Query 023542
Match_columns 281
No_of_seqs 181 out of 1613
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 04:51:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023542.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023542hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 1.4E-16 3E-21 151.6 7.5 75 185-259 203-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 1.2E-14 2.5E-19 99.1 2.2 43 208-250 2-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.2 5.6E-12 1.2E-16 95.4 4.1 46 205-250 18-73 (73)
4 PHA02929 N1R/p28-like protein; 99.2 6.7E-12 1.5E-16 114.6 5.0 67 188-254 149-227 (238)
5 COG5540 RING-finger-containing 99.2 6E-12 1.3E-16 117.4 3.8 53 203-255 320-373 (374)
6 KOG0317 Predicted E3 ubiquitin 99.2 6.4E-11 1.4E-15 109.8 7.1 54 203-259 236-289 (293)
7 COG5243 HRD1 HRD ubiquitin lig 99.1 4.9E-11 1.1E-15 113.9 4.1 51 203-253 284-344 (491)
8 PLN03208 E3 ubiquitin-protein 99.0 1.6E-10 3.5E-15 102.3 3.4 53 204-259 16-84 (193)
9 KOG0823 Predicted E3 ubiquitin 99.0 2.2E-10 4.7E-15 103.5 3.3 52 203-257 44-98 (230)
10 PF13920 zf-C3HC4_3: Zinc fing 98.9 5.9E-10 1.3E-14 77.9 3.4 46 206-254 2-48 (50)
11 cd00162 RING RING-finger (Real 98.9 7.7E-10 1.7E-14 73.1 3.6 44 208-253 1-45 (45)
12 PF13923 zf-C3HC4_2: Zinc fing 98.9 8.4E-10 1.8E-14 73.4 3.1 39 209-249 1-39 (39)
13 smart00504 Ubox Modified RING 98.9 1.9E-09 4.2E-14 77.7 4.6 60 207-270 2-61 (63)
14 PF12861 zf-Apc11: Anaphase-pr 98.9 1.4E-09 3.1E-14 84.6 3.6 51 205-255 20-83 (85)
15 PF15227 zf-C3HC4_4: zinc fing 98.8 3.2E-09 6.8E-14 72.3 2.7 38 209-249 1-42 (42)
16 KOG0320 Predicted E3 ubiquitin 98.8 3.7E-09 8E-14 92.3 2.7 53 204-257 129-181 (187)
17 TIGR00599 rad18 DNA repair pro 98.7 1.1E-08 2.5E-13 99.6 5.8 57 198-257 18-74 (397)
18 PHA02926 zinc finger-like prot 98.7 6E-09 1.3E-13 94.0 3.3 52 203-254 167-230 (242)
19 PF00097 zf-C3HC4: Zinc finger 98.7 7.2E-09 1.6E-13 69.1 2.8 39 209-249 1-41 (41)
20 KOG0802 E3 ubiquitin ligase [P 98.7 4.2E-09 9.2E-14 106.3 2.2 50 205-254 290-341 (543)
21 PF14634 zf-RING_5: zinc-RING 98.7 1.3E-08 2.8E-13 69.6 3.3 44 208-251 1-44 (44)
22 smart00184 RING Ring finger. E 98.7 2.1E-08 4.5E-13 63.9 3.4 38 209-249 1-39 (39)
23 COG5574 PEX10 RING-finger-cont 98.5 7.1E-08 1.5E-12 88.8 2.6 52 204-258 213-266 (271)
24 COG5194 APC11 Component of SCF 98.4 1.2E-07 2.5E-12 73.0 2.5 32 226-257 53-84 (88)
25 KOG1493 Anaphase-promoting com 98.4 8.2E-08 1.8E-12 73.2 1.1 51 204-254 18-81 (84)
26 PF04564 U-box: U-box domain; 98.4 2.1E-07 4.5E-12 70.2 3.4 63 205-271 3-66 (73)
27 KOG1734 Predicted RING-contain 98.3 1E-07 2.2E-12 88.1 0.5 58 204-261 222-288 (328)
28 PF13445 zf-RING_UBOX: RING-ty 98.3 3.6E-07 7.9E-12 62.6 2.7 38 209-247 1-43 (43)
29 KOG2164 Predicted E3 ubiquitin 98.3 3.9E-07 8.5E-12 90.4 2.7 52 206-260 186-242 (513)
30 KOG0287 Postreplication repair 98.3 3.9E-07 8.4E-12 86.7 2.2 54 203-259 20-73 (442)
31 KOG2177 Predicted E3 ubiquitin 98.2 4E-07 8.6E-12 80.3 1.8 46 203-251 10-55 (386)
32 COG5432 RAD18 RING-finger-cont 98.1 9.9E-07 2.1E-11 82.5 2.2 55 197-254 16-70 (391)
33 TIGR00570 cdk7 CDK-activating 98.1 3E-06 6.4E-11 80.3 5.2 53 205-257 2-57 (309)
34 smart00744 RINGv The RING-vari 98.1 2.5E-06 5.4E-11 59.9 3.2 42 208-250 1-49 (49)
35 KOG0828 Predicted E3 ubiquitin 98.1 1.4E-06 3E-11 86.3 1.8 50 206-255 571-635 (636)
36 KOG0804 Cytoplasmic Zn-finger 98.0 2.6E-06 5.7E-11 83.5 1.8 48 205-254 174-222 (493)
37 COG5219 Uncharacterized conser 98.0 2.3E-06 4.9E-11 90.0 0.9 51 204-254 1467-1523(1525)
38 KOG2930 SCF ubiquitin ligase, 97.9 6.4E-06 1.4E-10 66.3 2.4 50 205-254 45-108 (114)
39 PF11793 FANCL_C: FANCL C-term 97.8 4.4E-06 9.6E-11 62.8 -0.2 49 206-254 2-66 (70)
40 KOG0827 Predicted E3 ubiquitin 97.7 1.9E-05 4.1E-10 76.4 3.2 48 206-253 4-55 (465)
41 KOG4265 Predicted E3 ubiquitin 97.7 2.3E-05 5E-10 75.1 3.0 47 205-254 289-336 (349)
42 KOG0311 Predicted E3 ubiquitin 97.7 7.2E-06 1.6E-10 78.5 -0.8 51 205-258 42-94 (381)
43 KOG0824 Predicted E3 ubiquitin 97.6 2.9E-05 6.2E-10 73.1 2.6 51 206-259 7-58 (324)
44 KOG0297 TNF receptor-associate 97.6 6.6E-05 1.4E-09 73.4 4.0 66 204-271 19-84 (391)
45 PF14835 zf-RING_6: zf-RING of 97.5 2.8E-05 6.1E-10 57.7 0.8 50 207-260 8-57 (65)
46 KOG1645 RING-finger-containing 97.5 8.1E-05 1.7E-09 72.6 3.5 49 205-253 3-55 (463)
47 KOG1039 Predicted E3 ubiquitin 97.4 7.9E-05 1.7E-09 71.8 2.2 50 204-253 159-220 (344)
48 KOG0978 E3 ubiquitin ligase in 97.3 6.9E-05 1.5E-09 77.6 1.2 51 206-259 643-694 (698)
49 KOG0825 PHD Zn-finger protein 97.3 4.2E-05 9.2E-10 79.4 -0.4 51 205-255 122-172 (1134)
50 KOG4159 Predicted E3 ubiquitin 97.3 0.0002 4.4E-09 70.2 4.3 52 204-258 82-133 (398)
51 KOG3970 Predicted E3 ubiquitin 97.3 0.00033 7.2E-09 63.8 5.0 70 206-276 50-131 (299)
52 KOG4172 Predicted E3 ubiquitin 97.3 6.5E-05 1.4E-09 54.2 0.2 45 206-253 7-53 (62)
53 KOG2660 Locus-specific chromos 97.2 0.00015 3.2E-09 69.0 1.9 48 206-256 15-63 (331)
54 KOG1941 Acetylcholine receptor 96.9 0.00034 7.4E-09 68.1 1.1 46 206-251 365-413 (518)
55 KOG1785 Tyrosine kinase negati 96.8 0.00054 1.2E-08 66.9 1.3 46 206-254 369-416 (563)
56 KOG4445 Uncharacterized conser 96.7 0.00042 9.2E-09 65.4 0.4 49 206-254 115-186 (368)
57 PF11789 zf-Nse: Zinc-finger o 96.7 0.00094 2E-08 48.4 2.0 41 206-248 11-53 (57)
58 KOG1428 Inhibitor of type V ad 96.7 0.0013 2.9E-08 72.2 3.7 65 205-269 3485-3562(3738)
59 KOG4692 Predicted E3 ubiquitin 96.4 0.0012 2.6E-08 63.7 1.3 56 204-262 420-475 (489)
60 COG5152 Uncharacterized conser 96.3 0.002 4.4E-08 57.8 1.9 44 206-252 196-239 (259)
61 KOG3039 Uncharacterized conser 96.2 0.004 8.7E-08 57.5 3.4 54 205-258 220-274 (303)
62 KOG0826 Predicted E3 ubiquitin 96.2 0.017 3.6E-07 55.4 7.3 49 203-253 297-345 (357)
63 KOG2879 Predicted E3 ubiquitin 96.1 0.0054 1.2E-07 57.4 3.6 50 203-254 236-287 (298)
64 KOG1814 Predicted E3 ubiquitin 95.9 0.0075 1.6E-07 59.2 3.8 47 205-251 183-237 (445)
65 KOG1002 Nucleotide excision re 95.9 0.0039 8.4E-08 63.0 1.9 53 203-258 533-590 (791)
66 PF10367 Vps39_2: Vacuolar sor 95.8 0.0034 7.4E-08 49.2 1.0 34 204-238 76-109 (109)
67 PHA02825 LAP/PHD finger-like p 95.7 0.011 2.3E-07 51.4 3.5 47 204-254 6-59 (162)
68 PF04641 Rtf2: Rtf2 RING-finge 95.6 0.023 5E-07 52.6 5.8 53 204-257 111-164 (260)
69 PF05883 Baculo_RING: Baculovi 95.6 0.0065 1.4E-07 51.3 1.9 37 205-241 25-67 (134)
70 KOG1813 Predicted E3 ubiquitin 95.5 0.011 2.3E-07 55.9 3.0 45 206-253 241-285 (313)
71 KOG0801 Predicted E3 ubiquitin 95.4 0.0051 1.1E-07 53.7 0.7 31 203-233 174-204 (205)
72 PF10272 Tmpp129: Putative tra 95.4 0.018 3.8E-07 56.0 4.4 70 188-258 250-355 (358)
73 PHA02862 5L protein; Provision 95.4 0.013 2.8E-07 50.2 2.8 48 206-257 2-56 (156)
74 PF12906 RINGv: RING-variant d 95.3 0.014 3E-07 40.5 2.4 40 209-249 1-47 (47)
75 KOG4185 Predicted E3 ubiquitin 95.2 0.022 4.8E-07 53.0 4.3 47 207-253 4-54 (296)
76 PF14570 zf-RING_4: RING/Ubox 95.2 0.017 3.7E-07 40.6 2.5 44 209-253 1-47 (48)
77 PHA03096 p28-like protein; Pro 95.1 0.011 2.4E-07 55.7 1.8 36 207-242 179-219 (284)
78 PF08746 zf-RING-like: RING-li 95.0 0.014 2.9E-07 39.9 1.5 41 209-249 1-43 (43)
79 KOG4275 Predicted E3 ubiquitin 94.6 0.0078 1.7E-07 56.9 -0.6 41 206-253 300-341 (350)
80 KOG1571 Predicted E3 ubiquitin 94.6 0.019 4.1E-07 55.5 1.9 43 205-253 304-346 (355)
81 KOG1952 Transcription factor N 94.3 0.024 5.3E-07 59.9 2.2 49 203-251 188-244 (950)
82 COG5222 Uncharacterized conser 94.2 0.054 1.2E-06 51.5 4.0 45 206-253 274-321 (427)
83 COG5175 MOT2 Transcriptional r 94.0 0.038 8.2E-07 53.4 2.6 55 205-259 13-69 (480)
84 PF14447 Prok-RING_4: Prokaryo 93.9 0.032 7E-07 40.2 1.6 47 207-258 8-54 (55)
85 KOG1940 Zn-finger protein [Gen 93.9 0.068 1.5E-06 50.3 4.1 63 204-273 156-219 (276)
86 KOG4739 Uncharacterized protei 93.5 0.026 5.6E-07 51.8 0.7 46 207-255 4-49 (233)
87 KOG0827 Predicted E3 ubiquitin 93.5 0.0079 1.7E-07 58.7 -2.8 52 206-257 196-248 (465)
88 KOG3800 Predicted E3 ubiquitin 92.3 0.16 3.5E-06 48.0 4.0 47 208-254 2-51 (300)
89 COG5183 SSM4 Protein involved 92.2 0.095 2.1E-06 55.5 2.7 58 202-260 8-72 (1175)
90 KOG1001 Helicase-like transcri 91.9 0.04 8.8E-07 57.7 -0.4 50 207-260 455-506 (674)
91 COG5220 TFB3 Cdk activating ki 91.2 0.12 2.7E-06 47.8 2.0 47 205-251 9-61 (314)
92 KOG2114 Vacuolar assembly/sort 91.2 0.12 2.5E-06 55.0 2.0 44 206-254 840-883 (933)
93 KOG3268 Predicted E3 ubiquitin 90.9 0.19 4E-06 44.8 2.7 31 225-255 188-229 (234)
94 KOG2932 E3 ubiquitin ligase in 90.9 0.1 2.2E-06 49.9 1.2 42 208-253 92-133 (389)
95 COG5236 Uncharacterized conser 90.7 0.22 4.8E-06 48.4 3.2 48 203-253 58-107 (493)
96 PF05290 Baculo_IE-1: Baculovi 90.1 0.28 6E-06 41.6 2.9 52 204-258 78-136 (140)
97 PF14446 Prok-RING_1: Prokaryo 89.6 0.38 8.3E-06 34.6 2.9 40 205-248 4-44 (54)
98 KOG1812 Predicted E3 ubiquitin 89.3 0.32 6.9E-06 47.8 3.2 53 205-257 145-206 (384)
99 KOG1609 Protein involved in mR 89.2 0.16 3.5E-06 47.0 1.0 57 206-262 78-142 (323)
100 KOG0298 DEAD box-containing he 88.3 0.15 3.3E-06 56.3 0.2 46 206-253 1153-1198(1394)
101 KOG1100 Predicted E3 ubiquitin 87.5 0.27 5.9E-06 44.4 1.3 38 209-253 161-199 (207)
102 KOG3053 Uncharacterized conser 86.9 0.27 5.8E-06 45.9 1.0 50 204-253 18-81 (293)
103 KOG2034 Vacuolar sorting prote 86.8 0.31 6.7E-06 52.1 1.5 37 204-241 815-851 (911)
104 PF03854 zf-P11: P-11 zinc fin 86.5 0.3 6.5E-06 34.4 0.8 44 208-256 4-48 (50)
105 PF07800 DUF1644: Protein of u 86.4 0.68 1.5E-05 40.3 3.1 37 205-241 1-47 (162)
106 KOG3161 Predicted E3 ubiquitin 86.4 0.36 7.8E-06 50.2 1.6 43 206-251 11-54 (861)
107 KOG3002 Zn finger protein [Gen 85.2 0.78 1.7E-05 43.7 3.2 49 204-257 46-94 (299)
108 KOG3899 Uncharacterized conser 84.8 0.4 8.7E-06 45.6 1.0 33 227-259 325-370 (381)
109 KOG0309 Conserved WD40 repeat- 79.8 1.1 2.4E-05 47.5 2.1 22 226-247 1047-1068(1081)
110 KOG0825 PHD Zn-finger protein 79.8 0.98 2.1E-05 48.1 1.7 49 205-253 95-153 (1134)
111 KOG0802 E3 ubiquitin ligase [P 78.2 1.3 2.7E-05 45.3 1.9 49 206-261 479-527 (543)
112 KOG4362 Transcriptional regula 78.2 0.57 1.2E-05 49.1 -0.6 47 206-255 21-70 (684)
113 KOG3005 GIY-YIG type nuclease 77.3 1.7 3.7E-05 40.9 2.3 48 206-253 182-242 (276)
114 KOG4367 Predicted Zn-finger pr 76.3 1.3 2.8E-05 44.4 1.3 36 204-242 2-37 (699)
115 KOG2817 Predicted E3 ubiquitin 75.1 2.6 5.6E-05 41.5 3.0 47 206-252 334-383 (394)
116 KOG4718 Non-SMC (structural ma 73.6 2.1 4.6E-05 39.0 1.9 49 204-254 179-227 (235)
117 KOG1815 Predicted E3 ubiquitin 71.4 2.4 5.3E-05 42.2 1.9 52 203-256 67-128 (444)
118 KOG1812 Predicted E3 ubiquitin 67.8 2.4 5.3E-05 41.6 1.1 44 206-249 306-351 (384)
119 KOG1829 Uncharacterized conser 64.8 2.8 6.1E-05 43.4 0.9 43 203-249 508-556 (580)
120 KOG0269 WD40 repeat-containing 62.3 5.8 0.00013 42.2 2.6 42 206-248 779-820 (839)
121 PF01363 FYVE: FYVE zinc finge 62.3 3.7 8.1E-05 29.8 0.9 38 203-240 6-44 (69)
122 PF13901 DUF4206: Domain of un 61.8 5.7 0.00012 35.5 2.2 40 206-251 152-197 (202)
123 KOG3579 Predicted E3 ubiquitin 61.1 6.5 0.00014 37.5 2.5 38 205-243 267-306 (352)
124 PF07975 C1_4: TFIIH C1-like d 59.6 7.3 0.00016 27.7 1.9 42 209-250 2-50 (51)
125 KOG3113 Uncharacterized conser 56.3 10 0.00022 35.6 2.9 52 206-259 111-163 (293)
126 smart00249 PHD PHD zinc finger 54.3 7.8 0.00017 24.8 1.3 30 208-238 1-31 (47)
127 PF02891 zf-MIZ: MIZ/SP-RING z 54.3 16 0.00035 25.5 3.0 43 207-252 3-50 (50)
128 PF06906 DUF1272: Protein of u 51.6 21 0.00047 26.0 3.3 45 208-255 7-53 (57)
129 KOG3039 Uncharacterized conser 51.2 12 0.00026 35.1 2.4 33 206-241 43-75 (303)
130 PF10571 UPF0547: Uncharacteri 50.6 8 0.00017 23.6 0.8 22 208-231 2-24 (26)
131 PF00628 PHD: PHD-finger; Int 47.6 10 0.00022 25.7 1.1 44 208-251 1-50 (51)
132 TIGR00622 ssl1 transcription f 47.6 19 0.00042 29.6 2.9 44 207-250 56-110 (112)
133 PF09889 DUF2116: Uncharacteri 46.1 25 0.00054 25.7 3.0 19 242-260 2-20 (59)
134 smart00132 LIM Zinc-binding do 45.4 21 0.00047 21.9 2.3 36 209-253 2-37 (39)
135 PF04423 Rad50_zn_hook: Rad50 44.7 7.6 0.00016 27.2 0.1 24 245-268 22-45 (54)
136 KOG2066 Vacuolar assembly/sort 44.5 11 0.00024 40.4 1.2 47 206-253 784-834 (846)
137 PLN02436 cellulose synthase A 43.7 24 0.00052 39.2 3.7 49 206-254 36-89 (1094)
138 PLN02189 cellulose synthase 43.7 20 0.00044 39.6 3.1 50 205-254 33-87 (1040)
139 PF06844 DUF1244: Protein of u 42.8 14 0.00031 27.7 1.3 13 230-242 11-23 (68)
140 PRK06266 transcription initiat 42.6 26 0.00055 30.9 3.1 49 204-270 115-163 (178)
141 PLN02195 cellulose synthase A 42.5 33 0.00072 37.8 4.5 57 205-261 5-66 (977)
142 KOG0824 Predicted E3 ubiquitin 42.2 5.9 0.00013 37.9 -1.0 48 204-253 103-150 (324)
143 KOG2807 RNA polymerase II tran 41.5 21 0.00045 34.8 2.5 46 206-251 330-375 (378)
144 TIGR00373 conserved hypothetic 41.3 24 0.00051 30.4 2.7 50 204-271 107-156 (158)
145 PF04216 FdhE: Protein involve 41.2 3.6 7.7E-05 38.5 -2.7 46 206-252 172-220 (290)
146 KOG3799 Rab3 effector RIM1 and 38.7 8.2 0.00018 33.1 -0.6 51 203-253 62-117 (169)
147 PF14569 zf-UDP: Zinc-binding 38.5 45 0.00097 25.9 3.4 49 205-253 8-61 (80)
148 KOG3842 Adaptor protein Pellin 38.4 31 0.00068 33.5 3.2 53 206-258 341-418 (429)
