Query 041895
Match_columns 206
No_of_seqs 195 out of 1744
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 11:49:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041895.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041895hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 1.2E-16 2.7E-21 100.2 1.8 44 135-183 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.6 3.7E-15 8E-20 130.1 5.3 52 135-190 230-281 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 1.3E-14 2.8E-19 100.8 2.8 46 133-183 18-73 (73)
4 COG5540 RING-finger-containing 99.4 1.9E-13 4.1E-18 116.2 3.6 54 131-188 320-373 (374)
5 PF12861 zf-Apc11: Anaphase-pr 99.3 3.5E-13 7.6E-18 95.2 2.3 72 117-189 5-84 (85)
6 PHA02929 N1R/p28-like protein; 99.3 1.5E-12 3.2E-17 109.1 3.8 53 132-188 172-228 (238)
7 COG5243 HRD1 HRD ubiquitin lig 99.3 3.1E-12 6.8E-17 111.4 3.9 56 131-191 284-349 (491)
8 KOG0317 Predicted E3 ubiquitin 99.2 1.2E-11 2.6E-16 104.8 6.0 54 131-192 236-289 (293)
9 PF13923 zf-C3HC4_2: Zinc fing 99.1 4.4E-11 9.5E-16 72.9 2.7 39 137-182 1-39 (39)
10 cd00162 RING RING-finger (Real 99.1 5.6E-11 1.2E-15 73.2 3.1 44 136-186 1-45 (45)
11 PF13920 zf-C3HC4_3: Zinc fing 99.1 6.5E-11 1.4E-15 76.1 3.1 46 134-187 2-48 (50)
12 KOG0823 Predicted E3 ubiquitin 99.1 6.1E-11 1.3E-15 97.8 3.6 54 131-190 44-98 (230)
13 COG5194 APC11 Component of SCF 99.1 3.2E-11 6.9E-16 83.5 1.6 57 133-191 19-85 (88)
14 PLN03208 E3 ubiquitin-protein 99.1 8.5E-11 1.8E-15 95.2 3.9 53 132-190 16-82 (193)
15 KOG1493 Anaphase-promoting com 99.0 4.9E-11 1.1E-15 81.9 -0.3 71 117-189 5-83 (84)
16 PHA02926 zinc finger-like prot 99.0 2.2E-10 4.8E-15 94.1 3.1 55 132-188 168-231 (242)
17 KOG0320 Predicted E3 ubiquitin 98.9 3.6E-10 7.9E-15 89.7 2.3 53 131-189 128-180 (187)
18 KOG0802 E3 ubiquitin ligase [P 98.9 2.9E-10 6.3E-15 106.1 1.8 52 131-187 288-341 (543)
19 PF14634 zf-RING_5: zinc-RING 98.9 1.1E-09 2.5E-14 68.4 3.2 44 136-184 1-44 (44)
20 PF00097 zf-C3HC4: Zinc finger 98.9 1.5E-09 3.1E-14 66.6 3.6 41 137-182 1-41 (41)
21 PF15227 zf-C3HC4_4: zinc fing 98.9 1.5E-09 3.3E-14 67.3 3.5 40 137-182 1-42 (42)
22 smart00184 RING Ring finger. E 98.8 2.9E-09 6.4E-14 63.1 2.9 39 137-182 1-39 (39)
23 smart00504 Ubox Modified RING 98.8 3.8E-09 8.2E-14 70.5 3.3 48 135-190 2-49 (63)
24 KOG2930 SCF ubiquitin ligase, 98.7 2.7E-09 5.9E-14 77.4 0.8 69 116-190 30-111 (114)
25 smart00744 RINGv The RING-vari 98.7 1.7E-08 3.8E-13 64.6 3.3 44 136-183 1-49 (49)
26 KOG0804 Cytoplasmic Zn-finger 98.6 4E-09 8.7E-14 94.1 -0.8 54 127-187 168-222 (493)
27 KOG0828 Predicted E3 ubiquitin 98.6 1.8E-08 3.9E-13 90.9 1.9 52 132-188 569-635 (636)
28 TIGR00599 rad18 DNA repair pro 98.6 3.9E-08 8.5E-13 88.1 3.4 51 131-189 23-73 (397)
29 COG5574 PEX10 RING-finger-cont 98.6 3E-08 6.5E-13 83.4 2.3 52 132-191 213-266 (271)
30 COG5219 Uncharacterized conser 98.6 1.8E-08 3.8E-13 96.7 0.9 56 131-188 1466-1524(1525)
31 KOG2164 Predicted E3 ubiquitin 98.4 9.4E-08 2E-12 86.8 2.6 53 134-192 186-241 (513)
32 KOG1734 Predicted RING-contain 98.4 1.2E-07 2.7E-12 79.9 2.5 56 131-189 221-283 (328)
33 PF11793 FANCL_C: FANCL C-term 98.4 9.3E-08 2E-12 65.7 0.7 55 134-188 2-67 (70)
34 PF13445 zf-RING_UBOX: RING-ty 98.4 3.3E-07 7.2E-12 57.0 3.1 40 137-180 1-43 (43)
35 TIGR00570 cdk7 CDK-activating 98.3 5.4E-07 1.2E-11 78.1 3.8 53 134-190 3-57 (309)
36 PF04564 U-box: U-box domain; 98.2 1.3E-06 2.7E-11 60.5 3.3 50 134-191 4-54 (73)
37 KOG2177 Predicted E3 ubiquitin 98.1 9.8E-07 2.1E-11 73.9 1.9 46 131-184 10-55 (386)
38 KOG0827 Predicted E3 ubiquitin 98.1 1.5E-06 3.3E-11 76.6 2.3 48 135-184 5-53 (465)
39 KOG0287 Postreplication repair 98.0 1.7E-06 3.7E-11 75.2 1.6 50 133-190 22-71 (442)
40 COG5432 RAD18 RING-finger-cont 98.0 2.6E-06 5.6E-11 72.8 2.2 49 133-189 24-72 (391)
41 KOG4445 Uncharacterized conser 98.0 2.3E-06 5.1E-11 73.3 1.3 57 131-190 112-189 (368)
42 KOG0825 PHD Zn-finger protein 97.9 2.1E-06 4.6E-11 81.4 -0.0 53 132-189 121-173 (1134)
43 KOG4265 Predicted E3 ubiquitin 97.9 6.1E-06 1.3E-10 72.3 2.5 55 132-194 288-343 (349)
44 KOG1039 Predicted E3 ubiquitin 97.9 5.8E-06 1.3E-10 72.9 2.0 53 132-186 159-220 (344)
45 KOG1645 RING-finger-containing 97.9 9.1E-06 2E-10 72.2 2.9 50 133-185 3-54 (463)
46 KOG0311 Predicted E3 ubiquitin 97.8 3.1E-06 6.6E-11 74.0 -0.3 55 132-192 41-95 (381)
47 KOG0824 Predicted E3 ubiquitin 97.8 8.1E-06 1.8E-10 70.0 2.1 50 133-189 6-55 (324)
48 PF14835 zf-RING_6: zf-RING of 97.8 5.6E-06 1.2E-10 55.5 0.2 50 133-191 6-55 (65)
49 PF11789 zf-Nse: Zinc-finger o 97.6 3.7E-05 8E-10 50.7 2.4 45 132-181 9-53 (57)
50 PF12906 RINGv: RING-variant d 97.6 4.6E-05 1E-09 48.2 2.2 44 137-182 1-47 (47)
51 KOG4172 Predicted E3 ubiquitin 97.6 2.5E-05 5.5E-10 50.5 0.8 47 135-188 8-55 (62)
52 KOG0978 E3 ubiquitin ligase in 97.5 3.4E-05 7.3E-10 73.3 0.9 52 134-192 643-694 (698)
53 PHA02825 LAP/PHD finger-like p 97.5 0.00011 2.3E-09 57.9 3.3 54 131-189 5-61 (162)
54 PHA02862 5L protein; Provision 97.4 0.00014 3.1E-09 56.2 3.1 51 134-189 2-55 (156)
55 KOG1785 Tyrosine kinase negati 97.4 8.8E-05 1.9E-09 66.0 1.8 50 135-190 370-419 (563)
56 KOG1941 Acetylcholine receptor 97.3 8.2E-05 1.8E-09 66.0 1.3 50 132-184 363-413 (518)
57 KOG0297 TNF receptor-associate 97.2 0.00017 3.7E-09 65.1 2.1 56 131-193 18-73 (391)
58 KOG0801 Predicted E3 ubiquitin 97.1 0.00013 2.8E-09 57.6 0.6 32 130-164 173-204 (205)
59 PF05883 Baculo_RING: Baculovi 97.1 0.00018 3.9E-09 55.2 1.2 35 134-171 26-66 (134)
60 KOG1428 Inhibitor of type V ad 97.0 0.0005 1.1E-08 69.4 2.8 55 131-188 3483-3545(3738)
61 KOG4692 Predicted E3 ubiquitin 96.9 0.004 8.7E-08 54.9 7.9 50 131-188 419-468 (489)
62 KOG4159 Predicted E3 ubiquitin 96.9 0.00055 1.2E-08 61.7 2.3 49 132-188 82-130 (398)
63 KOG3970 Predicted E3 ubiquitin 96.8 0.00077 1.7E-08 55.9 2.6 69 131-203 47-122 (299)
64 PF14570 zf-RING_4: RING/Ubox 96.8 0.0013 2.9E-08 41.7 2.7 47 137-186 1-47 (48)
65 KOG2879 Predicted E3 ubiquitin 96.7 0.0016 3.5E-08 55.5 3.6 56 129-189 234-289 (298)
66 KOG3039 Uncharacterized conser 96.6 0.0017 3.8E-08 54.5 3.3 54 133-190 220-273 (303)
67 KOG1952 Transcription factor N 96.6 0.0013 2.8E-08 63.4 2.6 54 130-185 187-245 (950)
68 KOG2660 Locus-specific chromos 96.6 0.00051 1.1E-08 59.8 -0.2 52 131-189 12-63 (331)
69 KOG1002 Nucleotide excision re 96.5 0.0012 2.6E-08 60.9 1.7 57 131-193 533-592 (791)
70 PHA03096 p28-like protein; Pro 96.4 0.0019 4.1E-08 55.9 2.0 50 135-186 179-236 (284)
71 PF10367 Vps39_2: Vacuolar sor 96.3 0.0015 3.3E-08 47.6 1.2 34 131-168 75-108 (109)
72 COG5236 Uncharacterized conser 96.1 0.006 1.3E-07 53.7 3.7 55 127-187 54-108 (493)
73 PF08746 zf-RING-like: RING-li 96.0 0.0039 8.5E-08 38.6 1.7 43 137-182 1-43 (43)
74 COG5183 SSM4 Protein involved 96.0 0.0052 1.1E-07 59.3 3.0 66 132-199 10-78 (1175)
75 COG5222 Uncharacterized conser 96.0 0.0044 9.5E-08 53.6 2.3 50 135-190 275-325 (427)
76 KOG1571 Predicted E3 ubiquitin 95.8 0.0067 1.4E-07 53.5 2.7 45 132-187 303-347 (355)
77 COG5152 Uncharacterized conser 95.8 0.0041 8.9E-08 50.8 1.1 44 135-186 197-240 (259)
78 KOG1814 Predicted E3 ubiquitin 95.6 0.0071 1.5E-07 54.3 2.2 38 132-172 182-219 (445)
79 KOG0827 Predicted E3 ubiquitin 95.6 0.00077 1.7E-08 59.9 -3.8 53 133-190 195-248 (465)
80 PF04641 Rtf2: Rtf2 RING-finge 95.6 0.022 4.9E-07 48.5 5.2 54 131-190 110-164 (260)
81 KOG4739 Uncharacterized protei 95.4 0.0067 1.4E-07 50.8 1.4 48 136-191 5-52 (233)
82 KOG4275 Predicted E3 ubiquitin 95.2 0.0087 1.9E-07 51.5 1.3 42 134-187 300-342 (350)
83 KOG1813 Predicted E3 ubiquitin 95.1 0.008 1.7E-07 51.8 0.9 45 135-187 242-286 (313)
84 KOG1001 Helicase-like transcri 94.8 0.012 2.6E-07 56.6 1.3 49 135-190 455-503 (674)
85 KOG0826 Predicted E3 ubiquitin 94.8 0.027 5.8E-07 49.3 3.2 51 129-186 295-345 (357)
86 KOG3268 Predicted E3 ubiquitin 94.8 0.021 4.6E-07 45.9 2.4 57 133-189 164-230 (234)
87 KOG4185 Predicted E3 ubiquitin 94.6 0.023 5E-07 49.0 2.5 48 135-186 4-54 (296)
88 COG5175 MOT2 Transcriptional r 94.5 0.027 5.8E-07 49.6 2.6 59 131-193 11-70 (480)
89 PF14447 Prok-RING_4: Prokaryo 94.4 0.024 5.2E-07 36.9 1.5 48 134-191 7-54 (55)
90 KOG2114 Vacuolar assembly/sort 94.3 0.021 4.4E-07 55.5 1.6 43 135-187 841-883 (933)
91 KOG2034 Vacuolar sorting prote 94.2 0.033 7.1E-07 54.4 2.8 37 131-171 814-850 (911)
92 PF10272 Tmpp129: Putative tra 93.7 0.056 1.2E-06 48.2 3.0 60 131-190 268-354 (358)
93 KOG3161 Predicted E3 ubiquitin 93.6 0.024 5.3E-07 53.5 0.7 42 135-184 12-54 (861)
94 KOG1940 Zn-finger protein [Gen 93.4 0.049 1.1E-06 46.9 2.1 45 135-184 159-204 (276)
95 KOG1609 Protein involved in mR 93.4 0.044 9.6E-07 47.2 1.9 55 134-189 78-136 (323)
96 PF14446 Prok-RING_1: Prokaryo 92.8 0.12 2.7E-06 33.5 2.8 33 133-167 4-36 (54)
97 PF07800 DUF1644: Protein of u 92.8 0.11 2.4E-06 41.0 3.1 37 133-172 1-47 (162)
98 KOG3899 Uncharacterized conser 92.3 0.07 1.5E-06 46.1 1.5 37 156-192 323-370 (381)
99 KOG0309 Conserved WD40 repeat- 90.9 0.14 3E-06 49.5 2.0 23 157-181 1047-1069(1081)
100 KOG0298 DEAD box-containing he 90.8 0.062 1.3E-06 54.4 -0.4 46 134-186 1153-1198(1394)
101 KOG2932 E3 ubiquitin ligase in 90.6 0.13 2.8E-06 44.9 1.4 44 134-186 90-133 (389)
102 PF03854 zf-P11: P-11 zinc fin 90.4 0.16 3.4E-06 32.1 1.3 30 158-189 18-48 (50)
103 KOG3053 Uncharacterized conser 89.9 0.15 3.2E-06 43.4 1.1 56 131-187 17-82 (293)
104 KOG1812 Predicted E3 ubiquitin 89.4 0.14 3.1E-06 46.1 0.8 38 132-172 144-182 (384)
105 KOG3002 Zn finger protein [Gen 89.3 0.23 5E-06 43.3 2.0 45 131-187 45-91 (299)
106 KOG0802 E3 ubiquitin ligase [P 89.0 0.25 5.4E-06 46.5 2.1 52 131-194 476-527 (543)
107 KOG1100 Predicted E3 ubiquitin 88.5 0.27 5.8E-06 40.7 1.7 41 137-189 161-202 (207)
108 PF05290 Baculo_IE-1: Baculovi 86.8 0.66 1.4E-05 35.7 2.9 58 133-192 79-137 (140)
109 KOG2817 Predicted E3 ubiquitin 84.7 0.81 1.8E-05 41.1 2.8 47 134-184 334-382 (394)
110 KOG3800 Predicted E3 ubiquitin 84.4 0.93 2E-05 39.2 2.9 47 136-186 2-50 (300)
111 KOG0269 WD40 repeat-containing 80.9 1.4 3E-05 42.9 2.9 42 134-181 779-820 (839)
112 KOG2979 Protein involved in DN 80.3 0.89 1.9E-05 38.7 1.3 65 134-203 176-242 (262)
113 KOG1829 Uncharacterized conser 80.1 0.85 1.8E-05 43.2 1.2 44 133-184 510-558 (580)
114 PF02891 zf-MIZ: MIZ/SP-RING z 79.4 3.1 6.6E-05 26.4 3.3 44 136-185 4-50 (50)
115 KOG0825 PHD Zn-finger protein 79.3 1.3 2.7E-05 43.4 2.1 52 133-186 95-153 (1134)
116 KOG4362 Transcriptional regula 79.3 0.54 1.2E-05 45.2 -0.4 48 133-186 20-68 (684)
117 PF13901 DUF4206: Domain of un 78.2 1.9 4.1E-05 35.4 2.6 42 133-184 151-197 (202)
118 KOG1815 Predicted E3 ubiquitin 78.1 1.3 2.8E-05 40.7 1.8 55 131-190 67-129 (444)
119 KOG2066 Vacuolar assembly/sort 76.0 0.92 2E-05 44.2 0.2 44 133-182 783-830 (846)
120 smart00249 PHD PHD zinc finger 75.3 1.8 3.9E-05 25.7 1.3 31 136-169 1-31 (47)
121 PF01363 FYVE: FYVE zinc finge 75.2 1.6 3.4E-05 29.1 1.1 39 131-171 6-44 (69)
122 PF06906 DUF1272: Protein of u 74.6 4.3 9.3E-05 26.5 3.0 46 135-187 6-52 (57)
123 KOG2068 MOT2 transcription fac 74.2 3.1 6.7E-05 36.7 3.0 53 134-190 249-301 (327)
124 KOG1812 Predicted E3 ubiquitin 74.1 1.3 2.9E-05 40.0 0.7 46 132-182 304-351 (384)
125 PF10571 UPF0547: Uncharacteri 73.2 1.9 4.1E-05 23.6 0.9 23 136-162 2-24 (26)
126 KOG3113 Uncharacterized conser 72.6 6.5 0.00014 33.6 4.4 54 133-192 110-163 (293)
127 PF00628 PHD: PHD-finger; Int 72.1 2 4.3E-05 26.8 1.0 45 137-184 2-50 (51)
128 smart00132 LIM Zinc-binding do 70.8 3 6.5E-05 23.8 1.5 37 136-186 1-37 (39)
129 PF07975 C1_4: TFIIH C1-like d 69.9 5.6 0.00012 25.5 2.7 43 137-183 2-50 (51)
130 COG5220 TFB3 Cdk activating ki 69.8 2 4.3E-05 36.4 0.7 50 132-184 8-61 (314)
131 KOG4718 Non-SMC (structural ma 69.6 2.6 5.6E-05 35.0 1.4 47 133-186 180-226 (235)
132 KOG3005 GIY-YIG type nuclease 66.0 4.3 9.3E-05 34.8 2.1 52 134-185 182-241 (276)
133 TIGR00622 ssl1 transcription f 65.0 6.5 0.00014 29.4 2.6 46 134-183 55-110 (112)
134 PF14569 zf-UDP: Zinc-binding 65.0 11 0.00024 26.3 3.6 54 132-187 7-62 (80)
135 smart00064 FYVE Protein presen 64.9 5.2 0.00011 26.4 2.0 39 131-171 7-45 (68)
136 PLN02189 cellulose synthase 61.0 7.6 0.00016 39.4 3.0 52 133-187 33-87 (1040)
137 cd00065 FYVE FYVE domain; Zinc 60.6 6.9 0.00015 24.8 1.9 35 135-171 3-37 (57)
138 PF00412 LIM: LIM domain; Int 60.1 5.5 0.00012 25.1 1.3 40 137-190 1-40 (58)
139 PF06844 DUF1244: Protein of u 60.0 5.5 0.00012 26.9 1.3 12 161-172 11-22 (68)
140 KOG1729 FYVE finger containing 58.1 2.2 4.9E-05 37.0 -1.0 36 134-172 214-249 (288)
141 cd00350 rubredoxin_like Rubred 57.7 6.1 0.00013 22.6 1.1 19 158-184 7-25 (33)
142 PF13719 zinc_ribbon_5: zinc-r 57.1 7 0.00015 23.0 1.3 27 135-163 3-36 (37)
143 KOG4577 Transcription factor L 55.9 3.2 6.8E-05 36.1 -0.5 48 132-193 90-137 (383)
144 KOG4367 Predicted Zn-finger pr 54.8 8.6 0.00019 35.4 2.0 35 132-172 2-36 (699)
145 PRK01343 zinc-binding protein; 54.1 8.1 0.00018 25.3 1.3 27 175-201 8-34 (57)
146 KOG3579 Predicted E3 ubiquitin 53.3 8.3 0.00018 33.5 1.6 37 134-172 268-304 (352)
147 COG5627 MMS21 DNA repair prote 52.7 5.7 0.00012 33.5 0.6 50 134-188 189-240 (275)
148 KOG3039 Uncharacterized conser 52.5 12 0.00026 32.0 2.4 35 132-172 41-75 (303)
149 PF04423 Rad50_zn_hook: Rad50 52.4 6 0.00013 25.2 0.5 14 176-189 20-33 (54)
150 PF13717 zinc_ribbon_4: zinc-r 50.9 7.6 0.00016 22.8 0.8 29 135-163 3-36 (36)
151 PF07649 C1_3: C1-like domain; 50.8 12 0.00026 20.8 1.5 29 136-167 2-30 (30)
152 PLN02436 cellulose synthase A 50.5 14 0.00031 37.6 3.0 52 133-187 35-89 (1094)
153 COG5109 Uncharacterized conser 49.5 13 0.00027 32.9 2.2 46 134-182 336-382 (396)
154 PF05715 zf-piccolo: Piccolo Z 49.2 13 0.00027 24.6 1.6 20 176-195 2-21 (61)
155 PF10497 zf-4CXXC_R1: Zinc-fin 48.3 25 0.00055 25.8 3.4 26 159-184 37-69 (105)
156 PF04710 Pellino: Pellino; In 47.6 6.1 0.00013 35.8 0.0 48 132-185 275-337 (416)
157 PF07191 zinc-ribbons_6: zinc- 47.3 6.7 0.00015 26.8 0.1 40 135-187 2-41 (70)
158 PRK05978 hypothetical protein; 46.4 15 0.00032 28.9 1.9 28 159-193 42-69 (148)
159 PF05605 zf-Di19: Drought indu 45.4 8.4 0.00018 24.5 0.4 38 135-185 3-40 (54)
160 COG3813 Uncharacterized protei 43.5 16 0.00035 25.2 1.5 26 159-188 28-53 (84)
161 KOG2231 Predicted E3 ubiquitin 43.2 17 0.00038 35.2 2.3 46 136-187 2-52 (669)
162 PF06676 DUF1178: Protein of u 43.1 9.3 0.0002 30.0 0.4 25 156-185 8-41 (148)
163 PLN02638 cellulose synthase A 43.0 23 0.0005 36.2 3.1 52 133-187 16-70 (1079)
164 PLN02195 cellulose synthase A 41.0 33 0.00071 34.8 3.8 53 133-187 5-59 (977)
165 KOG2807 RNA polymerase II tran 40.5 22 0.00048 31.5 2.3 46 133-183 329-374 (378)
166 KOG0824 Predicted E3 ubiquitin 40.4 11 0.00025 32.9 0.5 50 131-187 102-151 (324)
167 KOG3842 Adaptor protein Pellin 39.7 28 0.00061 30.8 2.8 56 131-189 338-416 (429)
168 smart00647 IBR In Between Ring 39.6 8.6 0.00019 24.6 -0.3 14 158-171 46-59 (64)
169 PF14311 DUF4379: Domain of un 38.1 21 0.00046 22.6 1.5 22 158-182 34-55 (55)
170 cd00729 rubredoxin_SM Rubredox 36.4 21 0.00045 20.6 1.1 20 158-185 8-27 (34)
171 PLN02400 cellulose synthase 36.1 26 0.00056 35.9 2.3 52 133-187 35-89 (1085)
172 PF07227 DUF1423: Protein of u 36.0 20 0.00042 33.1 1.3 36 133-169 127-163 (446)
173 PRK11088 rrmA 23S rRNA methylt 36.0 23 0.00049 30.0 1.7 27 135-164 3-29 (272)
174 COG5216 Uncharacterized conser 35.9 23 0.0005 23.4 1.3 39 144-184 14-52 (67)
175 PLN02915 cellulose synthase A 34.5 35 0.00077 34.8 2.9 54 131-187 12-68 (1044)
176 PF13832 zf-HC5HC2H_2: PHD-zin 34.2 25 0.00053 25.4 1.4 33 133-169 54-87 (110)
177 KOG1815 Predicted E3 ubiquitin 34.1 12 0.00026 34.3 -0.3 40 133-172 225-266 (444)
178 PF10083 DUF2321: Uncharacteri 33.8 23 0.0005 28.0 1.3 45 139-190 9-53 (158)
