Query 013469
Match_columns 442
No_of_seqs 393 out of 2183
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 04:10:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013469.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013469hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5243 HRD1 HRD ubiquitin lig 100.0 5.6E-43 1.2E-47 337.0 26.0 324 12-384 6-345 (491)
2 KOG0802 E3 ubiquitin ligase [P 100.0 4.4E-36 9.5E-41 319.4 23.5 320 37-386 14-343 (543)
3 KOG4628 Predicted E3 ubiquitin 99.5 1.2E-13 2.6E-18 136.6 9.0 75 311-388 203-282 (348)
4 PF13639 zf-RING_2: Ring finge 99.3 6.2E-13 1.4E-17 93.7 2.0 41 336-380 1-44 (44)
5 PHA02929 N1R/p28-like protein; 99.2 3E-11 6.4E-16 114.8 5.2 47 334-384 173-227 (238)
6 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.8E-11 3.9E-16 95.9 3.0 43 334-380 18-73 (73)
7 PLN03208 E3 ubiquitin-protein 99.1 5.4E-11 1.2E-15 108.6 5.2 54 334-387 17-82 (193)
8 KOG0317 Predicted E3 ubiquitin 99.1 4.5E-11 9.8E-16 114.1 3.6 51 333-387 237-287 (293)
9 PF15227 zf-C3HC4_4: zinc fing 99.0 9.1E-11 2E-15 81.7 1.9 42 338-379 1-42 (42)
10 PF12861 zf-Apc11: Anaphase-pr 99.0 2.2E-10 4.7E-15 90.8 2.9 51 334-385 20-83 (85)
11 KOG0823 Predicted E3 ubiquitin 99.0 6.6E-10 1.4E-14 103.3 5.5 53 334-387 46-98 (230)
12 PF13920 zf-C3HC4_3: Zinc fing 98.9 3.8E-10 8.2E-15 81.7 2.5 46 335-384 2-48 (50)
13 PF13923 zf-C3HC4_2: Zinc fing 98.9 1.1E-09 2.4E-14 75.0 2.1 38 338-379 1-39 (39)
14 cd00162 RING RING-finger (Real 98.8 2.3E-09 5E-14 74.7 3.3 44 337-383 1-45 (45)
15 COG5540 RING-finger-containing 98.8 1.7E-09 3.6E-14 103.6 2.8 49 334-385 322-373 (374)
16 smart00504 Ubox Modified RING 98.8 4.5E-09 9.8E-14 79.5 4.0 46 336-385 2-47 (63)
17 PHA02926 zinc finger-like prot 98.7 8.9E-09 1.9E-13 95.2 4.0 53 333-385 168-231 (242)
18 PF00097 zf-C3HC4: Zinc finger 98.7 7.6E-09 1.7E-13 71.5 2.5 40 338-379 1-41 (41)
19 KOG0320 Predicted E3 ubiquitin 98.7 8.8E-09 1.9E-13 92.0 2.6 47 336-386 132-180 (187)
20 KOG1734 Predicted RING-contain 98.7 1.5E-06 3.3E-11 82.3 17.5 52 334-387 223-284 (328)
21 smart00184 RING Ring finger. E 98.6 2.1E-08 4.5E-13 67.3 3.2 39 338-379 1-39 (39)
22 PF13445 zf-RING_UBOX: RING-ty 98.6 2.2E-08 4.7E-13 69.9 1.9 39 338-377 1-43 (43)
23 TIGR00599 rad18 DNA repair pro 98.5 5E-08 1.1E-12 99.3 4.0 48 334-385 25-72 (397)
24 COG5574 PEX10 RING-finger-cont 98.5 3.9E-08 8.4E-13 93.1 2.7 51 334-387 214-265 (271)
25 COG5194 APC11 Component of SCF 98.5 4.1E-08 8.9E-13 75.9 2.2 31 352-386 53-83 (88)
26 KOG1493 Anaphase-promoting com 98.5 3.5E-08 7.6E-13 75.6 1.8 50 334-384 19-81 (84)
27 KOG2164 Predicted E3 ubiquitin 98.5 6.9E-08 1.5E-12 99.0 4.5 59 335-393 186-245 (513)
28 PF14634 zf-RING_5: zinc-RING 98.4 1.3E-07 2.8E-12 66.5 2.2 41 337-381 1-44 (44)
29 KOG0828 Predicted E3 ubiquitin 98.3 2.6E-06 5.6E-11 86.7 10.5 49 334-385 570-635 (636)
30 PF04564 U-box: U-box domain; 98.3 2.5E-07 5.5E-12 72.4 2.0 49 335-386 4-52 (73)
31 KOG0287 Postreplication repair 98.2 2.8E-07 6E-12 89.7 0.6 48 336-387 24-71 (442)
32 KOG2930 SCF ubiquitin ligase, 98.2 5.3E-07 1.1E-11 73.2 1.2 47 335-385 46-109 (114)
33 COG5432 RAD18 RING-finger-cont 98.1 8.1E-07 1.8E-11 84.8 1.5 48 335-386 25-72 (391)
