443 Putative transcription 20.1 41 0.00088 33.5 0.5 36 138-173 36-72 (694)
175 KOG3579 Predicted E3 ubiquitin 20.1 40 0.00086 30.6 0.4 37 107-157 268-304 (352)
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=99.47 E-value=1.8e-14 Score=92.45 Aligned_cols=44 Identities=32% Similarity=0.799 Sum_probs=36.2
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCL 170 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr 170 (183)
+.|+||++.|.... .+..|+|||+||.+||.+|+.. +..||+||
T Consensus 1 d~C~IC~~~~~~~~---------------~~~~l~C~H~fh~~Ci~~~~~~----~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGE---------------KVVKLPCGHVFHRSCIKEWLKR----NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTS---------------CEEEETTSEEEEHHHHHHHHHH----SSB-TTTH
T ss_pred CCCcCCChhhcCCC---------------eEEEccCCCeeCHHHHHHHHHh----CCcCCccC
Confidence 46999999998643 3568899999999999999984 56999997
No 2
>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=99.44 E-value=4.7e-14 Score=100.41 Aligned_cols=58 Identities=26% Similarity=0.613 Sum_probs=41.5
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccc
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCL 170 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr 170 (183)
+...+.|+||++.|.+..+.. .+.++...+++++|||+||..||.+|+. ...+||+||
T Consensus 16 ~~~~d~C~IC~~~l~~~~~~~-----~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~----~~~~CP~CR 73 (73)
T PF12678_consen 16 DIADDNCAICREPLEDPCPEC-----QAPQDECPIVWGPCGHIFHFHCISQWLK----QNNTCPLCR 73 (73)
T ss_dssp SSCCSBETTTTSBTTSTTCCH-----HHCTTTS-EEEETTSEEEEHHHHHHHHT----TSSB-TTSS
T ss_pred cCcCCcccccChhhhChhhhh-----cCCccccceEecccCCCEEHHHHHHHHh----cCCcCCCCC
Confidence 445667999999996654211 1112335567889999999999999998 466999997
No 3
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.36 E-value=8.6e-13 Score=97.10 Aligned_cols=65 Identities=22% Similarity=0.447 Sum_probs=50.8
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
.++.|+||+..|....+ ....++++.+. ++..|+|.||.+||.+|+... ..+..||+||+++..+
T Consensus 20 ~dd~CgICr~~fdg~Cp----~Ck~Pgd~Cpl-v~g~C~H~FH~hCI~kWl~~~-~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCP----DCKFPGDDCPL-VWGKCSHNFHMHCILKWLSTQ-SSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeEecccccCCC----CccCCCCCCce-eeccCccHHHHHHHHHHHccc-cCCCCCCCcCCeeeeC
Confidence 47789999999996553 45556555554 588999999999999999853 3467999999988654
No 4
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=1.1e-12 Score=117.55 Aligned_cols=52 Identities=21% Similarity=0.620 Sum_probs=45.1
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
.+|+||+|+|+.++ .+++|||+|.||..||+.||.+ ....||+|+..+.+.-
T Consensus 230 ~~CaIClEdY~~Gd---------------klRiLPC~H~FH~~CIDpWL~~---~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEKGD---------------KLRILPCSHKFHVNCIDPWLTQ---TRTFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeecccccCC---------------eeeEecCCCchhhccchhhHhh---cCccCCCCCCcCCCCC
Confidence 48999999999886 5688999999999999999985 4567999999876654
No 5
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.25 E-value=7e-12 Score=91.45 Aligned_cols=70 Identities=23% Similarity=0.405 Sum_probs=58.2
Q ss_pred CCCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 102 SPDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 102 Sp~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
|.+..-++|+||...+.+..+.+ |.....++..+++...|.|.||.+||.+||. .+..||++++++...+
T Consensus 15 swdi~id~CaICRnhim~~C~eC--q~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~----Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 15 SWDIPIDVCAICRNHIMGTCPEC--QFGMTPGDECPVVWGVCNHAFHDHCIYRWLD----TKGVCPLDRQTWVLAD 84 (88)
T ss_pred ecccccchhhhhhccccCcCccc--ccCCCCCCcceEEEEecchHHHHHHHHHHHh----hCCCCCCCCceeEEec
Confidence 45556789999999999887755 4444677788889999999999999999998 4789999999987655
No 6
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=3.6e-11 Score=87.10 Aligned_cols=69 Identities=22% Similarity=0.448 Sum_probs=53.9
Q ss_pred CCCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 102 SPDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 102 Sp~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
+.+...++|+||.-+|....+ .+..+.++.+.| +..|.|.||+.||.+|+.. ...+..||+||+.+..+
T Consensus 15 tW~~~~e~CGiCRm~Fdg~Cp----~Ck~PgDdCPLv-~G~C~h~fh~hCI~~wl~~-~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 15 TWDAPDETCGICRMPFDGCCP----DCKLPGDDCPLV-WGYCLHAFHAHCILKWLNT-PTSQGQCPMCRQTWQFK 83 (84)
T ss_pred EEcCCCCccceEecccCCcCC----CCcCCCCCCccH-HHHHHHHHHHHHHHHHhcC-ccccccCCcchheeEec
Confidence 344556699999999997764 566777777754 6699999999999999973 34567899999987654
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.04 E-value=1.3e-10 Score=99.77 Aligned_cols=56 Identities=20% Similarity=0.495 Sum_probs=42.0
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
....|+||++.+.+.... ......+++|||+||.+||.+|+. ...+||+||..+..
T Consensus 173 ~~~eC~ICle~~~~~~~~----------~~~~~vl~~C~H~FC~~CI~~Wl~----~~~tCPlCR~~~~~ 228 (238)
T PHA02929 173 KDKECAICMEKVYDKEIK----------NMYFGILSNCNHVFCIECIDIWKK----EKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCccCCcccccCccc----------cccceecCCCCCcccHHHHHHHHh----cCCCCCCCCCEeeE
Confidence 457899999998754210 001234568999999999999998 47899999998764
No 8
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.01 E-value=1.6e-10 Score=74.29 Aligned_cols=42 Identities=33% Similarity=0.754 Sum_probs=31.6
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccc
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLC 169 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiC 169 (183)
|+||++.|++. ..|+|||+|...||.+|+.+.+.....||+|
T Consensus 1 CpiC~~~~~~P------------------v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP------------------VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE------------------EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc------------------cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999963 5799999999999999998655555789998
No 9
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.9e-10 Score=104.15 Aligned_cols=62 Identities=26% Similarity=0.585 Sum_probs=45.1
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
.++..|.||++++-..+. +... .+..-...-|||||.||.+||..|++ +..+|||||.++.-
T Consensus 285 n~D~~C~ICmde~~h~~~----~~~~-~~~~~~pKrLpCGHilHl~CLknW~E----RqQTCPICr~p~if 346 (491)
T COG5243 285 NSDRTCTICMDEMFHPDH----EPLP-RGLDMTPKRLPCGHILHLHCLKNWLE----RQQTCPICRRPVIF 346 (491)
T ss_pred CCCCeEEEecccccCCCC----ccCc-ccccCCcccccccceeeHHHHHHHHH----hccCCCcccCcccc
Confidence 366789999999765431 1111 11222236799999999999999999 68899999999543
No 10
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.7e-10 Score=102.06 Aligned_cols=51 Identities=24% Similarity=0.660 Sum_probs=43.5
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
+-.|+||++.+...+ .+.+|||.|+||..|+++|+.. +...||+||.++.+
T Consensus 323 GveCaICms~fiK~d---------------~~~vlPC~H~FH~~Cv~kW~~~---y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKND---------------RLRVLPCDHRFHVGCVDKWLLG---YSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccc---------------eEEEeccCceechhHHHHHHhh---hcccCCccCCCCCC
Confidence 457999999997433 3689999999999999999974 67899999999865
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.99 E-value=2.5e-10 Score=71.58 Aligned_cols=39 Identities=41% Similarity=1.032 Sum_probs=32.0
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccc
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLC 169 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiC 169 (183)
|+||++.+.+ ++.+++|||+|+.+|+++|+.. +..||+|
T Consensus 1 C~iC~~~~~~-----------------~~~~~~CGH~fC~~C~~~~~~~----~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD-----------------PVVVTPCGHSFCKECIEKYLEK----NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS-----------------EEEECTTSEEEEHHHHHHHHHC----TSB-TTT
T ss_pred CCCCCCcccC-----------------cCEECCCCCchhHHHHHHHHHC----cCCCcCC
Confidence 8999988775 3468999999999999999994 5789998
No 12
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.98 E-value=4.7e-10 Score=69.31 Aligned_cols=45 Identities=33% Similarity=0.862 Sum_probs=36.0
Q ss_pred cccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 109 VCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 109 ~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
.|+||.+.+.. .+.+++|||.||..||..|+.. ....||+|+..+
T Consensus 1 ~C~iC~~~~~~-----------------~~~~~~C~H~~c~~C~~~~~~~---~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE-----------------PVVLLPCGHVFCRSCIDKWLKS---GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC-----------------ceEecCCCChhcHHHHHHHHHh---CcCCCCCCCCcC
Confidence 49999998832 2356679999999999999984 367799999764
No 13
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=3.7e-10 Score=86.03 Aligned_cols=70 Identities=23% Similarity=0.335 Sum_probs=57.4
Q ss_pred CCCCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 101 ASPDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 101 ~Sp~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
-+.++.-++|+||...+.+....+.+.. .+.++...|+...|.|.||..||.+|+. .+..||+|.+....
T Consensus 40 WaWDi~vDnCAICRnHIMd~CieCQa~~-~~~~~EC~VaWG~CNHaFH~hCisrWlk----tr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 40 WAWDIVVDNCAICRNHIMDLCIECQANQ-SATSEECTVAWGVCNHAFHFHCISRWLK----TRNVCPLDNKEWVF 109 (114)
T ss_pred eeeeeeechhHHHHHHHHHHHHhhccCC-CCCCCceEEEeeecchHHHHHHHHHHHh----hcCcCCCcCcceeE
Confidence 3567889999999999988776652222 4567788899999999999999999999 57899999987643
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.92 E-value=9.4e-10 Score=91.85 Aligned_cols=54 Identities=28% Similarity=0.685 Sum_probs=41.8
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcC------------CCCCCCCccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAE------------DIRDPPCPLCLGSL 173 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~------------~~~~p~CPiCr~~l 173 (183)
+...|+||++.+++. ++++|||+|+..||.+|+... .+..+.||+|+..+
T Consensus 17 ~~~~CpICld~~~dP------------------VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 17 GDFDCNICLDQVRDP------------------VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred CccCCccCCCcCCCc------------------EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 456899999987642 467999999999999998521 23457899999998
Q ss_pred ccCC
Q 030048 174 MQVE 177 (183)
Q Consensus 174 ~~~~ 177 (183)
....
T Consensus 79 s~~~ 82 (193)
T PLN03208 79 SEAT 82 (193)
T ss_pred Chhc
Confidence 6543
No 15
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.86 E-value=1.2e-09 Score=71.78 Aligned_cols=47 Identities=32% Similarity=0.755 Sum_probs=37.7
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChH-hhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHV-YHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHv-FH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
+..|.||++...+ +.+++|||. |+..|+.+|+. ....||+||+.+..
T Consensus 2 ~~~C~iC~~~~~~------------------~~~~pCgH~~~C~~C~~~~~~----~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD------------------VVLLPCGHLCFCEECAERLLK----RKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS------------------EEEETTCEEEEEHHHHHHHHH----TTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc------------------eEEeCCCChHHHHHHhHHhcc----cCCCCCcCChhhcC
Confidence 4579999887442 468899999 99999999998 57899999998753
No 16
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.78 E-value=3.4e-09 Score=66.41 Aligned_cols=41 Identities=37% Similarity=0.862 Sum_probs=34.5
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccc
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLC 169 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiC 169 (183)
|+||.+.+.+. +.+++|||.|+..||.+|+.. .....||+|
T Consensus 1 C~iC~~~~~~~-----------------~~~~~C~H~fC~~C~~~~~~~--~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP-----------------VILLPCGHSFCRDCLRKWLEN--SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE-----------------EEETTTSEEEEHHHHHHHHHH--TSSSBTTTT
T ss_pred CCcCCccccCC-----------------CEEecCCCcchHHHHHHHHHh--cCCccCCcC
Confidence 88999987753 258999999999999999984 356789998
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=1.4e-08 Score=83.88 Aligned_cols=52 Identities=23% Similarity=0.590 Sum_probs=43.0
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
....|+||++.+.++.+ .-..|||+|+.+||...+. ....||+|++.+..++
T Consensus 130 ~~~~CPiCl~~~sek~~----------------vsTkCGHvFC~~Cik~alk----~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVP----------------VSTKCGHVFCSQCIKDALK----NTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccCCCceecchhhccc----------------cccccchhHHHHHHHHHHH----hCCCCCCcccccchhh
Confidence 45789999999998642 2368999999999999998 4778999999776553
No 18
>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=98.72 E-value=1.1e-08 Score=61.02 Aligned_cols=29 Identities=31% Similarity=0.919 Sum_probs=24.6
Q ss_pred eEEcCCChHhhHHHHHHHhhcCCCCCCCCccc
Q 030048 138 VAVLVCGHVYHADCLEQRTSAEDIRDPPCPLC 169 (183)
Q Consensus 138 vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiC 169 (183)
..+++|||+||..|++.|+.. ....||+|
T Consensus 11 ~~~~~C~H~~c~~C~~~~~~~---~~~~CP~C 39 (39)
T smart00184 11 PVVLPCGHTFCRSCIRKWLKS---GNNTCPIC 39 (39)
T ss_pred cEEecCCChHHHHHHHHHHHh---CcCCCCCC
Confidence 367899999999999999982 45679998
No 19
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.72 E-value=8.2e-09 Score=69.64 Aligned_cols=49 Identities=16% Similarity=0.347 Sum_probs=40.8
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
..|+||.+.+++. ++++|||+|..+||.+|+.+ +..||+|+..+...+.
T Consensus 2 ~~Cpi~~~~~~~P------------------v~~~~G~v~~~~~i~~~~~~----~~~cP~~~~~~~~~~l 50 (63)
T smart00504 2 FLCPISLEVMKDP------------------VILPSGQTYERRAIEKWLLS----HGTDPVTGQPLTHEDL 50 (63)
T ss_pred cCCcCCCCcCCCC------------------EECCCCCEEeHHHHHHHHHH----CCCCCCCcCCCChhhc
Confidence 3699999998752 46899999999999999984 6789999999865543
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.70 E-value=1.4e-08 Score=65.30 Aligned_cols=44 Identities=25% Similarity=0.746 Sum_probs=35.6
Q ss_pred cccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 109 VCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 109 ~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
.|+||.+.|.+.. ...+++|||+|+..||.++.. ....||+|++
T Consensus 1 ~C~~C~~~~~~~~---------------~~~l~~CgH~~C~~C~~~~~~----~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEER---------------RPRLTSCGHIFCEKCLKKLKG----KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCC---------------CeEEcccCCHHHHHHHHhhcC----CCCCCcCCCC
Confidence 3899999993221 347899999999999999983 5678999985
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=7.6e-09 Score=97.32 Aligned_cols=53 Identities=30% Similarity=0.659 Sum_probs=43.4
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
....|.||.+.|..... -.+..|+|||+||..||.+|++ +..+||+||..+..