179 PF09889 DUF2116: Uncharacteri 33.5 24 0.00053 23.2 1.2 16 175-190 2-17 (59)
180 PF13276 HTH_21: HTH-like doma 33.5 40 0.00087 21.5 2.2 39 1-42 17-55 (60)
181 COG3492 Uncharacterized protei 32.1 24 0.00052 25.4 1.0 12 161-172 42-53 (104)
182 PF14169 YdjO: Cold-inducible 30.9 28 0.00061 23.0 1.1 17 174-190 37-53 (59)
183 PLN02248 cellulose synthase-li 30.5 45 0.00098 34.3 2.9 35 153-190 146-180 (1135)
184 PF02318 FYVE_2: FYVE-type zin 29.3 34 0.00073 25.4 1.5 46 133-184 53-102 (118)
185 PF13771 zf-HC5HC2H: PHD-like 28.9 34 0.00075 23.6 1.4 34 132-169 34-68 (90)
186 smart00734 ZnF_Rad18 Rad18-lik 27.1 28 0.0006 18.9 0.5 9 178-186 3-11 (26)
187 KOG1512 PHD Zn-finger protein 26.6 26 0.00057 30.6 0.5 32 134-168 314-345 (381)
188 PRK11827 hypothetical protein; 26.1 22 0.00048 23.5 -0.0 19 169-189 3-21 (60)
189 KOG2071 mRNA cleavage and poly 25.3 32 0.0007 32.7 0.9 36 132-170 511-556 (579)
190 KOG0803 Predicted E3 ubiquitin 24.8 30 0.00065 36.2 0.6 53 131-187 1058-1115(1312)
191 COG4068 Uncharacterized protei 23.9 43 0.00092 22.1 1.0 18 175-192 7-24 (64)
192 COG3357 Predicted transcriptio 23.8 37 0.00081 24.4 0.8 27 157-189 63-89 (97)
193 PF09237 GAGA: GAGA factor; I 23.7 27 0.00059 22.5 0.1 13 176-188 24-36 (54)
194 PF04216 FdhE: Protein involve 23.6 9.1 0.0002 33.0 -2.9 48 132-184 170-219 (290)
195 PF09943 DUF2175: Uncharacteri 23.2 70 0.0015 23.4 2.1 33 135-171 3-35 (101)
196 KOG4443 Putative transcription 23.0 47 0.001 32.2 1.5 29 158-186 41-72 (694)
197 PF07282 OrfB_Zn_ribbon: Putat 22.7 65 0.0014 21.1 1.8 34 133-168 27-62 (69)
198 PF06937 EURL: EURL protein; 22.3 63 0.0014 27.9 2.0 47 132-180 28-74 (285)
199 PF03119 DNA_ligase_ZBD: NAD-d 21.8 42 0.00091 18.5 0.6 12 178-189 1-12 (28)
200 KOG4021 Mitochondrial ribosoma 21.8 42 0.00091 27.6 0.8 23 164-187 97-119 (239)
201 KOG3726 Uncharacterized conser 20.9 50 0.0011 32.1 1.2 43 134-183 654-696 (717)
202 KOG2113 Predicted RNA binding 20.5 73 0.0016 28.3 2.0 42 134-185 343-385 (394)
203 COG4847 Uncharacterized protei 20.4 84 0.0018 22.8 2.0 34 134-171 6-39 (103)
204 COG1592 Rubrerythrin [Energy p 20.0 72 0.0016 25.5 1.8 11 174-184 147-157 (166)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.62 E-value=1.2e-16 Score=100.16 Aligned_cols=44 Identities=48% Similarity=1.107 Sum_probs=39.8
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccc
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCR 183 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR 183 (206)
++|+||++++..++.++.++ |||.||.+||.+|+ +.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~---C~H~fh~~Ci~~~~--~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP---CGHVFHRSCIKEWL--KRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET---TSEEEEHHHHHHHH--HHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc---CCCeeCHHHHHHHH--HhCCcCCccC
Confidence 47999999999999999999 99999999999999 6678999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=3.7e-15 Score=130.11 Aligned_cols=52 Identities=33% Similarity=0.793 Sum_probs=45.9
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
..|+||||+|..|+.++.|| |+|.||..||+.||. ..+..||+|+.++....
T Consensus 230 ~~CaIClEdY~~GdklRiLP---C~H~FH~~CIDpWL~-~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILP---CSHKFHVNCIDPWLT-QTRTFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeecccccCCeeeEec---CCCchhhccchhhHh-hcCccCCCCCCcCCCCC
Confidence 69999999999999999999 999999999999994 33456999999886554
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.49 E-value=1.3e-14 Score=100.81 Aligned_cols=46 Identities=35% Similarity=0.899 Sum_probs=36.3
Q ss_pred ccccccccccccccC----------CceeecCCCCCCCcccHhHHHHHHhhCCCCcccccc
Q 041895 133 EEEECAICLKKFENI----------DNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCR 183 (206)
Q Consensus 133 ~~~~C~ICle~~~~~----------~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR 183 (206)
.++.|+||+++|... ..+...+ |||.||..||.+|| +.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~---C~H~FH~~Ci~~Wl--~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP---CGHIFHFHCISQWL--KQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET---TSEEEEHHHHHHHH--TTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecc---cCCCEEHHHHHHHH--hcCCcCCCCC
Confidence 455699999999432 2344556 99999999999999 8889999998
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=1.9e-13 Score=116.21 Aligned_cols=54 Identities=31% Similarity=0.716 Sum_probs=48.4
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAH 188 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~ 188 (206)
...+.+|+|||++|..++.++++| |.|.||..||.+|+. .-+..||+||.++++
T Consensus 320 a~~GveCaICms~fiK~d~~~vlP---C~H~FH~~Cv~kW~~-~y~~~CPvCrt~iPP 373 (374)
T COG5540 320 ADKGVECAICMSNFIKNDRLRVLP---CDHRFHVGCVDKWLL-GYSNKCPVCRTAIPP 373 (374)
T ss_pred cCCCceEEEEhhhhcccceEEEec---cCceechhHHHHHHh-hhcccCCccCCCCCC
Confidence 345589999999999999999999 999999999999993 367889999999975
No 5
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.35 E-value=3.5e-13 Score=95.19 Aligned_cols=72 Identities=24% Similarity=0.550 Sum_probs=49.9
Q ss_pred hccccchhhhhhhcccccccccccccccccCCceeecCC-------CCCCCcccHhHHHHHHhhC-CCCccccccccccC
Q 041895 117 IKGVNHVVKEEEEEEEEEEECAICLKKFENIDNEATSLN-------CPCQFLYHHECIWRWLREL-RNYSCPVCRKNFAH 188 (206)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~Lp~-------~~C~H~FH~~CI~~WL~~~-~~~sCPvCR~~l~~ 188 (206)
++....+..-..+ ...++.|.||...|+..-+...+|+ ++|+|.||..||.+||+.. .+..||+||+++..
T Consensus 5 i~~w~~va~W~Wd-~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 5 IKEWHAVATWKWD-VANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred EEEEEEEEEEEEe-cCCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 3444444444432 2347899999999985443344443 4699999999999999532 35789999999875
Q ss_pred C
Q 041895 189 G 189 (206)
Q Consensus 189 ~ 189 (206)
+
T Consensus 84 k 84 (85)
T PF12861_consen 84 K 84 (85)
T ss_pred C
Confidence 4
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.30 E-value=1.5e-12 Score=109.15 Aligned_cols=53 Identities=34% Similarity=0.759 Sum_probs=42.4
Q ss_pred cccccccccccccccCCc----eeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccC
Q 041895 132 EEEEECAICLKKFENIDN----EATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAH 188 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~----~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~ 188 (206)
..+.+|+||++.+...+. +.+++. |+|.||..||.+|+ ..+.+||+||.++..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~--C~H~FC~~CI~~Wl--~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSN--CNHVFCIECIDIWK--KEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCC--CCCcccHHHHHHHH--hcCCCCCCCCCEeeE
Confidence 346799999999876431 223433 99999999999999 889999999998763
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=3.1e-12 Score=111.44 Aligned_cols=56 Identities=25% Similarity=0.734 Sum_probs=46.3
Q ss_pred ccccccccccccc-cccCC---------ceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCC
Q 041895 131 EEEEEECAICLKK-FENID---------NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTE 191 (206)
Q Consensus 131 ~~~~~~C~ICle~-~~~~~---------~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~ 191 (206)
...+..|+|||++ |..+. ...+|| |||+||.+|++.|+ +++++||+||.++..+..
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp---CGHilHl~CLknW~--ERqQTCPICr~p~ifd~~ 349 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP---CGHILHLHCLKNWL--ERQQTCPICRRPVIFDQS 349 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc---ccceeeHHHHHHHH--HhccCCCcccCccccccC
Confidence 5677899999999 44431 346788 99999999999999 999999999999765543
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=1.2e-11 Score=104.77 Aligned_cols=54 Identities=26% Similarity=0.732 Sum_probs=46.6
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCc
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~ 192 (206)
.+....|+|||+...+.. .+| |||+||+.||..|. ..+..||+||.++.+.+..
T Consensus 236 ~~a~~kC~LCLe~~~~pS---aTp---CGHiFCWsCI~~w~--~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPS---ATP---CGHIFCWSCILEWC--SEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCCceEEEecCCCCCC---cCc---CcchHHHHHHHHHH--ccccCCCcccccCCCccee
Confidence 455689999999987755 588 99999999999999 8888999999999887643
No 9
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.11 E-value=4.4e-11 Score=72.94 Aligned_cols=39 Identities=36% Similarity=0.915 Sum_probs=32.9
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
|+||++.+.+ .++.++ |||.|+..||.+|+ +.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~---CGH~fC~~C~~~~~--~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP---CGHSFCKECIEKYL--EKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT---TSEEEEHHHHHHHH--HCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC---CCCchhHHHHHHHH--HCcCCCcCC
Confidence 8999999876 556788 99999999999999 668999998
No 10
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.10 E-value=5.6e-11 Score=73.16 Aligned_cols=44 Identities=34% Similarity=0.909 Sum_probs=36.7
Q ss_pred cccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCC-CCccccccccc
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELR-NYSCPVCRKNF 186 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~-~~sCPvCR~~l 186 (206)
+|+||++.+ ...+...+ |||.||..|+..|+ .. +..||+|+..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~---C~H~~c~~C~~~~~--~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP---CGHVFCRSCIDKWL--KSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC---CCChhcHHHHHHHH--HhCcCCCCCCCCcC
Confidence 599999998 33455666 99999999999999 54 77899999764
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.09 E-value=6.5e-11 Score=76.05 Aligned_cols=46 Identities=35% Similarity=0.801 Sum_probs=39.3
Q ss_pred cccccccccccccCCceeecCCCCCCCc-ccHhHHHHHHhhCCCCcccccccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFL-YHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~-FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
+..|.||++.... +..+| |||. |+..|+.+|+ ..+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~p---CgH~~~C~~C~~~~~--~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP---CGHLCFCEECAERLL--KRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET---TCEEEEEHHHHHHHH--HTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeC---CCChHHHHHHhHHhc--ccCCCCCcCChhhc
Confidence 4689999998654 77889 9999 9999999999 89999999999875
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=6.1e-11 Score=97.78 Aligned_cols=54 Identities=28% Similarity=0.762 Sum_probs=42.6
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh-CCCCccccccccccCCC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE-LRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~-~~~~sCPvCR~~l~~~~ 190 (206)
....-+|.|||+.-++ .+++. |||.||+.||.+||.. ..++.||||+..+..+.
T Consensus 44 ~~~~FdCNICLd~akd---PVvTl---CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTL---CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeeccccCC---CEEee---cccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 4566799999997544 34666 9999999999999943 34567899999887665
No 13
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.09 E-value=3.2e-11 Score=83.48 Aligned_cols=57 Identities=26% Similarity=0.581 Sum_probs=42.3
Q ss_pred ccccccccccccccCCceeec---CC-------CCCCCcccHhHHHHHHhhCCCCccccccccccCCCC
Q 041895 133 EEEECAICLKKFENIDNEATS---LN-------CPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTE 191 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~L---p~-------~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~ 191 (206)
..+.|+||...+...-..... |+ ++|.|.||..||.+|| ..+..||++|+++...+.
T Consensus 19 ~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL--~Tk~~CPld~q~w~~~~~ 85 (88)
T COG5194 19 PIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWL--DTKGVCPLDRQTWVLADG 85 (88)
T ss_pred ccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHH--hhCCCCCCCCceeEEecc
Confidence 357888888887542211111 11 5699999999999999 889999999999876653
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.08 E-value=8.5e-11 Score=95.16 Aligned_cols=53 Identities=28% Similarity=0.778 Sum_probs=41.7
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh--------------CCCCccccccccccCCC
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE--------------LRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~--------------~~~~sCPvCR~~l~~~~ 190 (206)
.++.+|+||++.+.+ .++++ |||.||+.||.+|+.. .....||+||.++...+
T Consensus 16 ~~~~~CpICld~~~d---PVvT~---CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTL---CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CCccCCccCCCcCCC---cEEcC---CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 456799999998865 34677 9999999999999841 12357999999996654
No 15
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=4.9e-11 Score=81.87 Aligned_cols=71 Identities=25% Similarity=0.556 Sum_probs=49.6
Q ss_pred hccccchhhhhhhcccccccccccccccccCCceeecCC-------CCCCCcccHhHHHHHHhhC-CCCccccccccccC
Q 041895 117 IKGVNHVVKEEEEEEEEEEECAICLKKFENIDNEATSLN-------CPCQFLYHHECIWRWLREL-RNYSCPVCRKNFAH 188 (206)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~Lp~-------~~C~H~FH~~CI~~WL~~~-~~~sCPvCR~~l~~ 188 (206)
|+.+........ ...++.|.||..+|..--+-.++|+ +.|.|.||..||.+|+... .+..||+||+.+..
T Consensus 5 i~~~h~~a~wtW--~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 5 IKRYHAVAWWTW--DAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred EEEEEEEEEEEE--cCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 344444444444 3345599999999986555555554 4699999999999999532 33579999998865
Q ss_pred C
Q 041895 189 G 189 (206)
Q Consensus 189 ~ 189 (206)
+
T Consensus 83 ~ 83 (84)
T KOG1493|consen 83 K 83 (84)
T ss_pred c
Confidence 4
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=98.99 E-value=2.2e-10 Score=94.09 Aligned_cols=55 Identities=27% Similarity=0.648 Sum_probs=40.2
Q ss_pred cccccccccccccccC-----CceeecCCCCCCCcccHhHHHHHHhhC----CCCccccccccccC
Q 041895 132 EEEEECAICLKKFENI-----DNEATSLNCPCQFLYHHECIWRWLREL----RNYSCPVCRKNFAH 188 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~-----~~~~~Lp~~~C~H~FH~~CI~~WL~~~----~~~sCPvCR~~l~~ 188 (206)
..+.+|+||||..... .....|+. |+|.||..||.+|.... ...+||+||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~--CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDS--CNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCC--CCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 4567999999987432 22345655 99999999999999421 13569999997754
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=3.6e-10 Score=89.75 Aligned_cols=53 Identities=28% Similarity=0.651 Sum_probs=43.1
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
..+...|+|||+.+..... +.+. |||+||..||..-+ +....||+|++.+..+
T Consensus 128 ~~~~~~CPiCl~~~sek~~-vsTk---CGHvFC~~Cik~al--k~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP-VSTK---CGHVFCSQCIKDAL--KNTNKCPTCRKKITHK 180 (187)
T ss_pred cccccCCCceecchhhccc-cccc---cchhHHHHHHHHHH--HhCCCCCCcccccchh
Confidence 3455899999999976442 2344 99999999999999 9999999999877544
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=2.9e-10 Score=106.09 Aligned_cols=52 Identities=29% Similarity=0.769 Sum_probs=45.3
Q ss_pred ccccccccccccccccCCc--eeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 131 EEEEEECAICLKKFENIDN--EATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~--~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
...+..|+||+|++..+.. ..+|| |+|+||..|+.+|+ ++.++||+||..+.