34 KOG0824 Predicted E3 ubiquitin 98.1 3.2E-06 6.9E-11 81.5 4.2 49 335-386 7-55 (324)
35 TIGR00570 cdk7 CDK-activating 98.0 4.8E-06 1E-10 81.8 4.0 50 335-387 3-57 (309)
36 KOG2177 Predicted E3 ubiquitin 97.9 3.5E-06 7.5E-11 82.2 2.0 45 333-381 11-55 (386)
37 PF11793 FANCL_C: FANCL C-term 97.9 2.9E-06 6.2E-11 65.9 0.5 51 335-385 2-67 (70)
38 COG5219 Uncharacterized conser 97.9 6E-06 1.3E-10 89.5 2.9 50 333-384 1467-1523(1525)
39 KOG4172 Predicted E3 ubiquitin 97.9 4.7E-06 1E-10 59.9 0.8 47 335-384 7-54 (62)
40 smart00744 RINGv The RING-vari 97.8 1.4E-05 3.1E-10 57.4 3.1 42 337-380 1-49 (49)
41 KOG0804 Cytoplasmic Zn-finger 97.8 5.4E-06 1.2E-10 83.8 0.7 43 336-384 176-222 (493)
42 KOG4265 Predicted E3 ubiquitin 97.8 1.2E-05 2.5E-10 79.7 2.7 50 333-386 288-338 (349)
43 PF14835 zf-RING_6: zf-RING of 97.7 7.9E-06 1.7E-10 61.2 -0.1 46 336-387 8-54 (65)
44 KOG0827 Predicted E3 ubiquitin 97.7 1.6E-05 3.5E-10 78.9 2.1 49 335-384 4-56 (465)
45 KOG1785 Tyrosine kinase negati 97.7 2.9E-05 6.4E-10 77.3 3.6 48 336-385 370-417 (563)
46 KOG0978 E3 ubiquitin ligase in 97.7 2E-05 4.2E-10 85.0 2.1 50 335-387 643-692 (698)
47 KOG1039 Predicted E3 ubiquitin 97.6 0.00016 3.4E-09 72.7 6.9 53 334-386 160-223 (344)
48 PF13705 TRC8_N: TRC8 N-termin 97.5 0.012 2.7E-07 61.6 20.5 104 126-232 348-452 (508)
49 KOG0311 Predicted E3 ubiquitin 97.5 2.2E-05 4.8E-10 77.3 0.0 50 334-386 42-92 (381)
50 KOG4159 Predicted E3 ubiquitin 97.3 0.00011 2.4E-09 75.2 2.5 49 333-385 82-130 (398)
51 KOG2114 Vacuolar assembly/sort 97.3 0.00019 4E-09 77.9 4.0 95 282-383 787-882 (933)
52 KOG1941 Acetylcholine receptor 97.3 0.00023 5E-09 70.9 4.3 45 335-381 365-413 (518)
53 KOG2879 Predicted E3 ubiquitin 97.3 0.00061 1.3E-08 65.3 6.8 50 333-384 237-287 (298)
54 KOG1645 RING-finger-containing 97.3 0.00013 2.8E-09 73.2 2.3 48 334-383 3-55 (463)
55 KOG1002 Nucleotide excision re 97.1 0.00036 7.8E-09 72.0 3.8 55 335-389 536-591 (791)
56 KOG0825 PHD Zn-finger protein 97.1 0.00019 4.1E-09 77.0 1.4 35 350-388 141-175 (1134)
57 KOG0297 TNF receptor-associate 97.0 0.00035 7.5E-09 72.1 1.9 50 333-386 19-69 (391)
58 KOG1571 Predicted E3 ubiquitin 96.9 0.0011 2.3E-08 66.0 4.5 45 333-384 303-347 (355)
59 KOG4692 Predicted E3 ubiquitin 96.8 0.0023 4.9E-08 63.2 6.3 49 333-385 420-468 (489)
60 KOG3970 Predicted E3 ubiquitin 96.8 0.0022 4.7E-08 59.7 5.7 54 333-386 48-107 (299)
61 PF10367 Vps39_2: Vacuolar sor 96.8 0.0022 4.7E-08 53.5 5.2 31 333-363 76-108 (109)
62 PF11789 zf-Nse: Zinc-finger o 96.7 0.00064 1.4E-08 50.5 0.9 43 334-378 10-53 (57)
63 KOG4275 Predicted E3 ubiquitin 96.6 0.00046 1E-08 66.5 -0.4 42 335-384 300-342 (350)
64 COG5152 Uncharacterized conser 96.6 0.00093 2E-08 60.9 1.4 45 335-383 196-240 (259)
65 PHA02825 LAP/PHD finger-like p 96.5 0.0026 5.7E-08 56.4 3.5 51 333-386 6-61 (162)
66 KOG1813 Predicted E3 ubiquitin 96.4 0.0012 2.6E-08 63.9 1.0 46 335-384 241-286 (313)
67 KOG1428 Inhibitor of type V ad 96.3 0.002 4.4E-08 73.0 2.6 53 333-385 3484-3545(3738)
68 KOG4445 Uncharacterized conser 96.1 0.0029 6.2E-08 61.3 2.1 52 335-386 115-188 (368)
69 COG5222 Uncharacterized conser 96.1 0.0054 1.2E-07 59.4 3.9 44 335-381 274-318 (427)