T Consensus 290 ~~~~C~IC~e~l~~~~~-------------~~~~rL~C~Hifh~~CL~~W~e----r~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHN-------------ITPKRLPCGHIFHDSCLRSWFE----RQQTCPTCRTVLYD 342 (543)
T ss_pred cCCeeeeechhhccccc-------------cccceeecccchHHHHHHHHHH----HhCcCCcchhhhhc
Confidence 46789999999986431 1346899999999999999999 58899999995543
No 22
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.62 E-value=1.7e-08 Score=65.44 Aligned_cols=43 Identities=35% Similarity=0.823 Sum_probs=23.7
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCc
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCP 167 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CP 167 (183)
|+||.+ +.+.+ .+..+|+|||+|..+||++++.........||
T Consensus 1 CpIc~e-~~~~~--------------n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEE--------------NPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTS--------------S-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCC--------------CCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 75432 12367999999999999999986544566787
No 23
>PHA02926 zinc finger-like protein; Provisional
Probab=98.59 E-value=4.4e-08 Score=83.66 Aligned_cols=63 Identities=17% Similarity=0.450 Sum_probs=42.6
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcC--CCCCCCCcccccccccCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAE--DIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~--~~~~p~CPiCr~~l~~~~ 177 (183)
.+..|+||++...++... ++-..-.+.+|+|+||..||.+|.... ......||+||..+....
T Consensus 169 kE~eCgICmE~I~eK~~~---------~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 169 KEKECGICYEVVYSKRLE---------NDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT 233 (242)
T ss_pred CCCCCccCcccccccccc---------ccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence 457899999987654210 011111356999999999999998731 122457999999876543
No 24
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=4e-08 Score=86.27 Aligned_cols=50 Identities=22% Similarity=0.591 Sum_probs=41.5
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
....|.||++.-.+. .-.||||+|+-.||..|+.+ ...||+||..+.+.+
T Consensus 238 a~~kC~LCLe~~~~p------------------SaTpCGHiFCWsCI~~w~~e----k~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNP------------------SATPCGHIFCWSCILEWCSE----KAECPLCREKFQPSK 287 (293)
T ss_pred CCCceEEEecCCCCC------------------CcCcCcchHHHHHHHHHHcc----ccCCCcccccCCCcc
Confidence 456899999986654 24799999999999999984 567999999987754
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.52 E-value=8.1e-08 Score=87.88 Aligned_cols=50 Identities=24% Similarity=0.662 Sum_probs=41.3
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
.....|+||.+.|... .+++|||.||..||..|+.. ...||+|+..+...
T Consensus 24 e~~l~C~IC~d~~~~P------------------vitpCgH~FCs~CI~~~l~~----~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP------------------VLTSCSHTFCSLCIRRCLSN----QPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhhhCc------------------cCCCCCCchhHHHHHHHHhC----CCCCCCCCCccccc
Confidence 3556899999988742 36899999999999999983 45899999998754
No 26
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=1.6e-07 Score=80.27 Aligned_cols=55 Identities=25% Similarity=0.524 Sum_probs=43.3
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
-....|-||++.-++. +|..|||.|+--||-+|+.. ..+...||+|+..+..+.+
T Consensus 45 ~~~FdCNICLd~akdP------------------VvTlCGHLFCWpClyqWl~~-~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP------------------VVTLCGHLFCWPCLYQWLQT-RPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCceeeeeeccccCCC------------------EEeecccceehHHHHHHHhh-cCCCeeCCccccccccceE
Confidence 3567899999886642 45679999999999999973 3355679999999876654
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=9.8e-08 Score=83.61 Aligned_cols=64 Identities=20% Similarity=0.467 Sum_probs=46.6
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
.++..|+||.+.+..... +.+.-..+-.|.|+|+||..||.-|--.+ ++++||-|+..+..+..
T Consensus 222 l~d~vCaVCg~~~~~s~~--------eegvienty~LsCnHvFHEfCIrGWcivG--KkqtCPYCKekVdl~rm 285 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVD--------EEGVIENTYKLSCNHVFHEFCIRGWCIVG--KKQTCPYCKEKVDLKRM 285 (328)
T ss_pred CCcchhHhhcchheeecc--------hhhhhhhheeeecccchHHHhhhhheeec--CCCCCchHHHHhhHhhh
Confidence 367789999988865421 00111234679999999999999998653 57899999998876554
No 28
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=6e-07 Score=83.94 Aligned_cols=54 Identities=20% Similarity=0.454 Sum_probs=41.8
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcC-CCCCCCCcccccccccCCC
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAE-DIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~-~~~~p~CPiCr~~l~~~~~ 178 (183)
...|+||+++... .....|||+|+-.||.+++... ...--.||||+..+..++.
T Consensus 186 ~~~CPICL~~~~~------------------p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl 240 (513)
T KOG2164|consen 186 DMQCPICLEPPSV------------------PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL 240 (513)
T ss_pred CCcCCcccCCCCc------------------ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence 6789999887442 2345699999999999988644 3455689999999988664
No 29
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=6.2e-07 Score=83.92 Aligned_cols=65 Identities=25% Similarity=0.463 Sum_probs=42.2
Q ss_pred CcccccccccchhhhccccCCCCCCCCCC-cceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGE-QHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~-~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
...+|+||+.++.-... +..+..+..- ..-..+.||.|+||..||++|+.. ++..||+||..+.+
T Consensus 570 ~t~dC~ICMt~I~l~~~--~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~---ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRST--GSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT---YKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeec--cCcchhhhhhhhccccccchHHHHHHHHHHHHHhh---hcccCCccCCCCCC
Confidence 34579999988763321 0011111000 001345699999999999999984 56789999998764
No 30
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=9.3e-07 Score=80.71 Aligned_cols=53 Identities=26% Similarity=0.597 Sum_probs=36.6
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
..|.||.+.+... ....++-.|||+||..||.+|+.....+ ..||+|+-.++.
T Consensus 5 A~C~Ic~d~~p~~--------------~~l~~i~~cGhifh~~cl~qwfe~~Ps~-R~cpic~ik~~~ 57 (465)
T KOG0827|consen 5 AECHICIDGRPND--------------HELGPIGTCGHIFHTTCLTQWFEGDPSN-RGCPICQIKLQE 57 (465)
T ss_pred ceeeEeccCCccc--------------cccccccchhhHHHHHHHHHHHccCCcc-CCCCceeecccc
Confidence 5699994443322 2234667899999999999999843332 479999954443
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=9.1e-07 Score=77.03 Aligned_cols=51 Identities=24% Similarity=0.517 Sum_probs=41.2
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHH-HhhcCCCCCCC-CcccccccccCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQ-RTSAEDIRDPP-CPLCLGSLMQVE 177 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~-wl~~~~~~~p~-CPiCr~~l~~~~ 177 (183)
.....|.||++..... +-++|||+|+..||.. |+.+ .+. ||+||....++.
T Consensus 213 ~~d~kC~lC~e~~~~p------------------s~t~CgHlFC~~Cl~~~~t~~----k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVP------------------SCTPCGHLFCLSCLLISWTKK----KYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCc------------------ccccccchhhHHHHHHHHHhh----ccccCchhhhhccchh
Confidence 4567899998886542 4689999999999999 9984 444 999999887765
No 32
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.15 E-value=1.2e-06 Score=62.00 Aligned_cols=52 Identities=21% Similarity=0.404 Sum_probs=39.7
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
+...|+|+.+.+.+. +++++||+|-..||++|+.. .+..||+|+..+...+.
T Consensus 3 ~~f~CpIt~~lM~dP------------------Vi~~~G~tyer~~I~~~l~~---~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 3 DEFLCPITGELMRDP------------------VILPSGHTYERSAIERWLEQ---NGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGGB-TTTSSB-SSE------------------EEETTSEEEEHHHHHHHHCT---TSSB-TTT-SB-SGGGS
T ss_pred cccCCcCcCcHhhCc------------------eeCCcCCEEcHHHHHHHHHc---CCCCCCCCCCcCCcccc
Confidence 556899999998863 57899999999999999994 58899999998877654
No 33
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1.2e-06 Score=70.90 Aligned_cols=45 Identities=29% Similarity=0.747 Sum_probs=38.5
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
.+...|+||++.|.+. .+|+|||.|+..||..++. ....||.|+.
T Consensus 11 ~~~~~C~iC~~~~~~p------------------~~l~C~H~~c~~C~~~~~~----~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP------------------VLLPCGHNFCRACLTRSWE----GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC------------------ccccccchHhHHHHHHhcC----CCcCCcccCC
Confidence 3567899999999963 5799999999999999987 3578999993
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.12 E-value=9.9e-07 Score=79.54 Aligned_cols=49 Identities=24% Similarity=0.673 Sum_probs=41.6
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
.--|+||.+.|... .+.||||.|+.-||...|. ++|.||.|+.++...+
T Consensus 23 lLRC~IC~eyf~ip------------------~itpCsHtfCSlCIR~~L~----~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 23 LLRCGICFEYFNIP------------------MITPCSHTFCSLCIRKFLS----YKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHhHHHHHhcCc------------------eeccccchHHHHHHHHHhc----cCCCCCceecccchhh
Confidence 44699999998842 5779999999999999999 6999999999876544
No 35
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.11 E-value=2.9e-06 Score=56.25 Aligned_cols=30 Identities=27% Similarity=0.657 Sum_probs=24.6
Q ss_pred EEcCCC-----hHhhHHHHHHHhhcCCCCCCCCcccc
Q 030048 139 AVLVCG-----HVYHADCLEQRTSAEDIRDPPCPLCL 170 (183)
Q Consensus 139 avL~CG-----HvFH~~CLe~wl~~~~~~~p~CPiCr 170 (183)
.+.||. |.||..||.+|+.+. .+..||+|.
T Consensus 15 l~~PC~C~G~~~~vH~~Cl~~W~~~~--~~~~C~iC~ 49 (49)
T smart00744 15 LVSPCRCKGSLKYVHQECLERWINES--GNKTCEICK 49 (49)
T ss_pred eEeccccCCchhHHHHHHHHHHHHHc--CCCcCCCCC
Confidence 468995 999999999999753 455899995
No 36
>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=98.10 E-value=2.1e-06 Score=76.39 Aligned_cols=56 Identities=23% Similarity=0.430 Sum_probs=39.2
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
+.+.|+||........- . ...+-+|||.|+..||+..+.. ....||+|+..+....
T Consensus 2 d~~~CP~Ck~~~y~np~------------~-kl~i~~CGH~~C~sCv~~l~~~---~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPS------------L-KLMVNVCGHTLCESCVDLLFVR---GSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcc------------c-ccccCCCCCcccHHHHHHHhcC---CCCCCCCCCCccchhh
Confidence 56789999886332211 1 1123379999999999997753 4568999999877654
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.94 E-value=1.2e-06 Score=61.90 Aligned_cols=57 Identities=25% Similarity=0.486 Sum_probs=25.2
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEE--cCCChHhhHHHHHHHhhcCCC----CC---CCCccccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAV--LVCGHVYHADCLEQRTSAEDI----RD---PPCPLCLGSLMQ 175 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vav--L~CGHvFH~~CLe~wl~~~~~----~~---p~CPiCr~~l~~ 175 (183)
+..|+||...+.+.. +.+.+.- -.|+..||..||.+|+..... .. ..||.|+.++.-
T Consensus 2 ~~~C~IC~~~~~~~~------------~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDG------------EIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----------------B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCC------------CcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 356999998765221 1111221 379999999999999863211 12 359999998754
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.93 E-value=5.1e-06 Score=76.99 Aligned_cols=51 Identities=22% Similarity=0.575 Sum_probs=40.5
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
..+.-+|+||++-+.... ..+....|.|.||..||.+|.- .+||+||....
T Consensus 172 ~tELPTCpVCLERMD~s~--------------~gi~t~~c~Hsfh~~cl~~w~~------~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSST--------------TGILTILCNHSFHCSCLMKWWD------SSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccc--------------cceeeeecccccchHHHhhccc------CcChhhhhhcC
Confidence 346789999999988642 1245568999999999999954 57999998766
No 39
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.71 E-value=2.6e-05 Score=76.57 Aligned_cols=38 Identities=16% Similarity=0.357 Sum_probs=32.2
Q ss_pred eeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 137 AVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 137 ~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
+.+-.+|+|.||++||+.|.. ...+||+||..|....+
T Consensus 138 ~~~~k~c~H~FC~~Ci~sWsR----~aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 138 EESEKHTAHYFCEECVGSWSR----CAQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hccccccccccHHHHhhhhhh----hcccCchhhhhhheeee
Confidence 345679999999999999998 46799999999987654
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.66 E-value=2.2e-05 Score=69.90 Aligned_cols=47 Identities=23% Similarity=0.656 Sum_probs=39.3
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
..|-||-+.|... ...+|||.|+.-||...|. .+|.||+||......
T Consensus 26 lrC~IC~~~i~ip------------------~~TtCgHtFCslCIR~hL~----~qp~CP~Cr~~~~es 72 (391)
T COG5432 26 LRCRICDCRISIP------------------CETTCGHTFCSLCIRRHLG----TQPFCPVCREDPCES 72 (391)
T ss_pred HHhhhhhheeecc------------------eecccccchhHHHHHHHhc----CCCCCccccccHHhh
Confidence 4699998887743 4679999999999999999 589999999876543
No 41
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=4e-05 Score=74.52 Aligned_cols=51 Identities=24% Similarity=0.704 Sum_probs=41.9
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
--.|+.|-.-.++ +++..|||+||.+|+...+.. ++-.||.|...|++-+.
T Consensus 643 ~LkCs~Cn~R~Kd------------------~vI~kC~H~FC~~Cvq~r~et---RqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD------------------AVITKCGHVFCEECVQTRYET---RQRKCPKCNAAFGANDV 693 (698)
T ss_pred ceeCCCccCchhh------------------HHHHhcchHHHHHHHHHHHHH---hcCCCCCCCCCCCcccc
Confidence 4579999766554 257899999999999999874 67789999999988664
No 42
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=3.9e-05 Score=70.56 Aligned_cols=53 Identities=26% Similarity=0.685 Sum_probs=41.9
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
...+|+||++.++..- +. -+..|.|||.|...||++|+- ++....||.|...-
T Consensus 3 ~g~tcpiclds~~~~g------------~h-r~vsl~cghlFgs~cie~wl~--k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAG------------NH-RIVSLQCGHLFGSQCIEKWLG--KKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecC------------ce-EEeeecccccccHHHHHHHHh--hhhhhhCcccCChh
Confidence 4568999999987532 22 345799999999999999995 45778899998654
No 43
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.46 E-value=5.7e-05 Score=69.47 Aligned_cols=53 Identities=25% Similarity=0.634 Sum_probs=41.0
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
.+-.|+.|.+.|-.++. ..--|||.|+||..|+..++.+ ..+.+||-||+...