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~---C~Hifh~~CL~~W~--er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLP---CGHIFHDSCLRSWF--ERQQTCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceee---cccchHHHHHHHHH--HHhCcCCcchhhhh
Confidence 4557899999999998754 66888 99999999999999 88999999999443
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.90 E-value=1.1e-09 Score=68.44 Aligned_cols=44 Identities=25% Similarity=0.781 Sum_probs=39.1
Q ss_pred cccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
.|+||++.|........++ |||+|+..|+.++. .....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~---CgH~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS---CGHIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc---cCCHHHHHHHHhhc--CCCCCCcCCCC
Confidence 4999999996666778888 99999999999988 88899999985
No 20
>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=98.90 E-value=1.5e-09 Score=66.62 Aligned_cols=41 Identities=32% Similarity=0.920 Sum_probs=34.9
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
|+||++.+... ...++ |||.||..||.+|+.......||+|
T Consensus 1 C~iC~~~~~~~--~~~~~---C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP---CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT---TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec---CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998764 35788 9999999999999954477789998
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.90 E-value=1.5e-09 Score=67.32 Aligned_cols=40 Identities=33% Similarity=0.860 Sum_probs=29.2
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCC--Cccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRN--YSCPVC 182 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~--~sCPvC 182 (206)
|+||++-|.+ .+.|+ |||.|+..||.+|..+... ..||+|
T Consensus 1 CpiC~~~~~~---Pv~l~---CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP---CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S---SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC---CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999977 45788 9999999999999953333 379988
No 22
>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=98.82 E-value=2.9e-09 Score=63.12 Aligned_cols=39 Identities=33% Similarity=1.026 Sum_probs=32.7
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
|+||++. ....+.++ |+|.||..|+..|+. ..+..||+|
T Consensus 1 C~iC~~~---~~~~~~~~---C~H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLP---CGHTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEec---CCChHHHHHHHHHHH-hCcCCCCCC
Confidence 8899998 33567788 999999999999994 367789987
No 23
>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=98.80 E-value=3.8e-09 Score=70.47 Aligned_cols=48 Identities=23% Similarity=0.369 Sum_probs=41.0
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
-.|+||++.+.++ +.++ |||+|++.||.+|+ ..+.+||+|+.++..++
T Consensus 2 ~~Cpi~~~~~~~P---v~~~---~G~v~~~~~i~~~~--~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDP---VILP---SGQTYERRAIEKWL--LSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCC---EECC---CCCEEeHHHHHHHH--HHCCCCCCCcCCCChhh
Confidence 3699999998763 5678 99999999999999 66889999999886554
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=2.7e-09 Score=77.40 Aligned_cols=69 Identities=25% Similarity=0.472 Sum_probs=48.6
Q ss_pred hhccccchhhhhhhccccccccccccccccc-------CC-----c-eeecCCCCCCCcccHhHHHHHHhhCCCCccccc
Q 041895 116 TIKGVNHVVKEEEEEEEEEEECAICLKKFEN-------ID-----N-EATSLNCPCQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~~C~ICle~~~~-------~~-----~-~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
.+++...+.-... +-..+.|+||..-+-+ +. + .+.. ++|+|.||..||.+|| ++++.||+|
T Consensus 30 ~lKKWnAvAlWaW--Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaW--G~CNHaFH~hCisrWl--ktr~vCPLd 103 (114)
T KOG2930|consen 30 ELKKWNAVALWAW--DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAW--GVCNHAFHFHCISRWL--KTRNVCPLD 103 (114)
T ss_pred EEeeeeeeeeeee--eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEe--eecchHHHHHHHHHHH--hhcCcCCCc
Confidence 3455544444444 4566799999887642 11 1 1111 5699999999999999 999999999
Q ss_pred cccccCCC
Q 041895 183 RKNFAHGT 190 (206)
Q Consensus 183 R~~l~~~~ 190 (206)
.+++..+.
T Consensus 104 n~eW~~qr 111 (114)
T KOG2930|consen 104 NKEWVFQR 111 (114)
T ss_pred CcceeEee
Confidence 99987654
No 25
>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=98.68 E-value=1.7e-08 Score=64.60 Aligned_cols=44 Identities=32% Similarity=0.804 Sum_probs=34.9
Q ss_pred cccccccccccCCceeecCCCCCC-----CcccHhHHHHHHhhCCCCcccccc
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQ-----FLYHHECIWRWLRELRNYSCPVCR 183 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~-----H~FH~~CI~~WL~~~~~~sCPvCR 183 (206)
.|.||++. ..++...++| |. |.+|..|+.+|+....+.+||+|.
T Consensus 1 ~CrIC~~~-~~~~~~l~~P---C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSP---CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEec---cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 38999994 3444556888 74 899999999999766677999995
No 26
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.64 E-value=4e-09 Score=94.10 Aligned_cols=54 Identities=30% Similarity=0.751 Sum_probs=43.7
Q ss_pred hhhcccccccccccccccccCCce-eecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 127 EEEEEEEEEECAICLKKFENIDNE-ATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 127 ~~~~~~~~~~C~ICle~~~~~~~~-~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
...+..+..+|+||||.++..... +... |.|.||..|+.+|- ..+||+||.-..
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~---c~Hsfh~~cl~~w~----~~scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTIL---CNHSFHCSCLMKWW----DSSCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeee---cccccchHHHhhcc----cCcChhhhhhcC
Confidence 334456789999999999876543 4444 99999999999998 789999998665
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=1.8e-08 Score=90.91 Aligned_cols=52 Identities=25% Similarity=0.776 Sum_probs=41.2
Q ss_pred cccccccccccccccCC--------------ceeecCCCCCCCcccHhHHHHHHhhC-CCCccccccccccC
Q 041895 132 EEEEECAICLKKFENID--------------NEATSLNCPCQFLYHHECIWRWLREL-RNYSCPVCRKNFAH 188 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~--------------~~~~Lp~~~C~H~FH~~CI~~WL~~~-~~~sCPvCR~~l~~ 188 (206)
+...+|+|||.++..-. .-+.+| |.|+||..|+.+|+ . .+..||+||.++++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP---C~HifH~~CL~~WM--d~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP---CHHIFHRQCLLQWM--DTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccc---hHHHHHHHHHHHHH--hhhcccCCccCCCCCC
Confidence 45679999999986321 124457 99999999999999 6 45599999999875
No 28
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.56 E-value=3.9e-08 Score=88.10 Aligned_cols=51 Identities=25% Similarity=0.552 Sum_probs=42.3
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
.+....|+||++.|... +.++ |||.||..||..|+ .....||+|+..+...
T Consensus 23 Le~~l~C~IC~d~~~~P---vitp---CgH~FCs~CI~~~l--~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTS---CSHTFCSLCIRRCL--SNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhCc---cCCC---CCCchhHHHHHHHH--hCCCCCCCCCCccccc
Confidence 34567999999999653 3578 99999999999999 7777899999987543
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=3e-08 Score=83.35 Aligned_cols=52 Identities=25% Similarity=0.651 Sum_probs=42.3
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHH-HHhhCCCC-ccccccccccCCCC
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWR-WLRELRNY-SCPVCRKNFAHGTE 191 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~-WL~~~~~~-sCPvCR~~l~~~~~ 191 (206)
..+.+|+||++..... ..+| |||+||..||.. |- .++. -||+||+.+.+++.
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~---CgHlFC~~Cl~~~~t--~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTP---CGHLFCLSCLLISWT--KKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCc---cccc---ccchhhHHHHHHHHH--hhccccCchhhhhccchhh
Confidence 4567899999997663 3677 999999999999 98 5554 49999998877654
No 30
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.55 E-value=1.8e-08 Score=96.69 Aligned_cols=56 Identities=27% Similarity=0.781 Sum_probs=44.9
Q ss_pred ccccccccccccccccCCceeecCC---CCCCCcccHhHHHHHHhhCCCCccccccccccC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLN---CPCQFLYHHECIWRWLRELRNYSCPVCRKNFAH 188 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~---~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~ 188 (206)
-.+-++|+||..-+..-+ +.+|+ .+|.|.||..|+.+|+....+++||+||.+++.
T Consensus 1466 fsG~eECaICYsvL~~vd--r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred cCCcchhhHHHHHHHHHh--ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 345679999999887322 34664 379999999999999977788999999988764
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=9.4e-08 Score=86.80 Aligned_cols=53 Identities=23% Similarity=0.531 Sum_probs=40.9
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh---CCCCccccccccccCCCCc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE---LRNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~---~~~~sCPvCR~~l~~~~~~ 192 (206)
+..|+|||++..... .+. |||+||..||.+++.. ..-..||+||..+...+..
T Consensus 186 ~~~CPICL~~~~~p~---~t~---CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV---RTN---CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCCccc---ccc---cCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 789999999875532 344 9999999999998832 2345799999988776543
No 32
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=1.2e-07 Score=79.87 Aligned_cols=56 Identities=21% Similarity=0.553 Sum_probs=45.1
Q ss_pred ccccccccccccccccCC-------ceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 131 EEEEEECAICLKKFENID-------NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~-------~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
..++..|+||-..+.... +...|. |+|+||..||..|---.++++||-|+..+..+
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls---CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS---CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeee---cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 345679999999987655 567787 99999999999996336788999999877544
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.38 E-value=9.3e-08 Score=65.75 Aligned_cols=55 Identities=25% Similarity=0.548 Sum_probs=24.8
Q ss_pred cccccccccccc-cCCc-eeecCCCCCCCcccHhHHHHHHhhC--CC-------CccccccccccC
Q 041895 134 EEECAICLKKFE-NIDN-EATSLNCPCQFLYHHECIWRWLREL--RN-------YSCPVCRKNFAH 188 (206)
Q Consensus 134 ~~~C~ICle~~~-~~~~-~~~Lp~~~C~H~FH~~CI~~WL~~~--~~-------~sCPvCR~~l~~ 188 (206)
+.+|.||++.+. .++. ..+-++..|++.||..|+.+||... .+ ..||.|+.++.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 358999999876 3322 2222213499999999999999541 11 259999998754
No 34
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.38 E-value=3.3e-07 Score=57.02 Aligned_cols=40 Identities=20% Similarity=0.705 Sum_probs=22.6
Q ss_pred cccccccccc-CCceeecCCCCCCCcccHhHHHHHHhhC--CCCccc
Q 041895 137 CAICLKKFEN-IDNEATSLNCPCQFLYHHECIWRWLREL--RNYSCP 180 (206)
Q Consensus 137 C~ICle~~~~-~~~~~~Lp~~~C~H~FH~~CI~~WL~~~--~~~sCP 180 (206)
|+||.+ |.. ....++|+ |||+|+.+||.+|+... ..-.||
T Consensus 1 CpIc~e-~~~~~n~P~~L~---CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP---CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S---SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe---CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 755 44568899 99999999999999532 233576
No 35
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.30 E-value=5.4e-07 Score=78.06 Aligned_cols=53 Identities=15% Similarity=0.346 Sum_probs=39.2
Q ss_pred ccccccccccc--ccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 134 EEECAICLKKF--ENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 134 ~~~C~ICle~~--~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
+..||||..+- .+.-.+.+.+ |||.||..||...+. .....||+|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~---CGH~~C~sCv~~l~~-~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV---CGHTLCESCVDLLFV-RGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC---CCCcccHHHHHHHhc-CCCCCCCCCCCccchhh
Confidence 46899999963 3333334446 999999999999663 55678999998876554
No 36
>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=98.21 E-value=1.3e-06 Score=60.48 Aligned_cols=50 Identities=20% Similarity=0.285 Sum_probs=38.0
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCC-CCccccccccccCCCC
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELR-NYSCPVCRKNFAHGTE 191 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~-~~sCPvCR~~l~~~~~ 191 (206)
.-.|+|+.+-|.+ .+.+| +||.|.+.||.+|+ .. +.+||+|+.++...+.
T Consensus 4 ~f~CpIt~~lM~d---PVi~~---~G~tyer~~I~~~l--~~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 4 EFLCPITGELMRD---PVILP---SGHTYERSAIERWL--EQNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGB-TTTSSB-SS---EEEET---TSEEEEHHHHHHHH--CTTSSB-TTT-SB-SGGGS
T ss_pred ccCCcCcCcHhhC---ceeCC---cCCEEcHHHHHHHH--HcCCCCCCCCCCcCCcccc
Confidence 4579999999976 44788 99999999999999 66 8999999998876543
No 37
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=9.8e-07 Score=73.89 Aligned_cols=46 Identities=35% Similarity=0.671 Sum_probs=40.3
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
..+...|+||++.|... ..+| |+|.||..||..|. .....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~---C~H~~c~~C~~~~~--~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLP---CGHNFCRACLTRSW--EGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC---cccc---ccchHhHHHHHHhc--CCCcCCcccCC
Confidence 45677999999999886 6799 99999999999999 56678999993
No 38
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.5e-06 Score=76.61 Aligned_cols=48 Identities=27% Similarity=0.738 Sum_probs=33.6
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCC-CCccccccc
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELR-NYSCPVCRK 184 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~-~~sCPvCR~ 184 (206)
..|.||-+-+.....+... .+|||+||..|+.+|+...- +..||+|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i--~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPI--GTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccc--cchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 4799994444444433333 34999999999999994322 358999983
No 39
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.04 E-value=1.7e-06 Score=75.23 Aligned_cols=50 Identities=22% Similarity=0.578 Sum_probs=43.0
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
..-.|.||.+-|.. .+.+| |+|.||.-||..+| ..+..||.|+.++...+
T Consensus 22 ~lLRC~IC~eyf~i---p~itp---CsHtfCSlCIR~~L--~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 22 DLLRCGICFEYFNI---PMITP---CSHTFCSLCIRKFL--SYKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHHhHHHHHhcC---ceecc---ccchHHHHHHHHHh--ccCCCCCceecccchhh
Confidence 44589999999976 45788 99999999999999 99999999999886543
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.02 E-value=2.6e-06 Score=72.78 Aligned_cols=49 Identities=27% Similarity=0.518 Sum_probs=41.5
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
.-..|-||-+-|... +.++ |||.||.-||...| ..+..||+||.+..+.
T Consensus 24 s~lrC~IC~~~i~ip---~~Tt---CgHtFCslCIR~hL--~~qp~CP~Cr~~~~es 72 (391)
T COG5432 24 SMLRCRICDCRISIP---CETT---CGHTFCSLCIRRHL--GTQPFCPVCREDPCES 72 (391)
T ss_pred hHHHhhhhhheeecc---eecc---cccchhHHHHHHHh--cCCCCCccccccHHhh
Confidence 345899999998763 3577 99999999999999 9999999999976543
No 41
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.98 E-value=2.3e-06 Score=73.25 Aligned_cols=57 Identities=28% Similarity=0.640 Sum_probs=46.9
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh---------------------CCCCccccccccccCC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE---------------------LRNYSCPVCRKNFAHG 189 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~---------------------~~~~sCPvCR~~l~~~ 189 (206)
......|+|||-.|..+..+.+++ |.|.||..|+..+|++ .....||+||..+..+
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T~---C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVTA---CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCCCceEEEEEeecCCCceeeeh---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 345679999999999999999999 9999999999988754 1234699999988655
Q ss_pred C
Q 041895 190 T 190 (206)
Q Consensus 190 ~ 190 (206)
.
T Consensus 189 ~ 189 (368)
T KOG4445|consen 189 E 189 (368)
T ss_pred c
Confidence 4
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.92 E-value=2.1e-06 Score=81.37 Aligned_cols=53 Identities=26% Similarity=0.539 Sum_probs=45.0
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
.....|+||+..+.++......+ |+|+||..||..|- ..-++||+||.++...
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~---c~H~FC~~Ci~sWs--R~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKH---TAHYFCEECVGSWS--RCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccc---cccccHHHHhhhhh--hhcccCchhhhhhhee
Confidence 34568999999998877666666 99999999999999 8999999999987443
No 43
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=6.1e-06 Score=72.27 Aligned_cols=55 Identities=24% Similarity=0.556 Sum_probs=44.6
Q ss_pred cccccccccccccccCCceeecCCCCCCC-cccHhHHHHHHhhCCCCccccccccccCCCCccC
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQF-LYHHECIWRWLRELRNYSCPVCRKNFAHGTEHFA 194 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H-~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~~~ 194 (206)
+...+|.|||.+-.+ ..+|| |-| -.|..|.+... -+++.||+||+++..--+.+.
T Consensus 288 ~~gkeCVIClse~rd---t~vLP---CRHLCLCs~Ca~~Lr--~q~n~CPICRqpi~~ll~i~~ 343 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP---CRHLCLCSGCAKSLR--YQTNNCPICRQPIEELLEIYV 343 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec---chhhehhHhHHHHHH--HhhcCCCccccchHhhheecc
Confidence 557899999998765 67899 999 57999999876 789999999998865544443
No 44
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=5.8e-06 Score=72.95 Aligned_cols=53 Identities=28% Similarity=0.696 Sum_probs=40.7
Q ss_pred cccccccccccccccCC----ceeecCCCCCCCcccHhHHHHHHhhCC-----CCccccccccc
Q 041895 132 EEEEECAICLKKFENID----NEATSLNCPCQFLYHHECIWRWLRELR-----NYSCPVCRKNF 186 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~----~~~~Lp~~~C~H~FH~~CI~~WL~~~~-----~~sCPvCR~~l 186 (206)
..+.+|.|||+...... ...++|+ |.|.||..||.+|-...+ .++||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpn--C~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPN--CNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCC--cchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 34679999999986533 1345576 999999999999984333 57899999854
No 45
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=9.1e-06 Score=72.23 Aligned_cols=50 Identities=26% Similarity=0.751 Sum_probs=38.5
Q ss_pred ccccccccccccccC-C-ceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccc
Q 041895 133 EEEECAICLKKFENI-D-NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKN 185 (206)
Q Consensus 133 ~~~~C~ICle~~~~~-~-~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~ 185 (206)
...+|+|||+.+.-. + .+..+. |||.|..+||++||.....+.||.|..+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~---cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQ---CGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred ccccCceeeeeeeecCceEEeeec---ccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 346899999998743 3 344454 9999999999999954556689999653
No 46
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=3.1e-06 Score=73.98 Aligned_cols=55 Identities=31% Similarity=0.734 Sum_probs=43.6
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCc
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~ 192 (206)
..+..|+|||+-+... +..+. |.|.||.+||..-+. ..+++||.||+.+.+.-+.
T Consensus 41 ~~~v~c~icl~llk~t---mttke--Clhrfc~~ci~~a~r-~gn~ecptcRk~l~SkrsL 95 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKE--CLHRFCFDCIWKALR-SGNNECPTCRKKLVSKRSL 95 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHH--HHHHHHHHHHHHHHH-hcCCCCchHHhhccccccC
Confidence 3456899999988662 23444 999999999999886 7899999999988766543
No 47
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=8.1e-06 Score=70.02 Aligned_cols=50 Identities=22% Similarity=0.422 Sum_probs=40.1
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
...+|+||++..... +.|+ |+|.||.-||..-.. ....+|++||.++.+.
T Consensus 6 ~~~eC~IC~nt~n~P---v~l~---C~HkFCyiCiKGsy~-ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNLY---CFHKFCYICIKGSYK-NDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccCCcC---cccc---ccchhhhhhhcchhh-cCCCCCceecCCCCcc
Confidence 456999999987654 5788 999999999987552 4456799999998654
No 48
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.78 E-value=5.6e-06 Score=55.49 Aligned_cols=50 Identities=22% Similarity=0.529 Sum_probs=25.1
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCC
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTE 191 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~ 191 (206)
+.-.|++|.+-+.. ++.... |.|+|+..||..-+ ..-||+|..+.-.+|.