70 PHA02862 5L protein; Provision 96.1 0.0042 9.1E-08 54.1 2.8 48 335-385 2-54 (156)
71 KOG1814 Predicted E3 ubiquitin 96.1 0.0043 9.3E-08 62.7 3.1 56 327-382 176-238 (445)
72 KOG2660 Locus-specific chromos 96.0 0.0028 6.2E-08 62.4 1.7 48 335-386 15-63 (331)
73 PF14447 Prok-RING_4: Prokaryo 95.8 0.0037 7.9E-08 45.6 1.0 47 335-387 7-53 (55)
74 COG5236 Uncharacterized conser 95.6 0.0076 1.6E-07 59.5 2.5 55 324-383 50-107 (493)
75 PF12906 RINGv: RING-variant d 95.5 0.0064 1.4E-07 43.3 1.4 40 338-379 1-47 (47)
76 KOG2034 Vacuolar sorting prote 95.5 0.021 4.5E-07 63.0 5.5 36 333-368 815-852 (911)
77 PF10272 Tmpp129: Putative tra 95.3 0.029 6.4E-07 56.8 5.5 34 353-386 311-353 (358)
78 PF14570 zf-RING_4: RING/Ubox 95.2 0.015 3.2E-07 41.4 2.3 42 338-382 1-46 (48)
79 KOG3039 Uncharacterized conser 95.0 0.022 4.9E-07 53.9 3.7 53 334-390 220-276 (303)
80 KOG1952 Transcription factor N 94.8 0.017 3.7E-07 63.2 2.4 51 331-381 187-244 (950)
81 COG5175 MOT2 Transcriptional r 94.7 0.024 5.2E-07 55.9 2.9 51 334-387 13-67 (480)
82 KOG4185 Predicted E3 ubiquitin 94.5 0.021 4.5E-07 56.6 2.3 45 336-383 4-54 (296)
83 KOG0826 Predicted E3 ubiquitin 94.5 0.13 2.8E-06 50.8 7.5 47 333-383 298-345 (357)
84 PHA03096 p28-like protein; Pro 94.2 0.026 5.6E-07 55.6 2.0 46 336-382 179-232 (284)
85 PF05290 Baculo_IE-1: Baculovi 94.1 0.21 4.5E-06 43.1 7.1 51 335-386 80-134 (140)
86 PF07800 DUF1644: Protein of u 93.6 0.23 4.9E-06 44.3 6.6 51 335-385 2-92 (162)
87 KOG1001 Helicase-like transcri 93.4 0.028 6.2E-07 61.7 0.9 49 336-387 455-503 (674)
88 KOG0802 E3 ubiquitin ligase [P 93.0 0.058 1.3E-06 58.2 2.4 60 322-389 466-525 (543)
89 PF05883 Baculo_RING: Baculovi 92.8 0.041 9E-07 47.7 0.7 32 335-366 26-66 (134)
90 KOG0827 Predicted E3 ubiquitin 92.5 0.015 3.3E-07 58.3 -2.5 47 335-385 196-246 (465)
91 PF04641 Rtf2: Rtf2 RING-finge 91.4 0.13 2.8E-06 50.3 2.5 49 334-387 112-164 (260)
92 KOG4739 Uncharacterized protei 91.4 0.1 2.3E-06 49.5 1.8 43 337-385 5-49 (233)
93 KOG1940 Zn-finger protein [Gen 90.8 0.14 3E-06 50.1 2.0 43 335-381 158-204 (276)
94 COG5183 SSM4 Protein involved 90.5 0.21 4.4E-06 54.7 3.1 51 334-386 11-68 (1175)
95 KOG3268 Predicted E3 ubiquitin 90.4 0.19 4.1E-06 45.4 2.3 50 337-386 167-230 (234)
96 PF08746 zf-RING-like: RING-li 90.1 0.21 4.6E-06 34.7 2.0 40 338-379 1-43 (43)
97 KOG3800 Predicted E3 ubiquitin 88.7 0.35 7.7E-06 47.1 2.9 48 337-387 2-54 (300)
98 KOG3053 Uncharacterized conser 88.1 0.25 5.3E-06 47.3 1.4 50 334-383 19-81 (293)
99 KOG3161 Predicted E3 ubiquitin 87.9 0.24 5.1E-06 53.0 1.3 38 337-381 13-54 (861)
100 KOG2932 E3 ubiquitin ligase in 87.8 0.17 3.6E-06 49.6 0.1 41 337-383 92-133 (389)
101 KOG1100 Predicted E3 ubiquitin 87.8 0.17 3.7E-06 47.7 0.2 40 337-384 160-200 (207)
102 KOG4367 Predicted Zn-finger pr 87.0 0.67 1.4E-05 47.5 3.9 35 334-368 3-37 (699)
103 KOG0298 DEAD box-containing he 86.4 0.23 4.9E-06 57.1 0.2 44 336-383 1154-1198(1394)
104 KOG2817 Predicted E3 ubiquitin 86.0 0.49 1.1E-05 48.1 2.3 45 336-381 335-382 (394)
105 KOG0801 Predicted E3 ubiquitin 85.6 0.26 5.5E-06 43.9 0.1 30 330-359 172-204 (205)
106 KOG3899 Uncharacterized conser 85.6 0.47 1E-05 46.2 1.8 35 353-387 325-368 (381)