149 smart00064 FYVE Protein presen 38.0 31 0.00067 24.8 2.5 37 205-241 9-46 (68)
150 PRK04023 DNA polymerase II lar 36.4 58 0.0013 36.2 5.1 65 202-272 622-694 (1121)
151 PLN02638 cellulose synthase A 36.3 45 0.00098 37.2 4.3 49 206-254 17-70 (1079)
152 PF05605 zf-Di19: Drought indu 36.0 16 0.00034 25.6 0.6 37 206-252 2-40 (54)
153 cd00065 FYVE FYVE domain; Zinc 35.7 27 0.00059 24.1 1.8 35 207-241 3-38 (57)
154 KOG4185 Predicted E3 ubiquitin 35.3 6.3 0.00014 36.6 -2.0 47 206-252 207-265 (296)
155 KOG2068 MOT2 transcription fac 35.1 31 0.00066 33.5 2.6 51 206-257 249-301 (327)
156 PF00412 LIM: LIM domain; Int 35.1 32 0.0007 23.5 2.1 40 209-257 1-40 (58)
157 PRK03564 formate dehydrogenase 35.0 19 0.00042 34.5 1.2 45 205-251 186-234 (309)
158 COG1675 TFA1 Transcription ini 34.6 39 0.00084 30.0 3.0 50 204-271 111-160 (176)
159 PF10497 zf-4CXXC_R1: Zinc-fin 34.2 36 0.00078 27.4 2.5 45 206-251 7-69 (105)
160 PF13832 zf-HC5HC2H_2: PHD-zin 29.7 26 0.00057 27.6 1.0 32 205-238 54-87 (110)
161 PF13719 zinc_ribbon_5: zinc-r 28.4 33 0.00072 22.3 1.1 14 207-220 3-16 (37)
162 cd00350 rubredoxin_like Rubred 28.1 45 0.00098 21.1 1.7 10 242-251 16-25 (33)
163 KOG1729 FYVE finger containing 28.0 13 0.00027 35.4 -1.3 39 206-244 214-252 (288)
164 COG5109 Uncharacterized conser 27.3 51 0.0011 32.1 2.6 44 206-249 336-382 (396)
165 COG3813 Uncharacterized protei 27.0 57 0.0012 25.1 2.3 45 209-255 8-53 (84)
166 PF12773 DZR: Double zinc ribb 26.8 48 0.001 22.4 1.8 27 231-257 14-43 (50)
167 PF13717 zinc_ribbon_4: zinc-r 26.8 33 0.00071 22.3 0.9 14 207-220 3-16 (36)
168 PLN02400 cellulose synthase 26.7 54 0.0012 36.6 3.0 50 205-254 35-89 (1085)
169 smart00647 IBR In Between Ring 26.1 19 0.00041 25.1 -0.4 19 221-239 39-58 (64)
170 PLN02915 cellulose synthase A 25.3 62 0.0013 36.0 3.1 50 205-254 14-68 (1044)
171 KOG1815 Predicted E3 ubiquitin 25.2 22 0.00048 35.4 -0.2 37 206-242 226-267 (444)
172 PF07191 zinc-ribbons_6: zinc- 25.1 8 0.00017 29.3 -2.6 39 207-253 2-40 (70)
173 PTZ00303 phosphatidylinositol 24.5 66 0.0014 35.1 3.0 34 207-240 461-500 (1374)
174 PF14311 DUF4379: Domain of un 24.3 47 0.001 23.2 1.4 22 227-249 34-55 (55)
175 KOG3726 Uncharacterized conser 23.7 42 0.00092 35.6 1.5 41 206-250 654-696 (717)
176 PF09986 DUF2225: Uncharacteri 23.7 65 0.0014 29.0 2.5 73 205-280 4-89 (214)
177 PF13240 zinc_ribbon_2: zinc-r 23.4 14 0.0003 21.8 -1.2 8 209-216 2-9 (23)
178 PF02318 FYVE_2: FYVE-type zin 22.6 46 0.00099 27.0 1.2 44 205-250 53-101 (118)
179 COG4068 Uncharacterized protei 22.1 68 0.0015 23.7 1.8 18 242-259 7-24 (64)
180 PRK11088 rrmA 23S rRNA methylt 22.1 56 0.0012 29.8 1.9 26 207-232 3-28 (272)
181 smart00531 TFIIE Transcription 22.1 71 0.0015 26.9 2.3 48 204-264 97-144 (147)
182 COG4847 Uncharacterized protei 22.0 65 0.0014 26.0 1.9 34 206-240 6-39 (103)
183 PF13771 zf-HC5HC2H: PHD-like 21.6 54 0.0012 24.7 1.4 31 206-238 36-68 (90)
184 KOG4577 Transcription factor L 21.3 25 0.00055 33.7 -0.6 47 206-261 92-138 (383)
185 KOG2071 mRNA cleavage and poly 21.3 52 0.0011 34.2 1.6 37 204-240 511-557 (579)
186 KOG3816 Cell differentiation r 21.1 76 0.0017 31.8 2.6 31 207-240 89-119 (526)
187 TIGR01562 FdhE formate dehydro 20.9 34 0.00073 32.8 0.1 23 229-251 210-232 (305)
188 KOG2113 Predicted RNA binding 20.8 76 0.0016 30.9 2.4 43 206-253 343-386 (394)
189 PF06937 EURL: EURL protein; 20.1 1.9E+02 0.0041 27.5 4.8 54 207-263 31-87 (285)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.66 E-value=1.4e-16 Score=151.60 Aligned_cols=75 Identities=33% Similarity=0.644 Sum_probs=64.0
Q ss_pred CCchhhHHHHhcCCCccCCCCc-----ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCCCCc
Q 023542 185 RDVAAAVAAVVRLPSVDGAGAD-----QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDV 258 (281)
Q Consensus 185 ~~~~as~~~i~~LP~~~~~~~~-----~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~~~~ 258 (281)
+.....+..+.++|...+...+ ..|+||+|+|+.|+++|.|||+|.||..||++||.+++ .||+||+++.+...
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 3566788999999999884432 28999999999999999999999999999999998876 49999999966554
Q ss_pred h
Q 023542 259 F 259 (281)
Q Consensus 259 ~ 259 (281)
.
T Consensus 283 ~ 283 (348)
T KOG4628|consen 283 S 283 (348)
T ss_pred C
Confidence 4
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.48 E-value=1.2e-14 Score=99.14 Aligned_cols=43 Identities=53% Similarity=1.218 Sum_probs=40.3
Q ss_pred cccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCcc
Q 023542 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR 250 (281)
+|+||+++|..++.+..++|+|.||.+||.+|++++.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999999888999999999999999999999999999997
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=99.24 E-value=5.6e-12 Score=95.38 Aligned_cols=46 Identities=48% Similarity=1.079 Sum_probs=36.7
Q ss_pred CcccccccccccCCC----------CceeEcCCCCcccHhhHHHHHhcCCCCCCcc
Q 023542 205 ADQCCVICKEEMGGG----------RDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250 (281)
Q Consensus 205 ~~~~CaICLeef~~~----------~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR 250 (281)
.+..|+||++++.+. ..+...+|+|.||..||.+|++.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 345599999999432 3445558999999999999999999999998
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.24 E-value=6.7e-12 Score=114.64 Aligned_cols=67 Identities=33% Similarity=0.583 Sum_probs=52.5
Q ss_pred hhhHHHHhcCCCccC-------CCCcccccccccccCCCCc----eeEc-CCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542 188 AAAVAAVVRLPSVDG-------AGADQCCVICKEEMGGGRD----VCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 188 ~as~~~i~~LP~~~~-------~~~~~~CaICLeef~~~~~----vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
+.++.-++.+|.+.. ..++.+|+||++++.++.. +..+ +|+|.||..||.+|++.+.+||+||..+.
T Consensus 149 ~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 149 KNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred chhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 346777788887753 2347889999999875431 2334 69999999999999999999999999874
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=6e-12 Score=117.38 Aligned_cols=53 Identities=36% Similarity=0.774 Sum_probs=47.8
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCC
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPT 255 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~ 255 (281)
...+.+|+|||++|..+++++.+||.|.||..|+++|+.. +..||+||..+++
T Consensus 320 a~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 320 ADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred cCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3457999999999988889999999999999999999995 5589999999875
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=6.4e-11 Score=109.83 Aligned_cols=54 Identities=33% Similarity=0.886 Sum_probs=47.5
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~ 259 (281)
...+..|.+||+...++. .+||||.|||.||..|......||+||..+.+.++.
T Consensus 236 ~~a~~kC~LCLe~~~~pS---aTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPS---ATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCCceEEEecCCCCCC---cCcCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 455788999999887665 789999999999999999999999999999877653
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=4.9e-11 Score=113.89 Aligned_cols=51 Identities=35% Similarity=0.906 Sum_probs=43.8
Q ss_pred CCCcccccccccc-cCCC---------CceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 203 AGADQCCVICKEE-MGGG---------RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 203 ~~~~~~CaICLee-f~~~---------~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
..+|..|.||+|+ |+.+ .+...+||||.||.+|++.|++++++||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 4568889999999 4444 2446889999999999999999999999999996
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.02 E-value=1.6e-10 Score=102.33 Aligned_cols=53 Identities=30% Similarity=0.744 Sum_probs=43.1
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc----------------CCCCCCccccCCCCCch
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK----------------RNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~----------------~~tCPlCR~~l~~~~~~ 259 (281)
.++.+|+||++.++++. .++|||.||+.||.+|+.. ...||+||..+...+..
T Consensus 16 ~~~~~CpICld~~~dPV---vT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 16 GGDFDCNICLDQVRDPV---VTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CCccCCccCCCcCCCcE---EcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 45788999999987553 6789999999999999852 24799999999766544
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=2.2e-10 Score=103.50 Aligned_cols=52 Identities=33% Similarity=0.790 Sum_probs=42.5
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC---CCCCCccccCCCCC
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR---NTCPCCRFRLPTDD 257 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR~~l~~~~ 257 (281)
+....+|.||+|--+++. ++.|||.|||.||.+||..+ +.||+||..|..+.
T Consensus 44 ~~~~FdCNICLd~akdPV---vTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPV---VTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeeccccCCCE---EeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 456899999999866544 66799999999999999853 36899999996554
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.95 E-value=5.9e-10 Score=77.91 Aligned_cols=46 Identities=43% Similarity=0.834 Sum_probs=39.1
Q ss_pred cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
+..|.||++... .+..+||||. ||..|+.+|+++...||+||+++.
T Consensus 2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 568999999864 4667899999 999999999999999999999874
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.94 E-value=7.7e-10 Score=73.10 Aligned_cols=44 Identities=50% Similarity=1.021 Sum_probs=36.5
Q ss_pred cccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccC
Q 023542 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRL 253 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l 253 (281)
+|+||++.+. +.....+|+|.||..|++.|++. +..||+||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999983 34445569999999999999987 77899999764
No 12
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.92 E-value=8.4e-10 Score=73.42 Aligned_cols=39 Identities=41% Similarity=0.912 Sum_probs=33.1
Q ss_pred ccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCc
Q 023542 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCC 249 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlC 249 (281)
|+||++.+.+ .+..++|||.||.+|+.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999875 44578999999999999999998899998
No 13
>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=98.89 E-value=1.9e-09 Score=77.75 Aligned_cols=60 Identities=25% Similarity=0.283 Sum_probs=47.7
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHH
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALV 270 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~ 270 (281)
..|+||.+.+.++. .++|||.|++.||.+|++++.+||+|+..+..++.. ....+.+.++
T Consensus 2 ~~Cpi~~~~~~~Pv---~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~-~~~~l~~~i~ 61 (63)
T smart00504 2 FLCPISLEVMKDPV---ILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI-PNLALKSAIQ 61 (63)
T ss_pred cCCcCCCCcCCCCE---ECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce-eCHHHHHHHH
Confidence 46999999998753 679999999999999999988999999998655533 3445555444
No 14
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.88 E-value=1.4e-09 Score=84.64 Aligned_cols=51 Identities=37% Similarity=0.837 Sum_probs=39.4
Q ss_pred CcccccccccccCC--------CC--ceeEcCCCCcccHhhHHHHHhc---CCCCCCccccCCC
Q 023542 205 ADQCCVICKEEMGG--------GR--DVCELPCKHLFHWLCILPWLKK---RNTCPCCRFRLPT 255 (281)
Q Consensus 205 ~~~~CaICLeef~~--------~~--~vr~LPC~H~FH~~CI~~WL~~---~~tCPlCR~~l~~ 255 (281)
++..|.||...|+. |+ .+..-.|+|.||..||.+|+++ +.+||+||+.+.-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 47779999999862 22 3333369999999999999985 4589999998753
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.79 E-value=3.2e-09 Score=72.27 Aligned_cols=38 Identities=34% Similarity=0.761 Sum_probs=29.5
Q ss_pred ccccccccCCCCceeEcCCCCcccHhhHHHHHhcC----CCCCCc
Q 023542 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR----NTCPCC 249 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~----~tCPlC 249 (281)
|+||++.|+++. .++|||.||..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv---~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPV---SLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEE---E-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcc---ccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999998665 88999999999999999753 369988
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=3.7e-09 Score=92.29 Aligned_cols=53 Identities=28% Similarity=0.597 Sum_probs=43.9
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
++.+.|+|||+.+..... ..+.|||+||..||+.-++....||+||..|..+.
