Query 016267
Match_columns 392
No_of_seqs 276 out of 1775
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 05:19:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016267.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016267hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.5 1.3E-14 2.9E-19 145.3 5.7 76 312-389 205-281 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 6.7E-14 1.5E-18 100.4 2.1 44 338-382 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.2 8.5E-12 1.9E-16 119.9 4.6 76 311-386 147-227 (238)
4 COG5540 RING-finger-containing 99.2 1.1E-11 2.3E-16 121.9 3.6 52 336-388 322-374 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.9E-11 4.1E-16 97.4 3.7 47 336-382 18-73 (73)
6 KOG0317 Predicted E3 ubiquitin 99.0 2E-10 4.3E-15 112.3 4.0 52 334-389 236-287 (293)
7 COG5243 HRD1 HRD ubiquitin lig 98.9 5.2E-10 1.1E-14 112.6 3.8 53 334-387 284-346 (491)
8 PLN03208 E3 ubiquitin-protein 98.9 1.2E-09 2.5E-14 102.2 4.2 50 335-388 16-81 (193)
9 KOG0823 Predicted E3 ubiquitin 98.9 9E-10 2E-14 104.9 3.0 51 335-389 45-98 (230)
10 cd00162 RING RING-finger (Real 98.9 1.6E-09 3.4E-14 75.0 3.3 44 339-385 1-45 (45)
11 PF13920 zf-C3HC4_3: Zinc fing 98.8 1.6E-09 3.5E-14 79.7 2.6 46 337-386 2-48 (50)
12 PF12861 zf-Apc11: Anaphase-pr 98.8 3.6E-09 7.8E-14 87.1 3.6 51 336-386 20-82 (85)
13 PF13923 zf-C3HC4_2: Zinc fing 98.8 4.3E-09 9.3E-14 73.8 3.0 39 340-381 1-39 (39)
14 PHA02926 zinc finger-like prot 98.8 4E-09 8.7E-14 100.3 3.3 51 335-385 168-229 (242)
15 KOG0320 Predicted E3 ubiquitin 98.8 4.3E-09 9.3E-14 97.0 3.1 50 336-387 130-179 (187)
16 KOG0802 E3 ubiquitin ligase [P 98.7 5.7E-09 1.2E-13 110.7 2.4 50 336-386 290-341 (543)
17 smart00504 Ubox Modified RING 98.7 2.2E-08 4.9E-13 75.8 3.8 47 338-388 2-48 (63)
18 PF14634 zf-RING_5: zinc-RING 98.6 3.1E-08 6.8E-13 71.3 2.9 44 339-383 1-44 (44)
19 PF00097 zf-C3HC4: Zinc finger 98.5 4.4E-08 9.4E-13 68.8 2.3 39 340-381 1-41 (41)
20 PF15227 zf-C3HC4_4: zinc fing 98.5 4.5E-08 9.8E-13 70.4 2.3 38 340-381 1-42 (42)
21 TIGR00599 rad18 DNA repair pro 98.5 6E-08 1.3E-12 99.6 4.0 51 334-388 23-73 (397)
22 COG5194 APC11 Component of SCF 98.5 5E-08 1.1E-12 79.4 2.5 35 352-386 47-81 (88)
23 smart00184 RING Ring finger. E 98.5 1.1E-07 2.3E-12 63.5 3.2 38 340-381 1-39 (39)
24 KOG1493 Anaphase-promoting com 98.3 2.1E-07 4.5E-12 75.3 0.7 52 335-386 18-81 (84)
25 PF13445 zf-RING_UBOX: RING-ty 98.3 5.3E-07 1.1E-11 65.5 2.4 35 340-375 1-35 (43)
26 COG5574 PEX10 RING-finger-cont 98.3 4.8E-07 1E-11 88.0 2.8 51 335-389 213-265 (271)
27 KOG2164 Predicted E3 ubiquitin 98.2 4.8E-07 1E-11 94.5 2.8 49 337-389 186-239 (513)
28 KOG0828 Predicted E3 ubiquitin 98.2 5.5E-07 1.2E-11 93.7 2.5 52 336-387 570-635 (636)
29 KOG0287 Postreplication repair 98.1 6.9E-07 1.5E-11 89.6 0.8 51 336-390 22-72 (442)
30 smart00744 RINGv The RING-vari 98.1 2.3E-06 4.9E-11 63.6 3.2 42 339-382 1-49 (49)
31 KOG2177 Predicted E3 ubiquitin 98.1 1.6E-06 3.4E-11 79.5 1.7 45 335-383 11-55 (386)
32 KOG2930 SCF ubiquitin ligase, 98.0 2.6E-06 5.6E-11 72.6 2.6 49 336-384 45-106 (114)
33 PF04564 U-box: U-box domain; 98.0 2.5E-06 5.3E-11 67.8 2.0 48 337-388 4-52 (73)
34 KOG4445 Uncharacterized conser 98.0 1.7E-06 3.6E-11 85.7 1.2 56 333-389 111-189 (368)
35 COG5219 Uncharacterized conser 98.0 1.8E-06 4E-11 95.2 0.3 54 333-386 1465-1523(1525)
36 KOG4265 Predicted E3 ubiquitin 97.9 4.9E-06 1.1E-10 83.9 3.0 47 336-386 289-336 (349)
37 PF11793 FANCL_C: FANCL C-term 97.9 2.8E-06 6E-11 67.4 0.2 50 337-386 2-66 (70)
38 COG5432 RAD18 RING-finger-cont 97.9 6.2E-06 1.3E-10 81.5 2.1 46 337-386 25-70 (391)
39 KOG1734 Predicted RING-contain 97.9 4.3E-06 9.3E-11 81.8 0.8 52 334-386 221-281 (328)
40 KOG0311 Predicted E3 ubiquitin 97.8 3.7E-06 7.9E-11 84.8 -1.5 51 335-388 41-92 (381)
41 KOG1039 Predicted E3 ubiquitin 97.7 1.7E-05 3.7E-10 80.4 2.2 51 335-385 159-220 (344)
42 KOG0804 Cytoplasmic Zn-finger 97.6 3.1E-05 6.7E-10 80.2 1.8 50 335-386 173-222 (493)
43 KOG0825 PHD Zn-finger protein 97.5 2.1E-05 4.6E-10 85.7 -0.6 50 336-386 122-171 (1134)
44 KOG4172 Predicted E3 ubiquitin 97.4 5.2E-05 1.1E-09 58.1 1.0 46 337-386 7-54 (62)
45 PF14835 zf-RING_6: zf-RING of 97.3 7.7E-05 1.7E-09 58.7 0.5 50 337-391 7-56 (65)
46 KOG0978 E3 ubiquitin ligase in 97.0 0.00022 4.7E-09 77.9 1.2 51 336-390 642-693 (698)
47 KOG4159 Predicted E3 ubiquitin 96.8 0.00071 1.5E-08 70.0 2.8 49 335-387 82-130 (398)
48 KOG1785 Tyrosine kinase negati 96.8 0.00055 1.2E-08 70.4 1.5 47 338-388 370-418 (563)
49 KOG0297 TNF receptor-associate 96.7 0.00085 1.8E-08 69.1 2.2 53 334-389 18-70 (391)
50 KOG3970 Predicted E3 ubiquitin 96.7 0.00094 2E-08 64.4 2.1 53 335-389 48-108 (299)
51 PF11789 zf-Nse: Zinc-finger o 96.6 0.0015 3.2E-08 50.1 2.5 42 336-380 10-53 (57)
52 KOG0801 Predicted E3 ubiquitin 96.4 0.0011 2.5E-08 61.0 1.1 30 335-365 175-204 (205)
53 KOG2660 Locus-specific chromos 96.4 0.00087 1.9E-08 67.4 0.0 49 335-386 13-61 (331)
54 KOG4275 Predicted E3 ubiquitin 96.2 0.0017 3.7E-08 64.6 0.7 90 289-386 246-342 (350)
55 KOG2879 Predicted E3 ubiquitin 96.1 0.0044 9.5E-08 61.2 3.3 52 332-386 234-287 (298)
56 KOG4692 Predicted E3 ubiquitin 96.1 0.0042 9.1E-08 63.3 3.2 49 335-387 420-468 (489)
57 KOG1941 Acetylcholine receptor 96.1 0.0023 4.9E-08 65.9 1.0 47 337-383 365-413 (518)
58 KOG3039 Uncharacterized conser 96.0 0.0054 1.2E-07 59.9 3.5 53 337-389 221-273 (303)
59 KOG1952 Transcription factor N 95.8 0.0037 8.1E-08 69.3 1.6 49 336-384 190-245 (950)
60 PF05883 Baculo_RING: Baculovi 95.7 0.0041 8.9E-08 55.6 1.2 36 337-373 26-67 (134)
61 PHA02862 5L protein; Provision 95.6 0.01 2.2E-07 53.8 3.0 45 337-386 2-53 (156)
62 KOG1428 Inhibitor of type V ad 95.5 0.009 1.9E-07 69.4 3.2 50 336-386 3485-3544(3738)
63 COG5152 Uncharacterized conser 95.4 0.0058 1.3E-07 58.1 1.1 44 338-385 197-240 (259)
64 PF12906 RINGv: RING-variant d 95.4 0.0098 2.1E-07 43.8 1.9 40 340-381 1-47 (47)
65 PHA02825 LAP/PHD finger-like p 95.4 0.014 3.1E-07 53.5 3.3 47 335-386 6-59 (162)
66 KOG1814 Predicted E3 ubiquitin 95.3 0.0094 2E-07 61.7 2.0 46 337-383 184-237 (445)
67 KOG1571 Predicted E3 ubiquitin 95.0 0.013 2.8E-07 59.8 2.2 44 336-386 304-347 (355)
68 PHA03096 p28-like protein; Pro 95.0 0.012 2.5E-07 58.7 1.8 37 338-374 179-219 (284)
69 KOG1002 Nucleotide excision re 94.8 0.013 2.8E-07 62.5 1.5 51 334-388 533-588 (791)
70 PF04641 Rtf2: Rtf2 RING-finge 94.7 0.029 6.4E-07 54.7 3.7 53 335-388 111-163 (260)
71 PF14570 zf-RING_4: RING/Ubox 94.6 0.022 4.8E-07 42.6 2.0 44 340-384 1-46 (48)
72 KOG1813 Predicted E3 ubiquitin 94.6 0.013 2.9E-07 58.4 1.0 44 338-385 242-285 (313)
73 PF10367 Vps39_2: Vacuolar sor 94.5 0.016 3.5E-07 47.7 1.2 34 334-369 75-108 (109)
74 KOG0827 Predicted E3 ubiquitin 94.2 0.0032 6.9E-08 64.7 -4.4 50 337-387 196-246 (465)
75 KOG1645 RING-finger-containing 94.1 0.033 7.1E-07 57.8 2.5 33 355-387 23-57 (463)
76 KOG0826 Predicted E3 ubiquitin 94.0 0.047 1E-06 55.3 3.3 48 335-385 298-345 (357)
77 COG5236 Uncharacterized conser 94.0 0.039 8.5E-07 56.4 2.8 49 332-384 56-106 (493)
78 KOG1940 Zn-finger protein [Gen 93.8 0.031 6.7E-07 55.5 1.6 46 338-383 159-204 (276)
79 COG5175 MOT2 Transcriptional r 92.6 0.08 1.7E-06 54.0 2.6 53 336-388 13-66 (480)
80 PF10272 Tmpp129: Putative tra 92.5 0.15 3.2E-06 52.5 4.4 29 359-387 311-352 (358)
81 KOG2114 Vacuolar assembly/sort 92.4 0.071 1.5E-06 59.6 2.1 44 336-385 839-882 (933)
82 COG5222 Uncharacterized conser 92.3 0.08 1.7E-06 53.3 2.1 47 338-387 275-323 (427)
83 PF03854 zf-P11: P-11 zinc fin 92.1 0.054 1.2E-06 40.6 0.5 31 358-388 17-48 (50)
84 KOG1001 Helicase-like transcri 91.9 0.065 1.4E-06 59.1 1.1 44 338-386 455-500 (674)
85 PF08746 zf-RING-like: RING-li 91.5 0.089 1.9E-06 38.1 1.1 41 340-381 1-43 (43)
86 KOG2932 E3 ubiquitin ligase in 91.3 0.088 1.9E-06 53.2 1.2 42 339-385 92-133 (389)
87 KOG1609 Protein involved in mR 91.3 0.13 2.8E-06 50.0 2.4 51 337-387 78-135 (323)
88 KOG0298 DEAD box-containing he 90.7 0.073 1.6E-06 61.8 -0.0 45 337-384 1153-1197(1394)
89 PF14447 Prok-RING_4: Prokaryo 90.6 0.15 3.3E-06 39.2 1.7 46 338-389 8-53 (55)
90 KOG3002 Zn finger protein [Gen 90.3 0.16 3.4E-06 51.1 1.9 44 335-386 46-91 (299)
91 KOG3268 Predicted E3 ubiquitin 90.3 0.18 3.9E-06 47.5 2.2 51 337-387 165-229 (234)
92 KOG3161 Predicted E3 ubiquitin 89.9 0.09 1.9E-06 57.4 -0.1 44 337-383 11-54 (861)
93 KOG4362 Transcriptional regula 89.6 0.099 2.2E-06 57.5 -0.1 53 335-391 19-74 (684)
94 COG5220 TFB3 Cdk activating ki 87.9 0.29 6.3E-06 48.0 1.9 48 336-383 9-61 (314)
95 KOG3053 Uncharacterized conser 87.4 0.29 6.3E-06 48.3 1.5 49 336-384 19-80 (293)
96 PF07800 DUF1644: Protein of u 86.3 0.66 1.4E-05 42.8 3.1 35 336-373 1-47 (162)
97 KOG1100 Predicted E3 ubiquitin 86.3 0.34 7.4E-06 46.2 1.3 40 339-386 160-200 (207)
98 PF14446 Prok-RING_1: Prokaryo 85.6 0.82 1.8E-05 35.1 2.8 44 337-384 5-50 (54)
99 KOG0309 Conserved WD40 repeat- 85.3 0.51 1.1E-05 52.6 2.1 24 357-380 1046-1069(1081)
100 KOG1812 Predicted E3 ubiquitin 84.4 0.41 9E-06 49.5 1.0 39 336-375 145-184 (384)
101 KOG3899 Uncharacterized conser 84.1 0.55 1.2E-05 47.3 1.7 28 359-386 325-365 (381)
102 KOG2034 Vacuolar sorting prote 83.1 0.51 1.1E-05 53.3 1.1 37 334-372 814-850 (911)
103 KOG0825 PHD Zn-finger protein 83.1 0.7 1.5E-05 51.8 2.1 51 337-387 96-155 (1134)
104 PF05290 Baculo_IE-1: Baculovi 81.6 1.1 2.4E-05 40.4 2.4 54 336-389 79-135 (140)
105 COG5183 SSM4 Protein involved 81.1 1.1 2.4E-05 50.5 2.7 50 335-386 10-66 (1175)
106 KOG4185 Predicted E3 ubiquitin 80.9 0.93 2E-05 44.4 1.9 35 351-385 19-54 (296)
107 KOG1829 Uncharacterized conser 80.3 0.69 1.5E-05 50.4 0.8 41 338-382 512-557 (580)
108 KOG0802 E3 ubiquitin ligase [P 76.5 1.3 2.7E-05 47.8 1.4 47 335-389 477-523 (543)
109 KOG0269 WD40 repeat-containing 72.5 3.1 6.8E-05 46.6 3.2 41 338-380 780-820 (839)
110 PF02891 zf-MIZ: MIZ/SP-RING z 70.7 1.2 2.7E-05 33.1 -0.2 43 338-384 3-50 (50)
111 smart00249 PHD PHD zinc finger 69.6 2.7 5.8E-05 28.7 1.3 31 339-370 1-31 (47)