T Consensus 364 ~~L~Cg~CGe~~Glk~e--------------~LqALpCsHIfH~rCl~e~L~~--n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNE--------------RLQALPCSHIFHLRCLQEILEN--NGTRSCPNCRKLRS 416 (518)
T ss_pred HhhhhhhhhhhhcCCcc--------------cccccchhHHHHHHHHHHHHHh--CCCCCCccHHHHHh
Confidence 45579999999876542 1245899999999999999963 35678999995543
No 44
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.42 E-value=6.6e-05 Score=75.07 Aligned_cols=56 Identities=21% Similarity=0.494 Sum_probs=40.5
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
....|+||.-.|..-+- .++.-+-..|.|-||..||-+|+.. .....||+||..+.
T Consensus 1468 G~eECaICYsvL~~vdr-----------~lPskrC~TCknKFH~~CLyKWf~S--s~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDR-----------SLPSKRCATCKNKFHTRCLYKWFAS--SARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhc-----------cCCccccchhhhhhhHHHHHHHHHh--cCCCCCCccccccc
Confidence 45679999888872210 1112234579999999999999985 36778999998764
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=8.9e-05 Score=67.01 Aligned_cols=62 Identities=21% Similarity=0.543 Sum_probs=42.3
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEE-cCCChHhhHHHHHHHhhcC---CCCCCCCcccccccccCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAV-LVCGHVYHADCLEQRTSAE---DIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vav-L~CGHvFH~~CLe~wl~~~---~~~~p~CPiCr~~l~~~~ 177 (183)
..+.+|+||++...++. - . ....++ .+|.|.|+..||.+|-... .+-...||+||.......
T Consensus 159 s~~k~CGICme~i~ek~-~---------~-~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~ 224 (344)
T KOG1039|consen 159 SSEKECGICMETINEKA-A---------S-ERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN 224 (344)
T ss_pred cccccceehhhhccccc-h---------h-hhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence 35678999999988653 0 0 111234 4699999999999998421 112478999998765443
No 46
>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=97.28 E-value=5.6e-05 Score=55.35 Aligned_cols=32 Identities=34% Similarity=0.789 Sum_probs=26.7
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHH
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLE 153 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe 153 (183)
+...|++|.+.|..+ ++++.||||+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~~----------------~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNS----------------VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCc----------------eEEEeCCCeEEeccccc
Confidence 355699999998763 46889999999999985
No 47
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00012 Score=66.29 Aligned_cols=52 Identities=25% Similarity=0.671 Sum_probs=43.2
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
.+..|+||++.|+.. ..+--|+|-|+.+||..-+.. .+..||.||+.+..+.
T Consensus 42 ~~v~c~icl~llk~t-----------------mttkeClhrfc~~ci~~a~r~---gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT-----------------MTTKECLHRFCFDCIWKALRS---GNNECPTCRKKLVSKR 93 (381)
T ss_pred hhhccHHHHHHHHhh-----------------cccHHHHHHHHHHHHHHHHHh---cCCCCchHHhhccccc
Confidence 355799999999853 246789999999999999885 5789999999987665
No 48
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.99 E-value=0.00043 Score=47.29 Aligned_cols=45 Identities=22% Similarity=0.498 Sum_probs=30.2
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPL 168 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPi 168 (183)
.....|+|.+.+|++ +|.-..|||+|=.+.|.+|+. ......||+
T Consensus 9 ~~~~~CPiT~~~~~~-----------------PV~s~~C~H~fek~aI~~~i~--~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFED-----------------PVKSKKCGHTFEKEAILQYIQ--RNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SS-----------------EEEESSS--EEEHHHHHHHCT--TTS-EE-SC
T ss_pred EeccCCCCcCChhhC-----------------CcCcCCCCCeecHHHHHHHHH--hcCCCCCCC
Confidence 456789999999886 456679999999999999994 235678998
No 49
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00075 Score=59.50 Aligned_cols=61 Identities=26% Similarity=0.532 Sum_probs=43.9
Q ss_pred CCCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCCCCC
Q 030048 102 SPDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVESSGV 181 (183)
Q Consensus 102 Sp~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~~~~ 181 (183)
|......+|++|.++=+. +-..++|||+|+--||..-..-. ...+||.|.....+-.+.+.
T Consensus 234 s~~t~~~~C~~Cg~~Pti-----------------P~~~~~C~HiyCY~Ci~ts~~~~--asf~Cp~Cg~~~~~lq~sgv 294 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTI-----------------PHVIGKCGHIYCYYCIATSRLWD--ASFTCPLCGENVEPLQASGV 294 (298)
T ss_pred ccccCCceeeccCCCCCC-----------------Ceeeccccceeehhhhhhhhcch--hhcccCccCCCCcchhhccC
Confidence 334467789999877432 22467899999999999876521 34799999998775555443
No 50
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.00061 Score=61.62 Aligned_cols=48 Identities=25% Similarity=0.554 Sum_probs=38.1
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChH-hhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHV-YHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHv-FH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
....|.||+....+ +++|||.|. .+..|.+...- +...|||||+.+..
T Consensus 289 ~gkeCVIClse~rd------------------t~vLPCRHLCLCs~Ca~~Lr~----q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 289 SGKECVICLSESRD------------------TVVLPCRHLCLCSGCAKSLRY----QTNNCPICRQPIEE 337 (349)
T ss_pred CCCeeEEEecCCcc------------------eEEecchhhehhHhHHHHHHH----hhcCCCccccchHh
Confidence 35689999887553 479999998 79999988763 35679999998754
No 51
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00061 Score=60.70 Aligned_cols=51 Identities=22% Similarity=0.352 Sum_probs=38.2
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
.....|+||+..--. + ..|+|+|.|+-.||..-... ....|++||.++...
T Consensus 5 ~~~~eC~IC~nt~n~-----------------P-v~l~C~HkFCyiCiKGsy~n---dk~~CavCR~pids~ 55 (324)
T KOG0824|consen 5 TKKKECLICYNTGNC-----------------P-VNLYCFHKFCYICIKGSYKN---DKKTCAVCRFPIDST 55 (324)
T ss_pred ccCCcceeeeccCCc-----------------C-ccccccchhhhhhhcchhhc---CCCCCceecCCCCcc
Confidence 456789999765332 1 46999999999999986652 245699999998653
No 52
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.00068 Score=62.40 Aligned_cols=49 Identities=29% Similarity=0.795 Sum_probs=39.8
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
..+..|.||...|... ++++|||.|+..||++-+. ....||+||..+..
T Consensus 82 ~sef~c~vc~~~l~~p------------------v~tpcghs~c~~Cl~r~ld----~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP------------------VVTPCGHSFCLECLDRSLD----QETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC------------------ccccccccccHHHHHHHhc----cCCCCccccccccc
Confidence 3567899997776632 4679999999999999776 57899999998764
No 53
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.69 E-value=0.001 Score=58.11 Aligned_cols=59 Identities=20% Similarity=0.385 Sum_probs=47.5
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCCCCCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVESSGVQ 182 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~~~~q 182 (183)
....|+||.+.|++.-+ -+++-+|||||..+|.++.+. .+..||+|-.++..++-.+.|
T Consensus 220 ~ryiCpvtrd~LtNt~~--------------ca~Lr~sg~Vv~~ecvEklir----~D~v~pv~d~plkdrdiI~Lq 278 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTP--------------CAVLRPSGHVVTKECVEKLIR----KDMVDPVTDKPLKDRDIIGLQ 278 (303)
T ss_pred cceecccchhhhcCccc--------------eEEeccCCcEeeHHHHHHhcc----ccccccCCCCcCcccceEeee
Confidence 45789999999886532 345569999999999999999 589999999998877655444
No 54
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.64 E-value=0.0011 Score=58.46 Aligned_cols=47 Identities=32% Similarity=0.737 Sum_probs=38.5
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
...|+||.+.+.... +.+.+|+|||..|..|++..+.. ..+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~--------------~~~~~~~CgH~~h~~cf~e~~~~----~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSF--------------EDAGVLKCGHYMHSRCFEEMICE----GYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhcccc--------------ccCCccCcccchHHHHHHHHhcc----CCCCCcccc
Confidence 345899988887653 24578999999999999999884 389999998
No 55
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.63 E-value=0.00083 Score=57.15 Aligned_cols=44 Identities=27% Similarity=0.683 Sum_probs=36.6
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
..|.||.++|+.. .+..|||.|+..|...-+. ..+.|-+|-+..
T Consensus 197 F~C~iCKkdy~sp------------------vvt~CGH~FC~~Cai~~y~----kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESP------------------VVTECGHSFCSLCAIRKYQ----KGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccch------------------hhhhcchhHHHHHHHHHhc----cCCcceecchhh
Confidence 3899999999853 3578999999999998887 368999998753
No 56
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.57 E-value=0.00057 Score=48.14 Aligned_cols=47 Identities=23% Similarity=0.711 Sum_probs=23.9
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
-.|.+|.+.|.+ +|-+..|.|+|+..|+..-+.. .||+|..+.-..+
T Consensus 8 LrCs~C~~~l~~-----------------pv~l~~CeH~fCs~Ci~~~~~~------~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKE-----------------PVCLGGCEHIFCSSCIRDCIGS------ECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS------------------B---SSS--B-TTTGGGGTTT------B-SSS--B-S-SS
T ss_pred cCCcHHHHHhcC-----------------CceeccCccHHHHHHhHHhcCC------CCCCcCChHHHHH
Confidence 459999888875 3457899999999999886652 3999998865444
No 57
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.48 E-value=0.0018 Score=55.90 Aligned_cols=55 Identities=20% Similarity=0.481 Sum_probs=43.9
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
.....|||....|.... ..|++.+|||||-..+|.+.- .+..||+|-.+|...+.
T Consensus 111 ~~~~~CPvt~~~~~~~~--------------~fv~l~~cG~V~s~~alke~k-----~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKH--------------KFVYLRPCGCVFSEKALKELK-----KSKKCPVCGKPFTEEDI 165 (260)
T ss_pred CceeECCCCCcccCCce--------------eEEEEcCCCCEeeHHHHHhhc-----ccccccccCCccccCCE
Confidence 45678999999885432 357888999999999999984 24569999999987765
No 58
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.42 E-value=0.001 Score=60.78 Aligned_cols=52 Identities=35% Similarity=0.756 Sum_probs=41.9
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
.+..|+||...+.+.- -...|||.|+..|+..|+. .++.||.|+..+...+.
T Consensus 20 ~~l~C~~C~~vl~~p~-----------------~~~~cgh~fC~~C~~~~~~----~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPV-----------------QTTTCGHRFCAGCLLESLS----NHQKCPVCRQELTQAEE 71 (391)
T ss_pred ccccCccccccccCCC-----------------CCCCCCCcccccccchhhc----cCcCCcccccccchhhc
Confidence 5578999999888642 1258999999999999999 38899999888766543
No 59
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.42 E-value=0.0013 Score=60.90 Aligned_cols=51 Identities=24% Similarity=0.606 Sum_probs=39.4
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
..+.|-||-+.-+ .|.+-||||..+..||..|-... ....||.||-++.-.
T Consensus 368 TFeLCKICaendK------------------dvkIEPCGHLlCt~CLa~WQ~sd--~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 368 TFELCKICAENDK------------------DVKIEPCGHLLCTSCLAAWQDSD--EGQTCPFCRCEIKGT 418 (563)
T ss_pred hHHHHHHhhccCC------------------CcccccccchHHHHHHHhhcccC--CCCCCCceeeEeccc
Confidence 4578999966533 35788999999999999997542 256899999877543
No 60
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.31 E-value=0.0027 Score=60.64 Aligned_cols=55 Identities=18% Similarity=0.419 Sum_probs=42.5
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh-cCCCCCCCCcccccccccCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS-AEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~-~~~~~~p~CPiCr~~l~~~~ 177 (183)
.....|++|.++-++- .+..|.|+|+.-||.+++. ..+..+.+||+|-..+..+.
T Consensus 534 k~~~~C~lc~d~aed~------------------i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDY------------------IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred cCceeecccCChhhhh------------------HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 4567899998886642 3578999999999998874 33446689999998876553
No 61
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.16 E-value=0.002 Score=57.65 Aligned_cols=58 Identities=22% Similarity=0.454 Sum_probs=43.1
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhc-------------------CCCCCCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSA-------------------EDIRDPP 165 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~-------------------~~~~~p~ 165 (183)
.....|.||+--|.+++. +.+.+|=|.||-.||.++|.. .+...-.
T Consensus 113 ~p~gqCvICLygfa~~~~---------------ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eav 177 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPA---------------FTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAV 177 (368)
T ss_pred CCCCceEEEEEeecCCCc---------------eeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhh
Confidence 356789999999987763 357899999999999887642 1123346
Q ss_pred CcccccccccCC
Q 030048 166 CPLCLGSLMQVE 177 (183)
Q Consensus 166 CPiCr~~l~~~~ 177 (183)
|||||..+..+.
T Consensus 178 cpVcre~i~~e~ 189 (368)
T KOG4445|consen 178 CPVCRERIKIEE 189 (368)
T ss_pred hhHhhhhccccc
Confidence 999999876544
No 62
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.00 E-value=0.0064 Score=52.72 Aligned_cols=54 Identities=26% Similarity=0.562 Sum_probs=41.6
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcC----CCCCCCCcccccccccCC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAE----DIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~----~~~~p~CPiCr~~l~~~~ 177 (183)
-.|.+|.-.|.+++ ..-|.|=|+||-.||++|-..- ......||-|..++.+..
T Consensus 51 pNC~LC~t~La~gd----------------t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 51 PNCRLCNTPLASGD----------------TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCceeCCccccCc----------------ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 36999999988765 2468999999999999997421 124468999999987653
No 63
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=95.78 E-value=0.0068 Score=48.30 Aligned_cols=37 Identities=24% Similarity=0.565 Sum_probs=27.3
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCC------hHhhHHHHHHHhh
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG------HVYHADCLEQRTS 157 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG------HvFH~~CLe~wl~ 157 (183)
....|.||.+.+.+.. + +| .++|| |+||++|+.+|..