T Consensus 129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 346889999999975443 34679999999999999999999999998876554
No 17
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.74 E-value=1.1e-08 Score=99.62 Aligned_cols=57 Identities=30% Similarity=0.526 Sum_probs=46.6
Q ss_pred CCccCCCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 198 PSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 198 P~~~~~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
|....-.+...|+||++.|.++. .++|+|.||..||..|+.....||+||..+....
T Consensus 18 ~~l~~Le~~l~C~IC~d~~~~Pv---itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~ 74 (397)
T TIGR00599 18 PSLYPLDTSLRCHICKDFFDVPV---LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESK 74 (397)
T ss_pred ccccccccccCCCcCchhhhCcc---CCCCCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence 33333455789999999997654 6799999999999999998889999999886543
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=98.74 E-value=6e-09 Score=94.04 Aligned_cols=52 Identities=35% Similarity=0.750 Sum_probs=39.0
Q ss_pred CCCcccccccccccCCC-----CceeEc-CCCCcccHhhHHHHHhcC------CCCCCccccCC
Q 023542 203 AGADQCCVICKEEMGGG-----RDVCEL-PCKHLFHWLCILPWLKKR------NTCPCCRFRLP 254 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~-----~~vr~L-PC~H~FH~~CI~~WL~~~------~tCPlCR~~l~ 254 (281)
...+.+|+||+|..-++ ..-..+ +|+|.||..||..|.+.+ .+||+||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 34578899999986432 112344 699999999999999753 35999998763
No 19
>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=98.73 E-value=7.2e-09 Score=69.07 Aligned_cols=39 Identities=38% Similarity=0.873 Sum_probs=33.5
Q ss_pred ccccccccCCCCceeEcCCCCcccHhhHHHHHh--cCCCCCCc
Q 023542 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLK--KRNTCPCC 249 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~--~~~tCPlC 249 (281)
|+||++.+.++. ..++|+|.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987533 5779999999999999999 45589998
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.72 E-value=4.2e-09 Score=106.34 Aligned_cols=50 Identities=42% Similarity=1.022 Sum_probs=44.3
Q ss_pred CcccccccccccCCCCc--eeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542 205 ADQCCVICKEEMGGGRD--VCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~--vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
.+..|+||+|++..+.+ ...+||+|.||..|+..|+++.++||+||..+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 47889999999987654 668899999999999999999999999999553
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.70 E-value=1.3e-08 Score=69.56 Aligned_cols=44 Identities=32% Similarity=0.594 Sum_probs=38.3
Q ss_pred cccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccc
Q 023542 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF 251 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 251 (281)
.|+||.+.|.+......++|||.||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999955567778899999999999999866779999984
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=98.66 E-value=2.1e-08 Score=63.86 Aligned_cols=38 Identities=55% Similarity=1.179 Sum_probs=32.7
Q ss_pred ccccccccCCCCceeEcCCCCcccHhhHHHHHh-cCCCCCCc
Q 023542 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCC 249 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlC 249 (281)
|+||++.. .....++|+|.||..|++.|++ .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999883 4566789999999999999998 66789988
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=7.1e-08 Score=88.82 Aligned_cols=52 Identities=40% Similarity=0.776 Sum_probs=43.6
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHH-HHhcCCC-CCCccccCCCCCc
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILP-WLKKRNT-CPCCRFRLPTDDV 258 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~-WL~~~~t-CPlCR~~l~~~~~ 258 (281)
..+..|+||+++.+.+. .+||||.||+.||.. |=.++.. ||+||+.+..+++
T Consensus 213 ~~d~kC~lC~e~~~~ps---~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPS---CTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcc---cccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 55899999999876544 779999999999999 8776664 9999999877765
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.43 E-value=1.2e-07 Score=72.96 Aligned_cols=32 Identities=38% Similarity=0.777 Sum_probs=28.7
Q ss_pred CCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 226 PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 226 PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
-|+|.||..||.+||.++..||++|+.+.-.+
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 59999999999999999999999999875443
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=8.2e-08 Score=73.24 Aligned_cols=51 Identities=39% Similarity=0.895 Sum_probs=37.6
Q ss_pred CCcccccccccccCCCCceeEc----------CCCCcccHhhHHHHHhc---CCCCCCccccCC
Q 023542 204 GADQCCVICKEEMGGGRDVCEL----------PCKHLFHWLCILPWLKK---RNTCPCCRFRLP 254 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~L----------PC~H~FH~~CI~~WL~~---~~tCPlCR~~l~ 254 (281)
..+..|.||+-.|...-....+ -|.|.||..||.+|+.. +..||+||+.+.
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 3456899999888532222221 38999999999999974 448999999874
No 26
>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=98.41 E-value=2.1e-07 Score=70.18 Aligned_cols=63 Identities=27% Similarity=0.330 Sum_probs=45.3
Q ss_pred CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542 205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVFGEIERLWDALVK 271 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~~e~~rl~~~l~~ 271 (281)
+...|+||.+-|.++. .+||||.|.+.||..|+++ +.+||+|+..+...+. ..+..+...++.
T Consensus 3 ~~f~CpIt~~lM~dPV---i~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l-~pn~~Lk~~I~~ 66 (73)
T PF04564_consen 3 DEFLCPITGELMRDPV---ILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL-IPNRALKSAIEE 66 (73)
T ss_dssp GGGB-TTTSSB-SSEE---EETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS-EE-HHHHHHHHH
T ss_pred cccCCcCcCcHhhCce---eCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc-eECHHHHHHHHH
Confidence 4678999999998666 7799999999999999998 8899999998876543 345555555554
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=1e-07 Score=88.12 Aligned_cols=58 Identities=29% Similarity=0.798 Sum_probs=46.8
Q ss_pred CCcccccccccccCCCC-------ceeEcCCCCcccHhhHHHHHh--cCCCCCCccccCCCCCchhH
Q 023542 204 GADQCCVICKEEMGGGR-------DVCELPCKHLFHWLCILPWLK--KRNTCPCCRFRLPTDDVFGE 261 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~-------~vr~LPC~H~FH~~CI~~WL~--~~~tCPlCR~~l~~~~~~~e 261 (281)
-++..|+||-..+...+ +.-.+.|+|+||..||+.|-- +.++||.||..+..+....+
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsn 288 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSN 288 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccC
Confidence 35778999998886544 677889999999999999974 67899999999866655443
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.32 E-value=3.6e-07 Score=62.63 Aligned_cols=38 Identities=39% Similarity=0.761 Sum_probs=22.6
Q ss_pred ccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcC----CCCC
Q 023542 209 CVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKR----NTCP 247 (281)
Q Consensus 209 CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~----~tCP 247 (281)
|+||.+ |.+.+ ....|+|||+|+.+|++++++++ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 86644 45678999999999999999853 2676
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=3.9e-07 Score=90.41 Aligned_cols=52 Identities=31% Similarity=0.614 Sum_probs=41.8
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-----CCCCCCccccCCCCCchh
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-----RNTCPCCRFRLPTDDVFG 260 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-----~~tCPlCR~~l~~~~~~~ 260 (281)
+..|+||+++...+. .+.|||+||..||..++.. ...||+||..|..+++..
T Consensus 186 ~~~CPICL~~~~~p~---~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p 242 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV---RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP 242 (513)
T ss_pred CCcCCcccCCCCccc---ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence 788999999865433 3459999999999999874 358999999998877543
No 30
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.26 E-value=3.9e-07 Score=86.69 Aligned_cols=54 Identities=30% Similarity=0.532 Sum_probs=45.9
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~ 259 (281)
-.+-..|-||.+-|..+. .+||+|.||.-||...|..+..||.|+..+.+.+..
T Consensus 20 lD~lLRC~IC~eyf~ip~---itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNIPM---ITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred hHHHHHHhHHHHHhcCce---eccccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 344577999999997655 779999999999999999999999999988766543
No 31
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=4e-07 Score=80.26 Aligned_cols=46 Identities=30% Similarity=0.602 Sum_probs=40.1
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccc
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF 251 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 251 (281)
..+...|+||++.|.++ ..+||+|.||..|+..++.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 34578899999999877 58899999999999999995568999994
No 32
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.14 E-value=9.9e-07 Score=82.53 Aligned_cols=55 Identities=33% Similarity=0.575 Sum_probs=44.5
Q ss_pred CCCccCCCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542 197 LPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 197 LP~~~~~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
+|....-..-..|-||-+.|..+. .++|||.||.-||.+.|..+..||+||.+..
T Consensus 16 IPSL~~LDs~lrC~IC~~~i~ip~---~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 16 IPSLKGLDSMLRCRICDCRISIPC---ETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred CcchhcchhHHHhhhhhheeecce---ecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 344433334567999999987554 6789999999999999999999999999874
No 33
>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=98.13 E-value=3e-06 Score=80.26 Aligned_cols=53 Identities=23% Similarity=0.426 Sum_probs=38.7
Q ss_pred Cccccccccccc-CCCC-ceeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCC
Q 023542 205 ADQCCVICKEEM-GGGR-DVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDD 257 (281)
Q Consensus 205 ~~~~CaICLeef-~~~~-~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~ 257 (281)
++..|++|..+- -.+. ++..-+|||.||..|++..+. ....||.|+..+...+
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 356799999963 2333 222237999999999999765 4568999998886555
No 34
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.11 E-value=2.5e-06 Score=59.93 Aligned_cols=42 Identities=33% Similarity=0.899 Sum_probs=32.5
Q ss_pred cccccccccCCCCceeEcCCC-----CcccHhhHHHHHhc--CCCCCCcc
Q 023542 208 CCVICKEEMGGGRDVCELPCK-----HLFHWLCILPWLKK--RNTCPCCR 250 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~-----H~FH~~CI~~WL~~--~~tCPlCR 250 (281)
.|.||+++ .+++.....||. |.||..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999993 344455577975 88999999999965 44899995
No 35
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.4e-06 Score=86.26 Aligned_cols=50 Identities=36% Similarity=0.870 Sum_probs=39.2
Q ss_pred cccccccccccCC-----CCc---------eeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCC
Q 023542 206 DQCCVICKEEMGG-----GRD---------VCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPT 255 (281)
Q Consensus 206 ~~~CaICLeef~~-----~~~---------vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~ 255 (281)
...|+|||.++.- +.. -..+||.|.||..|+.+|....+ .||+||.+++.
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 5679999998742 111 12349999999999999999655 99999999874
No 36
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.98 E-value=2.6e-06 Score=83.50 Aligned_cols=48 Identities=29% Similarity=0.840 Sum_probs=39.5
Q ss_pred CcccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542 205 ADQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 205 ~~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
+-..|+|||+.+.... .+....|.|.||..|+.+| ...+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence 4567999999996544 3455579999999999999 6779999998766
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.95 E-value=2.3e-06 Score=89.95 Aligned_cols=51 Identities=29% Similarity=0.742 Sum_probs=37.8
Q ss_pred CCcccccccccccC-CCC--ceeEcC-CCCcccHhhHHHHHhc--CCCCCCccccCC
Q 023542 204 GADQCCVICKEEMG-GGR--DVCELP-CKHLFHWLCILPWLKK--RNTCPCCRFRLP 254 (281)
Q Consensus 204 ~~~~~CaICLeef~-~~~--~vr~LP-C~H~FH~~CI~~WL~~--~~tCPlCR~~l~ 254 (281)
++..+|+||..... .+. .-...| |.|.||..|+.+|++. +++||+||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34788999988764 111 111223 9999999999999985 568999998775
No 38
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=6.4e-06 Score=66.33 Aligned_cols=50 Identities=34% Similarity=0.686 Sum_probs=37.5
Q ss_pred CcccccccccccCC-----------C-C--ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542 205 ADQCCVICKEEMGG-----------G-R--DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 205 ~~~~CaICLeef~~-----------~-~--~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
.-..|+||+.-+-+ . + .+.---|+|.||..||.+||++++.||+|.+++.
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 35679998764411 1 1 2333359999999999999999999999988764
No 39
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.79 E-value=4.4e-06 Score=62.77 Aligned_cols=49 Identities=27% Similarity=0.592 Sum_probs=22.9
Q ss_pred cccccccccccC-CCCcee-Ec---CCCCcccHhhHHHHHhc---C--------CCCCCccccCC
Q 023542 206 DQCCVICKEEMG-GGRDVC-EL---PCKHLFHWLCILPWLKK---R--------NTCPCCRFRLP 254 (281)
Q Consensus 206 ~~~CaICLeef~-~~~~vr-~L---PC~H~FH~~CI~~WL~~---~--------~tCPlCR~~l~ 254 (281)
+.+|.||.+.+. +++... .- .|+..||..|+.+||.. . .+||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 467999999875 333211 22 39999999999999973 1 25999998874
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=1.9e-05 Score=76.45 Aligned_cols=48 Identities=27% Similarity=0.794 Sum_probs=37.2
Q ss_pred cccccccccccCCCCceeEcC-CCCcccHhhHHHHHhc---CCCCCCccccC
Q 023542 206 DQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKK---RNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~---~~tCPlCR~~l 253 (281)
...|.||.+-+-...++..+. |||+||..|+..|+.. +++||+||-.+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 467999955554455666664 9999999999999984 46899999444
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=2.3e-05 Score=75.08 Aligned_cols=47 Identities=38% Similarity=0.775 Sum_probs=40.5
Q ss_pred CcccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCC
Q 023542 205 ADQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
.+.+|.||+.+- +.+..|||.|. -|..|.+..--.++.||+||+++.
T Consensus 289 ~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 378899999974 56679999999 999999997777889999999873
No 42
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=7.2e-06 Score=78.46 Aligned_cols=51 Identities=29% Similarity=0.606 Sum_probs=41.2
Q ss_pred CcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhc-CCCCCCccccCCCCCc
Q 023542 205 ADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDV 258 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~ 258 (281)
.++.|+||++-++. .+..+ |.|.||.+||.+-++. +++||.||..+.++..
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs 94 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS 94 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence 37889999998853 33444 9999999999999975 7799999999866553
No 43
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=2.9e-05 Score=73.06 Aligned_cols=51 Identities=31% Similarity=0.672 Sum_probs=41.4
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCch
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~ 259 (281)
..+|+||......+ ..++|+|.||..||+.-.+. ..+|++||+++++.-.+
T Consensus 7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 56899999976544 47889999999999998865 55799999999765444
No 44
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.55 E-value=6.6e-05 Score=73.44 Aligned_cols=66 Identities=26% Similarity=0.488 Sum_probs=51.7
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK 271 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~ 271 (281)
.++..|++|...+.++... ..|+|.||..|+..|+..+..||.|+..+............+..+.+
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~ 84 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLK 84 (391)
T ss_pred cccccCccccccccCCCCC--CCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHh
Confidence 4478899999999876632 57999999999999999999999999988766655544444444443
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.53 E-value=2.8e-05 Score=57.67 Aligned_cols=50 Identities=28% Similarity=0.555 Sum_probs=24.4
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchh
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFG 260 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~ 260 (281)
..|++|.+-++++ +....|.|.||+.||..-+. ..||+|+.+--.+|...