112 PF06906 DUF1272: Protein of u 68.4 6.9 0.00015 30.4 3.4 47 338-388 6-54 (57)
113 KOG2068 MOT2 transcription fac 67.7 4.1 8.8E-05 41.6 2.6 50 338-387 250-299 (327)
114 KOG4718 Non-SMC (structural ma 66.6 2.6 5.7E-05 40.7 1.0 42 338-382 182-223 (235)
115 KOG3842 Adaptor protein Pellin 66.2 6 0.00013 40.5 3.4 54 334-387 338-415 (429)
116 KOG2817 Predicted E3 ubiquitin 66.0 4.9 0.00011 41.9 2.9 50 338-388 335-387 (394)
117 KOG2066 Vacuolar assembly/sort 65.9 2.3 4.9E-05 47.8 0.5 42 338-381 785-830 (846)
118 KOG1812 Predicted E3 ubiquitin 65.0 6.2 0.00013 41.0 3.4 43 338-381 307-351 (384)
119 PF13901 DUF4206: Domain of un 64.6 4.5 9.8E-05 38.2 2.1 41 337-383 152-197 (202)
120 KOG1815 Predicted E3 ubiquitin 60.4 5.2 0.00011 42.0 1.9 37 335-374 68-104 (444)
121 KOG2169 Zn-finger transcriptio 56.1 11 0.00024 41.7 3.6 89 293-389 258-359 (636)
122 KOG3039 Uncharacterized conser 52.1 11 0.00024 37.5 2.4 35 336-374 42-76 (303)
123 KOG4185 Predicted E3 ubiquitin 49.0 3.3 7.2E-05 40.6 -1.7 48 337-384 207-265 (296)
124 KOG3005 GIY-YIG type nuclease 48.1 9.7 0.00021 38.0 1.4 48 338-385 183-242 (276)
125 PF00628 PHD: PHD-finger; Int 46.2 11 0.00024 27.1 1.2 44 339-383 1-50 (51)
126 PF00412 LIM: LIM domain; Int 43.4 15 0.00032 26.8 1.5 39 340-388 1-39 (58)
127 KOG0824 Predicted E3 ubiquitin 42.7 9.1 0.0002 38.9 0.3 49 335-386 103-151 (324)
128 KOG3113 Uncharacterized conser 41.6 24 0.00052 35.2 3.0 50 338-389 112-161 (293)
129 smart00132 LIM Zinc-binding do 40.4 23 0.00049 23.2 1.9 38 339-386 1-38 (39)
130 KOG3579 Predicted E3 ubiquitin 39.9 14 0.0003 37.4 1.1 36 337-376 268-307 (352)
131 smart00064 FYVE Protein presen 38.5 8.3 0.00018 29.6 -0.5 37 337-373 10-46 (68)
132 PF04710 Pellino: Pellino; In 36.9 11 0.00025 39.5 0.0 49 337-386 328-401 (416)
133 TIGR00622 ssl1 transcription f 35.7 40 0.00086 29.6 3.1 46 337-382 55-110 (112)
134 PF07975 C1_4: TFIIH C1-like d 35.3 25 0.00053 26.7 1.6 42 340-382 2-50 (51)
135 PF01363 FYVE: FYVE zinc finge 34.5 20 0.00043 27.5 1.0 39 335-373 7-45 (69)
136 KOG4577 Transcription factor L 34.1 11 0.00024 38.2 -0.6 43 337-389 92-134 (383)
137 PLN02189 cellulose synthase 34.0 32 0.00069 40.3 2.9 50 337-386 34-87 (1040)
138 PF06844 DUF1244: Protein of u 33.9 24 0.00051 28.4 1.3 11 363-373 12-22 (68)
139 PRK11827 hypothetical protein; 33.6 16 0.00034 28.7 0.3 19 370-388 3-21 (60)
140 KOG1074 Transcriptional repres 33.6 22 0.00047 40.7 1.5 53 334-386 602-679 (958)
141 PF07853 DUF1648: Protein of u 33.0 20 0.00043 26.4 0.8 17 57-73 21-37 (51)
142 PF13719 zinc_ribbon_5: zinc-r 32.3 23 0.00049 24.7 0.9 27 338-364 3-36 (37)
143 KOG2807 RNA polymerase II tran 30.4 42 0.00091 34.7 2.8 47 336-383 329-375 (378)
144 COG3813 Uncharacterized protei 30.0 59 0.0013 26.8 3.0 48 339-388 7-54 (84)
145 PF05605 zf-Di19: Drought indu 30.0 20 0.00043 26.6 0.3 38 337-385 2-41 (54)
146 COG5109 Uncharacterized conser 29.2 40 0.00086 34.8 2.4 45 338-383 337-384 (396)
147 cd00065 FYVE FYVE domain; Zinc 29.1 37 0.00081 24.8 1.7 36 338-373 3-38 (57)
148 KOG4430 Topoisomerase I-bindin 28.1 16 0.00034 39.9 -0.7 52 336-387 259-310 (553)
149 PF04423 Rad50_zn_hook: Rad50 28.1 20 0.00044 26.6 0.1 12 376-387 21-32 (54)
150 PF04216 FdhE: Protein involve 27.7 8.6 0.00019 38.0 -2.6 46 337-383 172-219 (290)
151 KOG2071 mRNA cleavage and poly 27.6 29 0.00064 38.1 1.2 35 335-371 511-556 (579)
152 KOG2113 Predicted RNA binding 27.5 35 0.00076 35.1 1.7 44 335-384 341-385 (394)
153 PF07191 zinc-ribbons_6: zinc- 26.9 7.7 0.00017 31.3 -2.5 39 338-385 2-40 (70)
154 PF10571 UPF0547: Uncharacteri 26.5 30 0.00065 22.6 0.7 23 339-363 2-24 (26)
155 KOG2041 WD40 repeat protein [G 26.3 23 0.00049 40.2 0.1 46 336-385 1130-1184(1189)
156 KOG1356 Putative transcription 25.8 26 0.00055 40.1 0.4 36 335-372 227-262 (889)
157 PF07649 C1_3: C1-like domain; 24.9 51 0.0011 21.6 1.5 29 339-368 2-30 (30)
158 PF06750 DiS_P_DiS: Bacterial 24.8 45 0.00098 27.8 1.6 39 336-387 32-70 (92)
159 KOG3842 Adaptor protein Pellin 24.4 33 0.00071 35.4 0.8 25 355-384 318-350 (429)
160 PLN02436 cellulose synthase A 24.2 60 0.0013 38.3 2.9 50 337-386 36-89 (1094)
161 KOG3726 Uncharacterized conser 23.3 40 0.00087 37.8 1.3 42 338-382 655-696 (717)
162 PF04710 Pellino: Pellino; In 22.9 28 0.00061 36.7 0.0 28 355-385 305-338 (416)
163 KOG4218 Nuclear hormone recept 22.7 29 0.00063 36.1 0.1 14 335-348 13-26 (475)
164 PF13717 zinc_ribbon_4: zinc-r 22.6 49 0.0011 23.0 1.2 25 339-363 4-35 (36)
165 PF14569 zf-UDP: Zinc-binding 22.4 83 0.0018 26.1 2.6 50 336-385 8-61 (80)
166 KOG1245 Chromatin remodeling c 21.8 34 0.00073 41.5 0.4 52 333-385 1104-1159(1404)
167 KOG1729 FYVE finger containing 21.2 17 0.00037 36.6 -1.9 37 338-375 215-251 (288)
168 KOG4323 Polycomb-like PHD Zn-f 20.9 33 0.00072 36.8 0.1 47 337-383 168-223 (464)
169 KOG4021 Mitochondrial ribosoma 20.9 44 0.00095 32.3 0.9 21 365-385 97-118 (239)
170 COG2835 Uncharacterized conser 20.9 42 0.00091 26.4 0.6 15 377-391 10-24 (60)
171 PF11023 DUF2614: Protein of u 20.8 80 0.0017 27.9 2.4 21 370-390 80-100 (114)
172 PF10497 zf-4CXXC_R1: Zinc-fin 20.3 86 0.0019 26.9 2.4 24 360-383 37-69 (105)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=1.3e-14 Score=145.31 Aligned_cols=76 Identities=33% Similarity=0.799 Sum_probs=58.8
Q ss_pred CCCCHHHHHhhcccceeecccccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCC-CcccccccCCCC
Q 016267 312 TGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPICKASVMADS 389 (392)
Q Consensus 312 tGLSee~I~kll~~~~~~~s~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kns-CPICR~~l~~~~ 389 (392)
..+.+..+++++..... ..+.......|+||||+|+.+|+++.| ||+|.||..||++||....+ ||+||+++.++.
T Consensus 205 ~r~~k~~l~~~p~~~f~-~~~~~~~~~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 205 NRLIKRLLKKLPVRTFT-KGDDEDATDTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhHHHHHhhCCcEEec-cccccCCCceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 45667777776654432 222222225899999999999999998 89999999999999998755 999999987654
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=99.41 E-value=6.7e-14 Score=100.38 Aligned_cols=44 Identities=48% Similarity=1.199 Sum_probs=39.6
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR 382 (392)
+.|+||+++|..++.+..+ +|+|.||.+||.+||+.+++||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHhCCcCCccC
Confidence 3799999999988888888 6999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.21 E-value=8.5e-12 Score=119.93 Aligned_cols=76 Identities=21% Similarity=0.547 Sum_probs=55.6
Q ss_pred CCCCCHHHHHhhcccceeecc-cccCCCCccceecccccCCC----ceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 311 STGLSEDLISRCLTESIYCSA-DQMQEEGNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 311 ~tGLSee~I~kll~~~~~~~s-~~~~ed~~C~ICLEdf~~ge----~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
+.+.+...+..++......+. .....+.+|+||++.+.+++ .++++++|+|.||..||.+|++.+.+||+||..+
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 355577777776654322111 12234688999999987653 2456778999999999999999999999999986
Q ss_pred C
Q 016267 386 M 386 (392)
Q Consensus 386 ~ 386 (392)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 4
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=1.1e-11 Score=121.87 Aligned_cols=52 Identities=33% Similarity=0.933 Sum_probs=47.1
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHh-cCCCCcccccccCCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMAD 388 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~l~~~ 388 (392)
...+|+|||++|..+++++++ ||.|.||..||++|+. .++.||+||.++++.
T Consensus 322 ~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 347899999999999998888 8999999999999998 688999999999863
No 5
>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=99.17 E-value=1.9e-11 Score=97.43 Aligned_cols=47 Identities=36% Similarity=0.947 Sum_probs=37.3
Q ss_pred CCCccceecccccCC---------CceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016267 336 EEGNCVICLEEYKNM---------DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382 (392)
Q Consensus 336 ed~~C~ICLEdf~~g---------e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR 382 (392)
.++.|+||++.+.+. +....+.+|+|.||..||.+||+.+++||+||
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 455699999999432 23445558999999999999999999999998
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=2e-10 Score=112.30 Aligned_cols=52 Identities=31% Similarity=0.772 Sum_probs=45.2
Q ss_pred cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCC
Q 016267 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~ 389 (392)
...+.+|.|||+....+ ..+||||+||..||..|+..+..||+||..+.+.+
T Consensus 236 ~~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 34567899999998776 45599999999999999999999999999987764
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=5.2e-10 Score=112.59 Aligned_cols=53 Identities=36% Similarity=0.923 Sum_probs=42.8
Q ss_pred cCCCCccceecccc-cCC--------C-ceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 334 MQEEGNCVICLEEY-KNM--------D-DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 334 ~~ed~~C~ICLEdf-~~g--------e-~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
...|..|.||+|+. ..+ + +..+| ||||.+|.+|++.|+.++.+||+||.++.-
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~if 346 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPVIF 346 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCcccc
Confidence 34678899999994 433 1 23455 899999999999999999999999999543
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.89 E-value=1.2e-09 Score=102.18 Aligned_cols=50 Identities=32% Similarity=0.802 Sum_probs=40.2
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc----------------CCCCcccccccCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM----------------KNVCPICKASVMAD 388 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~----------------knsCPICR~~l~~~ 388 (392)
.++..|+||++.++++ ++++|+|.||..||.+|+.. +..||+||..+...