T Consensus 6 ~lLrCs~C~~~l~~--pv~l~~---CeH~fCs~Ci~~~~----~~~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 6 ELLRCSICFDILKE--PVCLGG---CEHIFCSSCIRDCI----GSECPVCHTPAWIQDI 55 (65)
T ss_dssp HTTS-SSS-S--SS---B---S---SS--B-TTTGGGGT----TTB-SSS--B-S-SS-
T ss_pred HhcCCcHHHHHhcC--Cceecc---CccHHHHHHhHHhc----CCCCCCcCChHHHHHH
Confidence 44589999999865 343444 99999999998866 3459999988766653
No 49
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.63 E-value=3.7e-05 Score=50.70 Aligned_cols=45 Identities=24% Similarity=0.557 Sum_probs=30.2
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccc
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPV 181 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPv 181 (206)
.-...|+|.+..|.+ +++... |+|+|-++.|.+||.......||+
T Consensus 9 ~~~~~CPiT~~~~~~--PV~s~~---C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFED--PVKSKK---CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SS--EEEESS---S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhC--CcCcCC---CCCeecHHHHHHHHHhcCCCCCCC
Confidence 345689999999976 566666 999999999999994455667998
No 50
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.58 E-value=4.6e-05 Score=48.23 Aligned_cols=44 Identities=39% Similarity=0.881 Sum_probs=29.9
Q ss_pred ccccccccccCCceeecCCCCCCC---cccHhHHHHHHhhCCCCccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQF---LYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H---~FH~~CI~~WL~~~~~~sCPvC 182 (206)
|-||+++-..+. ..+.| +.|.- ..|..|+.+|+....+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999977666 44567 23444 8899999999976677889988
No 51
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.56 E-value=2.5e-05 Score=50.54 Aligned_cols=47 Identities=23% Similarity=0.562 Sum_probs=34.6
Q ss_pred ccccccccccccCCceeecCCCCCCCc-ccHhHHHHHHhhCCCCccccccccccC
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFL-YHHECIWRWLRELRNYSCPVCRKNFAH 188 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~-FH~~CI~~WL~~~~~~sCPvCR~~l~~ 188 (206)
++|.||++.-.+ .+ .-. |||. .+..|-.+-.. ..+..||+||+++..
T Consensus 8 dECTICye~pvd--sV-lYt---CGHMCmCy~Cg~rl~~-~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHPVD--SV-LYT---CGHMCMCYACGLRLKK-ALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCcch--HH-HHH---cchHHhHHHHHHHHHH-ccCCcCcchhhHHHH
Confidence 799999997654 22 344 9994 67788665442 588999999998743
No 52
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=3.4e-05 Score=73.32 Aligned_cols=52 Identities=21% Similarity=0.667 Sum_probs=41.7
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~ 192 (206)
--.|++|-..+.+ .+.. + |+|+||..||..-+. -+...||.|-..|.+.|..
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~-k--C~H~FC~~Cvq~r~e-tRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVIT-K--CGHVFCEECVQTRYE-TRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred ceeCCCccCchhh---HHHH-h--cchHHHHHHHHHHHH-HhcCCCCCCCCCCCccccc
Confidence 4689999977654 3344 4 999999999999885 5678899999999877643
No 53
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.46 E-value=0.00011 Score=57.89 Aligned_cols=54 Identities=26% Similarity=0.716 Sum_probs=41.3
Q ss_pred ccccccccccccccccCCceeecCCCCCCC---cccHhHHHHHHhhCCCCccccccccccCC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQF---LYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H---~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
+..+..|-||.++-.+ . .-| |.|.. .-|.+|+..|+...++.+|++|..++...
T Consensus 5 s~~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 5667899999988532 1 246 34555 66999999999777788999999988655
No 54
>PHA02862 5L protein; Provisional
Probab=97.38 E-value=0.00014 Score=56.21 Aligned_cols=51 Identities=20% Similarity=0.638 Sum_probs=39.1
Q ss_pred cccccccccccccCCceeecCCCCC---CCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 134 EEECAICLKKFENIDNEATSLNCPC---QFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C---~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
.+.|-||.++-.++ .-| |.| ...-|.+|+.+|++..++.+|++|+.++..+
T Consensus 2 ~diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 36899999985332 255 224 2688999999999877888999999988654
No 55
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.35 E-value=8.8e-05 Score=66.04 Aligned_cols=50 Identities=24% Similarity=0.573 Sum_probs=41.2
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
+.|-||-+. +..+.+-| |||..|..|+..|-.....++||.||.++....
T Consensus 370 eLCKICaen---dKdvkIEP---CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEP---CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhcc---CCCccccc---ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 579999875 44577788 999999999999985455789999999886554
No 56
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.32 E-value=8.2e-05 Score=66.04 Aligned_cols=50 Identities=28% Similarity=0.588 Sum_probs=40.8
Q ss_pred ccccccccccccccc-CCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 132 EEEEECAICLKKFEN-IDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 132 ~~~~~C~ICle~~~~-~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
+-+--|..|=+.+-. ++.+.-|| |.|+||..|+.+.|......+||.||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALp---CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALP---CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccc---hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 345679999888753 34577789 999999999999996667789999994
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.21 E-value=0.00017 Score=65.06 Aligned_cols=56 Identities=25% Similarity=0.571 Sum_probs=45.1
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCcc
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEHF 193 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~~ 193 (206)
..++..|+||+..+.+.-. .+. |||.||..|+..|+ ..+..||.|+..+.......
T Consensus 18 ~~~~l~C~~C~~vl~~p~~--~~~---cgh~fC~~C~~~~~--~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQ--TTT---CGHRFCAGCLLESL--SNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred CcccccCccccccccCCCC--CCC---CCCcccccccchhh--ccCcCCcccccccchhhccC
Confidence 3566799999999977542 246 99999999999999 77999999998876555444
No 58
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.14 E-value=0.00013 Score=57.59 Aligned_cols=32 Identities=34% Similarity=0.708 Sum_probs=28.9
Q ss_pred cccccccccccccccccCCceeecCCCCCCCcccH
Q 041895 130 EEEEEEECAICLKKFENIDNEATSLNCPCQFLYHH 164 (206)
Q Consensus 130 ~~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~ 164 (206)
......+|.||||++..++.+..|| |-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARLP---CLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARLP---CLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceeccc---eEEEeec
Confidence 3456679999999999999999999 9999997
No 59
>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=97.12 E-value=0.00018 Score=55.17 Aligned_cols=35 Identities=26% Similarity=0.565 Sum_probs=30.2
Q ss_pred cccccccccccccCCceeecCCCCCC------CcccHhHHHHHH
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQ------FLYHHECIWRWL 171 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~------H~FH~~CI~~WL 171 (206)
..+|.||++.+....-++.++ || |+||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt---~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT---DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe---cCCeehHHHHHHHHHHHHHH
Confidence 579999999999855577777 77 999999999995
No 60
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.96 E-value=0.0005 Score=69.44 Aligned_cols=55 Identities=24% Similarity=0.628 Sum_probs=43.1
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh---CC-----CCccccccccccC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE---LR-----NYSCPVCRKNFAH 188 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~---~~-----~~sCPvCR~~l~~ 188 (206)
.+.++.|.||+-+-....+.+.|. |+|+||..|...-|.+ .- =.+||+|+.++..
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~---C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD---CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC---CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 456789999998877777788998 9999999999986621 11 1379999998754
No 61
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.004 Score=54.90 Aligned_cols=50 Identities=22% Similarity=0.457 Sum_probs=42.3
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAH 188 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~ 188 (206)
+.++..|+||... +...+..| |+|.=|..||.+.+ .+.+.|=.|+..+..
T Consensus 419 ~sEd~lCpICyA~---pi~Avf~P---C~H~SC~~CI~qHl--mN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAG---PINAVFAP---CSHRSCYGCITQHL--MNCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceecc---cchhhccC---CCCchHHHHHHHHH--hcCCeeeEecceeee
Confidence 3567899999865 34467788 99999999999999 999999999987763
No 62
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00055 Score=61.73 Aligned_cols=49 Identities=27% Similarity=0.625 Sum_probs=41.9
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccC
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAH 188 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~ 188 (206)
..+-+|.||+..+... +++| |||.||..||.+=+ ..+..||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp---cghs~c~~Cl~r~l--d~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP---CGHSFCLECLDRSL--DQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc---ccccccHHHHHHHh--ccCCCCccccccccc
Confidence 4567999999888763 3678 99999999999977 788899999999875
No 63
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.83 E-value=0.00077 Score=55.95 Aligned_cols=69 Identities=20% Similarity=0.476 Sum_probs=49.3
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhC------CCCcccccccccc-CCCCccCCCchhhhcc
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLREL------RNYSCPVCRKNFA-HGTEHFARSPCRRRKL 203 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~------~~~sCPvCR~~l~-~~~~~~~~~~~~r~~~ 203 (206)
++....|..|--.+..++.+ .|- |-|+||++|+.+|.... ....||-|-.++. +-.....-...-|+.|
T Consensus 47 sDY~pNC~LC~t~La~gdt~-RLv---CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L 122 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTT-RLV---CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQL 122 (299)
T ss_pred cCCCCCCceeCCccccCcce-eeh---hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHH
Confidence 45667999999999999854 565 99999999999998431 2346999998874 4444444444444433
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.77 E-value=0.0013 Score=41.69 Aligned_cols=47 Identities=26% Similarity=0.664 Sum_probs=23.3
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
|++|.+++...+ .-..| +.||+..+..|...-+. ..+..||-||.+.
T Consensus 1 cp~C~e~~d~~d-~~~~P-C~Cgf~IC~~C~~~i~~-~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYP-CECGFQICRFCYHDILE-NEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--S-STTS----HHHHHHHTT-SS-SB-TTT--B-
T ss_pred CCCcccccccCC-Ccccc-CcCCCcHHHHHHHHHHh-ccCCCCCCCCCCC
Confidence 789999994433 22344 55999999999888762 3588999999875
No 65
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.0016 Score=55.47 Aligned_cols=56 Identities=20% Similarity=0.401 Sum_probs=42.0
Q ss_pred hcccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 129 EEEEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 129 ~~~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
.....+.+|++|-+.-.. +....+ |+|+||.-||..=+......+||.|-.++.+-
T Consensus 234 s~~t~~~~C~~Cg~~Pti--P~~~~~---C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTI--PHVIGK---CGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred ccccCCceeeccCCCCCC--Ceeecc---ccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 335567899999988655 334466 99999999999876323457899998887644
No 66
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.64 E-value=0.0017 Score=54.52 Aligned_cols=54 Identities=15% Similarity=0.236 Sum_probs=48.2
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
....|+||.+.+.+.....+|.. |||+|..+|+++.+ .....||+|-.++...|
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~--sg~Vv~~ecvEkli--r~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRP--SGHVVTKECVEKLI--RKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEecc--CCcEeeHHHHHHhc--cccccccCCCCcCcccc
Confidence 45789999999999888877866 99999999999999 99999999999887665
No 67
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.59 E-value=0.0013 Score=63.43 Aligned_cols=54 Identities=24% Similarity=0.693 Sum_probs=40.1
Q ss_pred cccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCC-----CCcccccccc
Q 041895 130 EEEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELR-----NYSCPVCRKN 185 (206)
Q Consensus 130 ~~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~-----~~sCPvCR~~ 185 (206)
......+|.||.+.+...+.+..-.. |-|+||..||..|..... .-.||-|...
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WSC~s--CYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWSCKS--CYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred HhcCceEEEEeeeeccccCCceecch--hhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 35567899999999988776544444 889999999999984311 1259999843
No 68
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.58 E-value=0.00051 Score=59.79 Aligned_cols=52 Identities=17% Similarity=0.444 Sum_probs=42.5
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
.....+|.+|-.-|.+... +.- |-|.||+.||.+.| ..+..||.|...+...
T Consensus 12 ~n~~itC~LC~GYliDATT--I~e---CLHTFCkSCivk~l--~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATT--ITE---CLHTFCKSCIVKYL--EESKYCPTCDIVIHKT 63 (331)
T ss_pred cccceehhhccceeecchh--HHH---HHHHHHHHHHHHHH--HHhccCCccceeccCc
Confidence 4566799999998877553 355 99999999999999 7799999998876443
No 69
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.51 E-value=0.0012 Score=60.87 Aligned_cols=57 Identities=25% Similarity=0.543 Sum_probs=43.4
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh---CCCCccccccccccCCCCcc
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE---LRNYSCPVCRKNFAHGTEHF 193 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~---~~~~sCPvCR~~l~~~~~~~ 193 (206)
..++..|.+|-++-++ .+... |.|.||+-||.+++.. ..+-+||+|-..+..+....
T Consensus 533 nk~~~~C~lc~d~aed---~i~s~---ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ 592 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAED---YIESS---CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEP 592 (791)
T ss_pred ccCceeecccCChhhh---hHhhh---hhHHHHHHHHHHHHHhhhcccCCCCccccccccccccch
Confidence 4567899999987544 34565 9999999999988743 34678999998887665443
No 70
>PHA03096 p28-like protein; Provisional
Probab=96.36 E-value=0.0019 Score=55.86 Aligned_cols=50 Identities=16% Similarity=0.268 Sum_probs=34.8
Q ss_pred ccccccccccccC----CceeecCCCCCCCcccHhHHHHHHhhC-CCC---ccccccccc
Q 041895 135 EECAICLKKFENI----DNEATSLNCPCQFLYHHECIWRWLREL-RNY---SCPVCRKNF 186 (206)
Q Consensus 135 ~~C~ICle~~~~~----~~~~~Lp~~~C~H~FH~~CI~~WL~~~-~~~---sCPvCR~~l 186 (206)
..|.|||+..... ..-..|+. |.|.|+..||..|.... ... .||.|+.-+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~--c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSE--IKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhcccccccccccc--CCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 6899999987642 23455777 99999999999999532 123 355555433
No 71
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.35 E-value=0.0015 Score=47.55 Aligned_cols=34 Identities=26% Similarity=0.481 Sum_probs=28.8
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHH
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIW 168 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~ 168 (206)
-.++..|+||-..+.. ....+.| |||+||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p---~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFP---CGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeC---CCeEEeccccc
Confidence 3456789999999977 4588889 99999999974
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.09 E-value=0.006 Score=53.74 Aligned_cols=55 Identities=25% Similarity=0.526 Sum_probs=42.7
Q ss_pred hhhcccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 127 EEEEEEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 127 ~~~~~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
.++.+++...|.||-+.+.- ..++| |+|..|.-|....-.=...+.||+||.++.
T Consensus 54 addtDEen~~C~ICA~~~TY---s~~~P---C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 54 ADDTDEENMNCQICAGSTTY---SARYP---CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccccceeEEecCCceE---EEecc---CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 34456778899999988654 56899 999999999876421167889999999764
No 73
>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=96.04 E-value=0.0039 Score=38.62 Aligned_cols=43 Identities=23% Similarity=0.620 Sum_probs=23.3
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
|.+|-+-...|..-.... |+=.+|..|+..++.+..+..||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~---C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD---CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS-----S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc---cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 667777776665322223 8889999999999954444479988
No 74
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.99 E-value=0.0052 Score=59.25 Aligned_cols=66 Identities=21% Similarity=0.469 Sum_probs=52.2
Q ss_pred cccccccccccccccCCceeecCCCCCC---CcccHhHHHHHHhhCCCCccccccccccCCCCccCCCchh
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQ---FLYHHECIWRWLRELRNYSCPVCRKNFAHGTEHFARSPCR 199 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~---H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~~~~~~~~ 199 (206)
++...|-||..+=..++++. -| |+|. ...|.+|+.+|+.......|-+|..++..++-..+..|+.
T Consensus 10 ~d~~~CRICr~e~~~d~pLf-hP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~mP~~ 78 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLF-HP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKEDMPQI 78 (1175)
T ss_pred ccchhceeecCCCCCCCcCc-cc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecccCCCcc
Confidence 45579999999877777653 33 4465 5789999999997777888999999999998877776653
No 75
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.98 E-value=0.0044 Score=53.56 Aligned_cols=50 Identities=26% Similarity=0.549 Sum_probs=37.8
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccc-cccccCCC
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVC-RKNFAHGT 190 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC-R~~l~~~~ 190 (206)
-.|+.|-.-+.+. +.+|. |+|.||..||..-|. .....||+| |+++.-+.
T Consensus 275 LkCplc~~Llrnp---~kT~c--C~~~fc~eci~~al~-dsDf~CpnC~rkdvlld~ 325 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPC--CGHTFCDECIGTALL-DSDFKCPNCSRKDVLLDG 325 (427)
T ss_pred ccCcchhhhhhCc---ccCcc--ccchHHHHHHhhhhh-hccccCCCcccccchhhc
Confidence 5899998877653 35666 999999999998874 667789999 44554443
No 76
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.80 E-value=0.0067 Score=53.53 Aligned_cols=45 Identities=22% Similarity=0.549 Sum_probs=33.3
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
.-.+.|.||+++..+ ..-+| |||+-+ |+.-- +...+||+||..+.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvp---cGh~cc--ct~cs---~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVP---CGHVCC--CTLCS---KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccc---eeeec---CCcEEE--chHHH---hhCCCCchhHHHHH
Confidence 345799999998766 66899 999866 65542 34456999998764
No 77
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.75 E-value=0.0041 Score=50.78 Aligned_cols=44 Identities=27% Similarity=0.537 Sum_probs=37.0
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
-.|.||-.+|..+ +++. |||.||..|...-. .....|-+|-+..
T Consensus 197 F~C~iCKkdy~sp---vvt~---CGH~FC~~Cai~~y--~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESP---VVTE---CGHSFCSLCAIRKY--QKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccch---hhhh---cchhHHHHHHHHHh--ccCCcceecchhh
Confidence 4899999999763 3566 99999999999888 8888999997654
No 78
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.62 E-value=0.0071 Score=54.26 Aligned_cols=38 Identities=13% Similarity=0.396 Sum_probs=32.7
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHh
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLR 172 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~ 172 (206)
.....|.||+++..-..-...+| |+|+||+.|...++.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp---C~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP---CSHVFCKSCLKDYFT 219 (445)
T ss_pred hhcccceeeehhhcCcceeeecc---cchHHHHHHHHHHHH
Confidence 34579999999987657788899 999999999999984
No 79
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.61 E-value=0.00077 Score=59.88 Aligned_cols=53 Identities=23% Similarity=0.587 Sum_probs=43.6
Q ss_pred ccccccccccccccC-CceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 133 EEEECAICLKKFENI-DNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 133 ~~~~C~ICle~~~~~-~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
-...|+||.+.+... +.+-.+- |||.+|..||.+|| .....||.|+++++-..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~---~g~~~~~~kL~k~L--~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV---CGHIYHHGKLSKWL--ATKRKLPSCRRELPKNG 248 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh---hcccchhhHHHHHH--HHHHHhHHHHhhhhhhh
Confidence 456899999999875 4444455 99999999999999 77889999999886544
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.60 E-value=0.022 Score=48.54 Aligned_cols=54 Identities=20% Similarity=0.421 Sum_probs=42.1
Q ss_pred ccccccccccccccccCCceeec-CCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 131 EEEEEECAICLKKFENIDNEATS-LNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~L-p~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
......|||...+|......+.+ | |||+|-..+|.+- .....||+|-.++...|
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~---cG~V~s~~alke~---k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRP---CGCVFSEKALKEL---KKSKKCPVCGKPFTEED 164 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcC---CCCEeeHHHHHhh---cccccccccCCccccCC
Confidence 45667999999999655555444 6 9999999999983 23567999999987665
No 81
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.44 E-value=0.0067 Score=50.83 Aligned_cols=48 Identities=19% Similarity=0.454 Sum_probs=34.3
Q ss_pred cccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCC
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTE 191 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~ 191 (206)
-|-.|.---. +.....+. |+|+||..|... .....||+|++.+....-
T Consensus 5 hCn~C~~~~~-~~~f~LTa---C~HvfC~~C~k~----~~~~~C~lCkk~ir~i~l 52 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA---CRHVFCEPCLKA----SSPDVCPLCKKSIRIIQL 52 (233)
T ss_pred EeccccccCC-CCceeeee---chhhhhhhhccc----CCccccccccceeeeeec
Confidence 4665655444 66676776 999999999765 334599999998765543
No 82
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.18 E-value=0.0087 Score=51.54 Aligned_cols=42 Identities=26% Similarity=0.583 Sum_probs=31.9
Q ss_pred cccccccccccccCCceeecCCCCCCC-cccHhHHHHHHhhCCCCcccccccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQF-LYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H-~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
...|.|||+...+ .+-|+ ||| +-|..|-.. -+.||+||+.+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLe---CGHmVtCt~CGkr------m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE---CGHMVTCTKCGKR------MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEee---cCcEEeehhhccc------cccCchHHHHHH
Confidence 6789999987543 67898 999 557788533 348999998663
No 83
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.13 E-value=0.008 Score=51.77 Aligned_cols=45 Identities=22% Similarity=0.475 Sum_probs=37.9
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..|-||...|..+ ++.. |+|.||..|...-+ .....|++|-+...