T Consensus 8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~ 57 (65)
T PF14835_consen 8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQI 57 (65)
T ss_dssp TS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS---
T ss_pred cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHh
Confidence 4699999988754 34457999999999988554 35999998877777653
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=8.1e-05 Score=72.57 Aligned_cols=49 Identities=33% Similarity=0.710 Sum_probs=38.7
Q ss_pred CcccccccccccCCCCcee--EcCCCCcccHhhHHHHHhc--CCCCCCccccC
Q 023542 205 ADQCCVICKEEMGGGRDVC--ELPCKHLFHWLCILPWLKK--RNTCPCCRFRL 253 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr--~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~l 253 (281)
.+..|+||+++++.+.+-| .+.|+|.|-..||.+||.+ ...||.|..+-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3678999999998755444 3469999999999999963 33799997654
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=7.9e-05 Score=71.75 Aligned_cols=50 Identities=32% Similarity=0.768 Sum_probs=38.4
Q ss_pred CCcccccccccccCCCC----ceeEcC-CCCcccHhhHHHHHh--c-----CCCCCCccccC
Q 023542 204 GADQCCVICKEEMGGGR----DVCELP-CKHLFHWLCILPWLK--K-----RNTCPCCRFRL 253 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~----~vr~LP-C~H~FH~~CI~~WL~--~-----~~tCPlCR~~l 253 (281)
..+.+|.||++...+.. .-..+| |.|.||..||+.|-+ + .+.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 45788999999875422 123445 999999999999983 3 46899999876
No 48
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=6.9e-05 Score=77.60 Aligned_cols=51 Identities=22% Similarity=0.535 Sum_probs=41.5
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCCch
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~~ 259 (281)
-..|++|-..+++ +....|+|.||..|+.+-+. +++.||.|...+...|+.
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 4679999877653 33556999999999999997 577999999999877764
No 49
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.34 E-value=4.2e-05 Score=79.40 Aligned_cols=51 Identities=22% Similarity=0.403 Sum_probs=43.9
Q ss_pred CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542 205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT 255 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 255 (281)
....|++|+..+.++......+|+|.||..||..|-+...+||+||..+..
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 456799999999877665566899999999999999999999999998743
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.0002 Score=70.19 Aligned_cols=52 Identities=25% Similarity=0.503 Sum_probs=44.1
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV 258 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 258 (281)
..+.+|.||..-+..+. .+||||.||..||++-+.....||.||..+..-.+
T Consensus 82 ~sef~c~vc~~~l~~pv---~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~ 133 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPV---VTPCGHSFCLECLDRSLDQETECPLCRDELVELPA 133 (398)
T ss_pred cchhhhhhhHhhcCCCc---cccccccccHHHHHHHhccCCCCcccccccccchH
Confidence 45899999999887555 66999999999999988888899999999976443
No 51
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=0.00033 Score=63.81 Aligned_cols=70 Identities=30% Similarity=0.653 Sum_probs=51.2
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--------CCCCCCccccCC--CCCchhHHHHHHHHH--HHhc
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--------RNTCPCCRFRLP--TDDVFGEIERLWDAL--VKTS 273 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--------~~tCPlCR~~l~--~~~~~~e~~rl~~~l--~~~~ 273 (281)
+..|..|--.++.|+.+| +-|-|.|||+|++.|-.. ...||.|..+|- ...+....+.+.+.+ ++|+
T Consensus 50 ~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~qvNWa 128 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQVNWA 128 (299)
T ss_pred CCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHhhhHH
Confidence 567999999998888665 459999999999999863 237999999883 333444566666666 3455
Q ss_pred CCC
Q 023542 274 GGG 276 (281)
Q Consensus 274 ~~~ 276 (281)
++|
T Consensus 129 Rag 131 (299)
T KOG3970|consen 129 RAG 131 (299)
T ss_pred hhc
Confidence 544
No 52
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.28 E-value=6.5e-05 Score=54.16 Aligned_cols=45 Identities=31% Similarity=0.660 Sum_probs=35.2
Q ss_pred cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHh-cCCCCCCccccC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLK-KRNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~-~~~tCPlCR~~l 253 (281)
+.+|.||.|.- .+-...-|||. .|.+|..+-++ .+..||+||+++
T Consensus 7 ~dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 47899998753 33334469998 89999888776 688999999976
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.21 E-value=0.00015 Score=68.99 Aligned_cols=48 Identities=23% Similarity=0.617 Sum_probs=39.9
Q ss_pred cccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCC
Q 023542 206 DQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTD 256 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 256 (281)
-..|.+|-.-|-+.. ++ -|-|.||+.||.+.|..+.+||+|...+-..
T Consensus 15 ~itC~LC~GYliDAT---TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 15 HITCRLCGGYLIDAT---TITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ceehhhccceeecch---hHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 567999998886544 33 4999999999999999999999998887433
No 54
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.89 E-value=0.00034 Score=68.07 Aligned_cols=46 Identities=35% Similarity=0.879 Sum_probs=38.8
Q ss_pred cccccccccccCC-CCceeEcCCCCcccHhhHHHHHhcCC--CCCCccc
Q 023542 206 DQCCVICKEEMGG-GRDVCELPCKHLFHWLCILPWLKKRN--TCPCCRF 251 (281)
Q Consensus 206 ~~~CaICLeef~~-~~~vr~LPC~H~FH~~CI~~WL~~~~--tCPlCR~ 251 (281)
+..|..|-+.+.. ++.+..+||.|+||..|+...|.++. +||.||.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 6679999999854 34777889999999999999997654 7999983
No 55
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.76 E-value=0.00054 Score=66.88 Aligned_cols=46 Identities=37% Similarity=0.840 Sum_probs=37.9
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--CCCCCCccccCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--RNTCPCCRFRLP 254 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~l~ 254 (281)
...|.||-|. .+.++.-||||..|..|+..|-.. .++||.||.+|.
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 4569999774 356667799999999999999854 569999999984
No 56
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.73 E-value=0.00042 Score=65.40 Aligned_cols=49 Identities=29% Similarity=0.748 Sum_probs=41.5
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-----------------------CCCCCCccccCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-----------------------RNTCPCCRFRLP 254 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-----------------------~~tCPlCR~~l~ 254 (281)
..+|.|||--|.++.....++|-|.||..|+.++|.. ...||+||..|.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 4569999999999888888899999999999988751 136999999884
No 57
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.72 E-value=0.00094 Score=48.37 Aligned_cols=41 Identities=24% Similarity=0.503 Sum_probs=28.5
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--CCCCCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--RNTCPC 248 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPl 248 (281)
...|+|.+..|++ .++...|+|.|-++.|..|+++ ...||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 6789999999985 4556689999999999999954 347998
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.69 E-value=0.0013 Score=72.21 Aligned_cols=65 Identities=31% Similarity=0.715 Sum_probs=47.0
Q ss_pred CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC----------CCCCCccccCCC---CCchhHHHHHHHHH
Q 023542 205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR----------NTCPCCRFRLPT---DDVFGEIERLWDAL 269 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~----------~tCPlCR~~l~~---~~~~~e~~rl~~~l 269 (281)
.|..|.||.-|--.......+.|+|.||..|..+.|+++ -.||+|+.++.. +|....+.++++.+
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~LkDLldPiKel~edV 3562 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLKDLLDPIKELYEDV 3562 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHHHHHHHHHHHHHHH
Confidence 477899998876555677788899999999999888653 179999998843 34443444444433
No 59
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0012 Score=63.73 Aligned_cols=56 Identities=25% Similarity=0.412 Sum_probs=44.7
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHH
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEI 262 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~ 262 (281)
.++..|+||.. .+......||+|.-|..||.+-+...+.|=.|+..+.....+.+.
T Consensus 420 sEd~lCpICyA---~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~~ld~~~ 475 (489)
T KOG4692|consen 420 SEDNLCPICYA---GPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDVILDKEE 475 (489)
T ss_pred cccccCcceec---ccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeeehhccccc
Confidence 45788999955 344455679999999999999999999999999998765544443
No 60
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.30 E-value=0.002 Score=57.77 Aligned_cols=44 Identities=27% Similarity=0.533 Sum_probs=38.3
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCcccc
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFR 252 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~ 252 (281)
...|.||.++|+.+. ...|||.||..|.-+=.+...+|-+|-..
T Consensus 196 PF~C~iCKkdy~spv---vt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESPV---VTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccchh---hhhcchhHHHHHHHHHhccCCcceecchh
Confidence 567999999998665 66799999999999988999999999654
No 61
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.23 E-value=0.004 Score=57.54 Aligned_cols=54 Identities=17% Similarity=0.321 Sum_probs=48.3
Q ss_pred CcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542 205 ADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV 258 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 258 (281)
..+.|+||.+.+.+......| ||||+|+.+|..+.+..-..||+|-.++...|.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 467899999999998888888 799999999999999999999999988876664
No 62
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.16 E-value=0.017 Score=55.38 Aligned_cols=49 Identities=14% Similarity=0.425 Sum_probs=38.5
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
..+...|+||+....++..+. --|-+||..||-..+.++++||+-..+.
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~--vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLE--VSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CCccccChhHHhccCCCceEE--ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 345678999999876655221 2699999999999999999999876554
No 63
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.08 E-value=0.0054 Score=57.37 Aligned_cols=50 Identities=24% Similarity=0.448 Sum_probs=37.9
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC--CCCCCccccCC
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR--NTCPCCRFRLP 254 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~--~tCPlCR~~l~ 254 (281)
...+.+|++|-+.=..+- ...+|+|+||.-||..=.... .+||.|-.++.
T Consensus 236 ~t~~~~C~~Cg~~PtiP~--~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPH--VIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCCCe--eeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 445889999987643332 234699999999999977643 69999988775
No 64
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0075 Score=59.19 Aligned_cols=47 Identities=30% Similarity=0.526 Sum_probs=36.9
Q ss_pred CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC--------CCCCCccc
Q 023542 205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR--------NTCPCCRF 251 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~--------~tCPlCR~ 251 (281)
.-..|.||.++.....-...+||+|+||+.|...++... -.||-|+-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 467899999998655677788999999999999998631 26876543
No 65
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.90 E-value=0.0039 Score=62.95 Aligned_cols=53 Identities=28% Similarity=0.606 Sum_probs=40.8
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-----CCCCCCccccCCCCCc
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-----RNTCPCCRFRLPTDDV 258 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-----~~tCPlCR~~l~~~~~ 258 (281)
+.+..+|.+|-++-++.. ...|.|.||+.||..+... +-+||+|-..+.-+..
T Consensus 533 nk~~~~C~lc~d~aed~i---~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYI---ESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred ccCceeecccCChhhhhH---hhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 456788999998755433 5569999999999999863 4489999888765543
No 66
>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=95.84 E-value=0.0034 Score=49.22 Aligned_cols=34 Identities=26% Similarity=0.731 Sum_probs=27.2
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHH
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILP 238 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~ 238 (281)
.++..|++|-..+.. ......||||.||..|+++
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEecccccC
Confidence 346679999999976 4556679999999999763
No 67
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.69 E-value=0.011 Score=51.40 Aligned_cols=47 Identities=28% Similarity=0.674 Sum_probs=34.6
Q ss_pred CCcccccccccccCCCCceeEcCCCC-----cccHhhHHHHHhc--CCCCCCccccCC
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKH-----LFHWLCILPWLKK--RNTCPCCRFRLP 254 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H-----~FH~~CI~~WL~~--~~tCPlCR~~l~ 254 (281)
..+.+|-||.++-. .. .-||.. .-|.+|+.+|+.. ...|++|+++..
T Consensus 6 ~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 44778999998843 22 237554 4599999999975 447999988873
No 68
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.63 E-value=0.023 Score=52.59 Aligned_cols=53 Identities=25% Similarity=0.520 Sum_probs=41.8
Q ss_pred CCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 204 GADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
.....|+|...+|........+ ||||+|...++..- .....||+|-.++...|
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 4578899999999554444444 89999999999997 33568999999886655
No 69
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=95.61 E-value=0.0065 Score=51.31 Aligned_cols=37 Identities=19% Similarity=0.395 Sum_probs=29.8
Q ss_pred CcccccccccccCCCCceeEcCCC------CcccHhhHHHHHh
Q 023542 205 ADQCCVICKEEMGGGRDVCELPCK------HLFHWLCILPWLK 241 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LPC~------H~FH~~CI~~WL~ 241 (281)
...+|+||++.+.+.+.+..++|+ |.||.+|+.+|-+
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 367899999999874455566776 8899999999943
No 70
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.48 E-value=0.011 Score=55.89 Aligned_cols=45 Identities=24% Similarity=0.461 Sum_probs=39.5
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
...|-||.+.|..+. ...|+|.||..|...-+++...|++|-++.
T Consensus 241 Pf~c~icr~~f~~pV---vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPV---VTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred Cccccccccccccch---hhcCCceeehhhhccccccCCcceeccccc
Confidence 456999999998766 667999999999999999999999997765
No 71
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.43 E-value=0.0051 Score=53.65 Aligned_cols=31 Identities=32% Similarity=0.789 Sum_probs=28.1
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccH
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHW 233 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~ 233 (281)
+.+..+|.||+|+++.++.+..|||-.+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 4457899999999999999999999999996
No 72
>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=95.42 E-value=0.018 Score=56.04 Aligned_cols=70 Identities=20% Similarity=0.434 Sum_probs=46.2
Q ss_pred hhhHHHHhcCCCccCC---CCcccccccccccCCCCcee--------------Ec----C--CCCcccHhhHHHHHhc--
Q 023542 188 AAAVAAVVRLPSVDGA---GADQCCVICKEEMGGGRDVC--------------EL----P--CKHLFHWLCILPWLKK-- 242 (281)
Q Consensus 188 ~as~~~i~~LP~~~~~---~~~~~CaICLeef~~~~~vr--------------~L----P--C~H~FH~~CI~~WL~~-- 242 (281)
.+=++.++..|..... .+...|--|+..-.+ .++. .. + |.-.+|.+|+-+|+..
T Consensus 250 e~F~~~V~~Np~y~~~~~~~e~e~CigC~~~~~~-vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQ 328 (358)
T PF10272_consen 250 EAFKEQVEQNPRYSYPESGQELEPCIGCMQAQPN-VKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQ 328 (358)
T ss_pred HHHHHHHHhCCccccCCCccccCCccccccCCCC-cEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcC
Confidence 3446677777777665 556778888875421 1111 01 2 4556789999999963
Q ss_pred -----------CCCCCCccccCCCCCc
Q 023542 243 -----------RNTCPCCRFRLPTDDV 258 (281)
Q Consensus 243 -----------~~tCPlCR~~l~~~~~ 258 (281)
+.+||+||+.++--|+
T Consensus 329 d~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 329 DQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred CCCChhhhhcCCCCCCCCcccceeeee
Confidence 2379999999876664
No 73
>PHA02862 5L protein; Provisional
Probab=95.35 E-value=0.013 Score=50.23 Aligned_cols=48 Identities=19% Similarity=0.606 Sum_probs=35.2
Q ss_pred cccccccccccCCCCceeEcCCC-----CcccHhhHHHHHhc--CCCCCCccccCCCCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCK-----HLFHWLCILPWLKK--RNTCPCCRFRLPTDD 257 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~-----H~FH~~CI~~WL~~--~~tCPlCR~~l~~~~ 257 (281)
+..|-||.++-+ +. .-||. ..-|.+|+.+|++. +.+|++||.+..-+.
T Consensus 2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 356999999843 22 24654 46899999999974 458999999885433
No 74
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.29 E-value=0.014 Score=40.54 Aligned_cols=40 Identities=28% Similarity=0.757 Sum_probs=26.6
Q ss_pred ccccccccCCCCceeEcCCC--C---cccHhhHHHHHhc--CCCCCCc
Q 023542 209 CVICKEEMGGGRDVCELPCK--H---LFHWLCILPWLKK--RNTCPCC 249 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~--H---~FH~~CI~~WL~~--~~tCPlC 249 (281)
|-||+++-.+.. .-..||. - ..|..|+.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999876544 2345754 3 6799999999974 5579987
No 75
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.23 E-value=0.022 Score=53.03 Aligned_cols=47 Identities=28% Similarity=0.499 Sum_probs=38.5
Q ss_pred ccccccccccCCCC---ceeEcCCCCcccHhhHHHHHhcCC-CCCCccccC
Q 023542 207 QCCVICKEEMGGGR---DVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRL 253 (281)
Q Consensus 207 ~~CaICLeef~~~~---~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l 253 (281)
.+|-||-++|..++ ..+.+.|||.||..|+.+-+.... .||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 46999999998753 445566999999999999887544 799999985
No 76
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.16 E-value=0.017 Score=40.62 Aligned_cols=44 Identities=27% Similarity=0.594 Sum_probs=21.5
Q ss_pred ccccccccCCCCceeEc--CCCCcccHhhHHHHHh-cCCCCCCccccC
Q 023542 209 CVICKEEMGGGRDVCEL--PCKHLFHWLCILPWLK-KRNTCPCCRFRL 253 (281)
Q Consensus 209 CaICLeef~~~~~vr~L--PC~H~FH~~CI~~WL~-~~~tCPlCR~~l 253 (281)
|++|.+++.. ...... +|+...|+.|-.+-++ .+..||-||.+.