T Consensus 16 ~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 16 GGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 3567899999998765 33479999999999999853 24699999988654
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=9e-10 Score=104.90 Aligned_cols=51 Identities=37% Similarity=0.802 Sum_probs=41.1
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc---CCCCcccccccCCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVMADS 389 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~---knsCPICR~~l~~~~ 389 (392)
....+|.||||.-+++ | ++.|||.||+.||.+||.. ++.||+||..|..++
T Consensus 45 ~~~FdCNICLd~akdP--V--vTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP--V--VTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCceeeeeeccccCCC--E--EeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 4567899999998765 3 3469999999999999976 345999999886553
No 10
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.87 E-value=1.6e-09 Score=75.01 Aligned_cols=44 Identities=45% Similarity=1.156 Sum_probs=36.2
Q ss_pred ccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccc
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASV 385 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l 385 (392)
.|+||++.+. ....+++|+|.||..|++.|++. ...||+||..+
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 23344479999999999999997 67799999864
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.84 E-value=1.6e-09 Score=79.69 Aligned_cols=46 Identities=35% Similarity=0.859 Sum_probs=38.1
Q ss_pred CCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
+..|.||++.... +..+ ||+|. ||..|+.+|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5789999998654 4444 89999 999999999999999999999874
No 12
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.80 E-value=3.6e-09 Score=87.12 Aligned_cols=51 Identities=33% Similarity=0.782 Sum_probs=40.7
Q ss_pred CCCccceecccccC--------CC-ceEEcccCCccccHHHHHHHHhc---CCCCcccccccC
Q 016267 336 EEGNCVICLEEYKN--------MD-DVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVM 386 (392)
Q Consensus 336 ed~~C~ICLEdf~~--------ge-~v~~LlpCgH~FH~~CI~kWLk~---knsCPICR~~l~ 386 (392)
.++.|.||...|.. ++ ...++..|+|.||..||.+||.. +..||+||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 47889999999873 22 23445589999999999999985 467999999764
No 13
>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=98.78 E-value=4.3e-09 Score=73.83 Aligned_cols=39 Identities=38% Similarity=1.049 Sum_probs=32.2
Q ss_pred cceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccc
Q 016267 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 381 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPIC 381 (392)
|+||++.+.+ ..++++|||.||..||.+|++.+..||+|
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 8999999886 32344899999999999999998899998
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=98.76 E-value=4e-09 Score=100.34 Aligned_cols=51 Identities=35% Similarity=0.818 Sum_probs=41.0
Q ss_pred CCCCccceecccccCC-----CceEEcccCCccccHHHHHHHHhcC------CCCccccccc
Q 016267 335 QEEGNCVICLEEYKNM-----DDVGTLKSCGHDYHVTCIKKWLSMK------NVCPICKASV 385 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~g-----e~v~~LlpCgH~FH~~CI~kWLk~k------nsCPICR~~l 385 (392)
..+.+|+||+|..-++ ...+.|.+|+|.||..||.+|.+.+ ..||+||..+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 4568899999987432 1356788999999999999999753 4599999875
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=4.3e-09 Score=96.99 Aligned_cols=50 Identities=32% Similarity=0.695 Sum_probs=42.2
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
....|+|||+.+... +.+-+.|||+||..||+..|+....||+|++.|..
T Consensus 130 ~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred cccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 447899999999864 43444899999999999999999999999987643
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=5.7e-09 Score=110.66 Aligned_cols=50 Identities=32% Similarity=0.934 Sum_probs=43.4
Q ss_pred CCCccceecccccCCCc--eEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 336 EEGNCVICLEEYKNMDD--VGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~--v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.+..|+||+|++..+.. ..+| +|+|+||..|+++||+++++||+||..+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 47889999999998654 4555 89999999999999999999999999543
No 17
>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=98.65 E-value=2.2e-08 Score=75.77 Aligned_cols=47 Identities=26% Similarity=0.447 Sum_probs=40.6
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~ 388 (392)
..|+||++.+.++ ++.+|||+|+..||.+|++.+..||+|+..+..+
T Consensus 2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 5799999999875 3348999999999999999888999999987544
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.59 E-value=3.1e-08 Score=71.34 Aligned_cols=44 Identities=39% Similarity=0.864 Sum_probs=36.1
Q ss_pred ccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~ 383 (392)
.|.||++.|... ....+++|+|+||..||.++......||+||+
T Consensus 1 ~C~~C~~~~~~~-~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEE-RRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCC-CCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 499999999433 34556699999999999999866678999985
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=98.53 E-value=4.4e-08 Score=68.77 Aligned_cols=39 Identities=41% Similarity=1.095 Sum_probs=32.8
Q ss_pred cceecccccCCCceEEcccCCccccHHHHHHHHh--cCCCCccc
Q 016267 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS--MKNVCPIC 381 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk--~knsCPIC 381 (392)
|+||++.+..+. .+++|+|.||..||.+|++ ....||+|
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 899999988652 3458999999999999999 45569998
No 20
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.53 E-value=4.5e-08 Score=70.36 Aligned_cols=38 Identities=32% Similarity=0.871 Sum_probs=29.0
Q ss_pred cceecccccCCCceEEcccCCccccHHHHHHHHhcC----CCCccc
Q 016267 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCPIC 381 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----nsCPIC 381 (392)
|+||++.|.++ +.++|||.|+..||.+|.+.. ..||+|
T Consensus 1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999975 334899999999999999763 359998
No 21
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.52 E-value=6e-08 Score=99.55 Aligned_cols=51 Identities=29% Similarity=0.694 Sum_probs=43.3
Q ss_pred cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCC
Q 016267 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~ 388 (392)
......|+||++.|..+ ++++|+|.||..||..|+.....||+||..+...
T Consensus 23 Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 34567899999999865 3458999999999999999888899999987654
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.51 E-value=5e-08 Score=79.45 Aligned_cols=35 Identities=31% Similarity=0.736 Sum_probs=30.4
Q ss_pred ceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 352 DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 352 ~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.......|.|.||..||.+||..++.||+||++..
T Consensus 47 C~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 47 CPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 44555579999999999999999999999999764
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.49 E-value=1.1e-07 Score=63.47 Aligned_cols=38 Identities=58% Similarity=1.282 Sum_probs=31.2
Q ss_pred cceecccccCCCceEEcccCCccccHHHHHHHHh-cCCCCccc
Q 016267 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPIC 381 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-~knsCPIC 381 (392)
|+||++... .+..+ +|+|.||..||+.|++ .+..||+|
T Consensus 1 C~iC~~~~~---~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 889999833 34445 8999999999999998 56779998
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=2.1e-07 Score=75.31 Aligned_cols=52 Identities=29% Similarity=0.692 Sum_probs=40.5
Q ss_pred CCCCccceecccccC---------CCceEEcccCCccccHHHHHHHHhc---CCCCcccccccC
Q 016267 335 QEEGNCVICLEEYKN---------MDDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVM 386 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~---------ge~v~~LlpCgH~FH~~CI~kWLk~---knsCPICR~~l~ 386 (392)
..++.|-||.-.|.. ++...++..|.|.||..||.+||.. +..||+||++..
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 456689999988864 3334455679999999999999965 456999999764
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.26 E-value=5.3e-07 Score=65.48 Aligned_cols=35 Identities=26% Similarity=0.664 Sum_probs=22.4
Q ss_pred cceecccccCCCceEEcccCCccccHHHHHHHHhcC
Q 016267 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK 375 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k 375 (392)
|+||.+ |...+...++++|||+|+.+||+++++..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 87766655555899999999999999854
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=4.8e-07 Score=87.99 Aligned_cols=51 Identities=31% Similarity=0.787 Sum_probs=42.3
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHH-HHhcCCC-CcccccccCCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WLSMKNV-CPICKASVMADS 389 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~k-WLk~kns-CPICR~~l~~~~ 389 (392)
..+.+|+||++..... ..++|||+||..||.. |-+.+.. ||+||+.+.+.+
T Consensus 213 ~~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 4578899999997754 3448999999999999 9887766 999999887654
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=4.8e-07 Score=94.55 Aligned_cols=49 Identities=29% Similarity=0.699 Sum_probs=39.7
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-----CCCcccccccCCCC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-----NVCPICKASVMADS 389 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-----nsCPICR~~l~~~~ 389 (392)
+..|+|||+....+ .++.|||+||..||.+++... ..||+|+..|-..+
T Consensus 186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 67899999997654 444699999999999998653 45999999887644
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=5.5e-07 Score=93.71 Aligned_cols=52 Identities=27% Similarity=0.758 Sum_probs=40.8
Q ss_pred CCCccceecccccCCC----c---------eEEcccCCccccHHHHHHHHh-cCCCCcccccccCC
Q 016267 336 EEGNCVICLEEYKNMD----D---------VGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMA 387 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge----~---------v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~l~~ 387 (392)
....|+||+.++..-. + -..++||.|+||..|+++|.. .|-.||+||+.+++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3457999999985411 1 134569999999999999998 56689999999875
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.12 E-value=6.9e-07 Score=89.59 Aligned_cols=51 Identities=31% Similarity=0.698 Sum_probs=44.4
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 390 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~~ 390 (392)
.-..|-||.+.|..+ +++||+|.||.-||.+.|..+..||.|+.++.....
T Consensus 22 ~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 346899999999975 566999999999999999999999999998876543
No 30
>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=2.3e-06 Score=63.62 Aligned_cols=42 Identities=31% Similarity=0.785 Sum_probs=31.9
Q ss_pred ccceecccccCCCceEEcccCC-----ccccHHHHHHHHhcC--CCCcccc
Q 016267 339 NCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSMK--NVCPICK 382 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~k--nsCPICR 382 (392)
.|.||++. .+++...+. ||. |.+|..||.+|+..+ ..||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999993 334444455 785 899999999999654 4799995
No 31
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=1.6e-06 Score=79.50 Aligned_cols=45 Identities=36% Similarity=0.854 Sum_probs=38.7
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~ 383 (392)
.+...|+||++.|..+ ++++|+|.||..||..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 4567899999999987 44589999999999999985567999993
No 32
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=2.6e-06 Score=72.61 Aligned_cols=49 Identities=31% Similarity=0.764 Sum_probs=37.9
Q ss_pred CCCccceecccc-------------cCCCceEEcccCCccccHHHHHHHHhcCCCCcccccc
Q 016267 336 EEGNCVICLEEY-------------KNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS 384 (392)
Q Consensus 336 ed~~C~ICLEdf-------------~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~ 384 (392)
..+.|+||..-+ ...|.+.....|.|.||..||.+||++++.||+|.++
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 345677765443 2344556666899999999999999999999999775
No 33
>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=98.02 E-value=2.5e-06 Score=67.82 Aligned_cols=48 Identities=23% Similarity=0.436 Sum_probs=36.6
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCcccccccCCC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD 388 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~ 388 (392)
...|+||.+.+.++ ++++|||.|...||.+||.. ...||+|+..+...
T Consensus 4 ~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 46799999999976 33489999999999999998 78899999887654
No 34
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.02 E-value=1.7e-06 Score=85.68 Aligned_cols=56 Identities=27% Similarity=0.796 Sum_probs=45.2
Q ss_pred ccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHh-----------------------cCCCCcccccccCCCC
Q 016267 333 QMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-----------------------MKNVCPICKASVMADS 389 (392)
Q Consensus 333 ~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-----------------------~knsCPICR~~l~~~~ 389 (392)
.......|+|||--|.+++.+.+. +|-|.||..|+.++|. .+..||+||..|..+.
T Consensus 111 nn~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 111 NNHPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 345678999999999999888776 8999999999988771 1234999999887654
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.95 E-value=1.8e-06 Score=95.16 Aligned_cols=54 Identities=22% Similarity=0.780 Sum_probs=40.8
Q ss_pred ccCCCCccceecccccCCC-c--eEEcccCCccccHHHHHHHHhc--CCCCcccccccC
Q 016267 333 QMQEEGNCVICLEEYKNMD-D--VGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM 386 (392)
Q Consensus 333 ~~~ed~~C~ICLEdf~~ge-~--v~~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~ 386 (392)
.....++|+||...+..-+ + -.++..|+|.||..||.+|++. ++.||+||.++.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3456789999998876211 1 1234479999999999999986 467999998874
No 36
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=4.9e-06 Score=83.88 Aligned_cols=47 Identities=34% Similarity=0.703 Sum_probs=39.6
Q ss_pred CCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
...+|+|||.+-.+ +.+| ||.|. .|..|.+..--+.+.|||||+.+.
T Consensus 289 ~gkeCVIClse~rd---t~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSESRD---TVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCCcc---eEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 35689999999775 4445 99999 999999988778999999999874
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.89 E-value=2.8e-06 Score=67.44 Aligned_cols=50 Identities=26% Similarity=0.752 Sum_probs=23.9
Q ss_pred CCccceecccccCCCce--EEc--ccCCccccHHHHHHHHhc----C-------CCCcccccccC
Q 016267 337 EGNCVICLEEYKNMDDV--GTL--KSCGHDYHVTCIKKWLSM----K-------NVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v--~~L--lpCgH~FH~~CI~kWLk~----k-------nsCPICR~~l~ 386 (392)
+..|.||++.+...+++ .+. ..|+..||..||.+||.. + ..||.|+++|.