107 PF03854 zf-P11: P-11 zinc fin 85.1 0.33 7.1E-06 34.3 0.4 44 337-386 4-48 (50)
108 KOG4362 Transcriptional regula 84.7 0.29 6.3E-06 53.3 0.0 50 335-385 21-70 (684)
109 COG5220 TFB3 Cdk activating ki 84.7 0.52 1.1E-05 44.7 1.7 47 334-383 9-63 (314)
110 KOG3002 Zn finger protein [Gen 82.4 0.89 1.9E-05 45.2 2.4 43 336-385 49-92 (299)
111 KOG0309 Conserved WD40 repeat- 81.8 0.8 1.7E-05 50.0 1.9 26 349-378 1044-1069(1081)
112 KOG1609 Protein involved in mR 80.9 0.94 2E-05 45.0 2.0 49 335-385 78-135 (323)
113 KOG0825 PHD Zn-finger protein 78.3 1.8 3.8E-05 47.6 3.1 50 334-383 95-153 (1134)
114 PF02891 zf-MIZ: MIZ/SP-RING z 76.5 0.93 2E-05 32.6 0.3 46 336-382 3-50 (50)
115 KOG2066 Vacuolar assembly/sort 72.5 2.1 4.6E-05 47.2 1.9 36 333-368 782-824 (846)
116 smart00249 PHD PHD zinc finger 72.3 1.5 3.2E-05 29.8 0.5 28 337-364 1-31 (47)
117 PF07191 zinc-ribbons_6: zinc- 71.2 0.32 6.9E-06 37.5 -3.4 41 336-385 2-42 (70)
118 KOG1812 Predicted E3 ubiquitin 69.7 4.1 8.8E-05 42.1 3.2 35 335-369 146-184 (384)
119 KOG1829 Uncharacterized conser 67.4 2.2 4.8E-05 46.0 0.7 41 334-381 510-558 (580)
120 KOG4718 Non-SMC (structural ma 65.5 3 6.5E-05 39.0 1.1 45 336-384 182-227 (235)
121 KOG1815 Predicted E3 ubiquitin 63.5 5.3 0.00011 42.1 2.7 36 334-369 69-105 (444)
122 KOG0269 WD40 repeat-containing 63.2 4.5 9.7E-05 44.5 2.1 38 337-378 781-820 (839)
123 KOG3842 Adaptor protein Pellin 62.4 7.3 0.00016 38.6 3.1 52 334-385 340-415 (429)
124 KOG2068 MOT2 transcription fac 60.5 9.3 0.0002 38.2 3.6 46 336-385 250-299 (327)
125 KOG3039 Uncharacterized conser 59.3 6.2 0.00013 37.8 2.0 33 336-368 44-76 (303)
126 KOG3113 Uncharacterized conser 59.0 7.2 0.00016 37.5 2.4 47 335-387 111-161 (293)
127 smart00132 LIM Zinc-binding do 58.7 5.9 0.00013 25.7 1.4 35 337-383 1-37 (39)
128 KOG0824 Predicted E3 ubiquitin 56.9 11 0.00023 37.3 3.2 47 334-384 104-151 (324)
129 PF13901 DUF4206: Domain of un 56.4 5.5 0.00012 37.3 1.2 39 334-381 151-197 (202)
130 KOG3579 Predicted E3 ubiquitin 54.8 7.3 0.00016 38.1 1.7 34 336-369 269-306 (352)
131 PF00412 LIM: LIM domain; Int 54.7 8.9 0.00019 27.6 1.8 38 338-387 1-40 (58)
132 PF00628 PHD: PHD-finger; Int 53.5 1.4 3.1E-05 31.3 -2.6 45 337-381 1-50 (51)
133 PF04710 Pellino: Pellino; In 52.9 4.7 0.0001 41.2 0.1 32 349-383 305-338 (416)
134 PLN02400 cellulose synthase 50.0 30 0.00065 40.2 5.8 48 334-384 35-89 (1085)
135 COG5109 Uncharacterized conser 49.6 9.7 0.00021 37.8 1.7 44 336-380 337-383 (396)
136 PF06844 DUF1244: Protein of u 48.8 11 0.00024 28.7 1.5 13 356-368 11-23 (68)
137 PF10571 UPF0547: Uncharacteri 47.4 11 0.00023 23.3 1.0 21 337-357 2-24 (26)
138 PF04216 FdhE: Protein involve 47.2 5.4 0.00012 39.5 -0.5 45 334-382 171-220 (290)
139 PLN02189 cellulose synthase 46.8 23 0.0005 40.9 4.3 48 334-384 33-87 (1040)
140 PLN02915 cellulose synthase A 44.8 30 0.00064 40.1 4.8 48 334-384 14-68 (1044)
141 PLN02436 cellulose synthase A 44.2 26 0.00057 40.6 4.2 48 334-384 35-89 (1094)
142 PLN02638 cellulose synthase A 44.2 29 0.00064 40.2 4.6 48 334-384 16-70 (1079)
143 PF14569 zf-UDP: Zinc-binding 44.0 40 0.00087 26.6 4.0 48 334-384 8-62 (80)