T Consensus 25 ~~~EC~IC~~~I~~~~-----G---------vV-~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 25 CTVECQICFDRIDNND-----G---------VV-YVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred cCeeehhhhhhhhcCC-----C---------EE-EEecCCeehHHHHHHHHHHHHHHh
Confidence 3567999999988621 1 34 45665 9999999999953
No 64
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.66 E-value=0.0052 Score=55.79 Aligned_cols=45 Identities=24% Similarity=0.575 Sum_probs=32.8
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
..+.|.||++..++ ++.++|||+-+ |..-... .+.||+||+.+..
T Consensus 304 ~p~lcVVcl~e~~~------------------~~fvpcGh~cc--ct~cs~~-----l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS------------------AVFVPCGHVCC--CTLCSKH-----LPQCPVCRQRIRL 348 (355)
T ss_pred CCCceEEecCCccc------------------eeeecCCcEEE--chHHHhh-----CCCCchhHHHHHH
Confidence 56789999887553 36789999955 5554433 5679999987654
No 65
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.54 E-value=0.0044 Score=55.73 Aligned_cols=51 Identities=20% Similarity=0.500 Sum_probs=42.2
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
...+|.+|..+|-+.. .+.-|=|.|++.||.+.+.+ ...||.|...+...+
T Consensus 14 ~~itC~LC~GYliDAT-----------------TI~eCLHTFCkSCivk~l~~----~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDAT-----------------TITECLHTFCKSCIVKYLEE----SKYCPTCDIVIHKTH 64 (331)
T ss_pred cceehhhccceeecch-----------------hHHHHHHHHHHHHHHHHHHH----hccCCccceeccCcc
Confidence 5678999999998743 46789999999999999984 678999998776543
No 66
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.0045 Score=42.65 Aligned_cols=45 Identities=22% Similarity=0.523 Sum_probs=32.5
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChH-hhHHHHH-HHhhcCCCCCCCCcccccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHV-YHADCLE-QRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHv-FH~~CLe-~wl~~~~~~~p~CPiCr~~l~ 174 (183)
+.|.||.+.--++ ++-.|||+ ++-+|-. .|.. ....|||||.++.
T Consensus 8 dECTICye~pvds------------------VlYtCGHMCmCy~Cg~rl~~~----~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDS------------------VLYTCGHMCMCYACGLRLKKA----LHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchH------------------HHHHcchHHhHHHHHHHHHHc----cCCcCcchhhHHH
Confidence 6799997764432 24589998 6788855 4554 4678999998864
No 67
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0037 Score=55.64 Aligned_cols=45 Identities=27% Similarity=0.589 Sum_probs=37.5
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
...|.||.++|... +|..|||.|+..|...-+. ..+.|+||.+..
T Consensus 241 Pf~c~icr~~f~~p------------------Vvt~c~h~fc~~ca~~~~q----k~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP------------------VVTKCGHYFCEVCALKPYQ----KGEKCYVCSQQT 285 (313)
T ss_pred Cccccccccccccc------------------hhhcCCceeehhhhccccc----cCCcceeccccc
Confidence 45699999998863 4678999999999988887 468999998764
No 68
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.36 E-value=0.0079 Score=59.99 Aligned_cols=36 Identities=33% Similarity=0.665 Sum_probs=29.4
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS 157 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~ 157 (183)
..+.|.+|..+|-... ..+.+|||.||++||.+-+.
T Consensus 816 p~d~C~~C~~~ll~~p----------------F~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKP----------------FYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred CccchHHhcchhhcCc----------------ceeeeccchHHHHHHHHHHH
Confidence 3567999999988653 35789999999999998763
No 69
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.31 E-value=0.018 Score=47.15 Aligned_cols=52 Identities=21% Similarity=0.560 Sum_probs=37.5
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCC--h---HhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG--H---VYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG--H---vFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
..+..|=||.+... .+ .-||. . .-|.+||++|+.. +++..|++|..+|..+.
T Consensus 6 ~~~~~CRIC~~~~~---~~----------------~~PC~CkGs~k~VH~sCL~rWi~~--s~~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 6 LMDKCCWICKDEYD---VV----------------TNYCNCKNENKIVHKECLEEWINT--SKNKSCKICNGPYNIKK 62 (162)
T ss_pred CCCCeeEecCCCCC---Cc----------------cCCcccCCCchHHHHHHHHHHHhc--CCCCcccccCCeEEEEE
Confidence 46678999976622 11 13554 3 5699999999985 36788999999986653
No 70
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.16 E-value=0.012 Score=51.00 Aligned_cols=52 Identities=25% Similarity=0.535 Sum_probs=40.8
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
...|.||-++|...+ +....++|.|||.|...|+...+.- ....||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~------------~~~~p~~l~c~h~~c~~c~~~l~~~---~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSED------------GDHIPRVLKCGHTICQNCASKLLGN---SRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccC------------cccCCcccccCceehHhHHHHHhcC---ceeeccCCCCcc
Confidence 356999999998653 1224478999999999999998873 456799999985
No 71
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.13 E-value=0.013 Score=61.69 Aligned_cols=56 Identities=20% Similarity=0.449 Sum_probs=36.6
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhc------CCCCCCCCcccccccc
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSA------EDIRDPPCPLCLGSLM 174 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~------~~~~~p~CPiCr~~l~ 174 (183)
+-..+.|.||..+--.. .+...|.|+|+||..|....++. +.-.-..||||...+.
T Consensus 3483 QD~DDmCmICFTE~L~A---------------AP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSA---------------APAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhCC---------------CcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 33567899995442211 13457999999999998765541 1112358999998764
No 72
>PHA02862 5L protein; Provisional
Probab=95.12 E-value=0.017 Score=46.90 Aligned_cols=49 Identities=22% Similarity=0.523 Sum_probs=35.6
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCC-----hHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG-----HVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG-----HvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
.+.|=||.+.-.+. +-||. -.-|.+||.+|+.. .++..|++|+.+|..+
T Consensus 2 ~diCWIC~~~~~e~-------------------~~PC~C~GS~K~VHq~CL~~WIn~--S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER-------------------NNFCGCNEEYKVVHIKCMQLWINY--SKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC-------------------cccccccCcchhHHHHHHHHHHhc--CCCcCccCCCCeEEEE
Confidence 35799998763221 24554 45799999999974 4677899999998654
No 73
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.92 E-value=0.0077 Score=39.41 Aligned_cols=42 Identities=24% Similarity=0.574 Sum_probs=26.6
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCC-----hHhhHHHHHHHhhcCCCCCCCCccc
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG-----HVYHADCLEQRTSAEDIRDPPCPLC 169 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG-----HvFH~~CLe~wl~~~~~~~p~CPiC 169 (183)
|-||++.-.+.. .-+.||+ -.-|..||++|+.. .....|++|
T Consensus 1 CrIC~~~~~~~~----------------~li~pC~C~Gs~~~vH~~CL~~W~~~--~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE----------------PLISPCRCKGSMKYVHRSCLERWIRE--SGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-----------------EE-SSS-SSCCGSEECCHHHHHHHH--HT-SB-TTT
T ss_pred CeEeCCcCCCCC----------------ceecccccCCCcchhHHHHHHHHHHh--cCCCcCCCC
Confidence 668877755432 1356774 36699999999975 345679988
No 74
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.87 E-value=0.016 Score=52.12 Aligned_cols=44 Identities=30% Similarity=0.751 Sum_probs=36.3
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
..|++|...|... +..--|||.|+.+||+.-|-+ .++.||.|-.
T Consensus 275 LkCplc~~Llrnp-----------------~kT~cC~~~fc~eci~~al~d---sDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP-----------------MKTPCCGHTFCDECIGTALLD---SDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc-----------------ccCccccchHHHHHHhhhhhh---ccccCCCccc
Confidence 5799999888763 244578999999999998875 5899999976
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.85 E-value=0.02 Score=52.45 Aligned_cols=53 Identities=25% Similarity=0.454 Sum_probs=40.0
Q ss_pred CCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 103 PDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 103 p~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
.+.+.+.|.||.+.++. ++++||+|..+.-|..+.-.. -....||+|+.....
T Consensus 57 tDEen~~C~ICA~~~TY------------------s~~~PC~H~~CH~Ca~RlRAL--Y~~K~C~~CrTE~e~ 109 (493)
T COG5236 57 TDEENMNCQICAGSTTY------------------SARYPCGHQICHACAVRLRAL--YMQKGCPLCRTETEA 109 (493)
T ss_pred cccccceeEEecCCceE------------------EEeccCCchHHHHHHHHHHHH--HhccCCCccccccce
Confidence 45678899999888774 478999999999998765321 135679999987643
No 76
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.55 E-value=0.02 Score=57.02 Aligned_cols=44 Identities=36% Similarity=0.863 Sum_probs=33.2
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
....|.+|.-.|.-. ++...|||.||.+|++ . ....||-|+-.+
T Consensus 839 q~skCs~C~~~LdlP-----------------~VhF~CgHsyHqhC~e---~----~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP-----------------FVHFLCGHSYHQHCLE---D----KEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccc-----------------eeeeecccHHHHHhhc---c----CcccCCccchhh
Confidence 346899997777642 3456799999999999 2 355799999744
No 77
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.54 E-value=0.012 Score=40.19 Aligned_cols=33 Identities=30% Similarity=0.692 Sum_probs=26.8
Q ss_pred EEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 139 AVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 139 avL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
.+|+|||+-...|.+-+ +-..||+|-+.+...+
T Consensus 21 ~~~pCgH~I~~~~f~~~------rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 21 TVLPCGHLICDNCFPGE------RYNGCPFCGTPFEFDD 53 (55)
T ss_pred ccccccceeeccccChh------hccCCCCCCCcccCCC
Confidence 68999999999997766 3457999999987654
No 78
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.16 E-value=0.0038 Score=57.53 Aligned_cols=55 Identities=24% Similarity=0.483 Sum_probs=42.4
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
+.....|.||.+.|++.= ..+..+.|||.||.+||.+|+.. .-.||-|+.++...
T Consensus 193 ~slv~sl~I~~~slK~~y--------------~k~~~~~~g~~~~~~kL~k~L~~----~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 193 SSLVGSLSICFESLKQNY--------------DKISAIVCGHIYHHGKLSKWLAT----KRKLPSCRRELPKN 247 (465)
T ss_pred HHHHhhhHhhHHHHHHHH--------------HHHHHHhhcccchhhHHHHHHHH----HHHhHHHHhhhhhh
Confidence 345667999999998641 12345789999999999999984 45699999987653
No 79
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.92 E-value=0.048 Score=36.31 Aligned_cols=48 Identities=19% Similarity=0.391 Sum_probs=23.1
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
|++|.+++...+.. +.-=+||+.....|....+.. .+..||-||++|.
T Consensus 1 cp~C~e~~d~~d~~--------------~~PC~Cgf~IC~~C~~~i~~~---~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKD--------------FYPCECGFQICRFCYHDILEN---EGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT----------------SSTTS----HHHHHHHTTS---S-SB-TTT--B--
T ss_pred CCCcccccccCCCc--------------cccCcCCCcHHHHHHHHHHhc---cCCCCCCCCCCCC
Confidence 78999998544310 111367999999999998863 4778999999873
No 80
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.88 E-value=0.049 Score=50.06 Aligned_cols=55 Identities=22% Similarity=0.405 Sum_probs=42.1
Q ss_pred CCCCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 101 ASPDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 101 ~Sp~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
.-|+.++..|+||.-.-. .....||+|.=+..||.+-+. +...|-.|+..+..+.
T Consensus 416 ~lp~sEd~lCpICyA~pi------------------~Avf~PC~H~SC~~CI~qHlm----N~k~CFfCktTv~~~~ 470 (489)
T KOG4692|consen 416 DLPDSEDNLCPICYAGPI------------------NAVFAPCSHRSCYGCITQHLM----NCKRCFFCKTTVIDVI 470 (489)
T ss_pred CCCCcccccCcceecccc------------------hhhccCCCCchHHHHHHHHHh----cCCeeeEecceeeehh
Confidence 346678899999943211 124579999999999999998 5778999999887443
No 81
>PHA03096 p28-like protein; Provisional
Probab=93.82 E-value=0.047 Score=48.32 Aligned_cols=56 Identities=14% Similarity=0.253 Sum_probs=34.6
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCC--CCCCCccccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDI--RDPPCPLCLGSL 173 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~--~~p~CPiCr~~l 173 (183)
..|+||++...++..- +..--.+-.|.|.|+..|+..|..+... .-+.||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~----------~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYII----------KKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccc----------cccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 6799999988765310 1011123489999999999999864321 224455555443
No 82
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.85 E-value=0.084 Score=49.08 Aligned_cols=50 Identities=22% Similarity=0.417 Sum_probs=35.6
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh----cCCCCCCCCcccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS----AEDIRDPPCPLCL 170 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~----~~~~~~p~CPiCr 170 (183)
....|-||.+...... -...|||+|||+..|+..++. +.......||-+.
T Consensus 183 slf~C~ICf~e~~G~~---------------c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQH---------------CFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hcccceeeehhhcCcc---------------eeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 4678999988765321 346899999999999999874 3333445677553
No 83
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.78 E-value=0.015 Score=52.05 Aligned_cols=43 Identities=28% Similarity=0.761 Sum_probs=30.0
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChH-hhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHV-YHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHv-FH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
...|.||.+.-.+ -..|.|||. -+..|-..+- .|||||+.+..
T Consensus 300 ~~LC~ICmDaP~D------------------CvfLeCGHmVtCt~CGkrm~--------eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD------------------CVFLECGHMVTCTKCGKRMN--------ECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc------------------eEEeecCcEEeehhhccccc--------cCchHHHHHHH
Confidence 6689999776443 267999996 3566654442 59999987643
No 84
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=92.39 E-value=0.084 Score=52.84 Aligned_cols=56 Identities=23% Similarity=0.547 Sum_probs=39.8
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCC---CCCCcccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIR---DPPCPLCLGSLM 174 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~---~p~CPiCr~~l~ 174 (183)
.....|.||.+.+....+ +-+--.|=||||..||..|....++. .-.||-|.....
T Consensus 189 ~~~yeCmIC~e~I~~t~~--------------~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAP--------------VWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCC--------------ceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 356889999999876432 11234577999999999998644332 357999995543
No 85
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.29 E-value=0.1 Score=44.04 Aligned_cols=38 Identities=21% Similarity=0.433 Sum_probs=28.4
Q ss_pred EcCCChHhhHHHHHHHhhcC----CCC---CCCCcccccccccCC
Q 030048 140 VLVCGHVYHADCLEQRTSAE----DIR---DPPCPLCLGSLMQVE 177 (183)
Q Consensus 140 vL~CGHvFH~~CLe~wl~~~----~~~---~p~CPiCr~~l~~~~ 177 (183)
-..||--||.-||..||... +.. -..||.|..++..+-
T Consensus 187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 46899999999999998521 111 147999999886654
No 86
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.97 E-value=0.081 Score=51.85 Aligned_cols=48 Identities=31% Similarity=0.775 Sum_probs=36.4
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
..|.||.+ ++ ...+..|||.|+.+|+..-+... ....||+|+..+..+
T Consensus 455 ~~c~ic~~-~~------------------~~~it~c~h~~c~~c~~~~i~~~--~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD-LD------------------SFFITRCGHDFCVECLKKSIQQS--ENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc-cc------------------cceeecccchHHHHHHHhccccc--cCCCCcHHHHHHHHH
Confidence 78999988 22 12467899999999999988753 233799999876543
No 87
>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=91.75 E-value=0.14 Score=42.03 Aligned_cols=12 Identities=42% Similarity=1.118 Sum_probs=10.1
Q ss_pred CCCCcccccccc
Q 030048 163 DPPCPLCLGSLM 174 (183)
Q Consensus 163 ~p~CPiCr~~l~ 174 (183)
...||+||..+.