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 46899999987633322 222 268999999999999963 1 13999999874
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.86 E-value=6.2e-06 Score=81.50 Aligned_cols=46 Identities=26% Similarity=0.647 Sum_probs=40.6
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
-..|-||-+.|..+ .+++|||.||.-||...|..+..||+||.+..
T Consensus 25 ~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 25 MLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 46799999998865 66699999999999999999999999998754
No 39
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=4.3e-06 Score=81.81 Aligned_cols=52 Identities=31% Similarity=0.707 Sum_probs=42.7
Q ss_pred cCCCCccceecccccCCC-------ceEEcccCCccccHHHHHHHHhc--CCCCcccccccC
Q 016267 334 MQEEGNCVICLEEYKNMD-------DVGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM 386 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~ge-------~v~~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~ 386 (392)
..++..|+||-..+...+ ++.+| .|+|+||..||+-|-.. +.+||.||..+.
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 346788999998887654 67777 79999999999999854 677999998764
No 40
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=3.7e-06 Score=84.78 Aligned_cols=51 Identities=33% Similarity=0.626 Sum_probs=41.4
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCcccccccCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD 388 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~ 388 (392)
..+..|+|||+-++.. +..+.|.|.||.+||.+-|+. ++.||.||+.+...
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 3467899999998852 334479999999999999986 67899999987654
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=1.7e-05 Score=80.41 Aligned_cols=51 Identities=31% Similarity=0.875 Sum_probs=40.5
Q ss_pred CCCCccceecccccCCC----ceEEcccCCccccHHHHHHHHh--c-----CCCCccccccc
Q 016267 335 QEEGNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLS--M-----KNVCPICKASV 385 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge----~v~~LlpCgH~FH~~CI~kWLk--~-----knsCPICR~~l 385 (392)
..+..|.||++.+.+.. ..++|++|.|.||..||.+|-. + .+.||+||...
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 45788999999987643 1456678999999999999983 3 46799999854
No 42
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.56 E-value=3.1e-05 Score=80.24 Aligned_cols=50 Identities=28% Similarity=0.731 Sum_probs=38.9
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.+...|+||||-+.....-.+...|.|.||..|+.+|- ..+||+||-...
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 45678999999988754322233699999999999994 578999998665
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.47 E-value=2.1e-05 Score=85.75 Aligned_cols=50 Identities=18% Similarity=0.480 Sum_probs=42.8
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
....|+||+..+.+....... +|+|.||..||..|-+.-.+||+||.++.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 346799999999887555444 89999999999999999999999999764
No 44
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=5.2e-05 Score=58.11 Aligned_cols=46 Identities=30% Similarity=0.733 Sum_probs=35.8
Q ss_pred CCccceecccccCCCceEEcccCCcc-ccHHHHHHHHh-cCCCCcccccccC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLS-MKNVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk-~knsCPICR~~l~ 386 (392)
+.+|.||+|.-.+. +|-.|||. .|..|-.+.++ .+..||+||+++.
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 47899999986653 34469998 89999655555 7899999999874
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.27 E-value=7.7e-05 Score=58.75 Aligned_cols=50 Identities=24% Similarity=0.622 Sum_probs=25.3
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCCCC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEK 391 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~~k 391 (392)
-..|++|.+.++++ ..+..|.|.||..||..-+. ..||+|+.++-..+.|
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence 46899999998865 23458999999999988544 4599999988665543
No 46
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.00022 Score=77.89 Aligned_cols=51 Identities=25% Similarity=0.662 Sum_probs=40.4
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCcccccccCCCCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADSE 390 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~~~ 390 (392)
.-..|+.|-.-+++. +++.|+|+||..||.+-+.. ...||.|-+.+-+.+.
T Consensus 642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 346899999777753 34479999999999999965 6779999988866553
No 47
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00071 Score=69.99 Aligned_cols=49 Identities=22% Similarity=0.699 Sum_probs=41.1
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
..+..|.||...+..+ .++ ||||.||..||.+-+.....||+||..+..
T Consensus 82 ~sef~c~vc~~~l~~p---v~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVT-PCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---ccc-cccccccHHHHHHHhccCCCCccccccccc
Confidence 4567899999888865 234 999999999999988888889999998863
No 48
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.76 E-value=0.00055 Score=70.45 Aligned_cols=47 Identities=32% Similarity=0.791 Sum_probs=37.1
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhc--CCCCcccccccCCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVMAD 388 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~~~ 388 (392)
..|-||-|.-+ .|.+- ||||..|..|+..|-.. ...||.||.+|.-.
T Consensus 370 eLCKICaendK---dvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAENDK---DVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccCC---Ccccc-cccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 46999987744 34444 89999999999999854 56799999998654
No 49
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.68 E-value=0.00085 Score=69.13 Aligned_cols=53 Identities=25% Similarity=0.672 Sum_probs=43.8
Q ss_pred cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCC
Q 016267 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~ 389 (392)
..++..|+||...+.++-.. ..|+|.||..||.+|+..+..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~---~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT---TTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccCCCCC---CCCCCcccccccchhhccCcCCcccccccchhh
Confidence 34568999999999986322 279999999999999999999999988775543
No 50
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.00094 Score=64.37 Aligned_cols=53 Identities=23% Similarity=0.528 Sum_probs=44.0
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc--------CCCCcccccccCCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--------KNVCPICKASVMADS 389 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--------knsCPICR~~l~~~~ 389 (392)
..+..|..|--.+..+|+++ | -|-|.||.+|++.|-.. .-.||-|..+|+++.
T Consensus 48 DY~pNC~LC~t~La~gdt~R-L-vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-L-VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCCCceeCCccccCccee-e-hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 34567999999999998886 4 49999999999999854 235999999998864
No 51
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.60 E-value=0.0015 Score=50.14 Aligned_cols=42 Identities=24% Similarity=0.623 Sum_probs=27.9
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc--CCCCcc
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPI 380 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--knsCPI 380 (392)
-...|+|.+..|+++ +... .|+|.|-++.|.+||+. ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 357899999999965 4444 79999999999999954 345998
No 52
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.43 E-value=0.0011 Score=61.00 Aligned_cols=30 Identities=40% Similarity=0.855 Sum_probs=27.2
Q ss_pred CCCCccceecccccCCCceEEcccCCccccH
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHV 365 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~ 365 (392)
.+..+|+||||++..+++|.+| ||-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARL-PCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARL-PCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence 4567899999999999999999 89999996
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.38 E-value=0.00087 Score=67.39 Aligned_cols=49 Identities=22% Similarity=0.575 Sum_probs=41.3
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.....|.+|---|.+..+|. -|-|.||..||.+.|...+.||+|...|-
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 34578999999988765442 69999999999999999999999987663
No 54
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.16 E-value=0.0017 Score=64.62 Aligned_cols=90 Identities=23% Similarity=0.387 Sum_probs=52.2
Q ss_pred cCCCCCCCHHHHHHhhhhcCCCCCCCC--HHHHHhhcccceeecc----cccCCCCccceecccccCCCceEEcccCCcc
Q 016267 289 RLDIDNMTYEELLALGERIGSVSTGLS--EDLISRCLTESIYCSA----DQMQEEGNCVICLEEYKNMDDVGTLKSCGHD 362 (392)
Q Consensus 289 rlDiDnmsyEeLlaL~Erig~v~tGLS--ee~I~kll~~~~~~~s----~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~ 362 (392)
-+++++++-.+|++...+-...-.|-. .+.+.+....-+.... .....+..|.||++...+ ...| +|||.
T Consensus 246 l~d~Eg~~v~qLke~l~~d~vsy~gCcek~el~d~vtrl~k~~~g~~~~~s~~~~~LC~ICmDaP~D---CvfL-eCGHm 321 (350)
T KOG4275|consen 246 LLDEEGLTVRQLKEILDDDFVSYKGCCEKYELDDRVTRLYKGNDGEQHSRSLATRRLCAICMDAPRD---CVFL-ECGHM 321 (350)
T ss_pred ccccccchHHHhhhhhhccCCcccchhHHHHHHHHHHHHHhcccccccccchhHHHHHHHHhcCCcc---eEEe-ecCcE
Confidence 356677777788777766444444433 2223222111111100 111225679999998664 4344 89997
Q ss_pred -ccHHHHHHHHhcCCCCcccccccC
Q 016267 363 -YHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 363 -FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
-|.+|-+.. +.|||||+.|.
T Consensus 322 VtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 322 VTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred Eeehhhcccc----ccCchHHHHHH
Confidence 688886543 48999998764
No 55
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0044 Score=61.23 Aligned_cols=52 Identities=25% Similarity=0.494 Sum_probs=40.0
Q ss_pred cccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc--CCCCcccccccC
Q 016267 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM 386 (392)
Q Consensus 332 ~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~ 386 (392)
.....+.+|++|.+.-..+ -+..+|+|+||.-||..-+.. .-+||.|-.++.
T Consensus 234 s~~t~~~~C~~Cg~~PtiP---~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP---HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCC---eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3445678999999886654 233379999999999987754 357999988775
No 56
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.0042 Score=63.30 Aligned_cols=49 Identities=29% Similarity=0.581 Sum_probs=40.7
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
.++..|+||...-.. .+..||+|.-|+.||.+-|...+.|=.||..+.+
T Consensus 420 sEd~lCpICyA~pi~----Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPIN----AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccch----hhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 567889999865332 2445999999999999999999999999998864
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.05 E-value=0.0023 Score=65.91 Aligned_cols=47 Identities=26% Similarity=0.591 Sum_probs=37.7
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcC--CCCccccc
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPICKA 383 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--nsCPICR~ 383 (392)
+..|-.|-+-+...++-..-+||.|+||..|+...|..+ .+||.||+
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 456999999987765443444999999999999999764 56999994
No 58
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.04 E-value=0.0054 Score=59.92 Aligned_cols=53 Identities=17% Similarity=0.329 Sum_probs=47.1
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~ 389 (392)
...|+||.+.+.+.-.+..|.||||+|+.+|+.+.+..-..||+|-.++...+
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 45799999999998878888899999999999999999999999988876654
No 59
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.84 E-value=0.0037 Score=69.32 Aligned_cols=49 Identities=39% Similarity=0.840 Sum_probs=39.8
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC-------CCcccccc
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN-------VCPICKAS 384 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn-------sCPICR~~ 384 (392)
...+|.||++.+.....+-....|.|+||..||++|-+... .||.|+..
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 45689999999998777766667999999999999996511 29999843
No 60
>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=95.75 E-value=0.0041 Score=55.58 Aligned_cols=36 Identities=28% Similarity=0.613 Sum_probs=28.9
Q ss_pred CCccceecccccCCCceEEcccCC------ccccHHHHHHHHh
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCG------HDYHVTCIKKWLS 373 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCg------H~FH~~CI~kWLk 373 (392)
..+|.||++.+.+.+-++.+ +|+ |.||.+|+++|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~v-t~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYV-TDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEE-ecCCeehHHHHHHHHHHHHHHh
Confidence 57899999999984445555 576 8999999999943
No 61
>PHA02862 5L protein; Provisional
Probab=95.56 E-value=0.01 Score=53.80 Aligned_cols=45 Identities=27% Similarity=0.721 Sum_probs=33.7
Q ss_pred CCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhc--CCCCcccccccC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--knsCPICR~~l~ 386 (392)
...|-||.++-.+. + -||. -.-|.+|+.+|+.. +..|++|+.+..
T Consensus 2 ~diCWIC~~~~~e~--~---~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER--N---NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC--c---ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 35799999985432 3 2564 46899999999975 556999998753
No 62
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.55 E-value=0.009 Score=69.40 Aligned_cols=50 Identities=30% Similarity=0.729 Sum_probs=37.2
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC----------CCCcccccccC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----------NVCPICKASVM 386 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----------nsCPICR~~l~ 386 (392)
.++.|.||..+--...-...| .|+|+||..|...-|... -+||+|+..|.
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 467799998776555455566 799999999987655432 24999998764
No 63
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.45 E-value=0.0058 Score=58.07 Aligned_cols=44 Identities=23% Similarity=0.628 Sum_probs=36.9
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
..|.||-++|+.+ +.+.|||.||..|.-+-++....|-+|-+..
T Consensus 197 F~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccch----hhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 4699999999976 4447999999999888888788899997643
No 64
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.39 E-value=0.0098 Score=43.81 Aligned_cols=40 Identities=30% Similarity=0.844 Sum_probs=27.3
Q ss_pred cceecccccCCCceEEcccCC-----ccccHHHHHHHHhc--CCCCccc
Q 016267 340 CVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPIC 381 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--knsCPIC 381 (392)
|-||++.-...+.+ +. ||. -..|..||.+|+.. +..|++|
T Consensus 1 CrIC~~~~~~~~~l-i~-pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL-IS-PCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E-E--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce-ec-ccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 77999997776533 23 665 36899999999975 4569988
No 65
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.36 E-value=0.014 Score=53.55 Aligned_cols=47 Identities=26% Similarity=0.651 Sum_probs=34.0
Q ss_pred CCCCccceecccccCCCceEEcccCCc-----cccHHHHHHHHhcC--CCCcccccccC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGH-----DYHVTCIKKWLSMK--NVCPICKASVM 386 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH-----~FH~~CI~kWLk~k--nsCPICR~~l~ 386 (392)
..+..|-||.++... .. . ||.. ..|.+|+.+|+..+ ..|++|+++..
T Consensus 6 ~~~~~CRIC~~~~~~--~~--~-PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV--VT--N-YCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC--cc--C-CcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 456789999988542 22 2 5543 56999999999764 56999998653
No 66
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.26 E-value=0.0094 Score=61.73 Aligned_cols=46 Identities=28% Similarity=0.582 Sum_probs=36.1
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhc--------CCCCccccc
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--------KNVCPICKA 383 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--------knsCPICR~ 383 (392)
...|.||.++......+..+ ||+|+||+.|++.++.. .-.||-|+.