144 PRK12495 hypothetical protein; 43.3 99 0.0021 29.4 7.2 41 302-346 13-53 (226)
145 PF04710 Pellino: Pellino; In 42.4 8.3 0.00018 39.5 0.0 51 335-385 328-402 (416)
146 PF14446 Prok-RING_1: Prokaryo 41.9 21 0.00047 26.1 2.1 30 334-363 4-37 (54)
147 KOG3842 Adaptor protein Pellin 39.5 11 0.00024 37.4 0.3 45 335-382 290-350 (429)
148 KOG4185 Predicted E3 ubiquitin 38.8 15 0.00033 36.2 1.3 46 335-383 207-266 (296)
149 KOG3005 GIY-YIG type nuclease 38.8 15 0.00033 35.7 1.1 49 335-383 182-242 (276)
150 PLN02195 cellulose synthase A 35.9 67 0.0015 37.0 5.8 48 334-384 5-59 (977)
151 cd04718 BAH_plant_2 BAH, or Br 35.6 11 0.00025 33.4 -0.2 30 357-386 2-31 (148)
152 PF01363 FYVE: FYVE zinc finge 35.1 14 0.0003 27.9 0.2 31 335-365 9-43 (69)
153 PF10497 zf-4CXXC_R1: Zinc-fin 33.9 46 0.001 27.8 3.2 48 334-381 6-69 (105)
154 PRK03564 formate dehydrogenase 31.8 20 0.00044 35.9 0.8 44 334-381 186-234 (309)
155 PF02318 FYVE_2: FYVE-type zin 31.1 54 0.0012 27.8 3.3 45 334-381 53-102 (118)
156 cd00065 FYVE FYVE domain; Zinc 29.7 38 0.00082 24.3 1.8 31 336-366 3-37 (57)
157 TIGR01562 FdhE formate dehydro 28.7 33 0.00072 34.3 1.7 44 335-382 184-233 (305)
158 smart00064 FYVE Protein presen 28.3 42 0.00091 25.1 1.9 33 335-367 10-46 (68)
159 KOG4218 Nuclear hormone recept 27.1 28 0.00062 35.0 0.9 13 334-346 14-26 (475)
160 COG3492 Uncharacterized protei 27.1 36 0.00078 27.6 1.3 13 357-369 43-55 (104)
161 cd00350 rubredoxin_like Rubred 26.3 29 0.00062 22.4 0.5 10 373-382 17-26 (33)
162 PF04423 Rad50_zn_hook: Rad50 25.9 21 0.00046 25.7 -0.1 12 374-385 21-32 (54)
163 KOG1245 Chromatin remodeling c 25.6 31 0.00068 41.6 1.1 50 334-383 1107-1159(1404)
164 KOG2041 WD40 repeat protein [G 24.6 34 0.00074 37.8 1.0 44 333-384 1129-1185(1189)
165 KOG2071 mRNA cleavage and poly 24.1 32 0.00069 37.2 0.7 30 336-365 514-556 (579)
166 TIGR02921 PEP_integral PEP-CTE 24.0 3.8E+02 0.0081 29.6 8.4 31 81-112 168-198 (952)
167 KOG1812 Predicted E3 ubiquitin 22.4 36 0.00079 35.2 0.7 42 334-379 305-351 (384)
168 KOG4443 Putative transcription 22.1 46 0.00099 36.4 1.4 32 352-383 40-72 (694)
169 KOG2231 Predicted E3 ubiquitin 21.6 68 0.0015 35.5 2.6 49 337-385 2-53 (669)
170 KOG2807 RNA polymerase II tran 21.1 1.1E+02 0.0023 30.9 3.5 43 335-381 330-375 (378)
171 KOG2979 Protein involved in DN 21.0 1.3E+02 0.0028 29.2 4.1 43 335-379 176-219 (262)
172 TIGR00622 ssl1 transcription f 21.0 1.3E+02 0.0028 25.5 3.6 42 335-380 55-110 (112)
173 PF06906 DUF1272: Protein of u 20.4 73 0.0016 23.5 1.7 43 337-385 7-53 (57)
174 KOG0314 Predicted E3 ubiquitin 20.3 91 0.002 32.8 3.1 44 333-381 217-263 (448)
175 KOG2462 C2H2-type Zn-finger pr 20.1 79 0.0017 31.0 2.4 51 335-385 161-227 (279)
No 1
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.6e-43 Score=337.04 Aligned_cols=324 Identities=24% Similarity=0.374 Sum_probs=235.9
Q ss_pred HHHHHHHhhHHHHhHhhhhhccccchhhcccCcchhHHHHHHHhh-chhHHHHHHHHHHHHHHHHHHHHHHHhcccCcHH
Q 013469 12 STILSFVGLQFWTEFSLDKLRTDGLVVENVIHLESANRVLELLLR-SYATVALLANFVLNVFVLINLCLKTIFFGELYPA 90 (442)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-s~~~~~vl~N~~~~~~~l~~~~lq~lfFG~LR~~ 90 (442)
|...+++++.-+.+-++. .....|++++.-+| |++.++++.|++++.+.++++++++++||+||..