T Consensus 80 ~L~CPLCRG~V~ 91 (162)
T PF07800_consen 80 ELACPLCRGEVK 91 (162)
T ss_pred cccCccccCcee
Confidence 578999999874
No 88
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.79 E-value=0.055 Score=44.91 Aligned_cols=29 Identities=34% Similarity=0.518 Sum_probs=24.6
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhH
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHA 149 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~ 149 (183)
++..|.||+|+|...+ .+|-|||=-+||+
T Consensus 176 dkGECvICLEdL~~Gd---------------tIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGD---------------TIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCC---------------ceeccceEEEeec
Confidence 5678999999998765 5789999999996
No 89
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=90.64 E-value=0.16 Score=46.12 Aligned_cols=53 Identities=19% Similarity=0.292 Sum_probs=39.4
Q ss_pred CCCCCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 100 AASPDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 100 s~Sp~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
+.-...+...|+||++--.+.. ++-.-|-||+-.|+.+++. +...||+=..+.
T Consensus 293 ~e~l~~~~~~CpvClk~r~Npt-----------------vl~vSGyVfCY~Ci~~Yv~----~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 293 SELLPPDREVCPVCLKKRQNPT-----------------VLEVSGYVFCYPCIFSYVV----NYGHCPVTGYPA 345 (357)
T ss_pred cccCCCccccChhHHhccCCCc-----------------eEEecceEEeHHHHHHHHH----hcCCCCccCCcc
Confidence 3334557789999988755432 4556899999999999998 467899865543
No 90
>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=90.55 E-value=0.24 Score=44.12 Aligned_cols=34 Identities=26% Similarity=0.593 Sum_probs=28.6
Q ss_pred EEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 139 AVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 139 avL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
.+=+|||-.+..|.+..+.. +...||.|...+..
T Consensus 19 ~in~C~H~lCEsCvd~iF~~---g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 19 MINECGHRLCESCVDRIFSL---GPAQCPECMVILRK 52 (300)
T ss_pred eeccccchHHHHHHHHHHhc---CCCCCCcccchhhh
Confidence 34499999999999999985 57789999987754
No 91
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=89.35 E-value=0.33 Score=44.63 Aligned_cols=56 Identities=14% Similarity=0.266 Sum_probs=40.2
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
+++.|++|.+++.-.+-- ..--+||-..+..|....-.. -+..||-||..|..+.+
T Consensus 13 eed~cplcie~mditdkn--------------f~pc~cgy~ic~fc~~~irq~---lngrcpacrr~y~denv 68 (480)
T COG5175 13 EEDYCPLCIEPMDITDKN--------------FFPCPCGYQICQFCYNNIRQN---LNGRCPACRRKYDDENV 68 (480)
T ss_pred ccccCcccccccccccCC--------------cccCCcccHHHHHHHHHHHhh---ccCCChHhhhhccccce
Confidence 445599999998754310 112478999999998777553 46789999999877654
No 92
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=89.19 E-value=0.19 Score=50.10 Aligned_cols=25 Identities=32% Similarity=0.686 Sum_probs=20.6
Q ss_pred EcCCChHhhHHHHHHHhhcCCCCCCCCcc
Q 030048 140 VLVCGHVYHADCLEQRTSAEDIRDPPCPL 168 (183)
Q Consensus 140 vL~CGHvFH~~CLe~wl~~~~~~~p~CPi 168 (183)
-+.|||+.|..|...|+.. .-.||-
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~----gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRT----GDVCPS 1069 (1081)
T ss_pred hccccccccHHHHHHHHhc----CCcCCC
Confidence 4689999999999999984 337773
No 93
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=88.19 E-value=0.19 Score=45.45 Aligned_cols=47 Identities=23% Similarity=0.542 Sum_probs=33.5
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
...-|.-|-.++..= -+.++|.|||+.+|...- .+..||.|.-.+..
T Consensus 89 ~VHfCd~Cd~PI~IY-----------------GRmIPCkHvFCl~CAr~~------~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 89 RVHFCDRCDFPIAIY-----------------GRMIPCKHVFCLECARSD------SDKICPLCDDRVQR 135 (389)
T ss_pred ceEeecccCCcceee-----------------ecccccchhhhhhhhhcC------ccccCcCcccHHHH
Confidence 355688886665531 167899999999997542 25689999876654
No 94
>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=87.23 E-value=0.26 Score=31.68 Aligned_cols=26 Identities=31% Similarity=0.779 Sum_probs=15.5
Q ss_pred CCChHhhHHHHHHHhhcCCCCCCCCccc
Q 030048 142 VCGHVYHADCLEQRTSAEDIRDPPCPLC 169 (183)
Q Consensus 142 ~CGHvFH~~CLe~wl~~~~~~~p~CPiC 169 (183)
.|+=.+|..|++.++.. ..++.||.|
T Consensus 18 ~C~~r~H~~C~~~y~r~--~~~~~CP~C 43 (43)
T PF08746_consen 18 DCNVRLHDDCFKKYFRH--RSNPKCPNC 43 (43)
T ss_dssp -S--EE-HHHHHHHTTT---SS-B-TTT
T ss_pred ccCchHHHHHHHHHHhc--CCCCCCcCC
Confidence 46667999999999873 234479987
No 95
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.01 E-value=0.36 Score=47.47 Aligned_cols=45 Identities=24% Similarity=0.606 Sum_probs=33.4
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
+...|.||+..|...... + +.|-|||+.+..|++.-. +.+|| |..
T Consensus 10 ~~l~c~ic~n~f~~~~~~-------------P-vsl~cghtic~~c~~~ly------n~scp-~~~ 54 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLE-------------P-VSLQCGHTICGHCVQLLY------NASCP-TKR 54 (861)
T ss_pred HHhhchHHHHHHHHHhcC-------------c-ccccccchHHHHHHHhHh------hccCC-CCc
Confidence 455799999988865421 2 468999999999999764 45788 543
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=86.44 E-value=0.28 Score=51.17 Aligned_cols=44 Identities=32% Similarity=0.715 Sum_probs=37.0
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGS 172 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~ 172 (183)
..|.||.+.+..-. .+..|||.|+..|++.|+. +...||+|...
T Consensus 1154 ~~c~ic~dil~~~~-----------------~I~~cgh~~c~~c~~~~l~----~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQG-----------------GIAGCGHEPCCRCDELWLY----ASSRCPICKSI 1197 (1394)
T ss_pred cchHHHHHHHHhcC-----------------CeeeechhHhhhHHHHHHH----HhccCcchhhh
Confidence 37999999998532 4677999999999999998 57889999854
No 97
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.37 E-value=0.48 Score=43.48 Aligned_cols=54 Identities=31% Similarity=0.555 Sum_probs=36.0
Q ss_pred Ccccccccccchhhh-ccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcC--CCCCCCCc--ccccccc
Q 030048 106 VKIVCGICQKLLRRK-SHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAE--DIRDPPCP--LCLGSLM 174 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~-~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~--~~~~p~CP--iCr~~l~ 174 (183)
...+|+||...+... .. ..++.|+|.|+.+|+.+.+... ....+.|| .|...+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~---------------f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~ 203 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDM---------------FSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLT 203 (384)
T ss_pred ccccCccCccccccHhhh---------------HHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCC
Confidence 467899999444332 21 1378899999999999998632 23557776 4554443
No 98
>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 KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=84.58 E-value=0.52 Score=45.62 Aligned_cols=31 Identities=29% Similarity=0.742 Sum_probs=22.9
Q ss_pred cceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccc
Q 030048 135 QHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGS 172 (183)
Q Consensus 135 ~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~ 172 (183)
..+..-..||++||..|+..- .+-||.|-..
T Consensus 529 ~~~~rC~~C~avfH~~C~~r~-------s~~CPrC~R~ 559 (580)
T KOG1829|consen 529 RNTRRCSTCLAVFHKKCLRRK-------SPCCPRCERR 559 (580)
T ss_pred ccceeHHHHHHHHHHHHHhcc-------CCCCCchHHH
Confidence 334566889999999998653 3349999754
No 100
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=84.09 E-value=1 Score=45.44 Aligned_cols=57 Identities=21% Similarity=0.387 Sum_probs=40.5
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCC-----hHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG-----HVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG-----HvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
..+..+|-||.-+-..++++. -||. -..|.+||.+|+.- ..+..|-+|.-++.-++.
T Consensus 9 N~d~~~CRICr~e~~~d~pLf----------------hPCKC~GSIkYiH~eCL~eW~~~--s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLF----------------HPCKCSGSIKYIHRECLMEWMEC--SGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred CccchhceeecCCCCCCCcCc----------------ccccccchhHHHHHHHHHHHHhc--CCCcceeeecceeeeeee
Confidence 346688999987655554432 3553 35899999999973 356779999988765543
No 101
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=83.93 E-value=1.8 Score=34.79 Aligned_cols=61 Identities=21% Similarity=0.401 Sum_probs=42.7
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCCCCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVESSGV 181 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~~~~ 181 (183)
....|.||.|.-.+...+ ..+ -=||-..+..|-.+.+.... -.|.||+|+..+........
T Consensus 79 ~lYeCnIC~etS~ee~FL-------KPn-------eCCgY~iCn~Cya~LWK~~~-~ypvCPvCkTSFKss~~~~~ 139 (140)
T PF05290_consen 79 KLYECNICKETSAEERFL-------KPN-------ECCGYSICNACYANLWKFCN-LYPVCPVCKTSFKSSSSASS 139 (140)
T ss_pred CceeccCcccccchhhcC-------Ccc-------cccchHHHHHHHHHHHHHcc-cCCCCCcccccccccccccc
Confidence 677899998886665322 111 24898889999887665332 57999999999876654443
No 102
>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=83.01 E-value=0.4 Score=32.07 Aligned_cols=33 Identities=30% Similarity=0.649 Sum_probs=22.7
Q ss_pred EcCCC-hHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 140 VLVCG-HVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 140 vL~CG-HvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
.+.|. |..+..||..++. ....||||..++..+
T Consensus 15 Li~C~dHYLCl~CLt~ml~----~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLS----RSDRCPICGKPLPTK 48 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-S----SSSEETTTTEE----
T ss_pred eeeecchhHHHHHHHHHhc----cccCCCcccCcCccc
Confidence 56785 9999999999998 477899999998764
No 103
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=82.30 E-value=0.64 Score=41.48 Aligned_cols=46 Identities=24% Similarity=0.583 Sum_probs=35.1
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCC--ChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVC--GHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~C--GHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
..+...|+||.+.|.-. +..| ||.-+..|-.+-. ..||.|+.+++.
T Consensus 45 ~~~lleCPvC~~~l~~P-------------------i~QC~nGHlaCssC~~~~~-------~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPP-------------------IFQCDNGHLACSSCRTKVS-------NKCPTCRLPIGN 92 (299)
T ss_pred chhhccCchhhccCccc-------------------ceecCCCcEehhhhhhhhc-------ccCCcccccccc
Confidence 45778899999998843 3556 7888888876443 359999999874
No 104
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.11 E-value=0.56 Score=46.82 Aligned_cols=50 Identities=26% Similarity=0.562 Sum_probs=33.3
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGS 172 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~ 172 (183)
+..|..|.++...+. ..+..+.++-|||+||+.|+.--... + .|-+|...
T Consensus 784 e~rc~~c~~~~l~~~-----------~~~~~~~v~~c~h~yhk~c~~~~~~~---~--~~~~~~~~ 833 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSG-----------AAFDSVVVFHCGHMYHKECLMMESLR---N--ACNIESGK 833 (846)
T ss_pred hhhhhhhcccccccC-----------cccceeeEEEccchhhhcccccHHHh---c--ccChhhce
Confidence 346888877654321 22456789999999999999876552 2 26666543
No 105
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.94 E-value=0.89 Score=42.09 Aligned_cols=37 Identities=27% Similarity=0.608 Sum_probs=28.2
Q ss_pred EEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 139 AVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 139 avL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
..|.||||.-++-|.+....+. ..+-||-|=......
T Consensus 351 m~L~CGHVISkdAlnrLS~ng~-~sfKCPYCP~e~~~~ 387 (394)
T KOG2817|consen 351 MMLICGHVISKDALNRLSKNGS-QSFKCPYCPVEQLAS 387 (394)
T ss_pred eeeeccceecHHHHHHHhhCCC-eeeeCCCCCcccCHH
Confidence 5789999999999999987432 247899996654443
No 106
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=80.33 E-value=3.6 Score=41.64 Aligned_cols=59 Identities=12% Similarity=0.158 Sum_probs=39.2
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh--cCCCCCCCCcccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS--AEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~--~~~~~~p~CPiCr~~l~ 174 (183)
.+..+|.||...+....- .....-+-.|+|-|+-.||..|.. .+....-.|++|...|.
T Consensus 94 a~s~Ss~~C~~E~S~~~d-----------s~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVD-----------SSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccccchhheecCCccc-----------ccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 356789999888775211 111112335999999999999984 23345567899887653
No 107
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.01 E-value=0.57 Score=39.62 Aligned_cols=30 Identities=30% Similarity=0.634 Sum_probs=22.2
Q ss_pred eeEEcCCChH-hhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 137 AVAVLVCGHV-YHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 137 ~vavL~CGHv-FH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
.|.+|||.|. ++..|-+. +. .||+|+....
T Consensus 170 ~VlllPCrHl~lC~~C~~~-~~-------~CPiC~~~~~ 200 (207)
T KOG1100|consen 170 TVLLLPCRHLCLCGICDES-LR-------ICPICRSPKT 200 (207)
T ss_pred eEEeecccceEeccccccc-Cc-------cCCCCcChhh
Confidence 4788999765 78888765 33 4999997643
No 108
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=78.51 E-value=1.5 Score=29.86 Aligned_cols=36 Identities=31% Similarity=0.650 Sum_probs=27.1
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHH
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQR 155 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~w 155 (183)
....|.+|.+.|+.++. +|.--.||=.||.+|-+.-
T Consensus 4 ~~~~C~~Cg~~~~~~dD--------------iVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDD--------------IVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred cCccChhhCCcccCCCC--------------EEECCCCCCcccHHHHhhC
Confidence 45579999999975431 4555689999999997653
No 109
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.25 E-value=1.5 Score=38.77 Aligned_cols=57 Identities=21% Similarity=0.403 Sum_probs=38.5
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCC-----hHhhHHHHHHHhhcCCC----CCCCCccccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG-----HVYHADCLEQRTSAEDI----RDPPCPLCLGSLMQ 175 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG-----HvFH~~CLe~wl~~~~~----~~p~CPiCr~~l~~ 175 (183)
..+-.|-||..-=++... ..-|-||. |--|..||..|+.+.+. ....||.|..+|..