T Consensus 242 f~c~icr~~f~~p---Vvt~---c~h~fc~~ca~~~~--qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTK---CGHYFCEVCALKPY--QKGEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccc---hhhc---CCceeehhhhcccc--ccCCcceecccccc
Confidence 4699999999873 3565 99999999999888 88889999987664
No 84
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.83 E-value=0.012 Score=56.62 Aligned_cols=49 Identities=24% Similarity=0.594 Sum_probs=39.4
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
..|.||++ .+.....+ |+|.||..|+.+-+.......||+||..+..++
T Consensus 455 ~~c~ic~~----~~~~~it~---c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR---CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc----cccceeec---ccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 79999999 33456777 999999999999885455567999999776554
No 85
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.80 E-value=0.027 Score=49.26 Aligned_cols=51 Identities=24% Similarity=0.508 Sum_probs=38.8
Q ss_pred hcccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 129 EEEEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 129 ~~~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
........|+||+....++. + ... =|-+||..||-+++ ...+.||+=-.+.
T Consensus 295 ~l~~~~~~CpvClk~r~Npt-v-l~v---SGyVfCY~Ci~~Yv--~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 295 LLPPDREVCPVCLKKRQNPT-V-LEV---SGYVFCYPCIFSYV--VNYGHCPVTGYPA 345 (357)
T ss_pred cCCCccccChhHHhccCCCc-e-EEe---cceEEeHHHHHHHH--HhcCCCCccCCcc
Confidence 33456679999999987755 2 122 58999999999999 8999999854444
No 86
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.76 E-value=0.021 Score=45.92 Aligned_cols=57 Identities=28% Similarity=0.553 Sum_probs=33.8
Q ss_pred ccccccccccccccCCceeec-CCCCCCCcccHhHHHHHHhhC---CC------CccccccccccCC
Q 041895 133 EEEECAICLKKFENIDNEATS-LNCPCQFLYHHECIWRWLREL---RN------YSCPVCRKNFAHG 189 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~L-p~~~C~H~FH~~CI~~WL~~~---~~------~sCPvCR~~l~~~ 189 (206)
+...|.||..--.+|...-.+ .+..||.-||.-|+..||... ++ ..||.|..++.-+
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 445666665433332210000 012499999999999999541 11 2599999887543
No 87
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.65 E-value=0.023 Score=49.01 Aligned_cols=48 Identities=25% Similarity=0.576 Sum_probs=38.3
Q ss_pred ccccccccccccCCc---eeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 135 EECAICLKKFENIDN---EATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 135 ~~C~ICle~~~~~~~---~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
.+|-||-++|+.++. .+.|. |||.|+..|+.+-+. .....||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~---c~h~~c~~c~~~l~~-~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK---CGHTICQNCASKLLG-NSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc---cCceehHhHHHHHhc-CceeeccCCCCcc
Confidence 579999999987732 34454 999999999998774 4556799999985
No 88
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.52 E-value=0.027 Score=49.58 Aligned_cols=59 Identities=22% Similarity=0.552 Sum_probs=38.8
Q ss_pred ccccccccccccccccCCc-eeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCcc
Q 041895 131 EEEEEECAICLKKFENIDN-EATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEHF 193 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~-~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~~ 193 (206)
+++++-|+.|+++++..+. ..-.| ||-..|.-|-..-- +.-+..||-||+....+...+
T Consensus 11 edeed~cplcie~mditdknf~pc~---cgy~ic~fc~~~ir-q~lngrcpacrr~y~denv~~ 70 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCP---CGYQICQFCYNNIR-QNLNGRCPACRRKYDDENVRY 70 (480)
T ss_pred ccccccCcccccccccccCCcccCC---cccHHHHHHHHHHH-hhccCCChHhhhhccccceeE
Confidence 4456679999999987553 33344 99766666644322 144789999999776655433
No 89
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.36 E-value=0.024 Score=36.89 Aligned_cols=48 Identities=23% Similarity=0.461 Sum_probs=35.0
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCC
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTE 191 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~ 191 (206)
...|..|... +....++| |||+.+..|..- ++-+-||+|-+++...+.
T Consensus 7 ~~~~~~~~~~---~~~~~~~p---CgH~I~~~~f~~----~rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 7 EQPCVFCGFV---GTKGTVLP---CGHLICDNCFPG----ERYNGCPFCGTPFEFDDP 54 (55)
T ss_pred ceeEEEcccc---cccccccc---ccceeeccccCh----hhccCCCCCCCcccCCCC
Confidence 3456665544 33456788 999999999765 457889999998877653
No 90
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.33 E-value=0.021 Score=55.50 Aligned_cols=43 Identities=23% Similarity=0.604 Sum_probs=34.4
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..|.+|--.++. +.+.-- |||.||..|+. .....||-|+.+..
T Consensus 841 skCs~C~~~Ldl--P~VhF~---CgHsyHqhC~e-----~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTLDL--PFVHFL---CGHSYHQHCLE-----DKEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCcccc--ceeeee---cccHHHHHhhc-----cCcccCCccchhhh
Confidence 599999988866 456676 99999999975 44678999988543
No 91
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.23 E-value=0.033 Score=54.35 Aligned_cols=37 Identities=19% Similarity=0.423 Sum_probs=31.2
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHH
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWL 171 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL 171 (206)
.+..+.|.||...+... +..+-| |||.||.+||.+-.
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~---CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFP---CGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC-cceeee---ccchHHHHHHHHHH
Confidence 45778999999998654 578899 99999999998754
No 92
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=93.70 E-value=0.056 Score=48.21 Aligned_cols=60 Identities=25% Similarity=0.624 Sum_probs=38.8
Q ss_pred ccccccccccccccccCC-------------ceeecCC---CCCCCcccHhHHHHHHhhC-----------CCCcccccc
Q 041895 131 EEEEEECAICLKKFENID-------------NEATSLN---CPCQFLYHHECIWRWLREL-----------RNYSCPVCR 183 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~-------------~~~~Lp~---~~C~H~FH~~CI~~WL~~~-----------~~~sCPvCR 183 (206)
..+.+.|.-|+..-.+-. .....+. |-|.-.+|.+|+.+|+... ++..||+||
T Consensus 268 ~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCR 347 (358)
T PF10272_consen 268 GQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCR 347 (358)
T ss_pred ccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCc
Confidence 456778988998653211 0001111 4577889999999999532 234699999
Q ss_pred ccccCCC
Q 041895 184 KNFAHGT 190 (206)
Q Consensus 184 ~~l~~~~ 190 (206)
+.+.--|
T Consensus 348 a~FCilD 354 (358)
T PF10272_consen 348 AKFCILD 354 (358)
T ss_pred ccceeee
Confidence 9886554
No 93
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.64 E-value=0.024 Score=53.54 Aligned_cols=42 Identities=26% Similarity=0.491 Sum_probs=32.9
Q ss_pred ccccccccccccCCc-eeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 135 EECAICLKKFENIDN-EATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 135 ~~C~ICle~~~~~~~-~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
-.|.||+..|..... .+.+- |||..|+.|+..-. +.+|| |+.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~---cghtic~~c~~~ly----n~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQ---CGHTICGHCVQLLY----NASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCccccc---ccchHHHHHHHhHh----hccCC-CCc
Confidence 479999999987653 33454 99999999998855 88999 644
No 94
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.44 E-value=0.049 Score=46.87 Aligned_cols=45 Identities=24% Similarity=0.589 Sum_probs=37.3
Q ss_pred ccccccccccccCCc-eeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 135 EECAICLKKFENIDN-EATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 135 ~~C~ICle~~~~~~~-~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
..|+||.+.+..... +..++ |||.-|..|..... ..+.+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~---CgH~~h~~cf~e~~--~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLK---CGHYMHSRCFEEMI--CEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccC---cccchHHHHHHHHh--ccCCCCCcccc
Confidence 349999999877653 44566 99999999999998 66699999987
No 95
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.41 E-value=0.044 Score=47.23 Aligned_cols=55 Identities=25% Similarity=0.632 Sum_probs=40.5
Q ss_pred cccccccccccccCCc-eeecCCCCCC---CcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 134 EEECAICLKKFENIDN-EATSLNCPCQ---FLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~-~~~Lp~~~C~---H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
+..|-||.++...... ....| |.|. +..|..|+..|+..+.+..|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4689999998764322 34566 3344 678999999999655788999998866544
No 96
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=92.83 E-value=0.12 Score=33.52 Aligned_cols=33 Identities=33% Similarity=0.717 Sum_probs=29.1
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHH
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECI 167 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI 167 (206)
....|++|-+.|.+++.+++-|. ||-.+|++|-
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~--CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPE--CGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCC--CCCcccHHHH
Confidence 45689999999998888888887 9999999995
No 97
>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=92.80 E-value=0.11 Score=41.04 Aligned_cols=37 Identities=24% Similarity=0.588 Sum_probs=22.9
Q ss_pred ccccccccccccccCCceeecC-C--------CCCCC-cccHhHHHHHHh
Q 041895 133 EEEECAICLKKFENIDNEATSL-N--------CPCQF-LYHHECIWRWLR 172 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp-~--------~~C~H-~FH~~CI~~WL~ 172 (206)
++..|+|||+--.+ .+.|- . -.|+- .=|..|++++-.
T Consensus 1 ed~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 35689999997654 22332 0 12542 457899999763
No 98
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.28 E-value=0.07 Score=46.12 Aligned_cols=37 Identities=32% Similarity=0.732 Sum_probs=28.0
Q ss_pred CCCCCcccHhHHHHHHhh-----------CCCCccccccccccCCCCc
Q 041895 156 CPCQFLYHHECIWRWLRE-----------LRNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 156 ~~C~H~FH~~CI~~WL~~-----------~~~~sCPvCR~~l~~~~~~ 192 (206)
|-|.-.+|.+|+.+|+-. +++.+||+||+.+.--|..
T Consensus 323 c~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~ 370 (381)
T KOG3899|consen 323 CICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH 370 (381)
T ss_pred cccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence 347788999999999843 3455899999988765543
No 99
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.89 E-value=0.14 Score=49.49 Aligned_cols=23 Identities=26% Similarity=0.813 Sum_probs=21.1
Q ss_pred CCCCcccHhHHHHHHhhCCCCcccc
Q 041895 157 PCQFLYHHECIWRWLRELRNYSCPV 181 (206)
Q Consensus 157 ~C~H~FH~~CI~~WL~~~~~~sCPv 181 (206)
.|+|+-|.+|..+|+ ....+||.
T Consensus 1047 ~C~Hv~H~sc~~eWf--~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWF--RTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHH--hcCCcCCC
Confidence 399999999999999 88889986
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=90.83 E-value=0.062 Score=54.42 Aligned_cols=46 Identities=26% Similarity=0.546 Sum_probs=38.0
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
...|.||++.+..-. .+.. |||.++..|+..|+ ..+..||+|+...
T Consensus 1153 ~~~c~ic~dil~~~~--~I~~---cgh~~c~~c~~~~l--~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG--GIAG---CGHEPCCRCDELWL--YASSRCPICKSIK 1198 (1394)
T ss_pred ccchHHHHHHHHhcC--Ceee---echhHhhhHHHHHH--HHhccCcchhhhh
Confidence 458999999987422 2455 99999999999999 9999999998533
No 101
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.56 E-value=0.13 Score=44.88 Aligned_cols=44 Identities=18% Similarity=0.409 Sum_probs=31.6
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
..-|.-|=-.+.. -.+..| |.|+||.+|... ...+.||.|-..|
T Consensus 90 VHfCd~Cd~PI~I--YGRmIP---CkHvFCl~CAr~----~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 90 VHFCDRCDFPIAI--YGRMIP---CKHVFCLECARS----DSDKICPLCDDRV 133 (389)
T ss_pred eEeecccCCccee--eecccc---cchhhhhhhhhc----CccccCcCcccHH
Confidence 4456666555544 345678 999999999754 5577999996654
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=90.37 E-value=0.16 Score=32.09 Aligned_cols=30 Identities=27% Similarity=0.637 Sum_probs=21.8
Q ss_pred CC-CcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 158 CQ-FLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 158 C~-H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
|. |..+..|+...| ..+..||+|..+++..
T Consensus 18 C~dHYLCl~CLt~ml--~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 18 CSDHYLCLNCLTLML--SRSDRCPICGKPLPTK 48 (50)
T ss_dssp -SS-EEEHHHHHHT---SSSSEETTTTEE----
T ss_pred ecchhHHHHHHHHHh--ccccCCCcccCcCccc
Confidence 75 999999999999 9999999999998753
No 103
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.86 E-value=0.15 Score=43.36 Aligned_cols=56 Identities=30% Similarity=0.692 Sum_probs=37.3
Q ss_pred ccccccccccccccccCCce-eecCCCCCC---CcccHhHHHHHHhhCCC------Ccccccccccc
Q 041895 131 EEEEEECAICLKKFENIDNE-ATSLNCPCQ---FLYHHECIWRWLRELRN------YSCPVCRKNFA 187 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~-~~Lp~~~C~---H~FH~~CI~~WL~~~~~------~sCPvCR~~l~ 187 (206)
.+.+.-|=||+..=++.... -+-| |-|. |=.|..|+..|+.+++. -+||-|+.+..
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 34566888999875543322 3445 2242 78999999999964322 36999998753
No 104
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.37 E-value=0.14 Score=46.14 Aligned_cols=38 Identities=24% Similarity=0.518 Sum_probs=28.2
Q ss_pred cccccccccc-cccccCCceeecCCCCCCCcccHhHHHHHHh
Q 041895 132 EEEEECAICL-KKFENIDNEATSLNCPCQFLYHHECIWRWLR 172 (206)
Q Consensus 132 ~~~~~C~ICl-e~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~ 172 (206)
....+|.||+ +....+....+.- |+|.||.+|+.+.+.
T Consensus 144 ~~~~~C~iC~~e~~~~~~~f~~~~---C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 144 LPKEECGICFVEDPEAEDMFSVLK---CGHRFCKDCVKQHIE 182 (384)
T ss_pred cccccCccCccccccHhhhHHHhc---ccchhhhHHhHHHhh
Confidence 3567999999 4444434444444 999999999999983
No 105
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=89.28 E-value=0.23 Score=43.34 Aligned_cols=45 Identities=20% Similarity=0.479 Sum_probs=35.1
Q ss_pred ccccccccccccccccCCceeecCCCCC--CCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPC--QFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C--~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..+..+|+||.+.+..+. .. | ||+-|..|-. +..+.||.||.++.
T Consensus 45 ~~~lleCPvC~~~l~~Pi----~Q---C~nGHlaCssC~~-----~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPI----FQ---CDNGHLACSSCRT-----KVSNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCcccc----ee---cCCCcEehhhhhh-----hhcccCCccccccc
Confidence 445679999999998754 44 6 6888888854 44678999999886
No 106
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.98 E-value=0.25 Score=46.54 Aligned_cols=52 Identities=25% Similarity=0.673 Sum_probs=42.7
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCccC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEHFA 194 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~~~ 194 (206)
.+..+.|.||+.+. ..+..+ |. |..|..+|+ ..+..||+|...+..++....
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~---~~---~~~~l~~~~--~~~~~~pl~~~~~~~~~~~~~ 527 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITP---CS---HALCLRKWL--YVQEVCPLCHTYMKEDDFLSK 527 (543)
T ss_pred hcccCcchHHHHHH----Hhcccc---cc---chhHHHhhh--hhccccCCCchhhhcccccCc
Confidence 45668999999998 345667 88 999999999 899999999998877765544
No 107
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.52 E-value=0.27 Score=40.71 Aligned_cols=41 Identities=20% Similarity=0.377 Sum_probs=30.3
Q ss_pred ccccccccccCCceeecCCCCCCC-cccHhHHHHHHhhCCCCccccccccccCC
Q 041895 137 CAICLKKFENIDNEATSLNCPCQF-LYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H-~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
|-+|-+. +..+..+| |.| .+|..|-.. -..||+|+......
T Consensus 161 Cr~C~~~---~~~VlllP---CrHl~lC~~C~~~------~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP---CRHLCLCGICDES------LRICPICRSPKTSS 202 (207)
T ss_pred ceecCcC---CceEEeec---ccceEeccccccc------CccCCCCcChhhce
Confidence 7788765 55688999 987 788888432 55799999876443
No 108
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=86.85 E-value=0.66 Score=35.67 Aligned_cols=58 Identities=22% Similarity=0.407 Sum_probs=40.2
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHH-HHhhCCCCccccccccccCCCCc
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWR-WLRELRNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~-WL~~~~~~sCPvCR~~l~~~~~~ 192 (206)
...+|.||.|.-.+..-+ -|+.-||-..|.-|-.+ |-.-.....||+|+..+.+....
T Consensus 79 ~lYeCnIC~etS~ee~FL--KPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~~ 137 (140)
T PF05290_consen 79 KLYECNICKETSAEERFL--KPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSSA 137 (140)
T ss_pred CceeccCcccccchhhcC--CcccccchHHHHHHHHHHHHHcccCCCCCcccccccccccc
Confidence 668999999987654322 22223898888877654 64336788999999998766543
No 109
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.66 E-value=0.81 Score=41.14 Aligned_cols=47 Identities=13% Similarity=0.364 Sum_probs=38.9
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCC--Cccccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRN--YSCPVCRK 184 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~--~sCPvCR~ 184 (206)
.-.|||=.+.-.++.+.+.|. |||+..++-|.+... +.. -.||-|=.
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~---CGHVISkdAlnrLS~-ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLI---CGHVISKDALNRLSK-NGSQSFKCPYCPV 382 (394)
T ss_pred eeecccchhhccCCCCCeeee---ccceecHHHHHHHhh-CCCeeeeCCCCCc
Confidence 358999999999999999999 999999999999763 223 46999943
No 110
>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=84.40 E-value=0.93 Score=39.21 Aligned_cols=47 Identities=21% Similarity=0.383 Sum_probs=34.4
Q ss_pred ccccccccccc-CC-ceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 136 ECAICLKKFEN-ID-NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 136 ~C~ICle~~~~-~~-~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
.|++|-.+--- .+ .+++-+ |+|..|.+|+..-+. .....||.|-..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~---C~H~lCEsCvd~iF~-~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE---CGHRLCESCVDRIFS-LGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeecc---ccchHHHHHHHHHHh-cCCCCCCcccchh
Confidence 58888765432 22 233345 999999999999885 6778999997654
No 111
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=80.89 E-value=1.4 Score=42.85 Aligned_cols=42 Identities=14% Similarity=0.404 Sum_probs=30.5
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPV 181 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPv 181 (206)
...|++|--.+.. . ...-+ +|||.=|.+|+.+|+ ..+.-||.