T Consensus 6 y~l~~~Vl~~l~~~~~~~-------------~s~t~ys~l~~t~~ls~~hi~i~~~~ill~~~l~~~~l~~llFGsLr~~ 72 (491)
T COG5243 6 YVLASLVLFGLSVLLSLY-------------SSATVYSALVMTSQLSPVHITIGLNVILLLFFLIANALKTLLFGSLRTF 72 (491)
T ss_pred hhHHHHHHHHHHHHHHHh-------------ccceeeeeeeeeeccCcchhHHHHHHHHHHHHHHHHHHHHHhhhhhHHH
Confidence 455566666555554443 34567788888888 9999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccCchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcch--HHHHHHHHHH
Q 013469 91 ETRKFVERLINYVIYKGTFLPLVIPPTVFQAGLWSVWLTVLCSLKMFQALARDRLERLNASPSATPWT--YFRVFSALLF 168 (442)
Q Consensus 91 E~e~l~er~~~~~~~k~~fl~~vi~~~~~~~~~w~~~F~~L~~lK~fh~l~~dRve~l~~sp~~~~~~--h~R~~~lL~~ 168 (442)
|.|+++|++| |++. ++.++..++++.-.. .+...+..|+++|+||||+++|.|... -.++..+. .-|..+.+.+
T Consensus 73 E~e~~~E~l~-~tlt-~~ll~iS~F~e~i~f-s~~~l~~~Ll~~kvfhwil~~R~er~~-~~st~~~~~ifSrfS~~~~l 148 (491)
T COG5243 73 ELELLYEQLW-ITLT-EILLAISVFREAISF-SFFMLLSTLLFAKVFHWILSFRTERLQ-IQSTDQRFHIFSRFSCAYFL 148 (491)
T ss_pred HHHHHHHhhH-HHHH-HHHHHHHHHHhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 9999999999 3333 455554455542211 345677888999999999999999763 22334444 4699999999
Q ss_pred HHHHHHHHHHHHHHHhhhCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccchhhhhhhccchhh
Q 013469 169 VLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLE 248 (442)
Q Consensus 169 ll~~d~~~i~~~~~~~~~~g~~~~ll~~fE~~~l~~~~l~~~l~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~we 248 (442)
+.++|...|..|+..-...+.++..++..|+..+. ..+++. . +..+... ++.+++ -+
T Consensus 149 L~ild~~li~~CiSs~~liD~~~lfL~~c~F~~~l-l~l~s~----------------~-n~~cV~n--~~~~dd---Dd 205 (491)
T COG5243 149 LSILDASLIYLCISSEHLIDKSTLFLFVCEFSVLL-LNLTSE----------------A-NKLCVYN--YEARDD---DD 205 (491)
T ss_pred HHHHhHHHHHHHhhhHhhhhhhHHHHHHHHHHHHH-HHHHHh----------------h-cccceee--cccccc---cc
Confidence 99999999999997544444444333444432211 111111 0 1011000 000011 13
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCh
Q 013469 249 WKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATS 328 (442)
Q Consensus 249 ~kg~~i~~~ef~~dl~~~~~~l~~~~~~~~~~g~~~~i~~~v~~~~ir~~~~~l~~r~~~~~~~r~~~~~~~~~~~~~~~ 328 (442)
.|..+.++.|+.-|=++++.+...+...+..+.+|+.+++.++ ..+ .++.+|++.+.+++++.+++++.+|.+++
T Consensus 206 ~rs~~~f~~~v~y~g~tllays~l~~~~~~~~r~Pi~l~r~~~-t~~----~AL~~~i~~~~~~~r~~kdl~~~~~t~t~ 280 (491)
T COG5243 206 ERSTYLFRLEVCYDGLTLLAYSLLFMYQFPYVRVPIYLIRQMY-TCF----YALFRRIREHARFRRATKDLNAMYPTATE 280 (491)
T ss_pred cceeeeeeeehHHHHHHHHHHHHHHHhhccchhchHHHHHHHH-HHH----HHHHHHHHHHHHHHHHhhHHHhhcchhhh
Confidence 4556667777888877777776666666777788988888753 333 46778899999999999999999999999
Q ss_pred hhhccCCCCCccCcccc-c------------CCccccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 329 EELRAYDDECAICREPM-A------------KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 329 ~el~~~~~~C~IC~e~~-~------------~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
|++.+.|..|.||+|++ . .||+|||||++|.+|++.|+++ +++||+||.++.
T Consensus 281 eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER----qQTCPICr~p~i 345 (491)
T COG5243 281 EQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER----QQTCPICRRPVI 345 (491)
T ss_pred hhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh----ccCCCcccCccc
Confidence 99998999999999995 3 3599999999999999999999 699999999953
No 2
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.4e-36 Score=319.41 Aligned_cols=320 Identities=33% Similarity=0.443 Sum_probs=266.5
Q ss_pred hhhcccCcchhHHHHHHHhhchhHHHHHHHHHHHHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHHhccc-ccC
Q 013469 37 VVENVIHLESANRVLELLLRSYATVALLANFVLNVFVLINLCLKTIFFGELYPAETRKFVERLINYVIYKGTFLPL-VIP 115 (442)
Q Consensus 37 ~~~~~~~~~~~~~~~~~l~~s~~~~~vl~N~~~~~~~l~~~~lq~lfFG~LR~~E~e~l~er~~~~~~~k~~fl~~-vi~ 115 (442)
+.+++....|++++.+|+++++.+++++.|+.++...++.+.++.+|||.|+..|.||+.|++|+|.+++.+|..+ +.+
T Consensus 14 ~~~~~~~~~q~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~sl~~~~~g~l~~~~~e~~~~~l~~~~~~~~~~~~~~~~~ 93 (543)
T KOG0802|consen 14 IFSAYLGSAQSISTTVLLLSSPTSLAVLLNRALVVLALILLSLQLIFFGALLLSEAEHLSHSLWNLIGLKYTFLLGYVTF 93 (543)
T ss_pred HHHHHHhhhcccccceeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccc
Confidence 3344555566999999999999999999999999999999999999999999999999999999999999998883 445
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhh-hCCcchhHH
Q 013469 116 PTVFQAGLWSVWLTVLCSLKMFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFK-TLDSSMFLL 194 (442)
Q Consensus 116 ~~~~~~~~w~~~F~~L~~lK~fh~l~~dRve~l~~sp~~~~~~h~R~~~lL~~ll~~d~~~i~~~~~~~~-~~g~~~~ll 194 (442)
++.+. ..|..|+.+++++|+||||++||+++|+.+|..+.+.|.|+...+..+...|...+..++.... +.|.++.+.