T Consensus 184 lf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 46799999998876666666 89999999999999953 224876654
No 67
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.04 E-value=0.013 Score=59.76 Aligned_cols=44 Identities=30% Similarity=0.671 Sum_probs=30.4
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
....|.||+++..+ ...+ ||||+-| |+.--.. ..+||+||+.|.
T Consensus 304 ~p~lcVVcl~e~~~---~~fv-pcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFV-PCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeee-cCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 34679999999876 3334 8999865 5544322 334999998763
No 68
>PHA03096 p28-like protein; Provisional
Probab=95.02 E-value=0.012 Score=58.70 Aligned_cols=37 Identities=35% Similarity=0.716 Sum_probs=30.5
Q ss_pred CccceecccccCCC----ceEEcccCCccccHHHHHHHHhc
Q 016267 338 GNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLSM 374 (392)
Q Consensus 338 ~~C~ICLEdf~~ge----~v~~LlpCgH~FH~~CI~kWLk~ 374 (392)
..|.||++...... .-+.|..|.|.||..||..|-..
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 67999999987532 34677789999999999999965
No 69
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.77 E-value=0.013 Score=62.47 Aligned_cols=51 Identities=25% Similarity=0.660 Sum_probs=38.1
Q ss_pred cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-----CCCCcccccccCCC
Q 016267 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-----KNVCPICKASVMAD 388 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-----knsCPICR~~l~~~ 388 (392)
...+..|-+|-+.-++. +...|.|.||..||+.++.. +.+||+|-..+.-+
T Consensus 533 nk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred ccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 34567899999876543 22379999999999999853 45699998776543
No 70
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.72 E-value=0.029 Score=54.67 Aligned_cols=53 Identities=17% Similarity=0.444 Sum_probs=42.0
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~ 388 (392)
.....|+|+..+|........+.+|||+|...||++- .....||+|-.++...
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence 3456799999999766667777799999999999997 2345799998886543
No 71
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.64 E-value=0.022 Score=42.57 Aligned_cols=44 Identities=30% Similarity=0.635 Sum_probs=23.4
Q ss_pred cceecccccCCC-ceEEcccCCccccHHHHHHHHh-cCCCCcccccc
Q 016267 340 CVICLEEYKNMD-DVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKAS 384 (392)
Q Consensus 340 C~ICLEdf~~ge-~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~ 384 (392)
|++|.+++...+ .+.-. +|+...+..|...-+. ....||-||++
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999995544 44444 7899999999988886 47889999975
No 72
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.58 E-value=0.013 Score=58.38 Aligned_cols=44 Identities=23% Similarity=0.545 Sum_probs=37.9
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
..|-||...|..+ +...|+|.||..|..+=++....|.+|-+..
T Consensus 242 f~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred ccccccccccccc----hhhcCCceeehhhhccccccCCcceeccccc
Confidence 4599999999976 3447999999999999888888999998765
No 73
>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=94.50 E-value=0.016 Score=47.67 Aligned_cols=34 Identities=32% Similarity=0.688 Sum_probs=26.7
Q ss_pred cCCCCccceecccccCCCceEEcccCCccccHHHHH
Q 016267 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIK 369 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~ 369 (392)
..++..|.||-..+... .+.+. ||+|+||..|++
T Consensus 75 i~~~~~C~vC~k~l~~~-~f~~~-p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNS-VFVVF-PCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCCc-eEEEe-CCCeEEeccccc
Confidence 34567899999999873 44444 999999999985
No 74
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.19 E-value=0.0032 Score=64.74 Aligned_cols=50 Identities=34% Similarity=0.727 Sum_probs=43.3
Q ss_pred CCccceecccccCC-CceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 337 EGNCVICLEEYKNM-DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 337 d~~C~ICLEdf~~g-e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
...|+||.+.++.. +++-.+ -|+|.+|..||.+||..+..||.|+.++.-
T Consensus 196 v~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 46899999999875 566666 699999999999999999999999998854
No 75
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.05 E-value=0.033 Score=57.82 Aligned_cols=33 Identities=36% Similarity=0.894 Sum_probs=26.2
Q ss_pred EcccCCccccHHHHHHHHhc--CCCCcccccccCC
Q 016267 355 TLKSCGHDYHVTCIKKWLSM--KNVCPICKASVMA 387 (392)
Q Consensus 355 ~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~~ 387 (392)
+.+.|+|.|...||.+||.+ +..||.|+.++..
T Consensus 23 vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katk 57 (463)
T KOG1645|consen 23 VSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATK 57 (463)
T ss_pred eeecccccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence 34489999999999999963 3569999876543
No 76
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.96 E-value=0.047 Score=55.33 Aligned_cols=48 Identities=21% Similarity=0.447 Sum_probs=37.8
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
.+...|+||+....++ ++.. .-|-+||..||.+++...+.||+--.++
T Consensus 298 ~~~~~CpvClk~r~Np-tvl~--vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNP-TVLE--VSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCC-ceEE--ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 3456799999998875 2322 3699999999999999999999865544
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.96 E-value=0.039 Score=56.36 Aligned_cols=49 Identities=31% Similarity=0.656 Sum_probs=36.4
Q ss_pred cccCCCCccceecccccCCCceEEcccCCccccHHHHHH--HHhcCCCCcccccc
Q 016267 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK--WLSMKNVCPICKAS 384 (392)
Q Consensus 332 ~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~k--WLk~knsCPICR~~ 384 (392)
+..++...|.||.+.+.- + .++||+|..|--|..+ -|-.++.||+||.+
T Consensus 56 dtDEen~~C~ICA~~~TY---s-~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---S-ARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccccceeEEecCCceE---E-EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 334556679999987653 3 3449999999999754 34568889999985
No 78
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.75 E-value=0.031 Score=55.50 Aligned_cols=46 Identities=30% Similarity=0.594 Sum_probs=39.7
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~ 383 (392)
..|+||.+.+.........++|+|.-|..|........-.||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3499999998887765555699999999999999988889999988
No 79
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.62 E-value=0.08 Score=54.04 Aligned_cols=53 Identities=23% Similarity=0.476 Sum_probs=37.3
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHh-cCCCCcccccccCCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMAD 388 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~l~~~ 388 (392)
+++-|+.|++++...++-..-.+||-..|.-|...--+ .+..||-||..-..+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 34459999999988775444338998878777654433 267899999865443
No 80
>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=92.51 E-value=0.15 Score=52.49 Aligned_cols=29 Identities=31% Similarity=0.874 Sum_probs=22.4
Q ss_pred CCccccHHHHHHHHhc-------------CCCCcccccccCC
Q 016267 359 CGHDYHVTCIKKWLSM-------------KNVCPICKASVMA 387 (392)
Q Consensus 359 CgH~FH~~CI~kWLk~-------------knsCPICR~~l~~ 387 (392)
|.-..|.+|+.+|+.. +..||+||+.+.-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 5677899999999943 2349999998643
No 81
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.39 E-value=0.071 Score=59.62 Aligned_cols=44 Identities=27% Similarity=0.710 Sum_probs=33.3
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
....|.+|--.++.+ .| -- .|+|.||..|+. .....||.|+.++
T Consensus 839 q~skCs~C~~~LdlP-~V-hF-~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP-FV-HF-LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccc-ee-ee-ecccHHHHHhhc---cCcccCCccchhh
Confidence 346899998888765 22 23 599999999998 3446799998744
No 82
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.29 E-value=0.08 Score=53.27 Aligned_cols=47 Identities=28% Similarity=0.559 Sum_probs=35.4
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccc-ccCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKA-SVMA 387 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~-~l~~ 387 (392)
..|+.|-.-+..+ +. .+.|+|.||.+||..-|.. ...||.|.. .|+-
T Consensus 275 LkCplc~~Llrnp--~k-T~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll 323 (427)
T COG5222 275 LKCPLCHCLLRNP--MK-TPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL 323 (427)
T ss_pred ccCcchhhhhhCc--cc-CccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence 7899998887764 22 2469999999999987765 577999944 4443
No 83
>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=92.11 E-value=0.054 Score=40.57 Aligned_cols=31 Identities=29% Similarity=0.713 Sum_probs=22.7
Q ss_pred cCC-ccccHHHHHHHHhcCCCCcccccccCCC
Q 016267 358 SCG-HDYHVTCIKKWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 358 pCg-H~FH~~CI~kWLk~knsCPICR~~l~~~ 388 (392)
.|. |..|..|+...|.....||+|+.+++..
T Consensus 17 ~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 17 KCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp E-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred eecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 586 9999999999999999999999998753
No 84
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.90 E-value=0.065 Score=59.14 Aligned_cols=44 Identities=34% Similarity=0.837 Sum_probs=34.1
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcC--CCCcccccccC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPICKASVM 386 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--nsCPICR~~l~ 386 (392)
..|.||++ .+.+... +|+|.||..|+.+-+... ..||+||..+.
T Consensus 455 ~~c~ic~~----~~~~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceee-cccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 78999999 2233333 799999999999988653 35999998664
No 85
>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=91.52 E-value=0.089 Score=38.14 Aligned_cols=41 Identities=27% Similarity=0.659 Sum_probs=23.0
Q ss_pred cceecccccCCCceEEcccCCccccHHHHHHHHhcCC--CCccc
Q 016267 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN--VCPIC 381 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn--sCPIC 381 (392)
|.+|-+....+...... .|.=.+|..|++++++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66777777666433222 4888899999999998755 69988
No 86
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.34 E-value=0.088 Score=53.15 Aligned_cols=42 Identities=24% Similarity=0.647 Sum_probs=29.1
Q ss_pred ccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
.|.-|--.+.. -+++.||+|+||.+|... ..-+.||.|-..|
T Consensus 92 fCd~Cd~PI~I---YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAI---YGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCccee---eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 46666544442 346669999999999743 3356899997655
No 87
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.28 E-value=0.13 Score=49.96 Aligned_cols=51 Identities=29% Similarity=0.688 Sum_probs=36.2
Q ss_pred CCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhc--CCCCcccccccCC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPICKASVMA 387 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--knsCPICR~~l~~ 387 (392)
+..|-||.++.........+.||. ...|..|+.+|+.. +..|.+|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 578999999876543211223664 56899999999985 4569999886543
No 88
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=90.67 E-value=0.073 Score=61.77 Aligned_cols=45 Identities=36% Similarity=0.793 Sum_probs=37.2
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccc
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS 384 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~ 384 (392)
-..|.||++.+....- +. .|+|.+|..|+..|+..+..||+|+..
T Consensus 1153 ~~~c~ic~dil~~~~~--I~-~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGG--IA-GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred ccchHHHHHHHHhcCC--ee-eechhHhhhHHHHHHHHhccCcchhhh
Confidence 3479999999885322 23 599999999999999999999999853
No 89
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=90.57 E-value=0.15 Score=39.15 Aligned_cols=46 Identities=30% Similarity=0.510 Sum_probs=32.6
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~ 389 (392)
..|..|...-. ++.++||+|+.+..|..-+ +-+-||+|-+.+...+
T Consensus 8 ~~~~~~~~~~~----~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFVGT----KGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccccc----ccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 45666655422 3455699999999997654 4577999998886544
No 90
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.30 E-value=0.16 Score=51.12 Aligned_cols=44 Identities=23% Similarity=0.628 Sum_probs=35.3
Q ss_pred CCCCccceecccccCCCceEEcccC--CccccHHHHHHHHhcCCCCcccccccC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSC--GHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpC--gH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.+..+|+||.+.+..+ +. .| ||.-|..|-. +..+.||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~P----i~-QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IF-QCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCccc----ce-ecCCCcEehhhhhh---hhcccCCccccccc
Confidence 3457899999999876 34 57 6999999975 34788999999886
No 91
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.26 E-value=0.18 Score=47.50 Aligned_cols=51 Identities=27% Similarity=0.699 Sum_probs=34.9
Q ss_pred CCccceecccccCC---CceEEcccCCccccHHHHHHHHhc----C-------CCCcccccccCC
Q 016267 337 EGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSM----K-------NVCPICKASVMA 387 (392)
Q Consensus 337 d~~C~ICLEdf~~g---e~v~~LlpCgH~FH~~CI~kWLk~----k-------nsCPICR~~l~~ 387 (392)
...|-||...--++ +.+.--..|+--||.-|+..||+. . ..||.|..++.-
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 45688887543332 223333379999999999999963 1 139999988743
No 92
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.90 E-value=0.09 Score=57.38 Aligned_cols=44 Identities=25% Similarity=0.432 Sum_probs=33.2
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~ 383 (392)
...|.||+..|....-..+-+.|||..|..|+.+.. +.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence 457999998887655444444899999999998754 56788 654
No 93
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.57 E-value=0.099 Score=57.50 Aligned_cols=53 Identities=32% Similarity=0.644 Sum_probs=41.6
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC---CCcccccccCCCCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN---VCPICKASVMADSEK 391 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn---sCPICR~~l~~~~~k 391 (392)
.-..+|+||+..+.++ .++.|-|.|+..|+..-|..++ .||+|+..+...+.+
T Consensus 19 ~k~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~ 74 (684)
T KOG4362|consen 19 QKILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR 74 (684)
T ss_pred hhhccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence 3467999999999976 4558999999999988776544 599999877554443
No 94
>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=87.94 E-value=0.29 Score=48.01 Aligned_cols=48 Identities=25% Similarity=0.557 Sum_probs=35.4
Q ss_pred CCCccceecccc-cCCC-ceEEcccCCccccHHHHHHHHhc-CCCCc--cccc
Q 016267 336 EEGNCVICLEEY-KNMD-DVGTLKSCGHDYHVTCIKKWLSM-KNVCP--ICKA 383 (392)
Q Consensus 336 ed~~C~ICLEdf-~~ge-~v~~LlpCgH~FH~~CI~kWLk~-knsCP--ICR~ 383 (392)
.+..|+||..+. -.++ ++.+-+.|-|..|.+|+++-+.. ...|| -|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 356899999874 4455 33444349999999999999987 46799 6644
No 95
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.39 E-value=0.29 Score=48.33 Aligned_cols=49 Identities=24% Similarity=0.651 Sum_probs=33.7
Q ss_pred CCCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhcCC--------CCcccccc
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSMKN--------VCPICKAS 384 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~kn--------sCPICR~~ 384 (392)
.+..|=||...=++.-.---.-||. |..|..||..|+..|. .||-|+++
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 3456889998755532221233664 8899999999996533 39999986
No 96
>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=86.32 E-value=0.66 Score=42.83 Aligned_cols=35 Identities=31% Similarity=0.674 Sum_probs=22.3
Q ss_pred CCCccceecccccCCCceEEcc------c-----CC-ccccHHHHHHHHh
Q 016267 336 EEGNCVICLEEYKNMDDVGTLK------S-----CG-HDYHVTCIKKWLS 373 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~Ll------p-----Cg-H~FH~~CI~kWLk 373 (392)
++..|+||||--.+. | .|+ - |. -.-|..||++.-+
T Consensus 1 ed~~CpICme~PHNA--V-LLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNA--V-LLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCce--E-EEEeccccCCccccccCCccchhHHHHHHHH
Confidence 367899999987653 1 111 0 32 2347889998874
No 97
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.28 E-value=0.34 Score=46.21 Aligned_cols=40 Identities=30% Similarity=0.630 Sum_probs=27.9
Q ss_pred ccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccC
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.|-+|-+. .-.| .++||.|. +|..|-.. ...||+|+....