T Consensus 18 e~eR~CWiCF~TdeDn~~--------------a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRL--------------AAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred ccceeEEEEeccCcccch--------------hhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 455679999665332210 01345773 78999999999976554 33579999998754
No 110
>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=77.75 E-value=1.9 Score=39.52 Aligned_cols=37 Identities=16% Similarity=0.554 Sum_probs=26.2
Q ss_pred CCChHhhHHHHHHHhhcCC-C--------CCCCCcccccccccCCC
Q 030048 142 VCGHVYHADCLEQRTSAED-I--------RDPPCPLCLGSLMQVES 178 (183)
Q Consensus 142 ~CGHvFH~~CLe~wl~~~~-~--------~~p~CPiCr~~l~~~~~ 178 (183)
-|.-..+.+|+-+|+...+ . .+-+||+||..+=..|+
T Consensus 310 ~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 310 YCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred cccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence 4567779999999996322 1 33589999998754443
No 111
>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=77.49 E-value=0.74 Score=42.79 Aligned_cols=69 Identities=17% Similarity=0.327 Sum_probs=0.0
Q ss_pred cccccccccchhhhccccCCC-CCCCCCCcceeEEcCCChHhhHHHHHHHhhc-----CCCCCCCCccccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMG-STIPSGEQHAVAVLVCGHVYHADCLEQRTSA-----EDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~-~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~-----~~~~~p~CPiCr~~l~~ 175 (183)
...|+||+..=..-..|.|.. .+.-....+..+.-||||+-=.....-|-.. .......||.|...+..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 568999986533322332211 1222333455678899999999988888531 11245799999998864
No 112
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.13 E-value=1.7 Score=38.38 Aligned_cols=53 Identities=17% Similarity=0.425 Sum_probs=39.9
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
....|+|=.-++... ...+++-.|||||-..-|.+.-. ..|++|...|...++
T Consensus 110 a~fiCPvtgleMng~--------------~~F~~l~~CGcV~SerAlKeika------s~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGK--------------YRFCALRCCGCVFSERALKEIKA------SVCHVCGAAYQEDDV 162 (293)
T ss_pred ceeecccccceecce--------------EEEEEEeccceeccHHHHHHhhh------ccccccCCcccccCe
Confidence 456787765555433 23567889999999999988754 479999999988775
No 113
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=76.67 E-value=1.9 Score=36.89 Aligned_cols=54 Identities=22% Similarity=0.479 Sum_probs=38.0
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCC-----hHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG-----HVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG-----HvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
...|-||......... + .-+.+|. ...|..|++.|+.. +.+..|.+|...+...
T Consensus 78 ~~~cRIc~~~~~~~~~-----------~---~l~~pC~C~g~l~~vH~~cl~~W~~~--~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNG-----------L---LLISPCSCKGSLAYVHRSCLEKWFSI--KGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccc-----------c---ccccCccccCcHHHHHHHHHHhhhcc--ccCeeeecccccceec
Confidence 5679999887654320 0 1234552 66799999999983 4678999999877654
No 114
>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=76.34 E-value=0.83 Score=42.46 Aligned_cols=36 Identities=33% Similarity=0.574 Sum_probs=0.0
Q ss_pred CcceeEEcCCChHhhHHHHHHHhhcCC--CCCCCCcccccc
Q 030048 134 EQHAVAVLVCGHVYHADCLEQRTSAED--IRDPPCPLCLGS 172 (183)
Q Consensus 134 ~~~~vavL~CGHvFH~~CLe~wl~~~~--~~~p~CPiCr~~ 172 (183)
+..+-+.|.||||+..+ .|-...+ .....||+|+..
T Consensus 300 ~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 300 ERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -----------------------------------------
T ss_pred ccCceeeccccceeeec---ccccccccccccccCCCcccc
Confidence 44455689999998754 6764322 246789999975
No 115
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=73.88 E-value=1.7 Score=36.31 Aligned_cols=48 Identities=25% Similarity=0.627 Sum_probs=30.4
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGS 172 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~ 172 (183)
.+..|-||.++ ..+.+-+...++.=..|+-+||..|..+ ..||-|...
T Consensus 151 kGfiCe~C~~~----------~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~R~ 198 (202)
T PF13901_consen 151 KGFICEICNSD----------DIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCARR 198 (202)
T ss_pred CCCCCccCCCC----------CCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcHhH
Confidence 34567777543 1122222334556678999999999873 249999753
No 116
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=73.59 E-value=3.1 Score=38.05 Aligned_cols=72 Identities=18% Similarity=0.318 Sum_probs=44.0
Q ss_pred CcccccccccchhhhccccCCCCC-CCCCCcceeEEcCCChHhhHHHHHHHhhc-----CCCCCCCCcccccccccCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGST-IPSGEQHAVAVLVCGHVYHADCLEQRTSA-----EDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~-~~~~~~~~vavL~CGHvFH~~CLe~wl~~-----~~~~~p~CPiCr~~l~~~~ 177 (183)
....|++|+..=..-..|.|..+. .-....+.-+.-||||+--+.=..-|-.. ....++.||.|...+..+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~ 417 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQ 417 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCC
Confidence 456799998764333334322211 11222334567899999888877778531 2236789999998875543
No 117
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=72.57 E-value=2.4 Score=40.38 Aligned_cols=34 Identities=21% Similarity=0.546 Sum_probs=28.4
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS 157 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~ 157 (183)
++-.|+||...|.+. .+|+|+|-.+..|....+.
T Consensus 3 eelkc~vc~~f~~ep------------------iil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYREP------------------IILPCSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccCc------------------eEeecccHHHHHHHHhhcc
Confidence 456799999988864 4799999999999988764
No 118
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.42 E-value=3.2 Score=37.60 Aligned_cols=37 Identities=19% Similarity=0.471 Sum_probs=26.8
Q ss_pred CCChHhhHHHHHHHhhcCCC---------CCCCCcccccccccCCC
Q 030048 142 VCGHVYHADCLEQRTSAEDI---------RDPPCPLCLGSLMQVES 178 (183)
Q Consensus 142 ~CGHvFH~~CLe~wl~~~~~---------~~p~CPiCr~~l~~~~~ 178 (183)
-|.-..+.+||.+|+.-.+. ..-+||+||+.+-..++
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 46788899999999852111 34689999998755443
No 119
>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=70.04 E-value=0.36 Score=30.99 Aligned_cols=34 Identities=24% Similarity=0.488 Sum_probs=23.6
Q ss_pred eEEcCCChHhhHHHHHHHhh--cCCCCCCCCccccc
Q 030048 138 VAVLVCGHVYHADCLEQRTS--AEDIRDPPCPLCLG 171 (183)
Q Consensus 138 vavL~CGHvFH~~CLe~wl~--~~~~~~p~CPiCr~ 171 (183)
|.=-.|+-.||..|+..-.. ......-.||.|+.
T Consensus 15 i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 15 IQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred EEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 34457899999999987654 21123678998864
No 120
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=66.25 E-value=3.7 Score=37.27 Aligned_cols=50 Identities=22% Similarity=0.357 Sum_probs=36.1
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
..|+||.+++...+.. +.-.+||+..+.+|+..... .+..||.|++++..
T Consensus 250 ~s~p~~~~~~~~~d~~--------------~lP~~~~~~~~l~~~~t~~~----~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSN--------------FLPCPCGFRLCLFCHKTISD----GDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccc--------------cccccccccchhhhhhcccc----cCCCCCccCCcccc
Confidence 5799999988544321 11247888888888887766 68899999987643
No 121
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=65.87 E-value=2.1 Score=28.29 Aligned_cols=27 Identities=22% Similarity=0.279 Sum_probs=13.9
Q ss_pred HHHHHhhcCCCCCCCCcccccccccCC
Q 030048 151 CLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 151 CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
-+.+++......+..||+|.+.|...+
T Consensus 8 ~~~k~i~~l~~~~~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 8 ELKKYIEELKEAKGCCPLCGRPLDEEH 34 (54)
T ss_dssp HHHHHHHHHTT-SEE-TTT--EE-HHH
T ss_pred HHHHHHHHHhcCCCcCCCCCCCCCHHH
Confidence 355665544445569999999987643
No 122
>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=64.89 E-value=6.4 Score=25.85 Aligned_cols=14 Identities=21% Similarity=0.522 Sum_probs=10.2
Q ss_pred cccccccccchhhh
Q 030048 107 KIVCGICQKLLRRK 120 (183)
Q Consensus 107 ~~~C~IC~e~L~~~ 120 (183)
...|+.|.+.|...
T Consensus 2 ~f~CP~C~~~~~~~ 15 (54)
T PF05605_consen 2 SFTCPYCGKGFSES 15 (54)
T ss_pred CcCCCCCCCccCHH
Confidence 35799999976654
No 123
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=64.46 E-value=3.9 Score=40.97 Aligned_cols=18 Identities=33% Similarity=0.407 Sum_probs=16.2
Q ss_pred cCCChHhhHHHHHHHhhc
Q 030048 141 LVCGHVYHADCLEQRTSA 158 (183)
Q Consensus 141 L~CGHvFH~~CLe~wl~~ 158 (183)
-.|||.-|.+||.+|+.+
T Consensus 797 ~~C~H~gH~sh~~sw~~~ 814 (839)
T KOG0269|consen 797 QVCGHGGHDSHLKSWFFK 814 (839)
T ss_pred ccccccccHHHHHHHHhc
Confidence 479999999999999974
No 124
>PLN02189 cellulose synthase
Probab=64.22 E-value=7 Score=40.46 Aligned_cols=56 Identities=23% Similarity=0.374 Sum_probs=41.0
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
...+.|.||.+++.... +...-||.-.||---+..|.+-=.++ .+..||.|+..|.
T Consensus 32 ~~~~~C~iCgd~vg~~~-----------~g~~fvaC~~C~fpvCr~Cyeyer~e---g~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTV-----------DGDLFVACNECGFPVCRPCYEYERRE---GTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCC-----------CCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCchh
Confidence 45679999999876421 12234777789988999999543343 5778999999987
No 125
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=63.23 E-value=8.1 Score=28.32 Aligned_cols=57 Identities=19% Similarity=0.358 Sum_probs=24.3
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
...++|-||.+..--.. +....||.--|+--.+..|.+-=..+ ....||.|+..|..
T Consensus 7 ~~~qiCqiCGD~VGl~~-----------~Ge~FVAC~eC~fPvCr~CyEYErke---g~q~CpqCkt~ykr 63 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTE-----------NGEVFVACHECAFPVCRPCYEYERKE---GNQVCPQCKTRYKR 63 (80)
T ss_dssp -SS-B-SSS--B--B-S-----------SSSB--S-SSS-----HHHHHHHHHT---S-SB-TTT--B---
T ss_pred cCCcccccccCccccCC-----------CCCEEEEEcccCCccchhHHHHHhhc---CcccccccCCCccc
Confidence 46778999988875321 12234566778888889999876665 56789999988753
No 126
>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=61.88 E-value=4.1 Score=35.98 Aligned_cols=52 Identities=19% Similarity=0.374 Sum_probs=35.0
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcC-CChHhhHHHHHHHhhcCCCCCCCCc--cccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLV-CGHVYHADCLEQRTSAEDIRDPPCP--LCLGSL 173 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~-CGHvFH~~CLe~wl~~~~~~~p~CP--iCr~~l 173 (183)
....|+||..+..-.. +. ++-+-| |=|-++..|.++.+.. ....|| -|.+-+
T Consensus 9 ~d~~CPvCksDrYLnP------------di-k~linPECyHrmCESCvdRIFs~---GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNP------------DI-KILINPECYHRMCESCVDRIFSR---GPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCC------------Ce-EEEECHHHHHHHHHHHHHHHhcC---CCCCCCCccHHHHH
Confidence 4557999976643221 00 122335 9999999999999985 345699 787654
No 127
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.46 E-value=1.8 Score=37.34 Aligned_cols=51 Identities=25% Similarity=0.586 Sum_probs=38.0
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcC--------CChHhhHHHHHHHhhcCCCCCCCCcccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLV--------CGHVYHADCLEQRTSAEDIRDPPCPLCLGS 172 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~--------CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~ 172 (183)
...|.||...|...+. ..+-.++. |||.....|++.-+... ...||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~------------~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~---~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDE------------KLAPLVLSLSRLKEKIEGHTLCKECIDTILLQA---GIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhcccc------------ccchhHHHHHHHHHHHHHHHHHhcchHHHHHHh---hhcCCcccce
Confidence 3569999999884321 11235677 99999999999998743 3789999874
No 128
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=59.42 E-value=5.8 Score=34.26 Aligned_cols=46 Identities=22% Similarity=0.516 Sum_probs=35.4
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
...|-+|.+.+-.. ++-..||=.||..|+..++.. .+.||-|.--+
T Consensus 181 lk~Cn~Ch~LvIqg-----------------~rCg~c~i~~h~~c~qty~q~----~~~cphc~d~w 226 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG-----------------IRCGSCNIQYHRGCIQTYLQR----RDICPHCGDLW 226 (235)
T ss_pred HHHHhHhHHHhhee-----------------eccCcccchhhhHHHHHHhcc----cCcCCchhccc
Confidence 45799998876542 345678888999999999984 78899995443
No 129
>PLN02436 cellulose synthase A
Probab=58.14 E-value=10 Score=39.44 Aligned_cols=57 Identities=19% Similarity=0.375 Sum_probs=40.9
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
....++|-||.+++.... +...-||--.||---+..|.+-=..+ .+..||.|+..|.
T Consensus 33 ~~~~~iCqICGD~Vg~t~-----------dGe~FVACn~C~fpvCr~Cyeyer~e---g~~~Cpqckt~Y~ 89 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTV-----------DGEPFVACNECAFPVCRPCYEYERRE---GNQACPQCKTRYK 89 (1094)
T ss_pred ccCCccccccccccCcCC-----------CCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCchh
Confidence 346679999998875321 12234677788888999999544343 5778999999987
No 130
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.04 E-value=8.2 Score=35.82 Aligned_cols=36 Identities=25% Similarity=0.569 Sum_probs=28.7
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS 157 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~ 157 (183)
.....|+||.+.+.. . ...+.|||.|...|....+.