T Consensus 94 ~~~~~-~~~~~~~~~l~~l~~~~~l~~~~~~~l~~~~~~~~~~~~~v~~~~~~l~~~~~~~~~~s~~~~~~t~~~~~l~~ 172 (543)
T KOG0802|consen 94 RTVLS-ELFSLWLLLLLFLHVFHLLASDRLPRLFFSPLITTLNHFRVVSVLFALLIVDGHLVYNSLKTAYRTYGLSMLIE 172 (543)
T ss_pred cchhh-HHHHHHHHHHHHHHHHHHHHHhHHHHHHhCcchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhheec
Confidence 66776 6799999999999999999999999999999999999999999999999999988877776554 677777777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccchhhhhhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 013469 195 LFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYI 274 (442)
Q Consensus 195 ~~fE~~~l~~~~l~~~l~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~we~kg~~i~~~ef~~dl~~~~~~l~~~~ 274 (442)
+.++.+.+.+.+....+.|.++..+ +. . -..|++++.+.++.+...+.....+.+.+..
T Consensus 173 ~~~~~~~~~~~~~~~~~~y~l~~~~-----------~~--------~--~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~~ 231 (543)
T KOG0802|consen 173 LTFPSLLVVFWTALVILQYVLHSTA-----------DH--------I--HIRSEDLSLLTFTLIIFGCMTLLVLLIMSAV 231 (543)
T ss_pred cchHHHHHHHHHHHHHHHHHHhcch-----------hh--------c--CcccCccceeechhHHHhhhhHHHHHhhhHH
Confidence 8999888877777666655433211 00 0 1235778888888888888888888888888
Q ss_pred HHHHHhhhhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhcCCCCChhh--hccCCCCCccCcccccC----
Q 013469 275 HIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGH-LHAALPDATSEE--LRAYDDECAICREPMAK---- 347 (442)
Q Consensus 275 ~~~~~~g~~~~i~~~v~~~~ir~~~~~l~~r~~~~~~~r~~~~~-~~~~~~~~~~~e--l~~~~~~C~IC~e~~~~---- 347 (442)
+.+..+++++++.+.+.... .....++.+...+.++.... +...++.++.++ ....++.|+||+|++..
T Consensus 232 ~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~e~l~~~~~~ 307 (543)
T KOG0802|consen 232 ISLVVHGILLGLVADLYNTP----FLEVERRLRELAPLRRVILATLQTGLPGATLEERGLALSDELCIICLEELHSGHNI 307 (543)
T ss_pred HHHHHhHhhhhhhHHHhhhh----hhhHHHHccchHHHHHHhhccccccccccChHHhhhhhcCCeeeeechhhcccccc
Confidence 88888999999887743322 35667778888888888777 788889998887 66779999999999988
Q ss_pred -CccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 348 -AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 348 -~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
++++||||+||..|+++|+++ +++||+||..+...
T Consensus 308 ~~~rL~C~Hifh~~CL~~W~er----~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 308 TPKRLPCGHIFHDSCLRSWFER----QQTCPTCRTVLYDY 343 (543)
T ss_pred ccceeecccchHHHHHHHHHHH----hCcCCcchhhhhcc
Confidence 799999999999999999999 69999999966444
No 3
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=1.2e-13 Score=136.58 Aligned_cols=75 Identities=31% Similarity=0.600 Sum_probs=56.0
Q ss_pred HHHHHHHHHhhcCCCCChhhhccC--CCCCccCcccccCC---ccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 311 KLRIALGHLHAALPDATSEELRAY--DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 311 ~~r~~~~~~~~~~~~~~~~el~~~--~~~C~IC~e~~~~~---~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
+.++..+++-++.|..+..+..++ .++|+||+|+++.+ +.|||+|.||..||++||.+. +..||+||+++..
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---RTFCPVCKRDIRT 279 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhc---CccCCCCCCcCCC
Confidence 445556666667776655443221 24899999999887 456999999999999999984 4679999998866
Q ss_pred CCc
Q 013469 386 GRR 388 (442)
Q Consensus 386 ~~~ 388 (442)
...