T Consensus 779 ~~~CtVC~~vi~G-~-~~~c~--~C~H~gH~sh~~sw~--~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIRG-V-DVWCQ--VCGHGGHDSHLKSWF--FKASPCAK 820 (839)
T ss_pred hcCceeecceeee-e-Eeecc--cccccccHHHHHHHH--hcCCCCcc
Confidence 3478888766543 1 12223 399999999999999 88888876
No 112
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=80.28 E-value=0.89 Score=38.68 Aligned_cols=65 Identities=20% Similarity=0.373 Sum_probs=41.7
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccc--ccccccCCCCccCCCchhhhcc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPV--CRKNFAHGTEHFARSPCRRRKL 203 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPv--CR~~l~~~~~~~~~~~~~r~~~ 203 (206)
...|+|=+.++.+ +++... |||+|-++=|.+.+..+..-.||+ |-.+...+..+-++-..-++++
T Consensus 176 s~rdPis~~~I~n--PviSkk---C~HvydrDsI~~~l~~~~~i~CPv~gC~~~~~~~~~~l~~d~el~~kI 242 (262)
T KOG2979|consen 176 SNRDPISKKPIVN--PVISKK---CGHVYDRDSIMQILCDEITIRCPVLGCENPYYIQPGHLDEDKELQQKI 242 (262)
T ss_pred cccCchhhhhhhc--hhhhcC---cCcchhhhhHHHHhccCceeecccccCCccccccccccCchHHHHHHH
Confidence 4689988777766 344444 999999999999994334567998 5533444444444333333333
No 113
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=80.14 E-value=0.85 Score=43.24 Aligned_cols=44 Identities=25% Similarity=0.717 Sum_probs=26.0
Q ss_pred cccccccccc-----ccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 133 EEEECAICLK-----KFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 133 ~~~~C~ICle-----~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
...-|.||-. +|......+... |+++||+.|.. ..+..||-|-+
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~---C~avfH~~C~~-----r~s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCST---CLAVFHKKCLR-----RKSPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHH---HHHHHHHHHHh-----ccCCCCCchHH
Confidence 4567778822 122222233334 99999999953 33444999943
No 114
>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=79.42 E-value=3.1 Score=26.38 Aligned_cols=44 Identities=18% Similarity=0.566 Sum_probs=20.3
Q ss_pred cccccccccccCCceeecCCCCCCCcccHhHHHHHHhh---CCCCcccccccc
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE---LRNYSCPVCRKN 185 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~---~~~~sCPvCR~~ 185 (206)
.|+|....+.. +++... |.|.-+.+ +..||.. ...-.||+|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~~---C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKN---CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT-----SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCc---CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 68888887755 556666 99985544 4566622 223369999763
No 115
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.34 E-value=1.3 Score=43.39 Aligned_cols=52 Identities=12% Similarity=0.149 Sum_probs=34.5
Q ss_pred cccccccccccccc---CCceeecCCCCCCCcccHhHHHHHHhh----CCCCccccccccc
Q 041895 133 EEEECAICLKKFEN---IDNEATSLNCPCQFLYHHECIWRWLRE----LRNYSCPVCRKNF 186 (206)
Q Consensus 133 ~~~~C~ICle~~~~---~~~~~~Lp~~~C~H~FH~~CI~~WL~~----~~~~sCPvCR~~l 186 (206)
+..+|.||--++.+ +-.+..+.. |+|.||..||..|+.. ..+-.|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~--~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQT--HVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhh--hhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 34567777766665 223333334 9999999999999854 2344688887655
No 116
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=79.28 E-value=0.54 Score=45.22 Aligned_cols=48 Identities=19% Similarity=0.578 Sum_probs=36.4
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh-CCCCccccccccc
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE-LRNYSCPVCRKNF 186 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~-~~~~sCPvCR~~l 186 (206)
...+|+||+..+... ..+. |.|.|+..|+..-+.. .....||+|+..+
T Consensus 20 k~lEc~ic~~~~~~p---~~~k---c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLLK---CDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hhccCCceeEEeecc---chhh---hhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 456899999999875 2455 9999999998875521 2356799998765
No 117
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=78.19 E-value=1.9 Score=35.42 Aligned_cols=42 Identities=26% Similarity=0.684 Sum_probs=27.4
Q ss_pred ccccccccccc-----cccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 133 EEEECAICLKK-----FENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 133 ~~~~C~ICle~-----~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
.+..|-||-++ |..+ .+..-+. |+-+||+.|.. +..||-|-+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~-~~~~C~~--C~~v~H~~C~~-------~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQID-TTVRCPK--CKSVFHKSCFR-------KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCC-CeeeCCc--CccccchhhcC-------CCCCCCcHh
Confidence 35688888753 2222 2334444 99999999942 367999943
No 118
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.06 E-value=1.3 Score=40.68 Aligned_cols=55 Identities=18% Similarity=0.500 Sum_probs=38.8
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhC---C-C--Ccccc--ccccccCCC
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLREL---R-N--YSCPV--CRKNFAHGT 190 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~---~-~--~sCPv--CR~~l~~~~ 190 (206)
......|.||.+.+.. .+..+. |||.|+..|....+..+ . . -+||. |++.+..++
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~---c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~ 129 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLG---CGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDT 129 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcC---CCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCce
Confidence 3456799999999876 466677 99999999999999531 1 1 24543 766554443
No 119
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.00 E-value=0.92 Score=44.17 Aligned_cols=44 Identities=32% Similarity=0.595 Sum_probs=32.6
Q ss_pred ccccccccccccccC----CceeecCCCCCCCcccHhHHHHHHhhCCCCccccc
Q 041895 133 EEEECAICLKKFENI----DNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 133 ~~~~C~ICle~~~~~----~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
.+..|.-|.+..... ..+.++- |||+||+.|+..-. .+++ |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~---c~h~yhk~c~~~~~--~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH---CGHMYHKECLMMES--LRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE---ccchhhhcccccHH--Hhcc-cChh
Confidence 345899999987632 3577887 99999999998776 4444 6555
No 120
>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 PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=75.20 E-value=1.6 Score=29.14 Aligned_cols=39 Identities=23% Similarity=0.456 Sum_probs=20.0
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHH
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWL 171 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL 171 (206)
+.+...|.+|...|..-..-..-. .||++|+..|.....
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr--~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCR--NCGRVVCSSCSSQRI 44 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-T--TT--EEECCCS-EEE
T ss_pred CCCCCcCcCcCCcCCCceeeEccC--CCCCEECCchhCCEE
Confidence 456679999999996543322222 399999999987654
No 122
>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=74.61 E-value=4.3 Score=26.52 Aligned_cols=46 Identities=20% Similarity=0.403 Sum_probs=32.1
Q ss_pred ccccccccccccCCc-eeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 135 EECAICLKKFENIDN-EATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 135 ~~C~ICle~~~~~~~-~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..|-.|-.++..+.. ..+-. =...|+.+|...-| +..||.|-.++.
T Consensus 6 pnCE~C~~dLp~~s~~A~ICS---fECTFC~~C~e~~l----~~~CPNCgGelv 52 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICS---FECTFCADCAETML----NGVCPNCGGELV 52 (57)
T ss_pred CCccccCCCCCCCCCcceEEe---EeCcccHHHHHHHh----cCcCcCCCCccc
Confidence 467778788776552 21111 22579999999977 789999987764
No 123
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=74.18 E-value=3.1 Score=36.67 Aligned_cols=53 Identities=28% Similarity=0.585 Sum_probs=38.4
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
...|+||-++....+. -.+| ++|++.-|..|...-. ..+.+||.||++.....
T Consensus 249 ~~s~p~~~~~~~~~d~-~~lP-~~~~~~~~l~~~~t~~--~~~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDS-NFLP-CPCGFRLCLFCHKTIS--DGDGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCCccccccc-cccc-ccccccchhhhhhccc--ccCCCCCccCCccccCc
Confidence 3689999998844332 2344 3488888888877766 78889999998775554
No 124
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.09 E-value=1.3 Score=39.97 Aligned_cols=46 Identities=24% Similarity=0.441 Sum_probs=33.5
Q ss_pred cccccccccccccccCC--ceeecCCCCCCCcccHhHHHHHHhhCCCCccccc
Q 041895 132 EEEEECAICLKKFENID--NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~--~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
..-..|++|.-.++... ..+.-. |||.|+..|...|. ..+..|..|
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~Cr---C~~~fcy~C~~~~~--~~~~~~~~~ 351 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCR---CGHQFCYMCGGDWK--THNGECYEC 351 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEee---ccccchhhcCcchh--hCCccccCc
Confidence 34568999987765433 333344 99999999999999 777777655
No 125
>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=73.23 E-value=1.9 Score=23.65 Aligned_cols=23 Identities=13% Similarity=0.413 Sum_probs=13.3
Q ss_pred cccccccccccCCceeecCCCCCCCcc
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQFLY 162 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H~F 162 (206)
.|+-|-..+.... ..-|. |||.|
T Consensus 2 ~CP~C~~~V~~~~--~~Cp~--CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESA--KFCPH--CGYDF 24 (26)
T ss_pred cCCCCcCCchhhc--CcCCC--CCCCC
Confidence 4677776664433 23444 77776
No 126
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.64 E-value=6.5 Score=33.56 Aligned_cols=54 Identities=9% Similarity=0.230 Sum_probs=38.7
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCc
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~ 192 (206)
....|+|=--+|..-.....+-. |||+|-..-+.+ -...+|++|-+.+..+|..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~--CGcV~SerAlKe----ikas~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRC--CGCVFSERALKE----IKASVCHVCGAAYQEDDVI 163 (293)
T ss_pred ceeecccccceecceEEEEEEec--cceeccHHHHHH----hhhccccccCCcccccCeE
Confidence 34578887666655444433333 999999988777 4488999999988777743
No 127
>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=72.07 E-value=2 Score=26.76 Aligned_cols=45 Identities=27% Similarity=0.610 Sum_probs=29.0
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhh----CCCCccccccc
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE----LRNYSCPVCRK 184 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~----~~~~sCPvCR~ 184 (206)
|.||...-..+..+.--. |+..||..|+..=... ...-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~~---C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDS---CNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBST---TSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcCC---CChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 889999544444443343 9999999998754310 12446888853
No 128
>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=70.85 E-value=3 Score=23.75 Aligned_cols=37 Identities=27% Similarity=0.553 Sum_probs=23.9
Q ss_pred cccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
.|..|-+.+...+..... =+..||..|. .|..|...+
T Consensus 1 ~C~~C~~~i~~~~~~~~~----~~~~~H~~Cf----------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA----LGKVWHPECF----------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEe----CCccccccCC----------CCcccCCcC
Confidence 378888888765333222 3568888883 677776665
No 129
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=69.90 E-value=5.6 Score=25.47 Aligned_cols=43 Identities=21% Similarity=0.435 Sum_probs=22.1
Q ss_pred ccccccccccCC------ceeecCCCCCCCcccHhHHHHHHhhCCCCcccccc
Q 041895 137 CAICLKKFENID------NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCR 183 (206)
Q Consensus 137 C~ICle~~~~~~------~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR 183 (206)
|--|+..|.... ....-|. |++.|+.+|=. +-|+.=.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~--C~~~FC~dCD~--fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPK--CKNHFCIDCDV--FIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TT--TT--B-HHHHH--TTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCC--CCCccccCcCh--hhhccccCCcCCC
Confidence 455666666542 3344455 99999999942 2336667899883
No 130
>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=69.77 E-value=2 Score=36.41 Aligned_cols=50 Identities=20% Similarity=0.385 Sum_probs=36.7
Q ss_pred cccccccccccccccCC--ceeecCCCCCCCcccHhHHHHHHhhCCCCccc--cccc
Q 041895 132 EEEEECAICLKKFENID--NEATSLNCPCQFLYHHECIWRWLRELRNYSCP--VCRK 184 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~--~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCP--vCR~ 184 (206)
..+..||||..+--... .+.+-|- |-|..|.+|+..-++ .....|| -|-+
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPE--CyHrmCESCvdRIFs-~GpAqCP~~gC~k 61 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPE--CYHRMCESCVDRIFS-RGPAQCPYKGCGK 61 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHH--HHHHHHHHHHHHHhc-CCCCCCCCccHHH
Confidence 34568999998754332 3334455 999999999999995 6678899 6754
No 131
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=69.58 E-value=2.6 Score=34.98 Aligned_cols=47 Identities=26% Similarity=0.569 Sum_probs=36.3
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccc
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNF 186 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l 186 (206)
....|.+|.+-.-.+.. .-. |+=.+|..|+..++ .....||.|-.-|
T Consensus 180 nlk~Cn~Ch~LvIqg~r--Cg~---c~i~~h~~c~qty~--q~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIR--CGS---CNIQYHRGCIQTYL--QRRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhheeec--cCc---ccchhhhHHHHHHh--cccCcCCchhccc
Confidence 45689999987765432 222 88899999999999 7789999995544
No 132
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=66.05 E-value=4.3 Score=34.83 Aligned_cols=52 Identities=31% Similarity=0.526 Sum_probs=35.2
Q ss_pred cccccccccccccCCceeec-CCCCCCCcccHhHHHHHHhhC-------CCCcccccccc
Q 041895 134 EEECAICLKKFENIDNEATS-LNCPCQFLYHHECIWRWLREL-------RNYSCPVCRKN 185 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~L-p~~~C~H~FH~~CI~~WL~~~-------~~~sCPvCR~~ 185 (206)
..+|-||.+++...+..+.. +..-|+-++|..|+..-+... ....||.|++-
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 36999999999544433322 223499999999999854211 23469999874
No 133
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.99 E-value=6.5 Score=29.40 Aligned_cols=46 Identities=17% Similarity=0.295 Sum_probs=32.5
Q ss_pred cccccccccccccCC----------ceeecCCCCCCCcccHhHHHHHHhhCCCCcccccc
Q 041895 134 EEECAICLKKFENID----------NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCR 183 (206)
Q Consensus 134 ~~~C~ICle~~~~~~----------~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR 183 (206)
...|--|+..|.... ....-+ +|++.|+.+|=.=+- +.=.+||-|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~--~C~~~FC~dCD~fiH--e~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCA--VCKNVFCVDCDVFVH--ESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCC--CCCCccccccchhhh--hhccCCcCCC
Confidence 356999999886531 111223 499999999976665 6677899995
No 134
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=64.96 E-value=11 Score=26.29 Aligned_cols=54 Identities=19% Similarity=0.380 Sum_probs=22.2
Q ss_pred cccccccccccccccCC--ceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 132 EEEEECAICLKKFENID--NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~--~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
.....|-||=++.-... .+.+.- -.|+--.++.|.+-=.+ ..++.||-|+....
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC-~eC~fPvCr~CyEYErk-eg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVAC-HECAFPVCRPCYEYERK-EGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S--SSS-----HHHHHHHHH-TS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEE-cccCCccchhHHHHHhh-cCcccccccCCCcc
Confidence 34578999999875322 122221 13888889999876554 78999999997653
No 135
>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 PLN02189 cellulose synthase
Probab=61.04 E-value=7.6 Score=39.35 Aligned_cols=52 Identities=21% Similarity=0.465 Sum_probs=36.6
Q ss_pred cccccccccccccc---CCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 133 EEEECAICLKKFEN---IDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 133 ~~~~C~ICle~~~~---~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..+.|.||-+++.. |+..+... +|+--.|+.|.+ +-..+.+++||-|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~--~C~fpvCr~Cye-yer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACN--ECGFPVCRPCYE-YERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeec--cCCCccccchhh-hhhhcCCccCcccCCchh
Confidence 45699999999853 33222222 488889999984 333378999999998665
No 137
>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=60.61 E-value=6.9 Score=24.76 Aligned_cols=35 Identities=20% Similarity=0.415 Sum_probs=25.3
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHH
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWL 171 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL 171 (206)
..|.+|-..|.....-..-.. ||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~--Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRN--CGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCc--CcCCcChHHcCCee
Confidence 579999988876433222333 99999999987765
No 138
>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=60.10 E-value=5.5 Score=25.12 Aligned_cols=40 Identities=28% Similarity=0.576 Sum_probs=29.4
Q ss_pred ccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 137 CAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 137 C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
|.-|-..+..++.++ .. -+..||..|. .|-.|..++...+
T Consensus 1 C~~C~~~I~~~~~~~-~~---~~~~~H~~Cf----------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KA---MGKFWHPECF----------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEE-EE---TTEEEETTTS----------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEE-Ee---CCcEEEcccc----------ccCCCCCccCCCe
Confidence 677888887655332 23 6789999883 8999998887664
No 139
>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=59.99 E-value=5.5 Score=26.89 Aligned_cols=12 Identities=25% Similarity=0.930 Sum_probs=8.6
Q ss_pred cccHhHHHHHHh
Q 041895 161 LYHHECIWRWLR 172 (206)
Q Consensus 161 ~FH~~CI~~WL~ 172 (206)
-||+.|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999984
No 140
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=58.13 E-value=2.2 Score=37.04 Aligned_cols=36 Identities=22% Similarity=0.512 Sum_probs=29.4
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHh
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLR 172 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~ 172 (206)
...|.||+++|..+......- |.-+||..|+..|+.
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~---~~~~~~~~~~~~~~~ 249 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDRED---SLPVFHGKCYPNWLT 249 (288)
T ss_pred ceecHHHHHHHhcccccchhh---ccccccccccccccc
Confidence 349999999998766555565 777999999999994
No 141
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=57.69 E-value=6.1 Score=22.63 Aligned_cols=19 Identities=37% Similarity=1.055 Sum_probs=13.5
Q ss_pred CCCcccHhHHHHHHhhCCCCccccccc
Q 041895 158 CQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 158 C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
|||++-.. .....||+|..
T Consensus 7 CGy~y~~~--------~~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGE--------EAPWVCPVCGA 25 (33)
T ss_pred CCCEECCC--------cCCCcCcCCCC
Confidence 88887543 34668999965
No 142
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=57.07 E-value=7 Score=23.03 Aligned_cols=27 Identities=19% Similarity=0.551 Sum_probs=16.1
Q ss_pred ccccccccccccCCc-------eeecCCCCCCCccc
Q 041895 135 EECAICLKKFENIDN-------EATSLNCPCQFLYH 163 (206)
Q Consensus 135 ~~C~ICle~~~~~~~-------~~~Lp~~~C~H~FH 163 (206)
..|+=|-..|..++. .+.-+ .|+|+|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~--~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCP--KCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECC--CCCcEee
Confidence 367888877765543 12222 3888775
No 143
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=55.88 E-value=3.2 Score=36.09 Aligned_cols=48 Identities=23% Similarity=0.666 Sum_probs=35.2
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCCCcc
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEHF 193 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~~ 193 (206)
.-+..|+-|.+.+.+.+-++.. =.|+||..|. .|-+|++.+...++-|
T Consensus 90 rfGTKCsaC~~GIpPtqVVRkA----qd~VYHl~CF----------~C~iC~R~L~TGdEFY 137 (383)
T KOG4577|consen 90 RFGTKCSACQEGIPPTQVVRKA----QDFVYHLHCF----------ACFICKRQLATGDEFY 137 (383)
T ss_pred HhCCcchhhcCCCChHHHHHHh----hcceeehhhh----------hhHhhhcccccCCeeE
Confidence 3467999999999776655444 5899999995 4677777776666543
No 144
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=54.75 E-value=8.6 Score=35.41 Aligned_cols=35 Identities=23% Similarity=0.441 Sum_probs=29.0
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHh
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLR 172 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~ 172 (206)
+++-.|+||-.=|.+ .++|| |+|..|..|...-+.
T Consensus 2 eeelkc~vc~~f~~e---piil~---c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILP---CSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccC---ceEee---cccHHHHHHHHhhcc
Confidence 356799999988865 45899 999999999987763
No 145
>PRK01343 zinc-binding protein; Provisional
Probab=54.09 E-value=8.1 Score=25.34 Aligned_cols=27 Identities=26% Similarity=0.528 Sum_probs=15.5
Q ss_pred CCCccccccccccCCCCccCCCchhhh
Q 041895 175 RNYSCPVCRKNFAHGTEHFARSPCRRR 201 (206)
Q Consensus 175 ~~~sCPvCR~~l~~~~~~~~~~~~~r~ 201 (206)
....||+|++++.....-|=+.+.+..