T Consensus 160 ~Cr~C~~~---~~~V-lllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGER---EATV-LLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred cceecCcC---CceE-EeecccceEeccccccc----CccCCCCcChhh
Confidence 38888765 2234 45599987 88889654 345999987654
No 98
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=85.64 E-value=0.82 Score=35.10 Aligned_cols=44 Identities=30% Similarity=0.692 Sum_probs=35.5
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcc--cccc
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPI--CKAS 384 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPI--CR~~ 384 (392)
...|.+|-+.|..++.+.+.+.|+=.||..|..+ ...|-+ |...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 4679999999998888889989999999999755 455655 5443
No 99
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=85.25 E-value=0.51 Score=52.63 Aligned_cols=24 Identities=38% Similarity=1.056 Sum_probs=22.1
Q ss_pred ccCCccccHHHHHHHHhcCCCCcc
Q 016267 357 KSCGHDYHVTCIKKWLSMKNVCPI 380 (392)
Q Consensus 357 lpCgH~FH~~CI~kWLk~knsCPI 380 (392)
..|+|+.|.+|...|+.....||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcCCcCCC
Confidence 369999999999999999999985
No 100
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.35 E-value=0.41 Score=49.54 Aligned_cols=39 Identities=26% Similarity=0.660 Sum_probs=29.4
Q ss_pred CCCccceecccccCCC-ceEEcccCCccccHHHHHHHHhcC
Q 016267 336 EEGNCVICLEEYKNMD-DVGTLKSCGHDYHVTCIKKWLSMK 375 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge-~v~~LlpCgH~FH~~CI~kWLk~k 375 (392)
....|.||..+....+ ... ...|+|.||.+|+++.+..+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhhh
Confidence 4578999995555443 444 44799999999999998754
No 101
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.12 E-value=0.55 Score=47.28 Aligned_cols=28 Identities=18% Similarity=0.580 Sum_probs=22.8
Q ss_pred CCccccHHHHHHHHh-------------cCCCCcccccccC
Q 016267 359 CGHDYHVTCIKKWLS-------------MKNVCPICKASVM 386 (392)
Q Consensus 359 CgH~FH~~CI~kWLk-------------~knsCPICR~~l~ 386 (392)
|....|.+|+.+|+. .+.+||+||+.+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 778899999999983 3456999999764
No 102
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.13 E-value=0.51 Score=53.25 Aligned_cols=37 Identities=19% Similarity=0.449 Sum_probs=28.6
Q ss_pred cCCCCccceecccccCCCceEEcccCCccccHHHHHHHH
Q 016267 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL 372 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWL 372 (392)
...++.|.||...+... .-.+.||||.||.+||.+-.
T Consensus 814 ~ep~d~C~~C~~~ll~~--pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK--PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC--cceeeeccchHHHHHHHHHH
Confidence 35678899999888764 33344899999999997765
No 103
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=83.09 E-value=0.7 Score=51.77 Aligned_cols=51 Identities=14% Similarity=0.199 Sum_probs=34.1
Q ss_pred CCccceecccccCCCc-eEEc--ccCCccccHHHHHHHHhc------CCCCcccccccCC
Q 016267 337 EGNCVICLEEYKNMDD-VGTL--KSCGHDYHVTCIKKWLSM------KNVCPICKASVMA 387 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~-v~~L--lpCgH~FH~~CI~kWLk~------knsCPICR~~l~~ 387 (392)
...|.||.-++..++. ...+ -.|+|.||..||..|+.+ +-.|++|..-|..
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 4556777666665332 2222 249999999999999954 2348999876643
No 104
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=81.63 E-value=1.1 Score=40.41 Aligned_cols=54 Identities=26% Similarity=0.498 Sum_probs=36.4
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHh---cCCCCcccccccCCCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS---MKNVCPICKASVMADS 389 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk---~knsCPICR~~l~~~~ 389 (392)
...+|-||.|.-.+..=+.----||-..|.-|-....+ ....||+||..+...+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 45689999998665321111114898889887655444 3567999999987654
No 105
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=81.12 E-value=1.1 Score=50.47 Aligned_cols=50 Identities=24% Similarity=0.589 Sum_probs=37.2
Q ss_pred CCCCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhc--CCCCcccccccC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPICKASVM 386 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--knsCPICR~~l~ 386 (392)
.++..|-||..+=..++.+.- ||+ -..|.+|+.+|+.- +..|-+|+.+..
T Consensus 10 ~d~~~CRICr~e~~~d~pLfh--PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFH--PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcc--cccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 455789999988665555532 565 35899999999975 456999998764
No 106
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.93 E-value=0.93 Score=44.41 Aligned_cols=35 Identities=29% Similarity=0.740 Sum_probs=27.0
Q ss_pred CceEEcccCCccccHHHHHHHHhcC-CCCccccccc
Q 016267 351 DDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASV 385 (392)
Q Consensus 351 e~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l 385 (392)
+.+.+.+.|||.+|..|+.+.+... ..||.||...
T Consensus 19 ~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 19 DHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred ccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3333444799999999998888764 4599999983
No 107
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=80.29 E-value=0.69 Score=50.39 Aligned_cols=41 Identities=20% Similarity=0.666 Sum_probs=27.2
Q ss_pred Cccceeccc-----ccCCCceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016267 338 GNCVICLEE-----YKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382 (392)
Q Consensus 338 ~~C~ICLEd-----f~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR 382 (392)
..|.||... |. .+++.++..|+++||+.|++. .+..||.|-
T Consensus 512 fiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred eeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 357777432 22 345566668999999999754 234499993
No 108
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.48 E-value=1.3 Score=47.77 Aligned_cols=47 Identities=32% Similarity=0.914 Sum_probs=37.4
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~ 389 (392)
.....|.||+++. ..+.. +|. |..|+.+|+..+..||.|++.+..++
T Consensus 477 ~~~~~~~~~~~~~----~~~~~-~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARIT-PCS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred cccCcchHHHHHH----Hhccc-ccc---chhHHHhhhhhccccCCCchhhhccc
Confidence 3457899999998 22233 688 89999999999999999998876554
No 109
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=72.51 E-value=3.1 Score=46.59 Aligned_cols=41 Identities=22% Similarity=0.468 Sum_probs=31.3
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPI 380 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPI 380 (392)
..|++|-..+.. .......|+|.-|.+|+++|+.....||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 468888766553 22234479999999999999998887776
No 110
>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=70.68 E-value=1.2 Score=33.12 Aligned_cols=43 Identities=21% Similarity=0.485 Sum_probs=20.3
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhc---CC--CCcccccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM---KN--VCPICKAS 384 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~---kn--sCPICR~~ 384 (392)
..|+|....+..+ ++.. .|.|.-|.+ ++.||.. +. .||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4688888887764 4444 799975433 5566643 22 39999863
No 111
>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 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=68.36 E-value=6.9 Score=30.39 Aligned_cols=47 Identities=21% Similarity=0.574 Sum_probs=33.8
Q ss_pred CccceecccccCCCceEEcccCC--ccccHHHHHHHHhcCCCCcccccccCCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCG--HDYHVTCIKKWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCg--H~FH~~CI~kWLk~knsCPICR~~l~~~ 388 (392)
..|-.|-.++.....-..+ |. ..||.+|.+.-| ++.||.|-.+++..
T Consensus 6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 3577787777665422222 55 459999999977 78999999988754
No 113
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=67.68 E-value=4.1 Score=41.61 Aligned_cols=50 Identities=24% Similarity=0.436 Sum_probs=38.6
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
..|+||-+.....+....-.+|++..|..|+..-......||.||++...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 57999999886555333333789989999998888888999999976543
No 114
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=66.61 E-value=2.6 Score=40.72 Aligned_cols=42 Identities=31% Similarity=0.697 Sum_probs=34.4
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR 382 (392)
..|.+|.+-.-.+ +++..|+=.||..|+.+.++....||.|-
T Consensus 182 k~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 4699998876654 23447889999999999999999999993
No 115
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=66.20 E-value=6 Score=40.52 Aligned_cols=54 Identities=22% Similarity=0.516 Sum_probs=35.7
Q ss_pred cCCCCccceecccccC---------------CCceEEcccCCccccHHHHHHHHhc---------CCCCcccccccCC
Q 016267 334 MQEEGNCVICLEEYKN---------------MDDVGTLKSCGHDYHVTCIKKWLSM---------KNVCPICKASVMA 387 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~---------------ge~v~~LlpCgH~FH~~CI~kWLk~---------knsCPICR~~l~~ 387 (392)
...+.+|++|+..=.. +--.-...||||+--.+-.+=|-+. +..||.|-+.+..
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 3456789999976211 1111122389999888889999864 3459999876643
No 116
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.00 E-value=4.9 Score=41.93 Aligned_cols=50 Identities=20% Similarity=0.369 Sum_probs=37.1
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCC---CCcccccccCCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN---VCPICKASVMAD 388 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn---sCPICR~~l~~~ 388 (392)
..|||=-+.-.+.+-...| .|||+..++-|.+..+... .||.|=.+....
T Consensus 335 F~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~ 387 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPVEQLAS 387 (394)
T ss_pred eecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCcccCHH
Confidence 4699977776665555566 8999999999999887643 599996554433
No 117
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.94 E-value=2.3 Score=47.79 Aligned_cols=42 Identities=31% Similarity=0.577 Sum_probs=20.2
Q ss_pred CccceecccccCC----CceEEcccCCccccHHHHHHHHhcCCCCccc
Q 016267 338 GNCVICLEEYKNM----DDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 381 (392)
Q Consensus 338 ~~C~ICLEdf~~g----e~v~~LlpCgH~FH~~CI~kWLk~knsCPIC 381 (392)
..|.-|.+..... +.++++ .|+|.||..|+.--..+++ |-+|
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhcc-cChh
Confidence 3555565554321 234444 4666666666544443332 4444
No 118
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.04 E-value=6.2 Score=40.98 Aligned_cols=43 Identities=23% Similarity=0.539 Sum_probs=30.8
Q ss_pred CccceecccccCCC--ceEEcccCCccccHHHHHHHHhcCCCCccc
Q 016267 338 GNCVICLEEYKNMD--DVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 381 (392)
Q Consensus 338 ~~C~ICLEdf~~ge--~v~~LlpCgH~FH~~CI~kWLk~knsCPIC 381 (392)
..|++|.-.++..+ .-... .|+|.||..|...|...+..|.-|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~C-rC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTC-RCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEe-eccccchhhcCcchhhCCccccCc
Confidence 56888877665433 22344 499999999999998877767544
No 119
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=64.60 E-value=4.5 Score=38.22 Aligned_cols=41 Identities=27% Similarity=0.676 Sum_probs=30.0
Q ss_pred CCccceeccc-----ccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016267 337 EGNCVICLEE-----YKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383 (392)
Q Consensus 337 d~~C~ICLEd-----f~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~ 383 (392)
...|-||-++ |.. +.+.+...|+-+||..|.. +..||.|..
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 4678899753 222 3566677899999999976 367999953
No 120
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.40 E-value=5.2 Score=42.05 Aligned_cols=37 Identities=30% Similarity=0.770 Sum_probs=29.9
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM 374 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~ 374 (392)
.....|-||.+.+.. .+..+ .|+|.||..|+...|..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~-~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGL-GCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhc-CCCcHHHHHHHHHHhhh
Confidence 345789999999876 34344 89999999999999964
No 121
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=56.12 E-value=11 Score=41.69 Aligned_cols=89 Identities=18% Similarity=0.294 Sum_probs=44.6
Q ss_pred CCCCHHHHHHhhhhcCCCCC--CCCHHHHHhhcccceeecc--cccCCCCccceecccccCCCceEEcccCCccccH--H
Q 016267 293 DNMTYEELLALGERIGSVST--GLSEDLISRCLTESIYCSA--DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHV--T 366 (392)
Q Consensus 293 DnmsyEeLlaL~Erig~v~t--GLSee~I~kll~~~~~~~s--~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~--~ 366 (392)
...+.+.|++....+...+. ..+...+++.+..-...+. ....-...|+|+... ..+||.+..|+ .