T Consensus 1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999833 222344 4899999999888775 477999999864
No 77
>PHA03096 p28-like protein; Provisional
Probab=95.07 E-value=0.011 Score=55.75 Aligned_cols=36 Identities=31% Similarity=0.594 Sum_probs=27.8
Q ss_pred ccccccccccCCCC----ceeEcC-CCCcccHhhHHHHHhc
Q 023542 207 QCCVICKEEMGGGR----DVCELP-CKHLFHWLCILPWLKK 242 (281)
Q Consensus 207 ~~CaICLeef~~~~----~vr~LP-C~H~FH~~CI~~WL~~ 242 (281)
..|.||++...... .-..++ |.|.||..||..|-..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence 67999999876431 222455 9999999999999864
No 78
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=94.98 E-value=0.014 Score=39.93 Aligned_cols=41 Identities=29% Similarity=0.735 Sum_probs=24.3
Q ss_pred ccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC--CCCCc
Q 023542 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN--TCPCC 249 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~--tCPlC 249 (281)
|.+|.+-...|..-..-.|+-.+|..|+..+++.++ .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 778888877666433334999999999999998765 79988
No 79
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.58 E-value=0.0078 Score=56.86 Aligned_cols=41 Identities=34% Similarity=0.685 Sum_probs=33.1
Q ss_pred cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
+..|+||++. +.....|+|||. -|.+|..+ -+.||+||+.+
T Consensus 300 ~~LC~ICmDa---P~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLECGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcC---CcceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence 6679999985 456678899997 78889766 34899999865
No 80
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.55 E-value=0.019 Score=55.48 Aligned_cols=43 Identities=35% Similarity=0.776 Sum_probs=31.7
Q ss_pred CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
....|.||+++.++ ...+||||.-| |..-- +...+||+||+.+
T Consensus 304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRI 346 (355)
T ss_pred CCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHH
Confidence 35679999998765 44789999966 65443 3345699999876
No 81
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.31 E-value=0.024 Score=59.93 Aligned_cols=49 Identities=31% Similarity=0.747 Sum_probs=37.2
Q ss_pred CCCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcC-------CCCCCccc
Q 023542 203 AGADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKR-------NTCPCCRF 251 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~-------~tCPlCR~ 251 (281)
..+.++|.||.+.+.....+-.- .|-|+||..||.+|-+.. -.||.|..
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 45688999999998765533333 388999999999998641 16999974
No 82
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.18 E-value=0.054 Score=51.53 Aligned_cols=45 Identities=29% Similarity=0.535 Sum_probs=34.8
Q ss_pred cccccccccccCCCCceeEcC-CCCcccHhhHHHHHh-cCCCCCCc-cccC
Q 023542 206 DQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLK-KRNTCPCC-RFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~-~~~tCPlC-R~~l 253 (281)
...|+.|..-..++. .+| |+|.||.+||..-|. ....||.| |.++
T Consensus 274 ~LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdv 321 (427)
T COG5222 274 SLKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSRKDV 321 (427)
T ss_pred cccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCcccccc
Confidence 367999988876555 346 899999999998775 56689999 4444
No 83
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.95 E-value=0.038 Score=53.35 Aligned_cols=55 Identities=22% Similarity=0.486 Sum_probs=37.8
Q ss_pred CcccccccccccCCCCc-eeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCCch
Q 023542 205 ADQCCVICKEEMGGGRD-VCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~-vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~~ 259 (281)
++..|+.|++++...++ -.-.|||-..|.-|-..--+ -+..||-||+....+.+.
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 34559999999976553 33346887777766443322 367899999988777654
No 84
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.92 E-value=0.032 Score=40.25 Aligned_cols=47 Identities=36% Similarity=0.605 Sum_probs=33.9
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV 258 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 258 (281)
..|-.|... +.+-..+||+|..+..|.+-+ +-+-||.|-+++..++.
T Consensus 8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDDP 54 (55)
T ss_pred eeEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCcccCCCC
Confidence 345555543 334447799999999997764 67789999988876553
No 85
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.91 E-value=0.068 Score=50.31 Aligned_cols=63 Identities=29% Similarity=0.493 Sum_probs=47.0
Q ss_pred CCcccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHHhc
Q 023542 204 GADQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTS 273 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~~~ 273 (281)
.....|+||.+.+.... .+..++|+|.-|..|.......+-+||+|.. + .+..+.|+.+++.-
T Consensus 156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~------~d~~~~~~~~d~~l 219 (276)
T KOG1940|consen 156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-P------GDMSHYFRKLDKEL 219 (276)
T ss_pred cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-h------HHHHHHHHHHHHHH
Confidence 34556999999887655 4556689999999999999888899999976 3 23445666665543
No 86
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=93.55 E-value=0.026 Score=51.85 Aligned_cols=46 Identities=20% Similarity=0.439 Sum_probs=34.2
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT 255 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 255 (281)
.-|..|... ..++....+.|+|+||..|...-. ...||+||..+..
T Consensus 4 VhCn~C~~~-~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFRF-PSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRI 49 (233)
T ss_pred EEecccccc-CCCCceeeeechhhhhhhhcccCC--ccccccccceeee
Confidence 458877554 447778888999999999976532 2289999998743
No 87
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.53 E-value=0.0079 Score=58.70 Aligned_cols=52 Identities=25% Similarity=0.591 Sum_probs=44.0
Q ss_pred cccccccccccCCC-CceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 206 DQCCVICKEEMGGG-RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 206 ~~~CaICLeef~~~-~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
...|+||.+.++.. +++..+-|+|.+|.+|+.+||.+...||.||+.++...
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 56799999998754 45666679999999999999999999999999986543
No 88
>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=92.26 E-value=0.16 Score=47.96 Aligned_cols=47 Identities=21% Similarity=0.393 Sum_probs=33.9
Q ss_pred cccccccccC-CCC-ceeEcCCCCcccHhhHHHHHhcC-CCCCCccccCC
Q 023542 208 CCVICKEEMG-GGR-DVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLP 254 (281)
Q Consensus 208 ~CaICLeef~-~~~-~vr~LPC~H~FH~~CI~~WL~~~-~tCPlCR~~l~ 254 (281)
.|++|..+.. +++ ....=+|+|.-|..|.+.-+..+ ..||.|-..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 4899986543 333 22222899999999999999764 58999976653
No 89
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.24 E-value=0.095 Score=55.53 Aligned_cols=58 Identities=22% Similarity=0.627 Sum_probs=42.8
Q ss_pred CCCCcccccccccccCCCCceeEcCCCCc-----ccHhhHHHHHhc--CCCCCCccccCCCCCchh
Q 023542 202 GAGADQCCVICKEEMGGGRDVCELPCKHL-----FHWLCILPWLKK--RNTCPCCRFRLPTDDVFG 260 (281)
Q Consensus 202 ~~~~~~~CaICLeef~~~~~vr~LPC~H~-----FH~~CI~~WL~~--~~tCPlCR~~l~~~~~~~ 260 (281)
.++|+..|-||..+=..++++. -||... -|.+|+.+|+.- ...|-+|+.++.-++.+.
T Consensus 8 mN~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~ 72 (1175)
T COG5183 8 MNEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK 72 (1175)
T ss_pred CCccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence 3667889999999876655443 377643 799999999974 447999999885555443
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.94 E-value=0.04 Score=57.66 Aligned_cols=50 Identities=24% Similarity=0.578 Sum_probs=39.1
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--CCCCCCccccCCCCCchh
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--RNTCPCCRFRLPTDDVFG 260 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~l~~~~~~~ 260 (281)
..|.||++ . +.....+|+|.||.+|+..-+.. ...||.||..+..++.+.
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 78999999 2 44556789999999999998874 336999999886555443
No 91
>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=91.23 E-value=0.12 Score=47.78 Aligned_cols=47 Identities=23% Similarity=0.526 Sum_probs=34.6
Q ss_pred CcccccccccccC-CCC-ceeEcC-CCCcccHhhHHHHHhc-CCCCC--Cccc
Q 023542 205 ADQCCVICKEEMG-GGR-DVCELP-CKHLFHWLCILPWLKK-RNTCP--CCRF 251 (281)
Q Consensus 205 ~~~~CaICLeef~-~~~-~vr~LP-C~H~FH~~CI~~WL~~-~~tCP--lCR~ 251 (281)
.+..|+||..+.. +++ +...-| |-|.-|..|.++-+.+ ...|| -|..
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 3668999987653 344 222237 9999999999999975 66899 7843
No 92
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.21 E-value=0.12 Score=55.04 Aligned_cols=44 Identities=25% Similarity=0.591 Sum_probs=33.8
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
...|..|--..+- .....-|+|.||.+|.. .+...||-|+.+..
T Consensus 840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 3579999887754 33455699999999998 45678999988553
No 93
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.90 E-value=0.19 Score=44.75 Aligned_cols=31 Identities=29% Similarity=0.909 Sum_probs=25.3
Q ss_pred cCCCCcccHhhHHHHHhc-----C------CCCCCccccCCC
Q 023542 225 LPCKHLFHWLCILPWLKK-----R------NTCPCCRFRLPT 255 (281)
Q Consensus 225 LPC~H~FH~~CI~~WL~~-----~------~tCPlCR~~l~~ 255 (281)
..|+..||.-|+..||+. + ..||.|-.++.-
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 369999999999999973 1 269999888753
No 94
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.88 E-value=0.1 Score=49.86 Aligned_cols=42 Identities=29% Similarity=0.624 Sum_probs=29.5
Q ss_pred cccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
.|--|-..+. ..-|.+||.|+||.+|... ..-+.||.|-..|
T Consensus 92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 4666644433 3455779999999999764 3356899997655
No 95
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.69 E-value=0.22 Score=48.36 Aligned_cols=48 Identities=23% Similarity=0.536 Sum_probs=38.0
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh--cCCCCCCccccC
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK--KRNTCPCCRFRL 253 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~--~~~tCPlCR~~l 253 (281)
+++...|-||-+... -...+||+|.-|-.|.-+.-. ....||+||..+
T Consensus 58 DEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 345667999987653 566889999999999877543 577899999987
No 96
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=90.09 E-value=0.28 Score=41.61 Aligned_cols=52 Identities=27% Similarity=0.457 Sum_probs=39.1
Q ss_pred CCcccccccccccCCCCceeEc-C---CCCcccHhhHHHHHh---cCCCCCCccccCCCCCc
Q 023542 204 GADQCCVICKEEMGGGRDVCEL-P---CKHLFHWLCILPWLK---KRNTCPCCRFRLPTDDV 258 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~L-P---C~H~FH~~CI~~WL~---~~~tCPlCR~~l~~~~~ 258 (281)
..-.+|.||.|.-.+.. -+ | ||-.-|..|-...++ .+..||+|+..+.+...
T Consensus 78 ~~lYeCnIC~etS~ee~---FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 78 PKLYECNICKETSAEER---FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred CCceeccCcccccchhh---cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 35789999999765433 44 4 999999998777665 46789999999866543
No 97
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=89.61 E-value=0.38 Score=34.64 Aligned_cols=40 Identities=23% Similarity=0.537 Sum_probs=31.1
Q ss_pred CcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhcCCCCCC
Q 023542 205 ADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPC 248 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPl 248 (281)
....|.+|-+.|++++.+.+-| |+-.+|+.|-++ ...|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 3567999999998878777777 999999999433 455544
No 98
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.33 E-value=0.32 Score=47.78 Aligned_cols=53 Identities=26% Similarity=0.495 Sum_probs=37.0
Q ss_pred CcccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcC------CCCC--CccccCCCCC
Q 023542 205 ADQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKR------NTCP--CCRFRLPTDD 257 (281)
Q Consensus 205 ~~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~------~tCP--lCR~~l~~~~ 257 (281)
...+|.||..+....+ .-...-|+|.||.+|..+.++.+ -+|| .|...++.++
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~ 206 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLES 206 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHH
Confidence 3678999995554443 33344699999999999988732 2676 5777776555
No 99
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.20 E-value=0.16 Score=46.97 Aligned_cols=57 Identities=23% Similarity=0.447 Sum_probs=40.2
Q ss_pred cccccccccccCCCCc-eeEcCCC-----CcccHhhHHHHHh--cCCCCCCccccCCCCCchhHH
Q 023542 206 DQCCVICKEEMGGGRD-VCELPCK-----HLFHWLCILPWLK--KRNTCPCCRFRLPTDDVFGEI 262 (281)
Q Consensus 206 ~~~CaICLeef~~~~~-vr~LPC~-----H~FH~~CI~~WL~--~~~tCPlCR~~l~~~~~~~e~ 262 (281)
+..|-||.++...... .-..||. ...|+.|++.|+. .+.+|.+|.............
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~~~~~ 142 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGTKLKP 142 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecceeecc
Confidence 5789999998754322 3355764 4579999999998 456899998877555444333
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=88.30 E-value=0.15 Score=56.28 Aligned_cols=46 Identities=24% Similarity=0.454 Sum_probs=37.8
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
-..|.||++.+..-. ....|+|.+|..|+..|+..+..||+|+...
T Consensus 1153 ~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred ccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence 347999999987322 2456999999999999999999999998544
No 101
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.54 E-value=0.27 Score=44.38 Aligned_cols=38 Identities=37% Similarity=0.754 Sum_probs=28.8
Q ss_pred ccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccC
Q 023542 209 CVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
|-.|.+. +..|..+||.|. +|..|-.. -.+||+|+...
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChh
Confidence 8888664 456778899987 99999654 44699998765
No 102
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.94 E-value=0.27 Score=45.91 Aligned_cols=50 Identities=26% Similarity=0.755 Sum_probs=34.1
Q ss_pred CCcccccccccccCCCCce-eEcCCC-----CcccHhhHHHHHhcCC--------CCCCccccC
Q 023542 204 GADQCCVICKEEMGGGRDV-CELPCK-----HLFHWLCILPWLKKRN--------TCPCCRFRL 253 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~v-r~LPC~-----H~FH~~CI~~WL~~~~--------tCPlCR~~l 253 (281)
+.+..|-||..-=++...- -+-||. |..|..|+.+|+..+. +||.|+.+.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 4478899998754332211 122663 7899999999995321 699998876
No 103
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.85 E-value=0.31 Score=52.12 Aligned_cols=37 Identities=22% Similarity=0.530 Sum_probs=28.3
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK 241 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~ 241 (281)
+.+..|.+|...+-. +.-...||||.||++|+.+-..
T Consensus 815 ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence 346789999988754 3444569999999999987653
No 104
>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=86.53 E-value=0.3 Score=34.39 Aligned_cols=44 Identities=27% Similarity=0.585 Sum_probs=25.5
Q ss_pred cccccccccCCCCceeEcCCC-CcccHhhHHHHHhcCCCCCCccccCCCC
Q 023542 208 CCVICKEEMGGGRDVCELPCK-HLFHWLCILPWLKKRNTCPCCRFRLPTD 256 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~-H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 256 (281)
.|.-|..+.+ . ...|. |-.|..|+...+.+...||+|..+++++
T Consensus 4 nCKsCWf~~k--~---Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFANK--G---LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S--S--S---EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcCC--C---eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 4666665432 2 33576 8899999999999999999999998764
No 105
>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=86.42 E-value=0.68 Score=40.30 Aligned_cols=37 Identities=24% Similarity=0.361 Sum_probs=22.0
Q ss_pred CcccccccccccCCCCcee---------EcCCCCc-ccHhhHHHHHh
Q 023542 205 ADQCCVICKEEMGGGRDVC---------ELPCKHL-FHWLCILPWLK 241 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr---------~LPC~H~-FH~~CI~~WL~ 241 (281)
++..|+||||-=.+..-+. -.-|+-. -|..|+++.-+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 4678999999644332111 1115544 47789998864
No 106
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.36 E-value=0.36 Score=50.19 Aligned_cols=43 Identities=23% Similarity=0.412 Sum_probs=32.1
Q ss_pred cccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcCCCCCCccc
Q 023542 206 DQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKRNTCPCCRF 251 (281)
Q Consensus 206 ~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 251 (281)
-..|.||+.+|.... ..+.+.|||..|+.|...- -+.+|| |++
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 457999999986544 3345569999999998875 467899 543
No 107
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=85.24 E-value=0.78 Score=43.70 Aligned_cols=49 Identities=20% Similarity=0.307 Sum_probs=36.3
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
.+-.+|+||.+.+..+. .+-+=||.-|..|-.+ ..+.||.||.++..-.