T Consensus 68 ~~~~~c~ic~~~~~~-~----------------~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG-E----------------IIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred CccccCCcccCCCcc-h----------------hhhcCCCcHHHHHHHHHHhh
Confidence 455789999888764 1 24689999999999999885
No 131
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=55.15 E-value=5.6 Score=34.50 Aligned_cols=20 Identities=25% Similarity=0.660 Sum_probs=16.8
Q ss_pred eEEcCCChHhhHHHHHHHhh
Q 030048 138 VAVLVCGHVYHADCLEQRTS 157 (183)
Q Consensus 138 vavL~CGHvFH~~CLe~wl~ 157 (183)
.-++.|+|||+..|...-..
T Consensus 18 f~LTaC~HvfC~~C~k~~~~ 37 (233)
T KOG4739|consen 18 FFLTACRHVFCEPCLKASSP 37 (233)
T ss_pred eeeeechhhhhhhhcccCCc
Confidence 46889999999999877655
No 132
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=52.54 E-value=4.8 Score=39.85 Aligned_cols=50 Identities=22% Similarity=0.602 Sum_probs=37.8
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
...|+||...+.+. ..+.|-|.|...|+..-+... .....||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p------------------~~~kc~~~~l~~~~n~~f~~~-~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEP------------------SLLKCDHIFLKFCLNKLFESK-KGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeecc------------------chhhhhHHHHhhhhhceeecc-Cccccchhhhhhhhh
Confidence 34699999998864 368999999999999766521 236689999976543
No 133
>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=51.34 E-value=1.1 Score=32.18 Aligned_cols=44 Identities=25% Similarity=0.474 Sum_probs=23.6
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
..|+.|..+|+-. . ||.++..|...... ...||-|..++..-.+
T Consensus 2 ~~CP~C~~~L~~~---------------------~-~~~~C~~C~~~~~~-----~a~CPdC~~~Le~LkA 45 (70)
T PF07191_consen 2 NTCPKCQQELEWQ---------------------G-GHYHCEACQKDYKK-----EAFCPDCGQPLEVLKA 45 (70)
T ss_dssp -B-SSS-SBEEEE---------------------T-TEEEETTT--EEEE-----EEE-TTT-SB-EEEEE
T ss_pred CcCCCCCCccEEe---------------------C-CEEECcccccccee-----cccCCCcccHHHHHHH
Confidence 4699998876621 1 66677777776655 4679999888765443
No 134
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=50.99 E-value=8.5 Score=35.24 Aligned_cols=32 Identities=28% Similarity=0.613 Sum_probs=24.8
Q ss_pred EEcCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 139 AVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 139 avL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
..|.||||.-++-|.+.-..+ ...+-||.|-.
T Consensus 353 ~ml~CgHVIskeal~~LS~nG-~~~FKCPYCP~ 384 (396)
T COG5109 353 VMLECGHVISKEALSVLSQNG-VLSFKCPYCPE 384 (396)
T ss_pred eeeeccceeeHHHHHHHhhcC-cEEeeCCCCCc
Confidence 578999999999999876533 23577999854
No 135
>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=44.45 E-value=7.4 Score=23.30 Aligned_cols=11 Identities=27% Similarity=0.631 Sum_probs=8.0
Q ss_pred CCCCCcccccc
Q 030048 162 RDPPCPLCLGS 172 (183)
Q Consensus 162 ~~p~CPiCr~~ 172 (183)
.+..||+|...
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 35689999753
No 136
>PLN02400 cellulose synthase
Probab=44.13 E-value=20 Score=37.44 Aligned_cols=57 Identities=19% Similarity=0.293 Sum_probs=40.6
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
....++|-||.+++.... +...-||.-.|+---+..|.+ +-.+ ..+..||.|+..|.
T Consensus 33 ~~~gqiCqICGD~VG~t~-----------dGe~FVAC~eCaFPVCRpCYE-YERk--eGnq~CPQCkTrYk 89 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTE-----------TGDVFVACNECAFPVCRPCYE-YERK--DGTQCCPQCKTRYR 89 (1085)
T ss_pred ccCCceeeecccccCcCC-----------CCCEEEEEccCCCccccchhh-eecc--cCCccCcccCCccc
Confidence 346779999998875421 223457777888888999994 3322 25778999999986
No 137
>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=43.77 E-value=21 Score=23.33 Aligned_cols=35 Identities=23% Similarity=0.300 Sum_probs=13.5
Q ss_pred eeEEcCCChHhhHHHHHHHhhcC-CCCCCCCcccccc
Q 030048 137 AVAVLVCGHVYHADCLEQRTSAE-DIRDPPCPLCLGS 172 (183)
Q Consensus 137 ~vavL~CGHvFH~~CLe~wl~~~-~~~~p~CPiCr~~ 172 (183)
+++-..|.|.-. .=|+.|+... ....-.||+|.++
T Consensus 15 P~Rg~~C~H~~C-FDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 15 PVRGKNCKHLQC-FDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp EEEETT--SS---EEHHHHHHHHHHS---B-TTT---
T ss_pred CccCCcCcccce-ECHHHHHHHhhccCCeECcCCcCc
Confidence 467788998732 1144555311 1234679999863
No 138
>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=43.53 E-value=10 Score=21.94 Aligned_cols=11 Identities=18% Similarity=0.480 Sum_probs=6.8
Q ss_pred cccccccchhh
Q 030048 109 VCGICQKLLRR 119 (183)
Q Consensus 109 ~C~IC~e~L~~ 119 (183)
.|+-|...+..
T Consensus 2 ~CP~C~~~V~~ 12 (26)
T PF10571_consen 2 TCPECGAEVPE 12 (26)
T ss_pred cCCCCcCCchh
Confidence 47777666543
No 139
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.80 E-value=15 Score=34.99 Aligned_cols=47 Identities=28% Similarity=0.568 Sum_probs=34.2
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
..+.|.||.... .. ++-+|- |.-|+..|+. -...||+|...+...+.
T Consensus 478 ~~~~~~~~~~~~-~~------------------~~~~~~---~~~~l~~~~~----~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM-SA------------------RITPCS---HALCLRKWLY----VQEVCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH-Hh------------------cccccc---chhHHHhhhh----hccccCCCchhhhcccc
Confidence 356788887776 11 345666 9999999998 37889999887655443
No 140
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=41.13 E-value=30 Score=36.18 Aligned_cols=57 Identities=23% Similarity=0.410 Sum_probs=40.6
Q ss_pred CCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 104 DTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 104 ~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
....++|-||.+++.... +...-||---||---+..|.+==..+ .+..||.|+..|.
T Consensus 14 ~~~~qiCqICGD~vg~~~-----------~Ge~FVAC~eC~FPVCrpCYEYEr~e---G~q~CPqCktrYk 70 (1079)
T PLN02638 14 HGGGQVCQICGDNVGKTV-----------DGEPFVACDVCAFPVCRPCYEYERKD---GNQSCPQCKTKYK 70 (1079)
T ss_pred ccCCceeeecccccCcCC-----------CCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCchh
Confidence 346679999988875431 12235777788888999999533333 5778999999986
No 141
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=40.11 E-value=18 Score=33.27 Aligned_cols=57 Identities=25% Similarity=0.362 Sum_probs=32.0
Q ss_pred cccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcC--CCCCCCCcccccc
Q 030048 109 VCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAE--DIRDPPCPLCLGS 172 (183)
Q Consensus 109 ~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~--~~~~p~CPiCr~~ 172 (183)
.|++=+.-|.-... ......++.++-+.|.||||-..+ .|=... ..+...||+|+..
T Consensus 292 QCPVglnTL~~P~~----~~~~~~~~~QP~vYl~CGHV~G~H---~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 292 QCPVGLNTLAFPSK----RRKRVVDEKQPWVYLNCGHVHGYH---NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred CCCcccceeecccc----cccccccccCCeEEEecccccccc---ccccccccCcccCcCCeeeee
Confidence 46655555543221 111233455667789999984322 564322 2246789999965
No 142
>PLN02195 cellulose synthase A
Probab=39.15 E-value=33 Score=35.56 Aligned_cols=56 Identities=21% Similarity=0.336 Sum_probs=40.5
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccccc
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQ 175 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~ 175 (183)
..+.|-||.+.+.... +...-||--.|+---+..|.+==-.+ .+..||.|+..|..
T Consensus 5 ~~~~c~~cgd~~~~~~-----------~g~~fvaC~eC~~pvCrpCyeyer~e---g~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDS-----------NGEAFVACHECSYPLCKACLEYEIKE---GRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCC-----------CCCeEEEeccCCCccccchhhhhhhc---CCccCCccCCcccc
Confidence 4568999988765432 22345788889999999999433333 56789999999973
No 143
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=39.03 E-value=56 Score=29.13 Aligned_cols=55 Identities=20% Similarity=0.409 Sum_probs=34.8
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCC-----CCCCCccccccc
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDI-----RDPPCPLCLGSL 173 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~-----~~p~CPiCr~~l 173 (183)
..|-||.+.+.+.+... +.+ ..-.|+=++|..||-.-+...+. ....||.|.+-+
T Consensus 183 ~~celc~~ei~e~~~~~-a~c----------~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSR-ATC----------PNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhcccccee-ccC----------CCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 57999999986443211 010 11248889999999984432111 235799999855
No 144
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=37.48 E-value=13 Score=31.74 Aligned_cols=12 Identities=25% Similarity=0.667 Sum_probs=9.8
Q ss_pred ccccccccchhh
Q 030048 108 IVCGICQKLLRR 119 (183)
Q Consensus 108 ~~C~IC~e~L~~ 119 (183)
-.||||..+|..
T Consensus 3 ~~CP~C~~~l~~ 14 (272)
T PRK11088 3 YQCPLCHQPLTL 14 (272)
T ss_pred ccCCCCCcchhc
Confidence 369999999963
No 145
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.46 E-value=8.7 Score=34.73 Aligned_cols=57 Identities=23% Similarity=0.391 Sum_probs=42.9
Q ss_pred CCCCCCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccCCC
Q 030048 101 ASPDTVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 101 ~Sp~~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
++......+|.||...|.... ..--|.|.|...|...|.. ....||.|+....+.-+
T Consensus 99 A~~~~~~~~~~~~~g~l~vpt-----------------~~qg~w~qf~~~~p~~~~~----~~~~~~d~~~~~~pv~a 155 (324)
T KOG0824|consen 99 AGFQQDHDICYICYGKLTVPT-----------------RIQGCWHQFCYVCPKSNFA----MGNDCPDCRGKISPVLA 155 (324)
T ss_pred ccccCCccceeeeeeeEEecc-----------------cccCceeeeeecCCchhhh----hhhccchhhcCcCceec
Confidence 344556789999999988643 2234999999999999987 35679999887766544
No 146
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=35.90 E-value=30 Score=36.09 Aligned_cols=56 Identities=27% Similarity=0.446 Sum_probs=40.8
Q ss_pred CCcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccc
Q 030048 105 TVKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLM 174 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~ 174 (183)
...++|-||.++..... +...-||--.|+---+..|.+-=..+ .+..||.|+..|.
T Consensus 13 ~~~~~c~iCGd~vg~~~-----------~Ge~FVAC~eC~fpvCr~cyeye~~~---g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKE-----------DGQPFVACHVCGFPVCKPCYEYERSE---GNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCC-----------CCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCchh
Confidence 46788999988865421 22345777888888999999433333 5678999999987
No 147
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=34.94 E-value=23 Score=24.76 Aligned_cols=22 Identities=41% Similarity=0.493 Sum_probs=15.4
Q ss_pred CcceeEEcCCChHhhHHHHHHH
Q 030048 134 EQHAVAVLVCGHVYHADCLEQR 155 (183)
Q Consensus 134 ~~~~vavL~CGHvFH~~CLe~w 155 (183)
+-.-||.|.|||.=|..=--.|
T Consensus 8 e~hWVA~L~CGH~QHvRH~PPw 29 (61)
T PF12088_consen 8 EGHWVAELSCGHTQHVRHDPPW 29 (61)
T ss_pred cCCEEEEecccccccccCCCCC
Confidence 3446899999998886544344
No 148
>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=34.52 E-value=18 Score=20.69 Aligned_cols=10 Identities=30% Similarity=1.112 Sum_probs=8.2
Q ss_pred CCCccccccc
Q 030048 164 PPCPLCLGSL 173 (183)
Q Consensus 164 p~CPiCr~~l 173 (183)
..||+|.+.+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 3699998886
No 149
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=33.22 E-value=9.8 Score=33.92 Aligned_cols=61 Identities=20% Similarity=0.382 Sum_probs=38.3
Q ss_pred CCCCCCccccccccc-chhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHh-hcCCCCC--CCCccccccccc
Q 030048 101 ASPDTVKIVCGICQK-LLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRT-SAEDIRD--PPCPLCLGSLMQ 175 (183)
Q Consensus 101 ~Sp~~~~~~C~IC~e-~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl-~~~~~~~--p~CPiCr~~l~~ 175 (183)
.-|+.+...|.+|.. .|+-..- + . ..-.||++|+..|-.+-+ ..-...+ ..|++|-..|..
T Consensus 162 W~PD~ea~~C~~C~~~~Ftl~~R----R-------H---HCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 162 WLPDSEATECMVCGCTEFTLSER----R-------H---HCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELEK 226 (288)
T ss_pred ccCcccceecccCCCccccHHHH----H-------H---HHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHhc
Confidence 345667788999988 5542210 0 0 235799999999987732 2111112 269999988864
No 150
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=32.70 E-value=38 Score=25.89 Aligned_cols=30 Identities=17% Similarity=0.326 Sum_probs=21.5
Q ss_pred CCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 142 VCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 142 ~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
.||+--|.-=+.++.. -..||-|+.++.+.
T Consensus 64 iCGvC~~~LT~~EY~~-----~~~Cp~C~spFNp~ 93 (105)
T COG4357 64 ICGVCRKLLTRAEYGM-----CGSCPYCQSPFNPG 93 (105)
T ss_pred EhhhhhhhhhHHHHhh-----cCCCCCcCCCCCcc
Confidence 4887766666666654 34699999998764
No 151
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=29.84 E-value=30 Score=23.98 Aligned_cols=14 Identities=36% Similarity=1.113 Sum_probs=11.1
Q ss_pred CCCCCccccccccc
Q 030048 162 RDPPCPLCLGSLMQ 175 (183)
Q Consensus 162 ~~p~CPiCr~~l~~ 175 (183)
..|.||+|..+...