T Consensus 8 p~~~CP~C~k~~~~~~rPFCS~RC~~i 34 (57)
T PRK01343 8 PTRPCPECGKPSTREAYPFCSERCRDI 34 (57)
T ss_pred CCCcCCCCCCcCcCCCCcccCHHHhhh
Confidence 456799999987543333333344333
No 146
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.34 E-value=8.3 Score=33.50 Aligned_cols=37 Identities=11% Similarity=0.279 Sum_probs=28.4
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHh
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLR 172 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~ 172 (206)
.-.|++|.|.+++.. .+..| .+=.|.||..|-.+-++
T Consensus 268 pLcCTLC~ERLEDTH-FVQCP-SVp~HKFCFPCSResIK 304 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTH-FVQCP-SVPSHKFCFPCSRESIK 304 (352)
T ss_pred ceeehhhhhhhccCc-eeecC-CCcccceecccCHHHHH
Confidence 468999999997644 44444 34579999999999984
No 147
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=52.68 E-value=5.7 Score=33.54 Aligned_cols=50 Identities=20% Similarity=0.252 Sum_probs=34.6
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccc--ccccccC
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPV--CRKNFAH 188 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPv--CR~~l~~ 188 (206)
+..|+|=+.++.. ++... +|+|.|-.+-|...|.......||. |-+.+.-
T Consensus 189 ~nrCpitl~p~~~--pils~---kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~ 240 (275)
T COG5627 189 SNRCPITLNPDFY--PILSS---KCNHKPEMDLINKKLQVECTRVCPRLICSQKEVV 240 (275)
T ss_pred cccCCcccCcchh--HHHHh---hhcccccHHHHHHHhcCCceeecchhhcchheec
Confidence 4689998888765 23333 3999999999999993335566775 6444433
No 148
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.54 E-value=12 Score=31.98 Aligned_cols=35 Identities=14% Similarity=0.360 Sum_probs=28.6
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHh
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLR 172 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~ 172 (206)
.+-+-|+.||.++.++ ++.| =||+|+++||.+++.
T Consensus 41 K~FdcCsLtLqPc~dP---vit~---~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITP---DGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccCC---ccCC---CCeeeeHHHHHHHHH
Confidence 4557899999999763 3566 799999999999883
No 149
>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=52.43 E-value=6 Score=25.19 Aligned_cols=14 Identities=21% Similarity=0.747 Sum_probs=7.4
Q ss_pred CCccccccccccCC
Q 041895 176 NYSCPVCRKNFAHG 189 (206)
Q Consensus 176 ~~sCPvCR~~l~~~ 189 (206)
+..||+|.+++..+
T Consensus 20 ~~~CPlC~r~l~~e 33 (54)
T PF04423_consen 20 KGCCPLCGRPLDEE 33 (54)
T ss_dssp SEE-TTT--EE-HH
T ss_pred CCcCCCCCCCCCHH
Confidence 34899999988654
No 150
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=50.85 E-value=7.6 Score=22.80 Aligned_cols=29 Identities=21% Similarity=0.447 Sum_probs=16.1
Q ss_pred ccccccccccccCCcee-----ecCCCCCCCccc
Q 041895 135 EECAICLKKFENIDNEA-----TSLNCPCQFLYH 163 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~-----~Lp~~~C~H~FH 163 (206)
-+|+=|...|..+++.+ .+....|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 36788888887655321 111024888774
No 151
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=50.81 E-value=12 Score=20.76 Aligned_cols=29 Identities=31% Similarity=0.501 Sum_probs=10.0
Q ss_pred cccccccccccCCceeecCCCCCCCcccHhHH
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQFLYHHECI 167 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI 167 (206)
.|.+|-.....+..-.-.. |.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~---Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSE---CDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TT---T-----HHHH
T ss_pred cCCcCCCcCCCCceEECcc---CCCccChhcC
Confidence 5778888776523233344 9999999986
No 152
>PLN02436 cellulose synthase A
Probab=50.49 E-value=14 Score=37.60 Aligned_cols=52 Identities=23% Similarity=0.549 Sum_probs=36.5
Q ss_pred ccccccccccccc---cCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 133 EEEECAICLKKFE---NIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 133 ~~~~C~ICle~~~---~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..+.|-||=+++. +|+.. +.. -+|+--.|+.|.+ +-..+.+++||-|+....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~F-VAC-n~C~fpvCr~Cye-yer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPF-VAC-NECAFPVCRPCYE-YERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEE-Eee-ccCCCccccchhh-hhhhcCCccCcccCCchh
Confidence 4569999999973 34432 221 1488889999984 333378899999998665
No 153
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=49.47 E-value=13 Score=32.89 Aligned_cols=46 Identities=13% Similarity=0.315 Sum_probs=34.7
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhh-CCCCccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRE-LRNYSCPVC 182 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~-~~~~sCPvC 182 (206)
.-.||+=-+.-..+.+.+.|. |||+.-+.-+.+.-.+ ...-.||.|
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~---CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLE---CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeeccccHhhhcccCCCeeee---ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 458998888777777888888 9999999998884421 112359999
No 154
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=49.25 E-value=13 Score=24.64 Aligned_cols=20 Identities=20% Similarity=0.645 Sum_probs=13.8
Q ss_pred CCccccccccccCCCCccCC
Q 041895 176 NYSCPVCRKNFAHGTEHFAR 195 (206)
Q Consensus 176 ~~sCPvCR~~l~~~~~~~~~ 195 (206)
+..||+|+..+.....+..+
T Consensus 2 k~~CPlCkt~~n~gsk~~pN 21 (61)
T PF05715_consen 2 KSLCPLCKTTLNVGSKDPPN 21 (61)
T ss_pred CccCCcccchhhcCCCCCCC
Confidence 56899999988655554443
No 155
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=48.31 E-value=25 Score=25.78 Aligned_cols=26 Identities=27% Similarity=0.583 Sum_probs=19.7
Q ss_pred CCcccHhHHHHHHhh-------CCCCccccccc
Q 041895 159 QFLYHHECIWRWLRE-------LRNYSCPVCRK 184 (206)
Q Consensus 159 ~H~FH~~CI~~WL~~-------~~~~sCPvCR~ 184 (206)
.-.|+..|+..+..+ ..+-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 678999999988842 22346999986
No 156
>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=47.65 E-value=6.1 Score=35.76 Aligned_cols=48 Identities=19% Similarity=0.427 Sum_probs=0.0
Q ss_pred cccccccccccccccC-----------CceeecCCCCCCCcccHhHHHHHHhhC----CCCcccccccc
Q 041895 132 EEEEECAICLKKFENI-----------DNEATSLNCPCQFLYHHECIWRWLREL----RNYSCPVCRKN 185 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~-----------~~~~~Lp~~~C~H~FH~~CI~~WL~~~----~~~sCPvCR~~ 185 (206)
..-..|+|=|..+.-. ++-+.|. |||++.. ..|-..+ ....||+||..
T Consensus 275 a~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~---CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 275 AGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLN---CGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ---------------------------------------------------------------------
T ss_pred hcCCCCCcCCCccccccccccccccccCceeecc---ccceeee---cccccccccccccccCCCcccc
Confidence 3445777777666432 2334555 9998865 4676322 25689999974
No 157
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=47.32 E-value=6.7 Score=26.82 Aligned_cols=40 Identities=18% Similarity=0.424 Sum_probs=18.1
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..|+.|..++.... +|.++..|-.. + .....||-|..++.
T Consensus 2 ~~CP~C~~~L~~~~----------~~~~C~~C~~~-~--~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----------GHYHCEACQKD-Y--KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET----------TEEEETTT--E-E--EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC----------CEEECcccccc-c--eecccCCCcccHHH
Confidence 46888888875433 23333444332 1 44667888877663
No 158
>PRK05978 hypothetical protein; Provisional
Probab=46.42 E-value=15 Score=28.87 Aligned_cols=28 Identities=21% Similarity=0.452 Sum_probs=22.4
Q ss_pred CCcccHhHHHHHHhhCCCCccccccccccCCCCcc
Q 041895 159 QFLYHHECIWRWLRELRNYSCPVCRKNFAHGTEHF 193 (206)
Q Consensus 159 ~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~~~~ 193 (206)
|+.|+ .+| +.+..||.|-.++...+...
T Consensus 42 G~LF~-----g~L--kv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 42 GKLFR-----AFL--KPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred Ccccc-----ccc--ccCCCccccCCccccCCccc
Confidence 37886 678 99999999999987776543
No 159
>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=45.39 E-value=8.4 Score=24.47 Aligned_cols=38 Identities=26% Similarity=0.555 Sum_probs=21.3
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccc
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKN 185 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~ 185 (206)
-.||.|-+.+.... | +.| |...-.....+-.||+|...
T Consensus 3 f~CP~C~~~~~~~~----L----~~H-----~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 3 FTCPYCGKGFSESS----L----VEH-----CEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred cCCCCCCCccCHHH----H----HHH-----HHhHCcCCCCCccCCCchhh
Confidence 47888888655432 2 233 33333322345679999763
No 160
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.46 E-value=16 Score=25.18 Aligned_cols=26 Identities=19% Similarity=0.488 Sum_probs=21.5
Q ss_pred CCcccHhHHHHHHhhCCCCccccccccccC
Q 041895 159 QFLYHHECIWRWLRELRNYSCPVCRKNFAH 188 (206)
Q Consensus 159 ~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~ 188 (206)
.|.||.+|...-| +..||.|-.++..
T Consensus 28 EcTFCadCae~~l----~g~CPnCGGelv~ 53 (84)
T COG3813 28 ECTFCADCAENRL----HGLCPNCGGELVA 53 (84)
T ss_pred eeehhHhHHHHhh----cCcCCCCCchhhc
Confidence 4789999999877 7899999776643
No 161
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.24 E-value=17 Score=35.17 Aligned_cols=46 Identities=30% Similarity=0.589 Sum_probs=32.8
Q ss_pred cccccccccccCCceeecCCCCCCC-cccHhHHHHHHhhCC----CCcccccccccc
Q 041895 136 ECAICLKKFENIDNEATSLNCPCQF-LYHHECIWRWLRELR----NYSCPVCRKNFA 187 (206)
Q Consensus 136 ~C~ICle~~~~~~~~~~Lp~~~C~H-~FH~~CI~~WL~~~~----~~sCPvCR~~l~ 187 (206)
.|+||-....- ..... ||| .-+..|......... ...||+||..+.
T Consensus 2 ~c~ic~~s~~~----~~~~s--~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDF----VGRGS--CGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccc----ccccc--ccccccchhhhhhhhhhcccccccccCccccccee
Confidence 69999887643 22334 999 999999988753233 456899999664
No 162
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=43.15 E-value=9.3 Score=29.99 Aligned_cols=25 Identities=32% Similarity=0.729 Sum_probs=16.3
Q ss_pred CCCCCcccHhHHHHHHhh---------CCCCcccccccc
Q 041895 156 CPCQFLYHHECIWRWLRE---------LRNYSCPVCRKN 185 (206)
Q Consensus 156 ~~C~H~FH~~CI~~WL~~---------~~~~sCPvCR~~ 185 (206)
|.+||.| +.||.. ..--+||+|-..
T Consensus 8 C~~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 8 CENGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred cCCCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCC
Confidence 4478888 568832 123479999653
No 163
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=42.99 E-value=23 Score=36.20 Aligned_cols=52 Identities=23% Similarity=0.476 Sum_probs=36.1
Q ss_pred cccccccccccccc---CCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 133 EEEECAICLKKFEN---IDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 133 ~~~~C~ICle~~~~---~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..+.|-||=++... |+.. +.. -.|+---|+.|.+ +=..+.+++||-|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~F-VAC-~eC~FPVCrpCYE-YEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPF-VAC-DVCAFPVCRPCYE-YERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEE-EEe-ccCCCccccchhh-hhhhcCCccCCccCCchh
Confidence 45699999999753 3322 221 1388889999984 333378999999988665
No 164
>PLN02195 cellulose synthase A
Probab=41.05 E-value=33 Score=34.78 Aligned_cols=53 Identities=13% Similarity=0.296 Sum_probs=36.6
Q ss_pred ccccccccccccccCC--ceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 133 EEEECAICLKKFENID--NEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~--~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..+.|-||=++..... ++.+.. -+|+---|+.|.+ +=..+.++.||-|+....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC-~eC~~pvCrpCye-yer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVAC-HECSYPLCKACLE-YEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEe-ccCCCccccchhh-hhhhcCCccCCccCCccc
Confidence 3468999999775432 122221 2488889999984 333378999999999887
No 165
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=40.46 E-value=22 Score=31.54 Aligned_cols=46 Identities=15% Similarity=0.357 Sum_probs=30.6
Q ss_pred ccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccc
Q 041895 133 EEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCR 183 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR 183 (206)
....|-.|.++.......+.-. |.+.||.+|=.= + |+.=..||-|-
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~---Ck~~FCldCDv~-i-HesLh~CpgCe 374 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCES---CKNVFCLDCDVF-I-HESLHNCPGCE 374 (378)
T ss_pred CCcceeeeccccCCCCcEEchh---ccceeeccchHH-H-HhhhhcCCCcC
Confidence 3445999977665544333333 999999999432 2 25566899996
No 166
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.40 E-value=11 Score=32.90 Aligned_cols=50 Identities=20% Similarity=0.461 Sum_probs=39.3
Q ss_pred ccccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 131 EEEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
......|-||..-+..... ..+ |+|.|+..|-..|. ...+.||.|+....
T Consensus 102 ~~~~~~~~~~~g~l~vpt~---~qg--~w~qf~~~~p~~~~--~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPTR---IQG--CWHQFCYVCPKSNF--AMGNDCPDCRGKIS 151 (324)
T ss_pred cCCccceeeeeeeEEeccc---ccC--ceeeeeecCCchhh--hhhhccchhhcCcC
Confidence 4556789999988866442 224 99999999999999 88899999987543
No 167
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=39.67 E-value=28 Score=30.81 Aligned_cols=56 Identities=20% Similarity=0.383 Sum_probs=36.4
Q ss_pred cccccccccccccccc-----CC-----------ceeecCCCCCCCcccHhHHHHHHhh-------CCCCcccccccccc
Q 041895 131 EEEEEECAICLKKFEN-----ID-----------NEATSLNCPCQFLYHHECIWRWLRE-------LRNYSCPVCRKNFA 187 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~-----~~-----------~~~~Lp~~~C~H~FH~~CI~~WL~~-------~~~~sCPvCR~~l~ 187 (206)
...+.+|++|+..-.- |. ...-.| |||+--..=..-|-.. .-+..||.|-..+.
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P---CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP---CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCC---cccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 3446799999975310 10 112335 9999988888889732 12457999988775
Q ss_pred CC
Q 041895 188 HG 189 (206)
Q Consensus 188 ~~ 189 (206)
.+
T Consensus 415 ge 416 (429)
T KOG3842|consen 415 GE 416 (429)
T ss_pred cC
Confidence 44
No 168
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=39.63 E-value=8.6 Score=24.62 Aligned_cols=14 Identities=29% Similarity=0.897 Sum_probs=12.1
Q ss_pred CCCcccHhHHHHHH
Q 041895 158 CQFLYHHECIWRWL 171 (206)
Q Consensus 158 C~H~FH~~CI~~WL 171 (206)
|+|.|+..|...|=
T Consensus 46 C~~~fC~~C~~~~H 59 (64)
T smart00647 46 CGFSFCFRCKVPWH 59 (64)
T ss_pred CCCeECCCCCCcCC
Confidence 99999999988773
No 169
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=38.15 E-value=21 Score=22.63 Aligned_cols=22 Identities=23% Similarity=0.587 Sum_probs=14.2
Q ss_pred CCCcccHhHHHHHHhhCCCCccccc
Q 041895 158 CQFLYHHECIWRWLRELRNYSCPVC 182 (206)
Q Consensus 158 C~H~FH~~CI~~WL~~~~~~sCPvC 182 (206)
|||.|-.. |..-. .....||.|
T Consensus 34 Cgh~w~~~-v~~R~--~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRT--RRGKGCPYC 55 (55)
T ss_pred CCCeeEcc-Hhhhc--cCCCCCCCC
Confidence 78877554 33333 567789987
No 170
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=36.39 E-value=21 Score=20.63 Aligned_cols=20 Identities=25% Similarity=0.722 Sum_probs=12.3
Q ss_pred CCCcccHhHHHHHHhhCCCCcccccccc
Q 041895 158 CQFLYHHECIWRWLRELRNYSCPVCRKN 185 (206)
Q Consensus 158 C~H~FH~~CI~~WL~~~~~~sCPvCR~~ 185 (206)
|||++-.. ..-..||+|..+
T Consensus 8 CG~i~~g~--------~~p~~CP~Cg~~ 27 (34)
T cd00729 8 CGYIHEGE--------EAPEKCPICGAP 27 (34)
T ss_pred CCCEeECC--------cCCCcCcCCCCc
Confidence 78765321 234589999663
No 171
>PLN02400 cellulose synthase
Probab=36.10 E-value=26 Score=35.89 Aligned_cols=52 Identities=21% Similarity=0.455 Sum_probs=35.9
Q ss_pred cccccccccccccc---CCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 133 EEEECAICLKKFEN---IDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 133 ~~~~C~ICle~~~~---~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
..+.|-||=++... |+ +.+.. -+|+---|+.|.+ +=..+.+++||-|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe-~FVAC-~eCaFPVCRpCYE-YERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGD-VFVAC-NECAFPVCRPCYE-YERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCC-EEEEE-ccCCCccccchhh-eecccCCccCcccCCccc
Confidence 45699999999753 33 22221 1388889999984 322277899999988664
No 172
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=36.03 E-value=20 Score=33.08 Aligned_cols=36 Identities=28% Similarity=0.605 Sum_probs=22.8
Q ss_pred ccccccccccccccCCceeecCC-CCCCCcccHhHHHH
Q 041895 133 EEEECAICLKKFENIDNEATSLN-CPCQFLYHHECIWR 169 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~-~~C~H~FH~~CI~~ 169 (206)
..-.|.||.. |+.......+-+ .+|||.-|.+|-.+
T Consensus 127 ~~C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 127 RRCMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred ccCCccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 4467889965 654432222222 25999999999755
No 173
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=36.00 E-value=23 Score=29.97 Aligned_cols=27 Identities=11% Similarity=0.266 Sum_probs=19.4
Q ss_pred ccccccccccccCCceeecCCCCCCCcccH
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHH 164 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~ 164 (206)
-.||||...+...+.....+ .+|.|-.
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~---~~h~fd~ 29 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP---QNHQFDC 29 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC---CCCCCcc
Confidence 36999999997655444444 7898844
No 174
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=35.93 E-value=23 Score=23.43 Aligned_cols=39 Identities=21% Similarity=0.371 Sum_probs=22.5
Q ss_pred cccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 144 FENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 144 ~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
|+.++....-| |+||..|-.. +....+.+.-..||.|.-
T Consensus 14 f~~e~~~ftyP-CPCGDRFeIs-LeDl~~GE~VArCPSCSL 52 (67)
T COG5216 14 FSREEKTFTYP-CPCGDRFEIS-LEDLRNGEVVARCPSCSL 52 (67)
T ss_pred EcCCCceEEec-CCCCCEeEEE-HHHhhCCceEEEcCCceE
Confidence 34455555555 5588888764 334342244557998854
No 175
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=34.51 E-value=35 Score=34.79 Aligned_cols=54 Identities=19% Similarity=0.436 Sum_probs=37.2
Q ss_pred cccccccccccccccc---CCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccccccc
Q 041895 131 EEEEEECAICLKKFEN---IDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~---~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
....+.|-||=++... |+.. +.. -+|+--.|+.|.+ +=..+.+++||-|+....
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~F-VAC-~eC~fpvCr~cye-ye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPF-VAC-HVCGFPVCKPCYE-YERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEE-EEe-ccCCCccccchhh-hhhhcCCccCCccCCchh
Confidence 3456789999998753 3322 221 1388889999994 333378899999988665
No 176
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=34.17 E-value=25 Score=25.43 Aligned_cols=33 Identities=21% Similarity=0.433 Sum_probs=22.0
Q ss_pred ccccccccccccccCCcee-ecCCCCCCCcccHhHHHH
Q 041895 133 EEEECAICLKKFENIDNEA-TSLNCPCQFLYHHECIWR 169 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~-~Lp~~~C~H~FH~~CI~~ 169 (206)
....|.||... .|..+. .-++ |...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~--C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPG--CSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCC--CCcCCCHHHHHH
Confidence 45799999987 232211 1123 888999999865
No 177
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.10 E-value=12 Score=34.34 Aligned_cols=40 Identities=15% Similarity=0.301 Sum_probs=27.5
Q ss_pred ccccccccccccccCCceeecCC--CCCCCcccHhHHHHHHh
Q 041895 133 EEEECAICLKKFENIDNEATSLN--CPCQFLYHHECIWRWLR 172 (206)
Q Consensus 133 ~~~~C~ICle~~~~~~~~~~Lp~--~~C~H~FH~~CI~~WL~ 172 (206)
....||.|...++...--..+.. ..|.|.||+-|+..|-.