T Consensus 46 ~~lleCPvC~~~l~~Pi--~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~~R 94 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPI--FQCDNGHLACSSCRTK---VSNKCPTCRLPIGNIR 94 (299)
T ss_pred hhhccCchhhccCcccc--eecCCCcEehhhhhhh---hcccCCccccccccHH
Confidence 44678999999987543 2223369999999763 5788999999998443
No 108
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.80 E-value=0.4 Score=45.62 Aligned_cols=33 Identities=27% Similarity=0.636 Sum_probs=26.0
Q ss_pred CCCcccHhhHHHHHhc-------------CCCCCCccccCCCCCch
Q 023542 227 CKHLFHWLCILPWLKK-------------RNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 227 C~H~FH~~CI~~WL~~-------------~~tCPlCR~~l~~~~~~ 259 (281)
|.-.+|.+|+.+|+.. +.+||+||+.++..|+-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~ 370 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH 370 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence 5677899999999852 35899999998766653
No 109
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=79.84 E-value=1.1 Score=47.50 Aligned_cols=22 Identities=32% Similarity=1.046 Sum_probs=20.8
Q ss_pred CCCCcccHhhHHHHHhcCCCCC
Q 023542 226 PCKHLFHWLCILPWLKKRNTCP 247 (281)
Q Consensus 226 PC~H~FH~~CI~~WL~~~~tCP 247 (281)
.|+|+-|..|...|++....||
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cp 1068 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCP 1068 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCC
Confidence 4999999999999999999998
No 110
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.82 E-value=0.98 Score=48.09 Aligned_cols=49 Identities=12% Similarity=0.124 Sum_probs=35.9
Q ss_pred CcccccccccccCCCCc-eeEcC---CCCcccHhhHHHHHhc------CCCCCCccccC
Q 023542 205 ADQCCVICKEEMGGGRD-VCELP---CKHLFHWLCILPWLKK------RNTCPCCRFRL 253 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~-vr~LP---C~H~FH~~CI~~WL~~------~~tCPlCR~~l 253 (281)
+...|.||.-++.+++. .-.+| |+|.||..||..|..+ +..|+.|..-+
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 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 35668888888876432 22335 9999999999999963 34689997766
No 111
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.16 E-value=1.3 Score=45.31 Aligned_cols=49 Identities=35% Similarity=0.863 Sum_probs=39.8
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhH
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGE 261 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e 261 (281)
...|.||.+++ ..+..+|. |.-|..+|+..+..||.|+..+..++....
T Consensus 479 ~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~ 527 (543)
T KOG0802|consen 479 NDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSK 527 (543)
T ss_pred cCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccccCc
Confidence 56799999987 34566788 999999999999999999988866665433
No 112
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=78.16 E-value=0.57 Score=49.07 Aligned_cols=47 Identities=23% Similarity=0.586 Sum_probs=37.7
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC---CCCCCccccCCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR---NTCPCCRFRLPT 255 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR~~l~~ 255 (281)
..+|+||..-+..+ ..+.|.|.|+..|+..-+... ..||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 67899999998765 256799999999988877543 479999987643
No 113
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=77.31 E-value=1.7 Score=40.86 Aligned_cols=48 Identities=27% Similarity=0.524 Sum_probs=35.3
Q ss_pred cccccccccccCCCCceeEc---C-CCCcccHhhHHHHHhc---------CCCCCCccccC
Q 023542 206 DQCCVICKEEMGGGRDVCEL---P-CKHLFHWLCILPWLKK---------RNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~L---P-C~H~FH~~CI~~WL~~---------~~tCPlCR~~l 253 (281)
..+|.+|.+++.+.+..+.. | |.-.+|..|+..-+.. ...||.|+..+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 46899999999544433332 2 9999999999995432 34799998855
No 114
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=76.25 E-value=1.3 Score=44.45 Aligned_cols=36 Identities=22% Similarity=0.380 Sum_probs=29.5
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK 242 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~ 242 (281)
+++..|+||..-|+++. .+||+|..|..|...-+.+
T Consensus 2 eeelkc~vc~~f~~epi---il~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPI---ILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCce---EeecccHHHHHHHHhhccc
Confidence 34678999999887554 8899999999999876653
No 115
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.10 E-value=2.6 Score=41.54 Aligned_cols=47 Identities=21% Similarity=0.359 Sum_probs=37.8
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC---CCCCcccc
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN---TCPCCRFR 252 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~---tCPlCR~~ 252 (281)
-..|||=.+.-.+......+.|||+-.++-+++..+... .||.|-..
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 567999877766666777889999999999999887543 79999443
No 116
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=73.57 E-value=2.1 Score=39.01 Aligned_cols=49 Identities=24% Similarity=0.492 Sum_probs=38.2
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~ 254 (281)
..-..|.+|.+-.-.|. +.-.|+-.+|..|+...+++...||.|..-++
T Consensus 179 dnlk~Cn~Ch~LvIqg~--rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~ 227 (235)
T KOG4718|consen 179 DNLKNCNLCHCLVIQGI--RCGSCNIQYHRGCIQTYLQRRDICPHCGDLWT 227 (235)
T ss_pred HHHHHHhHhHHHhheee--ccCcccchhhhHHHHHHhcccCcCCchhcccC
Confidence 34567999998765433 33359999999999999999999999965543
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.40 E-value=2.4 Score=42.16 Aligned_cols=52 Identities=31% Similarity=0.595 Sum_probs=38.2
Q ss_pred CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC--------CCCC--CccccCCCC
Q 023542 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR--------NTCP--CCRFRLPTD 256 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~--------~tCP--lCR~~l~~~ 256 (281)
.....+|-||.+.+.. ....+.|+|.||..|....+.++ -+|| -|++.+...
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~ 128 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGED 128 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCc
Confidence 4557889999998854 45566899999999999998742 2454 677666433
No 118
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.84 E-value=2.4 Score=41.63 Aligned_cols=44 Identities=23% Similarity=0.492 Sum_probs=32.4
Q ss_pred cccccccccccCCCC--ceeEcCCCCcccHhhHHHHHhcCCCCCCc
Q 023542 206 DQCCVICKEEMGGGR--DVCELPCKHLFHWLCILPWLKKRNTCPCC 249 (281)
Q Consensus 206 ~~~CaICLeef~~~~--~vr~LPC~H~FH~~CI~~WL~~~~tCPlC 249 (281)
-..|+.|.-.++-.+ .-....|+|.||+.|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 467999988765433 32233499999999999998888877555
No 119
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=64.80 E-value=2.8 Score=43.37 Aligned_cols=43 Identities=28% Similarity=0.705 Sum_probs=27.3
Q ss_pred CCCccccccccc-----ccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCc
Q 023542 203 AGADQCCVICKE-----EMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCC 249 (281)
Q Consensus 203 ~~~~~~CaICLe-----ef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlC 249 (281)
...+..|.+|-. .|+ .++++.. .|+++||.+|..+ ++.-||.|
T Consensus 508 ~~~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 508 TGKGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred ccCeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 344677888822 122 2233333 5999999999544 45559999
No 120
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=62.35 E-value=5.8 Score=42.23 Aligned_cols=42 Identities=26% Similarity=0.453 Sum_probs=31.3
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPC 248 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPl 248 (281)
...|.+|-..+. |..+-.-.|+|.-|-.|+..|+..++.||.
T Consensus 779 ~~~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceee-eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 446999977653 232222239999999999999999998876
No 121
>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=62.29 E-value=3.7 Score=29.82 Aligned_cols=38 Identities=16% Similarity=0.303 Sum_probs=18.7
Q ss_pred CCCcccccccccccCCCCceeEc-CCCCcccHhhHHHHH
Q 023542 203 AGADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWL 240 (281)
Q Consensus 203 ~~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL 240 (281)
+.+...|.+|...|..-..-..- -||+.||..|.....
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34567899999999643322222 499999999976544
No 122
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=61.82 E-value=5.7 Score=35.48 Aligned_cols=40 Identities=30% Similarity=0.754 Sum_probs=27.4
Q ss_pred cccccccccc-----cCCCCceeEcC-CCCcccHhhHHHHHhcCCCCCCccc
Q 023542 206 DQCCVICKEE-----MGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPCCRF 251 (281)
Q Consensus 206 ~~~CaICLee-----f~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR~ 251 (281)
+..|.+|-++ |+. +.+..-+ |+-.||..|.. ...||-|-+
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 5679999753 222 2344444 99999999965 267999943
No 123
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.14 E-value=6.5 Score=37.50 Aligned_cols=38 Identities=29% Similarity=0.622 Sum_probs=29.2
Q ss_pred CcccccccccccCCCCceeEcC--CCCcccHhhHHHHHhcC
Q 023542 205 ADQCCVICKEEMGGGRDVCELP--CKHLFHWLCILPWLKKR 243 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~LP--C~H~FH~~CI~~WL~~~ 243 (281)
....|.+|.|.+++..-| +.| =.|.||..|-+.-++.+
T Consensus 267 apLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhh
Confidence 468899999999875522 223 36999999999999864
No 124
>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=59.58 E-value=7.3 Score=27.72 Aligned_cols=42 Identities=26% Similarity=0.610 Sum_probs=21.0
Q ss_pred ccccccccCCCC------ceeEcC-CCCcccHhhHHHHHhcCCCCCCcc
Q 023542 209 CVICKEEMGGGR------DVCELP-CKHLFHWLCILPWLKKRNTCPCCR 250 (281)
Q Consensus 209 CaICLeef~~~~------~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR 250 (281)
|--|...|..+. ....-| |++.||.+|=.--=+.-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 566777776542 223335 999999999443223445799883
No 125
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.33 E-value=10 Score=35.61 Aligned_cols=52 Identities=27% Similarity=0.473 Sum_probs=38.8
Q ss_pred cccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542 206 DQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~ 259 (281)
...|+|=--+|...-.-..+ +|||+|-..-+.+. ....|++|.+.+..+|+.
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVI 163 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeE
Confidence 46799988888544343344 79999998776664 467899999999887743
No 126
>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 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=54.27 E-value=16 Score=25.46 Aligned_cols=43 Identities=23% Similarity=0.411 Sum_probs=20.7
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHHhc---C--CCCCCcccc
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK---R--NTCPCCRFR 252 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~---~--~tCPlCR~~ 252 (281)
..|+|....+.. .+|...|.|.-|.+ +..|+.. . -.||+|.++
T Consensus 3 L~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 468888888764 55666799985432 3445542 2 269999763
No 128
>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=51.58 E-value=21 Score=25.95 Aligned_cols=45 Identities=22% Similarity=0.474 Sum_probs=30.9
Q ss_pred cccccccccCCCCceeEcCCC--CcccHhhHHHHHhcCCCCCCccccCCC
Q 023542 208 CCVICKEEMGGGRDVCELPCK--HLFHWLCILPWLKKRNTCPCCRFRLPT 255 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~--H~FH~~CI~~WL~~~~tCPlCR~~l~~ 255 (281)
.|-.|-.++..+.....+ |. ..||.+|.+..| +..||.|...+..
T Consensus 7 nCE~C~~dLp~~s~~A~I-CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI-CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceE-EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 466777777554422222 44 569999999976 7889999877643
No 129
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.22 E-value=12 Score=35.11 Aligned_cols=33 Identities=21% Similarity=0.318 Sum_probs=28.6
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHh
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK 241 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~ 241 (281)
...|+.|+..+.++. ..|=||.|+++||.+++.
T Consensus 43 FdcCsLtLqPc~dPv---it~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDPV---ITPDGYLFDREAILEYIL 75 (303)
T ss_pred cceeeeecccccCCc---cCCCCeeeeHHHHHHHHH
Confidence 567999999997766 678899999999999875
No 130
>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=50.55 E-value=8 Score=23.65 Aligned_cols=22 Identities=27% Similarity=0.469 Sum_probs=11.9
Q ss_pred cccccccccCCCCceeEcC-CCCcc
Q 023542 208 CCVICKEEMGGGRDVCELP-CKHLF 231 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LP-C~H~F 231 (281)
.|+-|-.++.. ....-| |||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 46777666532 223335 66666
No 131
>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=47.57 E-value=10 Score=25.71 Aligned_cols=44 Identities=27% Similarity=0.559 Sum_probs=28.0
Q ss_pred cccccccccCCCCceeEcCCCCcccHhhHHHHHhc------CCCCCCccc
Q 023542 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK------RNTCPCCRF 251 (281)
Q Consensus 208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~------~~tCPlCR~ 251 (281)
.|.||...-..+..+.--.|+-.||..|+..-... .-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 38899884433332222259999999998775541 236887753
No 132
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.56 E-value=19 Score=29.65 Aligned_cols=44 Identities=20% Similarity=0.415 Sum_probs=32.2
Q ss_pred ccccccccccCCCC----------ceeEcC-CCCcccHhhHHHHHhcCCCCCCcc
Q 023542 207 QCCVICKEEMGGGR----------DVCELP-CKHLFHWLCILPWLKKRNTCPCCR 250 (281)
Q Consensus 207 ~~CaICLeef~~~~----------~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR 250 (281)
..|--|...|..+. ....-+ |++.||.+|-.-+-+.-..||-|-
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 45999988885431 112233 999999999888877777899995
No 133
>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=46.14 E-value=25 Score=25.72 Aligned_cols=19 Identities=32% Similarity=0.838 Sum_probs=13.3
Q ss_pred cCCCCCCccccCCCCCchh
Q 023542 242 KRNTCPCCRFRLPTDDVFG 260 (281)
Q Consensus 242 ~~~tCPlCR~~l~~~~~~~ 260 (281)
.|+.||+|-.+++.+..+.
T Consensus 2 ~HkHC~~CG~~Ip~~~~fC 20 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDESFC 20 (59)
T ss_pred CCCcCCcCCCcCCcchhhh
Confidence 4667888877777766554
No 134
>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=45.37 E-value=21 Score=21.94 Aligned_cols=36 Identities=28% Similarity=0.533 Sum_probs=22.6
Q ss_pred ccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
|..|.+.+.+.+.. ...=+..||..| ..|..|+..+
T Consensus 2 C~~C~~~i~~~~~~-~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELV-LRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEE-EEeCCccccccC--------CCCcccCCcC
Confidence 78888887665222 222467788766 4577777655
No 135
>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=44.66 E-value=7.6 Score=27.22 Aligned_cols=24 Identities=21% Similarity=0.369 Sum_probs=11.4
Q ss_pred CCCCccccCCCCCchhHHHHHHHH
Q 023542 245 TCPCCRFRLPTDDVFGEIERLWDA 268 (281)
Q Consensus 245 tCPlCR~~l~~~~~~~e~~rl~~~ 268 (281)
.||+|.+++..+....-++..-..
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~~~~ 45 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKYKSE 45 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHHHHH
Confidence 799999988766553333333333
No 136
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.50 E-value=11 Score=40.39 Aligned_cols=47 Identities=19% Similarity=0.361 Sum_probs=33.2
Q ss_pred cccccccccccCCC----CceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 206 DQCCVICKEEMGGG----RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~----~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
+..|.-|.+..-.. ..+....|+|.||..|+..-..+++ |-.|-...