T Consensus 38 ~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 38 EEPVCPLCKSPMVS 51 (59)
T ss_pred CCccCCCcCCcccc
Confidence 45999999988654
No 152
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=28.07 E-value=26 Score=34.20 Aligned_cols=41 Identities=22% Similarity=0.563 Sum_probs=25.9
Q ss_pred CCcccccccccchhh-----hccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHH
Q 030048 105 TVKIVCGICQKLLRR-----KSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQR 155 (183)
Q Consensus 105 ~~~~~C~IC~e~L~~-----~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~w 155 (183)
.....|+||.+.|++ .+.|. .-....+-=|=+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm----------~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWM----------YKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhhee----------ecceeeeccCceeeccccchH
Confidence 556789999999974 22221 001122336889999999754
No 153
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.47 E-value=31 Score=31.97 Aligned_cols=38 Identities=24% Similarity=0.393 Sum_probs=26.5
Q ss_pred EcCCChHhhHHHHHHHhhcC----------------------CCCCCCCcccccccccCC
Q 030048 140 VLVCGHVYHADCLEQRTSAE----------------------DIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 140 vL~CGHvFH~~CLe~wl~~~----------------------~~~~p~CPiCr~~l~~~~ 177 (183)
.=.|||.|+-.|.+.|=... ..+...||.|..++.+..
T Consensus 181 ~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~~ 240 (444)
T KOG1815|consen 181 DCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKDG 240 (444)
T ss_pred eCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhccC
Confidence 45789999998887663211 224456999999887765
No 155
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=26.28 E-value=28 Score=21.29 Aligned_cols=34 Identities=29% Similarity=0.596 Sum_probs=19.0
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhh
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYH 148 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH 148 (183)
..|+-|...|.-.+... + ..-..|.=-.|||+|+
T Consensus 3 i~Cp~C~~~y~i~d~~i------p-~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKI------P-PKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHC------C-CCCcEEECCCCCCEeC
Confidence 46888888887554211 1 1112344457788774
No 156
>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=26.13 E-value=39 Score=24.04 Aligned_cols=11 Identities=18% Similarity=0.573 Sum_probs=8.4
Q ss_pred hhHHHHHHHhh
Q 030048 147 YHADCLEQRTS 157 (183)
Q Consensus 147 FH~~CLe~wl~ 157 (183)
|+..||-+|..
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 89999999986
No 157
>PF15353 HECA: Headcase protein family homologue
Probab=25.57 E-value=44 Score=25.79 Aligned_cols=16 Identities=25% Similarity=0.613 Sum_probs=13.7
Q ss_pred CCChHhhHHHHHHHhh
Q 030048 142 VCGHVYHADCLEQRTS 157 (183)
Q Consensus 142 ~CGHvFH~~CLe~wl~ 157 (183)
|.|+.+|.+|.+.|-.
T Consensus 39 p~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 39 PFGQYMHRECFEKWED 54 (107)
T ss_pred CCCCchHHHHHHHHHH
Confidence 4489999999999964
No 158
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=25.57 E-value=32 Score=29.53 Aligned_cols=27 Identities=19% Similarity=0.656 Sum_probs=18.3
Q ss_pred hHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 148 HADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 148 H~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
-+.||.+--.. -..+|||||-.+...+
T Consensus 96 RktCIrkn~~~---~gnpCPICRDeyL~~D 122 (239)
T KOG4021|consen 96 RKTCIRKNGRF---LGNPCPICRDEYLYFD 122 (239)
T ss_pred hhHHHhhcCee---cCCCCCccccceEEEe
Confidence 35688875332 3678999998876544
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=25.03 E-value=13 Score=23.74 Aligned_cols=39 Identities=23% Similarity=0.629 Sum_probs=25.6
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
|..|.+.+.... +.+..-|..||.+|+ .|-.|...+...
T Consensus 1 C~~C~~~I~~~~----------------~~~~~~~~~~H~~Cf------------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTE----------------IVIKAMGKFWHPECF------------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSS----------------EEEEETTEEEETTTS------------BETTTTCBTTTS
T ss_pred CCCCCCCccCcE----------------EEEEeCCcEEEcccc------------ccCCCCCccCCC
Confidence 677877776432 223467889998764 477777776554
No 160
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=24.80 E-value=40 Score=24.70 Aligned_cols=35 Identities=23% Similarity=0.492 Sum_probs=21.5
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHH
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQR 155 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~w 155 (183)
....|.||.+..-. .. .-....|.-.||..|..+.
T Consensus 54 ~~~~C~iC~~~~G~-~i--------------~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGGA-CI--------------KCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCce-eE--------------EcCCCCCCcCCCHHHHHHC
Confidence 46789999776110 00 0012237779999999874
No 161
>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=24.72 E-value=56 Score=22.51 Aligned_cols=48 Identities=33% Similarity=0.627 Sum_probs=33.5
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCC--hHhhHHHHHHHhhcCCCCCCCCcccccccccCC
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCG--HVYHADCLEQRTSAEDIRDPPCPLCLGSLMQVE 177 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CG--HvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~~ 177 (183)
..|-.|-++|...+. . | ..|. -.|+++|.+..|. ..||-|...+..+.
T Consensus 6 pnCE~C~~dLp~~s~--------------~-A-~ICSfECTFC~~C~e~~l~------~~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDSP--------------E-A-YICSFECTFCADCAETMLN------GVCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCCC--------------c-c-eEEeEeCcccHHHHHHHhc------CcCcCCCCccccCC
Confidence 358888888775431 1 1 2354 4699999999976 36999999886643
No 162
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=24.42 E-value=26 Score=20.05 Aligned_cols=36 Identities=31% Similarity=0.754 Sum_probs=21.9
Q ss_pred ccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 110 CGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 110 C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
|..|.+.+.... ..+..=+..||.+|+ .|..|...|
T Consensus 2 C~~C~~~i~~~~----------------~~~~~~~~~~H~~Cf------------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGE----------------LVLRALGKVWHPECF------------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCc----------------EEEEeCCccccccCC------------CCcccCCcC
Confidence 777877766431 123334778888764 466666654
No 163
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=23.89 E-value=34 Score=22.36 Aligned_cols=23 Identities=43% Similarity=1.041 Sum_probs=13.2
Q ss_pred CCChHhhHHHHHHHhhcCCCCCCCCccc
Q 030048 142 VCGHVYHADCLEQRTSAEDIRDPPCPLC 169 (183)
Q Consensus 142 ~CGHvFH~~CLe~wl~~~~~~~p~CPiC 169 (183)
.|||.|-+. +...+. ....||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~----~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTR----RGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-Hhhhcc----CCCCCCCC
Confidence 567766554 333332 45679888
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=23.54 E-value=19 Score=22.66 Aligned_cols=26 Identities=31% Similarity=0.618 Sum_probs=15.3
Q ss_pred cCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 141 LVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 141 L~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
..|||.|-.. ....+.....||.|..
T Consensus 9 ~~Cg~~fe~~-----~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 9 EECGHEFEVL-----QSISEDDPVPCPECGS 34 (42)
T ss_pred CCCCCEEEEE-----EEcCCCCCCcCCCCCC
Confidence 3577776433 1212234678999998
No 165
>PRK11827 hypothetical protein; Provisional
Probab=22.71 E-value=41 Score=23.25 Aligned_cols=15 Identities=33% Similarity=0.685 Sum_probs=11.2
Q ss_pred CCCCcccccccccCC
Q 030048 163 DPPCPLCLGSLMQVE 177 (183)
Q Consensus 163 ~p~CPiCr~~l~~~~ 177 (183)
-..||+|+..+....
T Consensus 8 ILaCP~ckg~L~~~~ 22 (60)
T PRK11827 8 IIACPVCNGKLWYNQ 22 (60)
T ss_pred heECCCCCCcCeEcC
Confidence 357999999887543
No 166
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.20 E-value=57 Score=23.79 Aligned_cols=27 Identities=37% Similarity=0.693 Sum_probs=22.0
Q ss_pred ChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 144 GHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 144 GHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
-|.|+++|.+.-+. ..||-|-..+.-.
T Consensus 28 EcTFCadCae~~l~------g~CPnCGGelv~R 54 (84)
T COG3813 28 ECTFCADCAENRLH------GLCPNCGGELVAR 54 (84)
T ss_pred eeehhHhHHHHhhc------CcCCCCCchhhcC
Confidence 58999999998876 4799999887543
No 167
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=21.96 E-value=32 Score=27.41 Aligned_cols=15 Identities=33% Similarity=0.492 Sum_probs=10.9
Q ss_pred Ccccccccccchhhh
Q 030048 106 VKIVCGICQKLLRRK 120 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~ 120 (183)
....|+.|.-+|..+
T Consensus 27 L~~hCp~Cg~PLF~K 41 (131)
T COG1645 27 LAKHCPKCGTPLFRK 41 (131)
T ss_pred HHhhCcccCCcceee
Confidence 456799997777654
No 168
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.89 E-value=47 Score=29.56 Aligned_cols=34 Identities=9% Similarity=0.135 Sum_probs=27.6
Q ss_pred CcccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh
Q 030048 106 VKIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS 157 (183)
Q Consensus 106 ~~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~ 157 (183)
..+-|.+|+.++.+. .+-+=||+|..+||.+++-
T Consensus 42 ~FdcCsLtLqPc~dP------------------vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP------------------VITPDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCC------------------ccCCCCeeeeHHHHHHHHH
Confidence 556799999998753 4567899999999999874
No 169
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=21.24 E-value=25 Score=21.67 Aligned_cols=30 Identities=30% Similarity=0.583 Sum_probs=18.6
Q ss_pred cCCChHhhHHHHHHHhhcCCCCCCCCcccccccccC
Q 030048 141 LVCGHVYHADCLEQRTSAEDIRDPPCPLCLGSLMQV 176 (183)
Q Consensus 141 L~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~~l~~~ 176 (183)
-.||.+||.. -.-.+....|..|...|.+.
T Consensus 5 ~~Cg~~Yh~~------~~pP~~~~~Cd~cg~~L~qR 34 (36)
T PF05191_consen 5 PKCGRIYHIE------FNPPKVEGVCDNCGGELVQR 34 (36)
T ss_dssp TTTTEEEETT------TB--SSTTBCTTTTEBEBEE
T ss_pred CCCCCccccc------cCCCCCCCccCCCCCeeEeC
Confidence 4689999943 11122456799998876543
No 170
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=21.08 E-value=70 Score=29.44 Aligned_cols=30 Identities=10% Similarity=-0.017 Sum_probs=23.2
Q ss_pred eEEcCCCh-HhhHHHHHHHhhcCCCCCCCCccccccc
Q 030048 138 VAVLVCGH-VYHADCLEQRTSAEDIRDPPCPLCLGSL 173 (183)
Q Consensus 138 vavL~CGH-vFH~~CLe~wl~~~~~~~p~CPiCr~~l 173 (183)
.++.+||| .|..+|.. +. .+++||+|....
T Consensus 356 t~~~~~~~n~~~~~~a~--~s----~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 356 TIWSGGNMNLSPGSLAS--AS----ASPTSSTCDHND 386 (394)
T ss_pred eEeecCCcccChhhhhh--cc----cCCccccccccc
Confidence 46789998 48888887 33 589999998653
No 171
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.45 E-value=69 Score=28.22 Aligned_cols=39 Identities=31% Similarity=0.594 Sum_probs=29.3
Q ss_pred EEcCCChHh---hHHHHH----HHhhcCCCCCCCCcccccccccCCC
Q 030048 139 AVLVCGHVY---HADCLE----QRTSAEDIRDPPCPLCLGSLMQVES 178 (183)
Q Consensus 139 avL~CGHvF---H~~CLe----~wl~~~~~~~p~CPiCr~~l~~~~~ 178 (183)
+|=.|-|-. |..||. +|+.. ..+++.|-+|..++...+.
T Consensus 20 RVNVCEhClV~nHpkCiVQSYLqWL~D-sDY~pNC~LC~t~La~gdt 65 (299)
T KOG3970|consen 20 RVNVCEHCLVANHPKCIVQSYLQWLQD-SDYNPNCRLCNTPLASGDT 65 (299)
T ss_pred hhhHHHHHHhccCchhhHHHHHHHHhh-cCCCCCCceeCCccccCcc
Confidence 345677764 999997 57763 4588999999999877664
No 172
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=20.29 E-value=28 Score=22.25 Aligned_cols=26 Identities=31% Similarity=0.645 Sum_probs=14.5
Q ss_pred cCCChHhhHHHHHHHhhcCCCCCCCCccccc
Q 030048 141 LVCGHVYHADCLEQRTSAEDIRDPPCPLCLG 171 (183)
Q Consensus 141 L~CGHvFH~~CLe~wl~~~~~~~p~CPiCr~ 171 (183)
..|||.|-. |....+.....||.|..
T Consensus 9 ~~Cg~~fe~-----~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 9 TACGHRFEV-----LQKMSDDPLATCPECGG 34 (52)
T ss_pred CCCCCEeEE-----EEecCCCCCCCCCCCCC
Confidence 456776652 22211223467999997
No 173
>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=20.29 E-value=50 Score=21.15 Aligned_cols=36 Identities=19% Similarity=0.431 Sum_probs=25.7
Q ss_pred ccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh
Q 030048 108 IVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS 157 (183)
Q Consensus 108 ~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~ 157 (183)
..|.+|.+.|..-.- ...--.||++|...|......
T Consensus 3 ~~C~~C~~~F~~~~r--------------k~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRR--------------RHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCcc--------------ccccCcCcCCcChHHcCCeee
Confidence 469999888764210 123458999999999998765
No 174
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=20.09 E-value=41 Score=33.47 Aligned_cols=36 Identities=25% Similarity=0.494 Sum_probs=26.4
Q ss_pred eEEcCCChHhhHHHHHHHhhcCCC-CCCCCccccccc
Q 030048 138 VAVLVCGHVYHADCLEQRTSAEDI-RDPPCPLCLGSL 173 (183)
Q Consensus 138 vavL~CGHvFH~~CLe~wl~~~~~-~~p~CPiCr~~l 173 (183)
++.-.||=.||..|+..|+..... +.-.||-|+...
T Consensus 36 ~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 36 LACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 456689999999999999874322 335688888653
No 175
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.06 E-value=40 Score=30.59 Aligned_cols=37 Identities=16% Similarity=0.406 Sum_probs=26.1
Q ss_pred cccccccccchhhhccccCCCCCCCCCCcceeEEcCCChHhhHHHHHHHhh
Q 030048 107 KIVCGICQKLLRRKSHLLGMGSTIPSGEQHAVAVLVCGHVYHADCLEQRTS 157 (183)
Q Consensus 107 ~~~C~IC~e~L~~~~~~~g~~~~~~~~~~~~vavL~CGHvFH~~CLe~wl~ 157 (183)
-.-|.+|.|-|++.... | ---.=.|-|+--|-.+.++
T Consensus 268 pLcCTLC~ERLEDTHFV---Q-----------CPSVp~HKFCFPCSResIK 304 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFV---Q-----------CPSVPSHKFCFPCSRESIK 304 (352)
T ss_pred ceeehhhhhhhccCcee---e-----------cCCCcccceecccCHHHHH
Confidence 35699999999976421 0 0112379999999999886
Done!