T Consensus 225 ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~ 266 (444)
T KOG1815|consen 225 NTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSD 266 (444)
T ss_pred cCccCCCcccchhccCCccccccccCCcCCeeceeeeccccc
Confidence 34569999999987652111110 12999999999999984
No 178
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=33.75 E-value=23 Score=28.00 Aligned_cols=45 Identities=20% Similarity=0.335 Sum_probs=29.9
Q ss_pred ccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 139 ICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 139 ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
||++.=...+..-.-|. =.+.||..|-.+-+ .+||.|..++..+.
T Consensus 9 iC~NGH~~t~~~~~~p~--~~~~fC~kCG~~tI-----~~Cp~C~~~IrG~y 53 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPE--LREKFCSKCGAKTI-----TSCPNCSTPIRGDY 53 (158)
T ss_pred HccCccccccccccCch--HHHHHHHHhhHHHH-----HHCcCCCCCCCCce
Confidence 67765444333323332 34679999998887 38999999886653
No 179
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=33.53 E-value=24 Score=23.23 Aligned_cols=16 Identities=31% Similarity=0.698 Sum_probs=13.4
Q ss_pred CCCccccccccccCCC
Q 041895 175 RNYSCPVCRKNFAHGT 190 (206)
Q Consensus 175 ~~~sCPvCR~~l~~~~ 190 (206)
.++.||+|-.+++++.
T Consensus 2 ~HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDE 17 (59)
T ss_pred CCCcCCcCCCcCCcch
Confidence 5788999999998764
No 180
>PF13276 HTH_21: HTH-like domain
Probab=33.48 E-value=40 Score=21.50 Aligned_cols=39 Identities=31% Similarity=0.455 Sum_probs=26.7
Q ss_pred CCccchhhHHHHhhhcccccccccCCchHHHHHHHHhCccCC
Q 041895 1 SGYTYGYQVRRMLTQTLRPDLDVQFPSKEFRFQMHRFGILEP 42 (206)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~ 42 (206)
++++||| |.++..++-.-.+..--|.-+..|+..|...+
T Consensus 17 ~~~~yG~---rri~~~L~~~~~~~v~~krV~RlM~~~gL~~~ 55 (60)
T PF13276_consen 17 SKPTYGY---RRIWAELRREGGIRVSRKRVRRLMREMGLRSK 55 (60)
T ss_pred cCCCeeh---hHHHHHHhccCcccccHHHHHHHHHHcCCccc
Confidence 3568888 45555566554455667888899998887543
No 181
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.11 E-value=24 Score=25.44 Aligned_cols=12 Identities=25% Similarity=0.863 Sum_probs=10.7
Q ss_pred cccHhHHHHHHh
Q 041895 161 LYHHECIWRWLR 172 (206)
Q Consensus 161 ~FH~~CI~~WL~ 172 (206)
-||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999994
No 182
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=30.85 E-value=28 Score=22.96 Aligned_cols=17 Identities=29% Similarity=0.770 Sum_probs=12.6
Q ss_pred CCCCccccccccccCCC
Q 041895 174 LRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 174 ~~~~sCPvCR~~l~~~~ 190 (206)
.....||+|..++..+.
T Consensus 37 ~~~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 37 EEEPVCPLCKSPMVSGT 53 (59)
T ss_pred CCCccCCCcCCccccce
Confidence 45578999999886543
No 183
>PLN02248 cellulose synthase-like protein
Probab=30.46 E-value=45 Score=34.32 Aligned_cols=35 Identities=20% Similarity=0.519 Sum_probs=29.2
Q ss_pred cCCCCCCCcccHhHHHHHHhhCCCCccccccccccCCC
Q 041895 153 SLNCPCQFLYHHECIWRWLRELRNYSCPVCRKNFAHGT 190 (206)
Q Consensus 153 Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~~ 190 (206)
+| |.|++..|.+|...-+ +....||-|+.+....+
T Consensus 146 ~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ 180 (1135)
T PLN02248 146 LP-CECGFKICRDCYIDAV--KSGGICPGCKEPYKVTD 180 (1135)
T ss_pred Cc-ccccchhHHhHhhhhh--hcCCCCCCCcccccccc
Confidence 44 6689999999999988 77889999999885544
No 184
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=29.26 E-value=34 Score=25.42 Aligned_cols=46 Identities=26% Similarity=0.418 Sum_probs=28.0
Q ss_pred cccccccccccccc--CCceeecCCCCCCCcccHhHHHHHHhhCCCC--ccccccc
Q 041895 133 EEEECAICLKKFEN--IDNEATSLNCPCQFLYHHECIWRWLRELRNY--SCPVCRK 184 (206)
Q Consensus 133 ~~~~C~ICle~~~~--~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~--sCPvCR~ 184 (206)
....|.+|..+|.- +......- |.|.+|..|-.. . .... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~---C~~~VC~~C~~~-~--~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVD---CKHRVCKKCGVY-S--KKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETT---TTEEEETTSEEE-T--SSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCc---CCccccCccCCc-C--CCCCCEEChhhHH
Confidence 55799999998742 22333444 999999999644 1 2122 4888865
No 185
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=28.88 E-value=34 Score=23.58 Aligned_cols=34 Identities=24% Similarity=0.442 Sum_probs=22.9
Q ss_pred cccccccccccccccCCce-eecCCCCCCCcccHhHHHH
Q 041895 132 EEEEECAICLKKFENIDNE-ATSLNCPCQFLYHHECIWR 169 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~-~~Lp~~~C~H~FH~~CI~~ 169 (206)
.....|.+|-... |..+ ...+. |.-.||..|...
T Consensus 34 ~~~~~C~~C~~~~--Ga~i~C~~~~--C~~~fH~~CA~~ 68 (90)
T PF13771_consen 34 RRKLKCSICKKKG--GACIGCSHPG--CSRSFHVPCARK 68 (90)
T ss_pred HhCCCCcCCCCCC--CeEEEEeCCC--CCcEEChHHHcc
Confidence 3456999999772 3222 23334 999999999764
No 186
>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=27.10 E-value=28 Score=18.86 Aligned_cols=9 Identities=44% Similarity=1.283 Sum_probs=7.6
Q ss_pred ccccccccc
Q 041895 178 SCPVCRKNF 186 (206)
Q Consensus 178 sCPvCR~~l 186 (206)
.||+|-+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 699998876
No 187
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=26.61 E-value=26 Score=30.56 Aligned_cols=32 Identities=25% Similarity=0.405 Sum_probs=24.6
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHH
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIW 168 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~ 168 (206)
-..|.||..+-..++.+..-- |.--||.-|+-
T Consensus 314 C~lC~IC~~P~~E~E~~FCD~---CDRG~HT~CVG 345 (381)
T KOG1512|consen 314 CELCRICLGPVIESEHLFCDV---CDRGPHTLCVG 345 (381)
T ss_pred cHhhhccCCcccchheecccc---ccCCCCccccc
Confidence 358999999887766554444 99899999975
No 188
>PRK11827 hypothetical protein; Provisional
Probab=26.11 E-value=22 Score=23.51 Aligned_cols=19 Identities=32% Similarity=0.625 Sum_probs=12.8
Q ss_pred HHHhhCCCCccccccccccCC
Q 041895 169 RWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 169 ~WL~~~~~~sCPvCR~~l~~~ 189 (206)
+|| ..--.||+|+.++..+
T Consensus 3 ~~L--LeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRL--LEIIACPVCNGKLWYN 21 (60)
T ss_pred hHH--HhheECCCCCCcCeEc
Confidence 445 4455799998887654
No 189
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=25.30 E-value=32 Score=32.74 Aligned_cols=36 Identities=25% Similarity=0.535 Sum_probs=25.0
Q ss_pred ccccccccccccccc----CC------ceeecCCCCCCCcccHhHHHHH
Q 041895 132 EEEEECAICLKKFEN----ID------NEATSLNCPCQFLYHHECIWRW 170 (206)
Q Consensus 132 ~~~~~C~ICle~~~~----~~------~~~~Lp~~~C~H~FH~~CI~~W 170 (206)
+....|+||.|.|.. ++ ..+.+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le---~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE---FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec---cCceeeccccchH
Confidence 566799999999963 11 123333 4789999998754
No 190
>KOG0803 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.75 E-value=30 Score=36.23 Aligned_cols=53 Identities=23% Similarity=0.497 Sum_probs=37.4
Q ss_pred ccccccccccccccccCC----ceeecCCCCCCCcccHhHHHHHHhhCCCC-cccccccccc
Q 041895 131 EEEEEECAICLKKFENID----NEATSLNCPCQFLYHHECIWRWLRELRNY-SCPVCRKNFA 187 (206)
Q Consensus 131 ~~~~~~C~ICle~~~~~~----~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~-sCPvCR~~l~ 187 (206)
...-..|+||.....+ . ..+..- |.-.||..|+..|..++... .||+||....
T Consensus 1058 ~~~~~~~si~~~~~~~-~~~~~~~~r~~---c~~~f~~~~l~~w~s~ed~s~~~~~~r~~~~ 1115 (1312)
T KOG0803|consen 1058 ISRLREFSISHGSNDD-DLPFLSCLRAF---CPNKFHTECLVKWKSGEDISENCPLCRELST 1115 (1312)
T ss_pred HhHHHHhhhhccccch-hhhHHHHHHHh---hhhhhhchhhHHhhccccccccccchhhhhH
Confidence 3445678888876655 2 112223 88999999999999765555 8999998653
No 191
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=23.86 E-value=43 Score=22.15 Aligned_cols=18 Identities=22% Similarity=0.458 Sum_probs=14.4
Q ss_pred CCCccccccccccCCCCc
Q 041895 175 RNYSCPVCRKNFAHGTEH 192 (206)
Q Consensus 175 ~~~sCPvCR~~l~~~~~~ 192 (206)
-++.||+|-+.++++...
T Consensus 7 PH~HC~VCg~aIp~de~~ 24 (64)
T COG4068 7 PHRHCVVCGKAIPPDEQV 24 (64)
T ss_pred CCccccccCCcCCCccch
Confidence 467899999999887643
No 192
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=23.84 E-value=37 Score=24.44 Aligned_cols=27 Identities=19% Similarity=0.685 Sum_probs=18.4
Q ss_pred CCCCcccHhHHHHHHhhCCCCccccccccccCC
Q 041895 157 PCQFLYHHECIWRWLRELRNYSCPVCRKNFAHG 189 (206)
Q Consensus 157 ~C~H~FH~~CI~~WL~~~~~~sCPvCR~~l~~~ 189 (206)
+||-.|-.+= + +..+.||-|+.++...
T Consensus 63 kCGfef~~~~----i--k~pSRCP~CKSE~Ie~ 89 (97)
T COG3357 63 KCGFEFRDDK----I--KKPSRCPKCKSEWIEE 89 (97)
T ss_pred ccCccccccc----c--CCcccCCcchhhcccC
Confidence 3887776531 2 4567899999988554
No 193
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=23.68 E-value=27 Score=22.46 Aligned_cols=13 Identities=23% Similarity=0.772 Sum_probs=6.5
Q ss_pred CCccccccccccC
Q 041895 176 NYSCPVCRKNFAH 188 (206)
Q Consensus 176 ~~sCPvCR~~l~~ 188 (206)
..+||+|.+.+..
T Consensus 24 PatCP~C~a~~~~ 36 (54)
T PF09237_consen 24 PATCPICGAVIRQ 36 (54)
T ss_dssp -EE-TTT--EESS
T ss_pred CCCCCcchhhccc
Confidence 4579999887643
No 194
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=23.60 E-value=9.1 Score=32.98 Aligned_cols=48 Identities=17% Similarity=0.294 Sum_probs=20.4
Q ss_pred cccccccccccccccCCceeecC--CCCCCCcccHhHHHHHHhhCCCCccccccc
Q 041895 132 EEEEECAICLKKFENIDNEATSL--NCPCQFLYHHECIWRWLRELRNYSCPVCRK 184 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp--~~~C~H~FH~~CI~~WL~~~~~~sCPvCR~ 184 (206)
.....||||=..-..+. +..-. + =.|.+|.-|-.+|- -....||.|-.
T Consensus 170 w~~g~CPvCGs~P~~s~-l~~~~~~G--~R~L~Cs~C~t~W~--~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSV-LRGGEREG--KRYLHCSLCGTEWR--FVRIKCPYCGN 219 (290)
T ss_dssp TT-SS-TTT---EEEEE-EE--------EEEEEETTT--EEE----TTS-TTT--
T ss_pred ccCCcCCCCCCcCceEE-EecCCCCc--cEEEEcCCCCCeee--ecCCCCcCCCC
Confidence 34579999987754321 10010 1 13556667888887 77889999955
No 195
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=23.17 E-value=70 Score=23.44 Aligned_cols=33 Identities=21% Similarity=0.136 Sum_probs=26.4
Q ss_pred ccccccccccccCCceeecCCCCCCCcccHhHHHHHH
Q 041895 135 EECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWL 171 (206)
Q Consensus 135 ~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL 171 (206)
-.|.||=+++..|+...-+. +-.-|..|...=+
T Consensus 3 WkC~iCg~~I~~gqlFTF~~----kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTK----KGPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEec----CCcEeHHHHHHHH
Confidence 47999999999998766665 3579999988755
No 196
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=23.03 E-value=47 Score=32.17 Aligned_cols=29 Identities=31% Similarity=0.811 Sum_probs=21.9
Q ss_pred CCCcccHhHHHHHHhhC---CCCccccccccc
Q 041895 158 CQFLYHHECIWRWLREL---RNYSCPVCRKNF 186 (206)
Q Consensus 158 C~H~FH~~CI~~WL~~~---~~~sCPvCR~~l 186 (206)
|+-.||..|+..|+.+. +.-.||-||.-.
T Consensus 41 c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 41 CGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 89999999999999642 223588887643
No 197
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=22.71 E-value=65 Score=21.10 Aligned_cols=34 Identities=18% Similarity=0.302 Sum_probs=22.5
Q ss_pred cccccccccccccc--CCceeecCCCCCCCcccHhHHH
Q 041895 133 EEEECAICLKKFEN--IDNEATSLNCPCQFLYHHECIW 168 (206)
Q Consensus 133 ~~~~C~ICle~~~~--~~~~~~Lp~~~C~H~FH~~CI~ 168 (206)
....|+.|-..... ......-|. ||+.+|.+-..
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~--Cg~~~~rD~na 62 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPN--CGFEMDRDVNA 62 (69)
T ss_pred CccCccCcccccccccccceEEcCC--CCCEECcHHHH
Confidence 34689999887766 334444454 88888877543
No 198
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=22.29 E-value=63 Score=27.88 Aligned_cols=47 Identities=21% Similarity=0.385 Sum_probs=28.2
Q ss_pred cccccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCccc
Q 041895 132 EEEEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCP 180 (206)
Q Consensus 132 ~~~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCP 180 (206)
+...-|.||++--..|.+-.-|... =.=.=|++|.++|=- ..+..||
T Consensus 28 ~tLsfChiCfEl~iegvpks~llHt-kSlRGHrdCFEK~Hl-IanQ~~p 74 (285)
T PF06937_consen 28 ETLSFCHICFELSIEGVPKSNLLHT-KSLRGHRDCFEKYHL-IANQDCP 74 (285)
T ss_pred cceeecceeeccccccCcccccccc-ccccchHHHHHHHHH-HHcCCCC
Confidence 3445788888876555432222210 011358999999942 6788898
No 199
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=21.85 E-value=42 Score=18.49 Aligned_cols=12 Identities=33% Similarity=1.035 Sum_probs=6.2
Q ss_pred ccccccccccCC
Q 041895 178 SCPVCRKNFAHG 189 (206)
Q Consensus 178 sCPvCR~~l~~~ 189 (206)
.||+|-.++...
T Consensus 1 ~CP~C~s~l~~~ 12 (28)
T PF03119_consen 1 TCPVCGSKLVRE 12 (28)
T ss_dssp B-TTT--BEEE-
T ss_pred CcCCCCCEeEcC
Confidence 599999988633
No 200
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=21.77 E-value=42 Score=27.64 Aligned_cols=23 Identities=30% Similarity=0.822 Sum_probs=15.5
Q ss_pred HhHHHHHHhhCCCCcccccccccc
Q 041895 164 HECIWRWLRELRNYSCPVCRKNFA 187 (206)
Q Consensus 164 ~~CI~~WL~~~~~~sCPvCR~~l~ 187 (206)
+.||.+--. ...+-||+||.+..
T Consensus 97 ktCIrkn~~-~~gnpCPICRDeyL 119 (239)
T KOG4021|consen 97 KTCIRKNGR-FLGNPCPICRDEYL 119 (239)
T ss_pred hHHHhhcCe-ecCCCCCccccceE
Confidence 468877321 25678999998653
No 201
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.95 E-value=50 Score=32.14 Aligned_cols=43 Identities=19% Similarity=0.307 Sum_probs=28.6
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHHhhCCCCcccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWLRELRNYSCPVCR 183 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL~~~~~~sCPvCR 183 (206)
...|.||...=.....+..+.. |+-.||..| |. .-++.||+|-
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~--C~~~~C~~c---~~--~~~~~~~vC~ 696 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTF--CYTPYCVAC---SL--DYASISEVCG 696 (717)
T ss_pred HHHHHHhcCCcCccccccCccc--cCCcchHhh---hh--hhhccCcccC
Confidence 3589999876543333333333 999998887 55 5567899993
No 202
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=20.46 E-value=73 Score=28.28 Aligned_cols=42 Identities=10% Similarity=-0.103 Sum_probs=31.0
Q ss_pred cccccccccccccCCceeecCCCCCCC-cccHhHHHHHHhhCCCCcccccccc
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQF-LYHHECIWRWLRELRNYSCPVCRKN 185 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H-~FH~~CI~~WL~~~~~~sCPvCR~~ 185 (206)
..+|.+|-+.... ....+ |+| .|+.+|.. + ....+||+|-.-
T Consensus 343 ~~~~~~~~~~~~s---t~~~~---~~~n~~~~~~a~--~--s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 343 SLKGTSAGFGLLS---TIWSG---GNMNLSPGSLAS--A--SASPTSSTCDHN 385 (394)
T ss_pred hcccccccCceee---eEeec---CCcccChhhhhh--c--ccCCcccccccc
Confidence 4578888776543 33456 997 78999987 5 778999999764
No 203
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.42 E-value=84 Score=22.84 Aligned_cols=34 Identities=18% Similarity=0.153 Sum_probs=27.0
Q ss_pred cccccccccccccCCceeecCCCCCCCcccHhHHHHHH
Q 041895 134 EEECAICLKKFENIDNEATSLNCPCQFLYHHECIWRWL 171 (206)
Q Consensus 134 ~~~C~ICle~~~~~~~~~~Lp~~~C~H~FH~~CI~~WL 171 (206)
.-.|.||-+++..|+...-.+ =| ..|.+|+..=.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~---kG-sVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK---KG-SVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee---CC-cchHHHHHHHH
Confidence 458999999999999776666 33 58999987754
No 204
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=20.01 E-value=72 Score=25.50 Aligned_cols=11 Identities=27% Similarity=0.736 Sum_probs=6.8
Q ss_pred CCCCccccccc
Q 041895 174 LRNYSCPVCRK 184 (206)
Q Consensus 174 ~~~~sCPvCR~ 184 (206)
.....||+|-.
T Consensus 147 e~P~~CPiCga 157 (166)
T COG1592 147 EAPEVCPICGA 157 (166)
T ss_pred CCCCcCCCCCC
Confidence 34556788854
Done!