T Consensus 258 ~~~t~~~llq~~~~~~~~~~~~~~s~~~~~~~l~~~~d~~i~tt~~~vSL~CPl~~~R--------m~~P~r~~~CkHlQ 329 (636)
T KOG2169|consen 258 EGLTSKDLLQRLKQNGKINRNLSQSDALIKKKLTAGPDSEIATTSLRVSLNCPLSKMR--------MSLPARGHTCKHLQ 329 (636)
T ss_pred cccCHHHHHHHHhccCCccCchhHhHHHhhcccccCCcccceeccceeEecCCcccce--------eecCCcccccccce
Confidence 45678888887776665544 3334443332211100000 001122457777544 33366665555 6
Q ss_pred HHHHH-Hhc----CC--CCcccccccCCCC
Q 016267 367 CIKKW-LSM----KN--VCPICKASVMADS 389 (392)
Q Consensus 367 CI~kW-Lk~----kn--sCPICR~~l~~~~ 389 (392)
|.+.- +.. +. .||+|.+.+.-+.
T Consensus 330 cFD~~~~lq~n~~~pTW~CPVC~~~~~~e~ 359 (636)
T KOG2169|consen 330 CFDALSYLQMNEQKPTWRCPVCQKAAPFEG 359 (636)
T ss_pred ecchhhhHHhccCCCeeeCccCCccccccc
Confidence 76543 321 11 3999988776543
No 122
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.08 E-value=11 Score=37.51 Aligned_cols=35 Identities=11% Similarity=0.244 Sum_probs=28.6
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM 374 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~ 374 (392)
+-..|+.||..+.++ ++.+=||+|+.+||.+++..
T Consensus 42 ~FdcCsLtLqPc~dP----vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP----VITPDGYLFDREAILEYILA 76 (303)
T ss_pred CcceeeeecccccCC----ccCCCCeeeeHHHHHHHHHH
Confidence 456799999999986 44478999999999998843
No 123
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.99 E-value=3.3 Score=40.56 Aligned_cols=48 Identities=31% Similarity=0.479 Sum_probs=36.7
Q ss_pred CCccceecccccCC--CceEEccc--------CCccccHHHHHHHHhcC-CCCcccccc
Q 016267 337 EGNCVICLEEYKNM--DDVGTLKS--------CGHDYHVTCIKKWLSMK-NVCPICKAS 384 (392)
Q Consensus 337 d~~C~ICLEdf~~g--e~v~~Llp--------CgH~FH~~CI~kWLk~k-nsCPICR~~ 384 (392)
...|.||...|... ..+..++. |+|..|..|++.-+... ..||.|+..
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 35699999999842 23333336 99999999999998765 479999864
No 124
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=48.10 E-value=9.7 Score=38.03 Aligned_cols=48 Identities=25% Similarity=0.530 Sum_probs=34.1
Q ss_pred CccceecccccCCCceEEc---ccCCccccHHHHHHHHhc---------CCCCccccccc
Q 016267 338 GNCVICLEEYKNMDDVGTL---KSCGHDYHVTCIKKWLSM---------KNVCPICKASV 385 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~L---lpCgH~FH~~CI~kWLk~---------knsCPICR~~l 385 (392)
..|-||.+++.+.+..+.. +.|.-.+|..|+..-+.. ...||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5899999999655544322 247788999999885432 34599998743
No 125
>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=46.18 E-value=11 Score=27.08 Aligned_cols=44 Identities=25% Similarity=0.561 Sum_probs=29.2
Q ss_pred ccceecccccCCCceEEcccCCccccHHHHHHHHhc------CCCCccccc
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM------KNVCPICKA 383 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~------knsCPICR~ 383 (392)
.|.||...-.. +.+...-.|.-.||..|+..=+.. .-.||.|+.
T Consensus 1 ~C~vC~~~~~~-~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDD-GDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTT-SSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCC-CCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 38899984343 344455579999999998654431 234888863
No 126
>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=43.44 E-value=15 Score=26.79 Aligned_cols=39 Identities=21% Similarity=0.457 Sum_probs=23.0
Q ss_pred cceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCC
Q 016267 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~ 388 (392)
|..|...+...+.+.. .-+..||..|. .|-.|++.|...
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEcccc--------ccCCCCCccCCC
Confidence 5566666665443322 25667777774 577777766543
No 127
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.68 E-value=9.1 Score=38.87 Aligned_cols=49 Identities=27% Similarity=0.642 Sum_probs=39.5
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.....|-||.-.+..+... ..|.|.|+..|...|....+.||.||..+.
T Consensus 103 ~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 3456799999888765433 259999999999999999999999987553
No 128
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.62 E-value=24 Score=35.20 Aligned_cols=50 Identities=22% Similarity=0.390 Sum_probs=36.8
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~ 389 (392)
..|+|---++...-....+-+|||+|-..-+++- ....|++|.+....++
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 4688877777665556666699999998877764 2567999988765543
No 129
>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=40.44 E-value=23 Score=23.22 Aligned_cols=38 Identities=21% Similarity=0.450 Sum_probs=25.3
Q ss_pred ccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccC
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~ 386 (392)
.|..|-+.+...+..... =+..||..|. .|..|+..|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcCc
Confidence 477888887765333222 3677888884 6888877663
No 130
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.90 E-value=14 Score=37.44 Aligned_cols=36 Identities=19% Similarity=0.556 Sum_probs=27.9
Q ss_pred CCccceecccccCCCceEEcccC----CccccHHHHHHHHhcCC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSC----GHDYHVTCIKKWLSMKN 376 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpC----gH~FH~~CI~kWLk~kn 376 (392)
-..|.+|.|.+++..-| .| .|.||.-|-.+-+|.+.
T Consensus 268 pLcCTLC~ERLEDTHFV----QCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFV----QCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred ceeehhhhhhhccCcee----ecCCCcccceecccCHHHHHhhc
Confidence 47899999999875322 35 59999999999887643
No 131
>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 PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=36.85 E-value=11 Score=39.46 Aligned_cols=49 Identities=20% Similarity=0.477 Sum_probs=0.0
Q ss_pred CCccceecccccC-------------C---CceEEcccCCccccHHHHHHHHhc---------CCCCcccccccC
Q 016267 337 EGNCVICLEEYKN-------------M---DDVGTLKSCGHDYHVTCIKKWLSM---------KNVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~~-------------g---e~v~~LlpCgH~FH~~CI~kWLk~---------knsCPICR~~l~ 386 (392)
...|+||+..-.- + -+-... ||||+-=.++.+-|-+. +..||.|-..|.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~-PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFN-PCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeec-ccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 6689999976211 0 011223 89999988999999854 345999988774
No 133
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=35.67 E-value=40 Score=29.60 Aligned_cols=46 Identities=17% Similarity=0.311 Sum_probs=33.7
Q ss_pred CCccceecccccCC----------CceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016267 337 EGNCVICLEEYKNM----------DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382 (392)
Q Consensus 337 d~~C~ICLEdf~~g----------e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR 382 (392)
...|--|+..|... ........|++.||.+|=.-+-..-..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 34699999988653 12344668999999999766655566799996
No 134
>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=35.25 E-value=25 Score=26.73 Aligned_cols=42 Identities=17% Similarity=0.543 Sum_probs=20.6
Q ss_pred cceecccccCC------CceEEcccCCccccHHHHHHHHh-cCCCCcccc
Q 016267 340 CVICLEEYKNM------DDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICK 382 (392)
Q Consensus 340 C~ICLEdf~~g------e~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR 382 (392)
|--|+..|..+ ....+.+.|++.|+.+|= -.+. .--.||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD-~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCD-VFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHH-HTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcC-hhhhccccCCcCCC
Confidence 44566666654 245667789999999993 2222 123599884
No 135
>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=34.54 E-value=20 Score=27.48 Aligned_cols=39 Identities=21% Similarity=0.539 Sum_probs=20.7
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHHh
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS 373 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk 373 (392)
.+...|.+|...|..-..--....||++||..|....+.
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 345789999999976443334446999999999876553
No 136
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=34.09 E-value=11 Score=38.18 Aligned_cols=43 Identities=26% Similarity=0.551 Sum_probs=31.5
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCCC
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~ 389 (392)
...|.-|.+.+....-|++ .=.|+||..|. .|-||+..+-+-+
T Consensus 92 GTKCsaC~~GIpPtqVVRk--Aqd~VYHl~CF--------~C~iC~R~L~TGd 134 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRK--AQDFVYHLHCF--------ACFICKRQLATGD 134 (383)
T ss_pred CCcchhhcCCCChHHHHHH--hhcceeehhhh--------hhHhhhcccccCC
Confidence 4579999988876544443 36799999996 5889988775543
No 137
>PLN02189 cellulose synthase
Probab=34.03 E-value=32 Score=40.28 Aligned_cols=50 Identities=24% Similarity=0.367 Sum_probs=34.7
Q ss_pred CCccceecccccC---CCceEEcccCCccccHHHHHHHHhc-CCCCcccccccC
Q 016267 337 EGNCVICLEEYKN---MDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~~---ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~ 386 (392)
...|.||-+++.. ++..+.+-.|+--.|..|.+-=.+. +..||-||+.-.
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4579999999863 4444445458888999998433333 567999998643
No 138
>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=33.91 E-value=24 Score=28.39 Aligned_cols=11 Identities=27% Similarity=1.026 Sum_probs=8.4
Q ss_pred ccHHHHHHHHh
Q 016267 363 YHVTCIKKWLS 373 (392)
Q Consensus 363 FH~~CI~kWLk 373 (392)
||..||.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999995
No 139
>PRK11827 hypothetical protein; Provisional
Probab=33.63 E-value=16 Score=28.67 Aligned_cols=19 Identities=21% Similarity=0.527 Sum_probs=12.2
Q ss_pred HHHhcCCCCcccccccCCC
Q 016267 370 KWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 370 kWLk~knsCPICR~~l~~~ 388 (392)
+||..--.||+|+.++..+
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 4555555688888777544
No 140
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=33.58 E-value=22 Score=40.71 Aligned_cols=53 Identities=23% Similarity=0.525 Sum_probs=31.0
Q ss_pred cCCCCccceecccccC------------CCceEEcccCCccccHHH-HHHH---------HhcCCCCc---ccccccC
Q 016267 334 MQEEGNCVICLEEYKN------------MDDVGTLKSCGHDYHVTC-IKKW---------LSMKNVCP---ICKASVM 386 (392)
Q Consensus 334 ~~ed~~C~ICLEdf~~------------ge~v~~LlpCgH~FH~~C-I~kW---------Lk~knsCP---ICR~~l~ 386 (392)
..+-..|+||+..+.- +|...+++-||-.|-.+= |+.- ++...+|| ||.+...
T Consensus 602 ~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kft 679 (958)
T KOG1074|consen 602 RTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFT 679 (958)
T ss_pred cCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccc
Confidence 3455789999988743 554555555766654331 2222 23345699 9977654
No 141
>PF07853 DUF1648: Protein of unknown function (DUF1648); InterPro: IPR012867 This entry contains hypothetical proteins expressed by either bacterial or archaeal species. Some of these are annotated as being transmembrane proteins, and many contain a high proportion of hydrophobic residues.
Probab=33.00 E-value=20 Score=26.36 Aligned_cols=17 Identities=24% Similarity=0.567 Sum_probs=15.5
Q ss_pred ccCCCCCCCCCCCCccC
Q 016267 57 HVAPHWNPAPSSSGFTS 73 (392)
Q Consensus 57 ~~~~~~~~~~~~~~~~~ 73 (392)
.+|.|||.+-..|+|++
T Consensus 21 ~ip~H~~~~G~~d~~~~ 37 (51)
T PF07853_consen 21 QIPTHFNANGEPDGWGS 37 (51)
T ss_pred hhceeeCCCCCcccccc
Confidence 37999999999999998
No 142
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=32.34 E-value=23 Score=24.70 Aligned_cols=27 Identities=26% Similarity=0.561 Sum_probs=16.7
Q ss_pred CccceecccccCCCc-------eEEcccCCcccc
Q 016267 338 GNCVICLEEYKNMDD-------VGTLKSCGHDYH 364 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~-------v~~LlpCgH~FH 364 (392)
..|+-|...|..+++ ..+...|+|+|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 368888888876553 233446677664
No 143
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=30.36 E-value=42 Score=34.68 Aligned_cols=47 Identities=19% Similarity=0.371 Sum_probs=31.3
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~ 383 (392)
....|-.|.++....... ++..|++.||.+|=.--=..--.||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y-~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRY-RCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcE-EchhccceeeccchHHHHhhhhcCCCcCC
Confidence 344599998887766444 44479999999994221122345999963
No 144
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.05 E-value=59 Score=26.76 Aligned_cols=48 Identities=19% Similarity=0.484 Sum_probs=29.5
Q ss_pred ccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCCC
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 388 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~ 388 (392)
.|--|-.++..+..-..+-.=.+.||.+|...-| +..||.|-.+++..
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 3555666654432221110124789999998754 68899998877643
No 145
>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=30.04 E-value=20 Score=26.65 Aligned_cols=38 Identities=32% Similarity=0.673 Sum_probs=21.2
Q ss_pred CCccceecccccCCCceEEcccCCccccHHHHHHHHh--cCCCCccccccc
Q 016267 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS--MKNVCPICKASV 385 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk--~knsCPICR~~l 385 (392)
...|+.|-+.+... .| +.| |.+.-.. ....||+|...+
T Consensus 2 ~f~CP~C~~~~~~~----~L--~~H-----~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----SL--VEH-----CEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHH----HH--HHH-----HHhHCcCCCCCccCCCchhhh
Confidence 35799999865532 23 333 2222222 134599998654
No 146
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=29.22 E-value=40 Score=34.77 Aligned_cols=45 Identities=18% Similarity=0.300 Sum_probs=30.4
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcC---CCCccccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK---NVCPICKA 383 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k---nsCPICR~ 383 (392)
..|++--+.-.+. .+..++.|||+.-.+-+...-+.. ..||.|=.