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~~~ 834 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESGKN 834 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhcee
Confidence 34688898876421 3455668999999999988776666 76664443
No 137
>PLN02436 cellulose synthase A
Probab=43.75 E-value=24 Score=39.24 Aligned_cols=49 Identities=24% Similarity=0.526 Sum_probs=33.8
Q ss_pred cccccccccccC---CCCceeEc-CCCCcccHhhHHHHHh-cCCCCCCccccCC
Q 023542 206 DQCCVICKEEMG---GGRDVCEL-PCKHLFHWLCILPWLK-KRNTCPCCRFRLP 254 (281)
Q Consensus 206 ~~~CaICLeef~---~~~~vr~L-PC~H~FH~~CI~~WL~-~~~tCPlCR~~l~ 254 (281)
...|.||-|++. +|+.-... .|+-..|+.|-+-=.+ .++.||.||....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 457999999974 34422222 3888899999854433 3668999988774
No 138
>PLN02189 cellulose synthase
Probab=43.65 E-value=20 Score=39.64 Aligned_cols=50 Identities=26% Similarity=0.498 Sum_probs=34.3
Q ss_pred CcccccccccccCC---CCceeEc-CCCCcccHhhHHHHHh-cCCCCCCccccCC
Q 023542 205 ADQCCVICKEEMGG---GRDVCEL-PCKHLFHWLCILPWLK-KRNTCPCCRFRLP 254 (281)
Q Consensus 205 ~~~~CaICLeef~~---~~~vr~L-PC~H~FH~~CI~~WL~-~~~tCPlCR~~l~ 254 (281)
....|.||-|++.. |+.-... .|+-..|+.|-+-=.+ .++.||.||....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 35579999999853 3322222 3888899999854333 3668999988774
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=42.80 E-value=14 Score=27.72 Aligned_cols=13 Identities=23% Similarity=0.677 Sum_probs=9.4
Q ss_pred cccHhhHHHHHhc
Q 023542 230 LFHWLCILPWLKK 242 (281)
Q Consensus 230 ~FH~~CI~~WL~~ 242 (281)
.||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999863
No 140
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=42.61 E-value=26 Score=30.86 Aligned_cols=49 Identities=18% Similarity=0.203 Sum_probs=33.3
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHH
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALV 270 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~ 270 (281)
.....|+.|-..|...+. +.....||.|...+...|.....+.+-+.++
T Consensus 115 ~~~Y~Cp~C~~rytf~eA------------------~~~~F~Cp~Cg~~L~~~dn~~~~~~l~~~I~ 163 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEA------------------MEYGFRCPQCGEMLEEYDNSELIKELKEQIK 163 (178)
T ss_pred CCEEECCCCCcEEeHHHH------------------hhcCCcCCCCCCCCeecccHHHHHHHHHHHH
Confidence 346778888877765441 2346789999999988777666665555443
No 141
>PLN02195 cellulose synthase A
Probab=42.51 E-value=33 Score=37.79 Aligned_cols=57 Identities=23% Similarity=0.451 Sum_probs=37.5
Q ss_pred CcccccccccccCCCC--ceeE--cCCCCcccHhhHHHHHh-cCCCCCCccccCCCCCchhH
Q 023542 205 ADQCCVICKEEMGGGR--DVCE--LPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVFGE 261 (281)
Q Consensus 205 ~~~~CaICLeef~~~~--~vr~--LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~~~e 261 (281)
+...|.||-+++...+ ++-+ -.|+-..|+.|-+-=-+ .++.||.|+.....++...+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~~~~~~d 66 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDAENVFDD 66 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccccccccch
Confidence 3557999999875432 2222 24888899999843332 36689999998874444333
No 142
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.21 E-value=5.9 Score=37.95 Aligned_cols=48 Identities=25% Similarity=0.532 Sum_probs=37.6
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
.+...|-||...+..+.. .-.|.|.|+..|-..|.+..+.||.||...
T Consensus 103 ~~~~~~~~~~g~l~vpt~--~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTR--IQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CCccceeeeeeeEEeccc--ccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 345679999887765442 223999999999999999999999998754
No 143
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=41.47 E-value=21 Score=34.76 Aligned_cols=46 Identities=22% Similarity=0.489 Sum_probs=31.2
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccc
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF 251 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 251 (281)
+..|-.|.++.......+--.|.+.||.+|-.---+.-..||-|-.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 4459999776655444444359999999995544344557999963
No 144
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=41.33 E-value=24 Score=30.36 Aligned_cols=50 Identities=20% Similarity=0.139 Sum_probs=36.0
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK 271 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~ 271 (281)
.....|+.|-..|...+. +....+||.|...+...|....++.+-+.+..
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA------------------~~~~F~Cp~Cg~~L~~~dn~~~i~~l~~~i~~ 156 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEA------------------MELNFTCPRCGAMLDYLDNSEAIEKLEEQIKF 156 (158)
T ss_pred CCeEECCCCCcEeeHHHH------------------HHcCCcCCCCCCEeeeccCHHHHHHHHHHHHh
Confidence 346778888877765442 12367899999999888888777777666654
No 145
>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=41.23 E-value=3.6 Score=38.54 Aligned_cols=46 Identities=22% Similarity=0.322 Sum_probs=20.1
Q ss_pred cccccccccccCCCCceeEcC---CCCcccHhhHHHHHhcCCCCCCcccc
Q 023542 206 DQCCVICKEEMGGGRDVCELP---CKHLFHWLCILPWLKKRNTCPCCRFR 252 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LP---C~H~FH~~CI~~WL~~~~tCPlCR~~ 252 (281)
...|+||-..-.-+. ++.-. =.+.+|.-|-..|--.+..||.|-..
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 457999977532111 11100 24568888999998888899999543
No 146
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.67 E-value=8.2 Score=33.06 Aligned_cols=51 Identities=24% Similarity=0.403 Sum_probs=31.3
Q ss_pred CCCcccccccccc-cCCCCceeEcCCCCcccHhhHHHHHhc-CC---CCCCccccC
Q 023542 203 AGADQCCVICKEE-MGGGRDVCELPCKHLFHWLCILPWLKK-RN---TCPCCRFRL 253 (281)
Q Consensus 203 ~~~~~~CaICLee-f~~~~~vr~LPC~H~FH~~CI~~WL~~-~~---tCPlCR~~l 253 (281)
.+++..|.||..- |.+|..-...=|.-.||..|--+.-.+ +. .|-.|+...
T Consensus 62 v~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred cCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 4668899999864 444431111126667888887766444 33 588887543
No 147
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=38.53 E-value=45 Score=25.92 Aligned_cols=49 Identities=27% Similarity=0.508 Sum_probs=20.6
Q ss_pred CcccccccccccCCCC--ceeEc--CCCCcccHhhHHHHHh-cCCCCCCccccC
Q 023542 205 ADQCCVICKEEMGGGR--DVCEL--PCKHLFHWLCILPWLK-KRNTCPCCRFRL 253 (281)
Q Consensus 205 ~~~~CaICLeef~~~~--~vr~L--PC~H~FH~~CI~~WL~-~~~tCPlCR~~l 253 (281)
+...|.||-+++...+ ++... .|+-..|+.|..-=.+ .++.||.|+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 4567999999984322 23222 4888889999876554 467899998776
No 148
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=38.43 E-value=31 Score=33.54 Aligned_cols=53 Identities=21% Similarity=0.491 Sum_probs=36.0
Q ss_pred cccccccccccC---------------CCCce-eEcCCCCcccHhhHHHHHhc---------CCCCCCccccCCCCCc
Q 023542 206 DQCCVICKEEMG---------------GGRDV-CELPCKHLFHWLCILPWLKK---------RNTCPCCRFRLPTDDV 258 (281)
Q Consensus 206 ~~~CaICLeef~---------------~~~~v-r~LPC~H~FH~~CI~~WL~~---------~~tCPlCR~~l~~~~~ 258 (281)
+.+|++|+.+=. .|... ..-||||.--.+-..-|-+. +..||.|-..+..+..
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~~ 418 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQG 418 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCCc
Confidence 788999987521 01111 12389999888888889873 3479999887765443
No 149
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PRK04023 DNA polymerase II large subunit; Validated
Probab=36.37 E-value=58 Score=36.20 Aligned_cols=65 Identities=15% Similarity=0.119 Sum_probs=39.6
Q ss_pred CCCCcccccccccccCCCCceeEcC-CCC-----cccHhhHHHHHhcCCCCCCccccCCCCC-chhHHH-HHHHHHHHh
Q 023542 202 GAGADQCCVICKEEMGGGRDVCELP-CKH-----LFHWLCILPWLKKRNTCPCCRFRLPTDD-VFGEIE-RLWDALVKT 272 (281)
Q Consensus 202 ~~~~~~~CaICLeef~~~~~vr~LP-C~H-----~FH~~CI~~WL~~~~tCPlCR~~l~~~~-~~~e~~-rl~~~l~~~ 272 (281)
+..+...|+-|-... .....| ||. .||.+| .+......||-|.+...... ...... ...+++++.
T Consensus 622 VEVg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~s~~~i~l~~~~~~A~~~l 694 (1121)
T PRK04023 622 VEIGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPYSKRKIDLKELYDRALENL 694 (1121)
T ss_pred ecccCccCCCCCCcC----CcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCccceEEecHHHHHHHHHHHh
Confidence 345577899997763 223456 884 599999 33344568999988885444 222333 344444443
No 151
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=36.30 E-value=45 Score=37.18 Aligned_cols=49 Identities=22% Similarity=0.460 Sum_probs=33.5
Q ss_pred cccccccccccCCCC--ceeEc--CCCCcccHhhHHHHHh-cCCCCCCccccCC
Q 023542 206 DQCCVICKEEMGGGR--DVCEL--PCKHLFHWLCILPWLK-KRNTCPCCRFRLP 254 (281)
Q Consensus 206 ~~~CaICLeef~~~~--~vr~L--PC~H~FH~~CI~~WL~-~~~tCPlCR~~l~ 254 (281)
...|.||-|++...+ ++.+. .|+-..|+.|-+-=.+ .++.||.||....
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 457999999985422 22222 4888899999843322 3678999988774
No 152
>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=35.98 E-value=16 Score=25.57 Aligned_cols=37 Identities=27% Similarity=0.574 Sum_probs=20.0
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHh--cCCCCCCcccc
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK--KRNTCPCCRFR 252 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~--~~~tCPlCR~~ 252 (281)
...|+.|-++|.... | +.| |.+.--. +.-.||+|...
T Consensus 2 ~f~CP~C~~~~~~~~----L-~~H-----~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSESS----L-VEH-----CEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCHHH----H-HHH-----HHhHCcCCCCCccCCCchhh
Confidence 467999988654222 1 222 2222222 23479999763
No 153
>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=35.73 E-value=27 Score=24.05 Aligned_cols=35 Identities=17% Similarity=0.339 Sum_probs=24.6
Q ss_pred ccccccccccCCCCceeEc-CCCCcccHhhHHHHHh
Q 023542 207 QCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLK 241 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~ 241 (281)
..|.+|-..|..-..-..- .||+.||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 4699999888653322222 4999999999876654
No 154
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.26 E-value=6.3 Score=36.58 Aligned_cols=47 Identities=23% Similarity=0.453 Sum_probs=36.8
Q ss_pred cccccccccccCCC-C--ceeEcC--------CCCcccHhhHHHHHhcC-CCCCCcccc
Q 023542 206 DQCCVICKEEMGGG-R--DVCELP--------CKHLFHWLCILPWLKKR-NTCPCCRFR 252 (281)
Q Consensus 206 ~~~CaICLeef~~~-~--~vr~LP--------C~H~FH~~CI~~WL~~~-~tCPlCR~~ 252 (281)
+..|.||...|... . ..+.+. |+|.-|..|++.-+... ..||.||..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 46799999999732 2 344456 99999999999998654 589999874
No 155
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=35.14 E-value=31 Score=33.46 Aligned_cols=51 Identities=24% Similarity=0.485 Sum_probs=37.1
Q ss_pred cccccccccccCCCCceeEc--CCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 206 DQCCVICKEEMGGGRDVCEL--PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~L--PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
...|+||-+.....+ --.+ ||++.-|..|...-...+.+||.||.+....-
T Consensus 249 ~~s~p~~~~~~~~~d-~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTD-SNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCCcccccc-cccccccccccchhhhhhcccccCCCCCccCCccccCc
Confidence 467999998763322 2233 58888888888888788899999997764443
No 156
>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=35.06 E-value=32 Score=23.49 Aligned_cols=40 Identities=25% Similarity=0.464 Sum_probs=26.9
Q ss_pred ccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 257 (281)
|+.|-+.+..++.+. ..-+..||.+| .+|-.|+.++..++
T Consensus 1 C~~C~~~I~~~~~~~-~~~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KAMGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEE-EETTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEE-EeCCcEEEccc--------cccCCCCCccCCCe
Confidence 677888776544321 23677888766 46888888886665
No 157
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=34.97 E-value=19 Score=34.55 Aligned_cols=45 Identities=24% Similarity=0.482 Sum_probs=25.9
Q ss_pred CcccccccccccCCCCceeEc--C--CCCcccHhhHHHHHhcCCCCCCccc
Q 023542 205 ADQCCVICKEEMGGGRDVCEL--P--CKHLFHWLCILPWLKKRNTCPCCRF 251 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~L--P--C~H~FH~~CI~~WL~~~~tCPlCR~ 251 (281)
....|+||-..=..+ +... . =.+.+|.-|-..|--.+..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 356688886642111 0000 1 1244666677788777788888854
No 158
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=34.64 E-value=39 Score=29.96 Aligned_cols=50 Identities=26% Similarity=0.292 Sum_probs=35.3
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK 271 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~ 271 (281)
.....|+.|.-.|..++ =.....+||.|...+...+....++++-+.+++
T Consensus 111 ~~~y~C~~~~~r~sfde------------------A~~~~F~Cp~Cg~~L~~~d~s~~i~~l~~~i~~ 160 (176)
T COG1675 111 NNYYVCPNCHVKYSFDE------------------AMELGFTCPKCGEDLEEYDSSEEIEELESELDE 160 (176)
T ss_pred CCceeCCCCCCcccHHH------------------HHHhCCCCCCCCchhhhccchHHHHHHHHHHHH
Confidence 34677888877765433 122357899999999888877777777776654
No 159
>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=34.17 E-value=36 Score=27.44 Aligned_cols=45 Identities=20% Similarity=0.404 Sum_probs=28.5
Q ss_pred cccccccccccCCCCceeE------cCC---CCcccHhhHHHHHhc---------CCCCCCccc
Q 023542 206 DQCCVICKEEMGGGRDVCE------LPC---KHLFHWLCILPWLKK---------RNTCPCCRF 251 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~------LPC---~H~FH~~CI~~WL~~---------~~tCPlCR~ 251 (281)
+..|..|...-.+.. +.- -.| .=.||..|+..+... +-.||.||.
T Consensus 7 g~~CHqCrqKt~~~~-~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFK-TICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCchhhcCCCCCCc-eEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 456777776432211 111 236 677999999988853 226999987
No 160
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=29.68 E-value=26 Score=27.59 Aligned_cols=32 Identities=28% Similarity=0.499 Sum_probs=22.4
Q ss_pred CcccccccccccCCCCceeEc--CCCCcccHhhHHH
Q 023542 205 ADQCCVICKEEMGGGRDVCEL--PCKHLFHWLCILP 238 (281)
Q Consensus 205 ~~~~CaICLeef~~~~~vr~L--PC~H~FH~~CI~~ 238 (281)
....|.||... .|.-+.-- .|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 36789999887 33322222 3888999999866
No 161
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=28.38 E-value=33 Score=22.32 Aligned_cols=14 Identities=14% Similarity=0.316 Sum_probs=9.6
Q ss_pred ccccccccccCCCC
Q 023542 207 QCCVICKEEMGGGR 220 (281)
Q Consensus 207 ~~CaICLeef~~~~ 220 (281)
..|+-|-..|..++
T Consensus 3 i~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 3 ITCPNCQTRFRVPD 16 (37)
T ss_pred EECCCCCceEEcCH
Confidence 35888888876544
No 162
>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=28.06 E-value=45 Score=21.06 Aligned_cols=10 Identities=30% Similarity=0.747 Sum_probs=7.0
Q ss_pred cCCCCCCccc
Q 023542 242 KRNTCPCCRF 251 (281)
Q Consensus 242 ~~~tCPlCR~ 251 (281)
....||+|..
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 3447999965
No 163
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=27.96 E-value=13 Score=35.44 Aligned_cols=39 Identities=28% Similarity=0.454 Sum_probs=30.8
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN 244 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~ 244 (281)
-..|.+|.++|+.+.......|.-.||..|+..|+.+..