T Consensus 337 FiCPVlKe~~t~E-NpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDE-NPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhccc-CCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 4688755554443 344455899999999888766542 34999944
No 147
>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=29.08 E-value=37 Score=24.83 Aligned_cols=36 Identities=14% Similarity=0.437 Sum_probs=26.9
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHh
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS 373 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk 373 (392)
..|.+|-..|..-..-.....||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 568999888876443334447999999999877664
No 148
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=28.12 E-value=16 Score=39.88 Aligned_cols=52 Identities=19% Similarity=0.361 Sum_probs=44.6
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
....|.+|+......++.+.+-.|.+.++..|+.+|-.....|+.|++.+..
T Consensus 259 ~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~ 310 (553)
T KOG4430|consen 259 NKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRT 310 (553)
T ss_pred cccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccccc
Confidence 4567999999998888777776788999999999999888999999987643
No 149
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=28.09 E-value=20 Score=26.63 Aligned_cols=12 Identities=25% Similarity=0.869 Sum_probs=6.1
Q ss_pred CCCcccccccCC
Q 016267 376 NVCPICKASVMA 387 (392)
Q Consensus 376 nsCPICR~~l~~ 387 (392)
..||+|..++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 379999988754
No 150
>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=27.67 E-value=8.6 Score=37.99 Aligned_cols=46 Identities=17% Similarity=0.291 Sum_probs=21.1
Q ss_pred CCccceecccccCCCceEEcc--cCCccccHHHHHHHHhcCCCCccccc
Q 016267 337 EGNCVICLEEYKNMDDVGTLK--SCGHDYHVTCIKKWLSMKNVCPICKA 383 (392)
Q Consensus 337 d~~C~ICLEdf~~ge~v~~Ll--pCgH~FH~~CI~kWLk~knsCPICR~ 383 (392)
...|+||=..-.... +..-. --.+.+|.-|-..|-.....||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 468999977643321 11100 02466888999999888889999954
No 151
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=27.60 E-value=29 Score=38.08 Aligned_cols=35 Identities=29% Similarity=0.659 Sum_probs=24.2
Q ss_pred CCCCccceecccccC-----------CCceEEcccCCccccHHHHHHH
Q 016267 335 QEEGNCVICLEEYKN-----------MDDVGTLKSCGHDYHVTCIKKW 371 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~-----------ge~v~~LlpCgH~FH~~CI~kW 371 (392)
.....|+||.|.|+. .+.|. + .=|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~-l-e~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVY-L-EFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceee-e-ccCceeeccccchH
Confidence 445679999999975 22232 3 25889999998543
No 152
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=27.51 E-value=35 Score=35.12 Aligned_cols=44 Identities=5% Similarity=-0.114 Sum_probs=32.4
Q ss_pred CCCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccc
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKAS 384 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~ 384 (392)
....+|-.|-+..... .+.+|+|. ||.+|.. +....+||+|-..
T Consensus 341 ~s~~~~~~~~~~~~st----~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLST----IWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hhhcccccccCceeee----EeecCCcccChhhhhh--cccCCcccccccc
Confidence 3456788887665432 44589986 9999987 6778889999754
No 153
>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=26.90 E-value=7.7 Score=31.35 Aligned_cols=39 Identities=26% Similarity=0.566 Sum_probs=17.8
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
..|+.|..++.-.. ++.+|..|-.. +.....||-|.++|
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 46888877754321 55556666543 23345688887765
No 154
>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=26.54 E-value=30 Score=22.63 Aligned_cols=23 Identities=26% Similarity=0.525 Sum_probs=12.1
Q ss_pred ccceecccccCCCceEEcccCCccc
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDY 363 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~F 363 (392)
.|+-|-..+... ....+-|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 466666665443 22332377766
No 155
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=26.29 E-value=23 Score=40.18 Aligned_cols=46 Identities=24% Similarity=0.444 Sum_probs=29.7
Q ss_pred CCCccceecccccC---------CCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016267 336 EEGNCVICLEEYKN---------MDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385 (392)
Q Consensus 336 ed~~C~ICLEdf~~---------ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l 385 (392)
.+..|+-|.-.|.. ....-.++.|+|.-|..=|.+ .+.||+|...+
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 34567777776643 112334456999888876644 57899998754
No 156
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=25.77 E-value=26 Score=40.10 Aligned_cols=36 Identities=22% Similarity=0.418 Sum_probs=26.6
Q ss_pred CCCCccceecccccCCCceEEcccCCccccHHHHHHHH
Q 016267 335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL 372 (392)
Q Consensus 335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWL 372 (392)
.....|-.|....-. ..-++..|++.||..|++.|.
T Consensus 227 g~~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 227 GIREMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred Ccchhhhhhcccccc--eeEEccccCCeeeecchhhcc
Confidence 345678899766543 233455899999999999995
No 157
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=24.89 E-value=51 Score=21.64 Aligned_cols=29 Identities=21% Similarity=0.422 Sum_probs=11.6
Q ss_pred ccceecccccCCCceEEcccCCccccHHHH
Q 016267 339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCI 368 (392)
Q Consensus 339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI 368 (392)
.|.+|.+.... ........|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47888887765 456666689999999986
No 158
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=24.84 E-value=45 Score=27.84 Aligned_cols=39 Identities=21% Similarity=0.426 Sum_probs=30.4
Q ss_pred CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccCC
Q 016267 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA 387 (392)
Q Consensus 336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~ 387 (392)
.-..|.-|...+.--|.+. |-.||..+..|..|++.+..
T Consensus 32 ~rS~C~~C~~~L~~~~lIP-------------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIP-------------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCcccccch-------------HHHHHHhCCCCcccCCCCCh
Confidence 3467999988887665543 55899999999999998753
No 159
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.36 E-value=33 Score=35.38 Aligned_cols=25 Identities=36% Similarity=1.015 Sum_probs=16.6
Q ss_pred EcccCCcc--ccHHHHHHHHhcC------CCCcccccc
Q 016267 355 TLKSCGHD--YHVTCIKKWLSMK------NVCPICKAS 384 (392)
Q Consensus 355 ~LlpCgH~--FH~~CI~kWLk~k------nsCPICR~~ 384 (392)
+.+.|||+ || .|=.+. ..||+||..
T Consensus 318 vYl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 318 VYLNCGHVHGYH-----NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred EEEecccccccc-----ccccccccCcccCcCCeeeee
Confidence 33479987 44 576442 349999874
No 160
>PLN02436 cellulose synthase A
Probab=24.23 E-value=60 Score=38.26 Aligned_cols=50 Identities=20% Similarity=0.426 Sum_probs=34.6
Q ss_pred CCccceeccccc---CCCceEEcccCCccccHHHHHHHHhc-CCCCcccccccC
Q 016267 337 EGNCVICLEEYK---NMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVM 386 (392)
Q Consensus 337 d~~C~ICLEdf~---~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~ 386 (392)
...|-||-+++. ++|-.+.+--|+--.|..|.+-=.+. +..||-||+.-.
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 357999999974 35444445468877999998443333 567999998543
No 161
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.29 E-value=40 Score=37.76 Aligned_cols=42 Identities=24% Similarity=0.507 Sum_probs=29.0
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR 382 (392)
..|.+|+..=...-.+..++.|+-.||..| |+...+.||+|-
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccC
Confidence 468889866442223444457999998888 555678899993
No 162
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=22.85 E-value=28 Score=36.67 Aligned_cols=28 Identities=25% Similarity=0.663 Sum_probs=0.0
Q ss_pred EcccCCccccHHHHHHHHhc------CCCCccccccc
Q 016267 355 TLKSCGHDYHVTCIKKWLSM------KNVCPICKASV 385 (392)
Q Consensus 355 ~LlpCgH~FH~~CI~kWLk~------knsCPICR~~l 385 (392)
+-+.|||++.. ..|-.. ...||+||+.-
T Consensus 305 VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 305 VYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp -------------------------------------
T ss_pred eeccccceeee---cccccccccccccccCCCccccC
Confidence 34489998664 367643 34599999753
No 163
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=22.74 E-value=29 Score=36.13 Aligned_cols=14 Identities=14% Similarity=0.389 Sum_probs=10.3
Q ss_pred CCCCccceeccccc
Q 016267 335 QEEGNCVICLEEYK 348 (392)
Q Consensus 335 ~ed~~C~ICLEdf~ 348 (392)
..++.|++|-+...
T Consensus 13 dl~ElCPVCGDkVS 26 (475)
T KOG4218|consen 13 DLGELCPVCGDKVS 26 (475)
T ss_pred ccccccccccCccc
Confidence 34578999987755
No 164
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=22.61 E-value=49 Score=23.01 Aligned_cols=25 Identities=28% Similarity=0.652 Sum_probs=14.9
Q ss_pred ccceecccccCCCc-------eEEcccCCccc
Q 016267 339 NCVICLEEYKNMDD-------VGTLKSCGHDY 363 (392)
Q Consensus 339 ~C~ICLEdf~~ge~-------v~~LlpCgH~F 363 (392)
.|+=|...|..+++ ......|+|.|
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 57778877776543 12333566665
No 165
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=22.37 E-value=83 Score=26.11 Aligned_cols=50 Identities=20% Similarity=0.369 Sum_probs=21.0
Q ss_pred CCCccceecccccC---CCceEEcccCCccccHHHHHHHHhc-CCCCccccccc
Q 016267 336 EEGNCVICLEEYKN---MDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASV 385 (392)
Q Consensus 336 ed~~C~ICLEdf~~---ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l 385 (392)
....|-||-+++.. ++-....--|+--.|..|..==.+. +..||-|+...
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 34579999999854 3333333357777889998665554 56799999754
No 166
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=21.79 E-value=34 Score=41.46 Aligned_cols=52 Identities=19% Similarity=0.475 Sum_probs=38.7
Q ss_pred ccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC----CCccccccc
Q 016267 333 QMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN----VCPICKASV 385 (392)
Q Consensus 333 ~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn----sCPICR~~l 385 (392)
.......|-||.......+.+... -|.-.||..|+..-+.... .||-||..-
T Consensus 1104 ~s~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cccchhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 344567899999998875444434 6888899999999886532 399998754
No 167
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=21.19 E-value=17 Score=36.59 Aligned_cols=37 Identities=24% Similarity=0.459 Sum_probs=28.8
Q ss_pred CccceecccccCCCceEEcccCCccccHHHHHHHHhcC
Q 016267 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK 375 (392)
Q Consensus 338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k 375 (392)
..|.||.+++..+...... .|--+||..|+..|++..
T Consensus 215 rvC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchh-hccccccccccccccccc
Confidence 3799999999864444444 566699999999999764
No 168
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=20.95 E-value=33 Score=36.80 Aligned_cols=47 Identities=17% Similarity=0.426 Sum_probs=30.6
Q ss_pred CCccceecccc-cCCCceEEcccCCccccHHHHHHHHhc--------CCCCccccc
Q 016267 337 EGNCVICLEEY-KNMDDVGTLKSCGHDYHVTCIKKWLSM--------KNVCPICKA 383 (392)
Q Consensus 337 d~~C~ICLEdf-~~ge~v~~LlpCgH~FH~~CI~kWLk~--------knsCPICR~ 383 (392)
+..|++|+.-- ...+.+..+-.|.-.||..|-+...+. .-.|=+|..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 45599999553 334455555578888999997654432 112888854
No 169
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=20.94 E-value=44 Score=32.25 Aligned_cols=21 Identities=43% Similarity=0.854 Sum_probs=15.2
Q ss_pred HHHHHHHHh-cCCCCccccccc
Q 016267 365 VTCIKKWLS-MKNVCPICKASV 385 (392)
Q Consensus 365 ~~CI~kWLk-~knsCPICR~~l 385 (392)
+.||.+--. ..+-|||||-+-
T Consensus 97 ktCIrkn~~~~gnpCPICRDey 118 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEY 118 (239)
T ss_pred hHHHhhcCeecCCCCCccccce
Confidence 578877544 467799999764
No 170
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=20.93 E-value=42 Score=26.42 Aligned_cols=15 Identities=47% Similarity=1.128 Sum_probs=10.8
Q ss_pred CCcccccccCCCCCC
Q 016267 377 VCPICKASVMADSEK 391 (392)
Q Consensus 377 sCPICR~~l~~~~~k 391 (392)
.||+||..+.-..++
T Consensus 10 aCP~~kg~L~~~~~~ 24 (60)
T COG2835 10 ACPVCKGPLVYDEEK 24 (60)
T ss_pred eccCcCCcceEeccC
Confidence 599999987655443
No 171
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=20.85 E-value=80 Score=27.85 Aligned_cols=21 Identities=29% Similarity=0.521 Sum_probs=15.5
Q ss_pred HHHhcCCCCcccccccCCCCC
Q 016267 370 KWLSMKNVCPICKASVMADSE 390 (392)
Q Consensus 370 kWLk~knsCPICR~~l~~~~~ 390 (392)
+-|.+...|+.|++++.-+.+
T Consensus 80 KmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 80 KMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred hhhchhhccCcCCCcCccCch
Confidence 455566789999999876643
No 172
>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=20.27 E-value=86 Score=26.87 Aligned_cols=24 Identities=17% Similarity=0.547 Sum_probs=18.5
Q ss_pred CccccHHHHHHHHhc---------CCCCccccc
Q 016267 360 GHDYHVTCIKKWLSM---------KNVCPICKA 383 (392)
Q Consensus 360 gH~FH~~CI~kWLk~---------knsCPICR~ 383 (392)
.=.||..||..++.. +-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988843 123999986
Done!