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred ceecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 348999999998655555556666999999999998654
No 164
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=27.34 E-value=51 Score=32.11 Aligned_cols=44 Identities=20% Similarity=0.325 Sum_probs=33.3
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc---CCCCCCc
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK---RNTCPCC 249 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~---~~tCPlC 249 (281)
-..|+|=.+.-.+......+.|||+.-.+-+++.-+. ...||.|
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 5679997776655556667789999999998886553 3379999
No 165
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.00 E-value=57 Score=25.09 Aligned_cols=45 Identities=18% Similarity=0.287 Sum_probs=27.4
Q ss_pred ccccccccCCCCce-eEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542 209 CVICKEEMGGGRDV-CELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT 255 (281)
Q Consensus 209 CaICLeef~~~~~v-r~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 255 (281)
|--|-.++-.+... ++..=.|.||.+|...- -+..||.|-..+..
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~--l~g~CPnCGGelv~ 53 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENR--LHGLCPNCGGELVA 53 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHh--hcCcCCCCCchhhc
Confidence 55555555433221 12122478999998864 36789999776643
No 166
>PF12773 DZR: Double zinc ribbon
Probab=26.83 E-value=48 Score=22.39 Aligned_cols=27 Identities=26% Similarity=0.570 Sum_probs=15.2
Q ss_pred ccHhhHHHHH---hcCCCCCCccccCCCCC
Q 023542 231 FHWLCILPWL---KKRNTCPCCRFRLPTDD 257 (281)
Q Consensus 231 FH~~CI~~WL---~~~~tCPlCR~~l~~~~ 257 (281)
||..|-.+.- .....||.|.+.+...+
T Consensus 14 fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~ 43 (50)
T PF12773_consen 14 FCPHCGTPLPPPDQSKKICPNCGAENPPNA 43 (50)
T ss_pred CChhhcCChhhccCCCCCCcCCcCCCcCCc
Confidence 4555544433 12346888888765544
No 167
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=26.83 E-value=33 Score=22.31 Aligned_cols=14 Identities=14% Similarity=0.311 Sum_probs=9.8
Q ss_pred ccccccccccCCCC
Q 023542 207 QCCVICKEEMGGGR 220 (281)
Q Consensus 207 ~~CaICLeef~~~~ 220 (281)
.+|+-|...|+.++
T Consensus 3 i~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 3 ITCPNCQAKYEIDD 16 (36)
T ss_pred EECCCCCCEEeCCH
Confidence 46888888886544
No 168
>PLN02400 cellulose synthase
Probab=26.66 E-value=54 Score=36.61 Aligned_cols=50 Identities=28% Similarity=0.506 Sum_probs=33.3
Q ss_pred CcccccccccccCCCC--ceeEc--CCCCcccHhhHHHHHh-cCCCCCCccccCC
Q 023542 205 ADQCCVICKEEMGGGR--DVCEL--PCKHLFHWLCILPWLK-KRNTCPCCRFRLP 254 (281)
Q Consensus 205 ~~~~CaICLeef~~~~--~vr~L--PC~H~FH~~CI~~WL~-~~~tCPlCR~~l~ 254 (281)
....|.||-|++...+ ++.+. .|+-.-|+.|-+-=-+ .++.||.||....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3557999999985322 22222 4777899999743222 3668999988774
No 169
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=26.07 E-value=19 Score=25.07 Aligned_cols=19 Identities=26% Similarity=0.812 Sum_probs=14.5
Q ss_pred ceeEc-CCCCcccHhhHHHH
Q 023542 221 DVCEL-PCKHLFHWLCILPW 239 (281)
Q Consensus 221 ~vr~L-PC~H~FH~~CI~~W 239 (281)
....- .|++.||..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 33344 49999999998888
No 170
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=25.28 E-value=62 Score=36.02 Aligned_cols=50 Identities=20% Similarity=0.379 Sum_probs=34.3
Q ss_pred CcccccccccccCCCC--ceeEc--CCCCcccHhhHHHHHh-cCCCCCCccccCC
Q 023542 205 ADQCCVICKEEMGGGR--DVCEL--PCKHLFHWLCILPWLK-KRNTCPCCRFRLP 254 (281)
Q Consensus 205 ~~~~CaICLeef~~~~--~vr~L--PC~H~FH~~CI~~WL~-~~~tCPlCR~~l~ 254 (281)
+...|.||-|++.... ++.+. .|+-..|+.|-+-=.+ .++.||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3566999999985422 22222 4888899999854433 3668999988774
No 171
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.19 E-value=22 Score=35.40 Aligned_cols=37 Identities=24% Similarity=0.618 Sum_probs=26.1
Q ss_pred cccccccccccCCCCce---e--EcCCCCcccHhhHHHHHhc
Q 023542 206 DQCCVICKEEMGGGRDV---C--ELPCKHLFHWLCILPWLKK 242 (281)
Q Consensus 206 ~~~CaICLeef~~~~~v---r--~LPC~H~FH~~CI~~WL~~ 242 (281)
...|+.|....+..... . ..+|.|.||+.|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 44599999988654311 1 1249999999998888654
No 172
>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=25.13 E-value=8 Score=29.33 Aligned_cols=39 Identities=28% Similarity=0.497 Sum_probs=19.1
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
..|+.|-.+++... ++.+|..|-.. +.....||-|..++
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHH
Confidence 46888888764211 55566666543 34566788887766
No 173
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=24.48 E-value=66 Score=35.07 Aligned_cols=34 Identities=15% Similarity=0.260 Sum_probs=23.7
Q ss_pred ccccccccccCCCC---ceeE--c-CCCCcccHhhHHHHH
Q 023542 207 QCCVICKEEMGGGR---DVCE--L-PCKHLFHWLCILPWL 240 (281)
Q Consensus 207 ~~CaICLeef~~~~---~vr~--L-PC~H~FH~~CI~~WL 240 (281)
..|..|...|..-. ..|. . .||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 46999999995311 1122 2 499999999987764
No 174
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=24.32 E-value=47 Score=23.19 Aligned_cols=22 Identities=23% Similarity=0.533 Sum_probs=12.7
Q ss_pred CCCcccHhhHHHHHhcCCCCCCc
Q 023542 227 CKHLFHWLCILPWLKKRNTCPCC 249 (281)
Q Consensus 227 C~H~FH~~CI~~WL~~~~tCPlC 249 (281)
|+|.|-..=-++- .....||.|
T Consensus 34 Cgh~w~~~v~~R~-~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKASVNDRT-RRGKGCPYC 55 (55)
T ss_pred CCCeeEccHhhhc-cCCCCCCCC
Confidence 5666554433332 456679988
No 175
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.74 E-value=42 Score=35.57 Aligned_cols=41 Identities=15% Similarity=0.301 Sum_probs=29.1
Q ss_pred cccccccccccCCCC--ceeEcCCCCcccHhhHHHHHhcCCCCCCcc
Q 023542 206 DQCCVICKEEMGGGR--DVCELPCKHLFHWLCILPWLKKRNTCPCCR 250 (281)
Q Consensus 206 ~~~CaICLeef~~~~--~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR 250 (281)
...|-+|... ++++ ..+.+-|+-.||+.| |+.-++.||+|-
T Consensus 654 ~r~C~vcq~p-edse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 654 IRTCKVCQLP-EDSETDVCRTTFCYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHHhcCC-cCccccccCccccCCcchHhh---hhhhhccCcccC
Confidence 4568888764 3322 444556999999998 656688899993
No 176
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=23.72 E-value=65 Score=29.00 Aligned_cols=73 Identities=16% Similarity=0.376 Sum_probs=37.3
Q ss_pred CcccccccccccCCCC----ceeEc-----CCCCcccHhhHHHHHhcCCCCCCccccCCCCCc----hhHHHHHHHHHHH
Q 023542 205 ADQCCVICKEEMGGGR----DVCEL-----PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV----FGEIERLWDALVK 271 (281)
Q Consensus 205 ~~~~CaICLeef~~~~----~vr~L-----PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~----~~e~~rl~~~l~~ 271 (281)
....||||-.+|.... ..+.. .|.|-=. +.+.+-.-..||.|-.....++- ..+.+...+.+..
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~---vnP~~Y~V~vCP~CgyA~~~~~F~~l~~~~~~~i~~~i~~ 80 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKG---VNPLFYEVWVCPHCGYAAFEEDFEKLSPEQKEKIKENISS 80 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCC---CCCeeeeEEECCCCCCcccccccccCCHHHHHHHHHHHHh
Confidence 3678999999996532 11111 1433111 33333334589999877765542 2234445555444
Q ss_pred hcCCCCCCC
Q 023542 272 TSGGGSFDG 280 (281)
Q Consensus 272 ~~~~~~~~~ 280 (281)
.-.+-+|.|
T Consensus 81 ~~~~~~~~~ 89 (214)
T PF09986_consen 81 RWKPRDFSG 89 (214)
T ss_pred hcccCCCCC
Confidence 333334433
No 177
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=23.40 E-value=14 Score=21.84 Aligned_cols=8 Identities=38% Similarity=0.974 Sum_probs=3.1
Q ss_pred cccccccc
Q 023542 209 CVICKEEM 216 (281)
Q Consensus 209 CaICLeef 216 (281)
|+-|-.++
T Consensus 2 Cp~CG~~~ 9 (23)
T PF13240_consen 2 CPNCGAEI 9 (23)
T ss_pred CcccCCCC
Confidence 33343333
No 178
>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=22.60 E-value=46 Score=27.03 Aligned_cols=44 Identities=25% Similarity=0.532 Sum_probs=26.4
Q ss_pred CcccccccccccCCC--CceeEcCCCCcccHhhHHHHHhcCC---CCCCcc
Q 023542 205 ADQCCVICKEEMGGG--RDVCELPCKHLFHWLCILPWLKKRN---TCPCCR 250 (281)
Q Consensus 205 ~~~~CaICLeef~~~--~~vr~LPC~H~FH~~CI~~WL~~~~---tCPlCR 250 (281)
++..|.+|...|..- ....-..|.|.+|..|-.. ..+. .|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhH
Confidence 466899999987432 2322335999999998655 2222 477774
No 179
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=22.14 E-value=68 Score=23.70 Aligned_cols=18 Identities=22% Similarity=0.608 Sum_probs=14.6
Q ss_pred cCCCCCCccccCCCCCch
Q 023542 242 KRNTCPCCRFRLPTDDVF 259 (281)
Q Consensus 242 ~~~tCPlCR~~l~~~~~~ 259 (281)
-|+.||+|-+.++.+...
T Consensus 7 PH~HC~VCg~aIp~de~~ 24 (64)
T COG4068 7 PHRHCVVCGKAIPPDEQV 24 (64)
T ss_pred CCccccccCCcCCCccch
Confidence 367899999999888754
No 180
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=22.09 E-value=56 Score=29.83 Aligned_cols=26 Identities=19% Similarity=0.416 Sum_probs=18.9
Q ss_pred ccccccccccCCCCceeEcCCCCccc
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFH 232 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH 232 (281)
..|++|...+......-..+.+|.|=
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCc
Confidence 46999999997555444446789883
No 181
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.07 E-value=71 Score=26.90 Aligned_cols=48 Identities=27% Similarity=0.255 Sum_probs=28.5
Q ss_pred CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHH
Q 023542 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIER 264 (281)
Q Consensus 204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~r 264 (281)
.....|+-|-..|...+...... . .....||.|...+...+.....+.
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~d-----------~--~~~f~Cp~Cg~~l~~~dn~~~~~~ 144 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLLD-----------M--DGTFTCPRCGEELEEDDNSEPIEE 144 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhcC-----------C--CCcEECCCCCCEEEEcCchhhHHH
Confidence 34677888887776433111100 0 123579999999977766555443
No 182
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.97 E-value=65 Score=25.98 Aligned_cols=34 Identities=18% Similarity=0.336 Sum_probs=28.0
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHH
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWL 240 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL 240 (281)
...|.||-+.+..|++-..++ .-..|++|...=.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHH
Confidence 457999999999988766667 7779999988754
No 183
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=21.59 E-value=54 Score=24.68 Aligned_cols=31 Identities=29% Similarity=0.548 Sum_probs=21.1
Q ss_pred cccccccccccCCCCcee-Ec-CCCCcccHhhHHH
Q 023542 206 DQCCVICKEEMGGGRDVC-EL-PCKHLFHWLCILP 238 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr-~L-PC~H~FH~~CI~~ 238 (281)
...|.+|.... |.-+. .. .|.-.||..|...
T Consensus 36 ~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 56799998762 33221 22 3999999999765
No 184
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=21.34 E-value=25 Score=33.68 Aligned_cols=47 Identities=26% Similarity=0.516 Sum_probs=33.6
Q ss_pred cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhH
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGE 261 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e 261 (281)
+..|+-|-+-+-....||. .-.|+||.+|. .|-+|++.+.+++.++-
T Consensus 92 GTKCsaC~~GIpPtqVVRk-Aqd~VYHl~CF--------~C~iC~R~L~TGdEFYL 138 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRK-AQDFVYHLHCF--------ACFICKRQLATGDEFYL 138 (383)
T ss_pred CCcchhhcCCCChHHHHHH-hhcceeehhhh--------hhHhhhcccccCCeeEE
Confidence 5679999777644333333 36899999995 48899999988876654
No 185
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=21.28 E-value=52 Score=34.24 Aligned_cols=37 Identities=24% Similarity=0.424 Sum_probs=24.7
Q ss_pred CCcccccccccccCC------CC----ceeEcCCCCcccHhhHHHHH
Q 023542 204 GADQCCVICKEEMGG------GR----DVCELPCKHLFHWLCILPWL 240 (281)
Q Consensus 204 ~~~~~CaICLeef~~------~~----~vr~LPC~H~FH~~CI~~WL 240 (281)
+....|+||.|.|+. +. ....+.=|-.||..|...-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 557889999999963 11 11112247899999987754
No 186
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=21.14 E-value=76 Score=31.78 Aligned_cols=31 Identities=23% Similarity=0.585 Sum_probs=23.4
Q ss_pred ccccccccccCCCCceeEcCCCCcccHhhHHHHH
Q 023542 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWL 240 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL 240 (281)
..=.||...+.+.+ ..||+-..|.+|...|=
T Consensus 89 ~t~~~C~~VvCNNE---~C~~~~~MH~qCF~~WE 119 (526)
T KOG3816|consen 89 ATPLICSFVVCNNE---HCPCSTWMHLQCFYEWE 119 (526)
T ss_pred cChhhceEEeecCC---CCChhhHHHHHHHHHHH
Confidence 33456776666655 56899999999999993
No 187
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=20.91 E-value=34 Score=32.84 Aligned_cols=23 Identities=30% Similarity=0.537 Sum_probs=16.1
Q ss_pred CcccHhhHHHHHhcCCCCCCccc
Q 023542 229 HLFHWLCILPWLKKRNTCPCCRF 251 (281)
Q Consensus 229 H~FH~~CI~~WL~~~~tCPlCR~ 251 (281)
+.+|.-|-..|--.+..||.|-.
T Consensus 210 yL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 210 YLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred EEEcCCCCCcccccCccCCCCCC
Confidence 44566677777777778888854
No 188
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=20.84 E-value=76 Score=30.93 Aligned_cols=43 Identities=5% Similarity=-0.257 Sum_probs=30.5
Q ss_pred cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccC
Q 023542 206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRL 253 (281)
Q Consensus 206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l 253 (281)
..+|-+|-+.. ......+|+|. ||.+|.. +....+||+|....
T Consensus 343 ~~~~~~~~~~~---~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGL---LSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hcccccccCce---eeeEeecCCcccChhhhhh--cccCCccccccccc
Confidence 45687775543 23334489998 9999988 56677999997654
No 189
>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=20.09 E-value=1.9e+02 Score=27.52 Aligned_cols=54 Identities=22% Similarity=0.351 Sum_probs=31.6
Q ss_pred ccccccccccCCCCceeEcC-C-CCcccHhhHHHHHh-cCCCCCCccccCCCCCchhHHH
Q 023542 207 QCCVICKEEMGGGRDVCELP-C-KHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVFGEIE 263 (281)
Q Consensus 207 ~~CaICLeef~~~~~vr~LP-C-~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~~~e~~ 263 (281)
..|.||.+-.-.|..-..+. = .=.-|++|..+|-. .+..|| |.. .+++.+.++.
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p--rsk-~skStYe~vK 87 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP--RSK-LSKSTYEEVK 87 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC--ccc-cccchHHHHH
Confidence 44777777655444333232 1 12579999999975 577898 343 3444455433
Done!