T Consensus 280 ~~~ 282 (348)
T KOG4628|consen 280 DSG 282 (348)
T ss_pred CCC
Confidence 543
No 4
>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=99.31 E-value=6.2e-13 Score=93.73 Aligned_cols=41 Identities=49% Similarity=1.176 Sum_probs=35.0
Q ss_pred CCCccCcccccC---CccccCcccchHHHHHHHHHhCCCCCCCccccc
Q 013469 336 DECAICREPMAK---AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (442)
Q Consensus 336 ~~C~IC~e~~~~---~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR 380 (442)
++|+||++++.. ...++|||.||.+|+.+|+++ +.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~----~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR----NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH----SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh----CCcCCccC
Confidence 479999999964 367899999999999999999 57999998
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.15 E-value=3e-11 Score=114.83 Aligned_cols=47 Identities=38% Similarity=0.924 Sum_probs=40.0
Q ss_pred CCCCCccCcccccCC--------ccccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKA--------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~--------~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
.+.+|+||++++.++ ...+|||.||..||.+|+++ +.+||+||.++.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~----~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE----KNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc----CCCCCCCCCEee
Confidence 467899999997653 34589999999999999987 689999999875
No 6
>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=99.15 E-value=1.8e-11 Score=95.85 Aligned_cols=43 Identities=49% Similarity=1.143 Sum_probs=35.0
Q ss_pred CCCCCccCcccccCC-------------ccccCcccchHHHHHHHHHhCCCCCCCccccc
Q 013469 334 YDDECAICREPMAKA-------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~-------------~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR 380 (442)
.++.|+||++++.++ ...+|||.||..||.+|+++ +.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~----~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ----NNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT----SSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc----CCcCCCCC
Confidence 456799999999432 23489999999999999998 57999998
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.12 E-value=5.4e-11 Score=108.63 Aligned_cols=54 Identities=28% Similarity=0.649 Sum_probs=45.0
Q ss_pred CCCCCccCcccccCCccccCcccchHHHHHHHHHhCC------------CCCCCccccccCCcCCC
Q 013469 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGL------------NEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~------------~~~~~CP~CR~~l~~~~ 387 (442)
.+.+|+||++.+++++.++|||.||..||.+|+.... ..+..||.||.++....
T Consensus 17 ~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 17 GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 4678999999999999999999999999999986421 12468999999996543
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=4.5e-11 Score=114.06 Aligned_cols=51 Identities=24% Similarity=0.710 Sum_probs=45.6
Q ss_pred cCCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
+.+..|.+|+|..++|..+||||+||..||.+|... ...||.||++..+.+
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~e----k~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSE----KAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcc----ccCCCcccccCCCcc
Confidence 346789999999999999999999999999999998 578999999886653
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.03 E-value=9.1e-11 Score=81.70 Aligned_cols=42 Identities=31% Similarity=0.759 Sum_probs=33.2
Q ss_pred CccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCcccc
Q 013469 338 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 338 C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
|+||++.+++|+.|+|||.||..||.+|.++....+..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999999999999999999999999998764434689998
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.99 E-value=2.2e-10 Score=90.83 Aligned_cols=51 Identities=37% Similarity=0.828 Sum_probs=40.5
Q ss_pred CCCCCccCcccccCC-------------ccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 334 YDDECAICREPMAKA-------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~-------------~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
.|+.|.||+..|+.. +.-.|+|.||.+||.+|++++.+ +..||+||++...
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~-~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS-KGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC-CCCCCCcCCeeee
Confidence 478899999988631 22379999999999999997543 5799999998753
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=6.6e-10 Score=103.30 Aligned_cols=53 Identities=30% Similarity=0.663 Sum_probs=46.5
Q ss_pred CCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
...+|.||+|.-++|+.+.|||.||..||.+|++...+ ++.||+||..+..+.
T Consensus 46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~-~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPN-SKECPVCKAEVSIDT 98 (230)
T ss_pred CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCC-CeeCCccccccccce
Confidence 45689999999999999999999999999999998544 578999999986543
No 12
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.95 E-value=3.8e-10 Score=81.72 Aligned_cols=46 Identities=39% Similarity=0.820 Sum_probs=40.4
Q ss_pred CCCCccCcccccCCccccCccc-chHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~-FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
+..|.||++...+...+||||. ||..|..+|+++ +..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~----~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKR----KKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHT----TSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhccc----CCCCCcCChhhc
Confidence 5689999999998888999999 999999999996 689999999874
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=98.85 E-value=1.1e-09 Score=74.99 Aligned_cols=38 Identities=29% Similarity=0.835 Sum_probs=33.3
Q ss_pred CccCcccccCC-ccccCcccchHHHHHHHHHhCCCCCCCcccc
Q 013469 338 CAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 338 C~IC~e~~~~~-~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
|+||++.+.++ +.++|||.||.+|+.+|+++ +.+||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~----~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK----NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC----TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC----cCCCcCC
Confidence 89999999998 57899999999999999998 4899998
No 14
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.84 E-value=2.3e-09 Score=74.69 Aligned_cols=44 Identities=41% Similarity=1.057 Sum_probs=37.2
Q ss_pred CCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 337 ECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 337 ~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
+|+||++.+..+..+ +|||.||..|+++|++++ +..||.||.++
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~---~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSG---KNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhC---cCCCCCCCCcC
Confidence 599999999666655 599999999999999873 47899999763
No 15
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.82 E-value=1.7e-09 Score=103.56 Aligned_cols=49 Identities=37% Similarity=0.798 Sum_probs=41.2
Q ss_pred CCCCCccCcccccCC---ccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 334 YDDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~---~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
.+-+|+||++++.+. +.+||.|.||..|+.+|+..- +..||+||.++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y---~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGY---SNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhh---cccCCccCCCCCC
Confidence 356899999999765 346999999999999999842 5799999998864
No 16
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.80 E-value=4.5e-09 Score=79.54 Aligned_cols=46 Identities=22% Similarity=0.292 Sum_probs=42.1
Q ss_pred CCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
..|+||.+.+++|+.++|||+|++.|+.+|+++ +.+||.|++++..
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~----~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLS----HGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH----CCCCCCCcCCCCh
Confidence 479999999999999999999999999999988 5799999998744
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.72 E-value=8.9e-09 Score=95.16 Aligned_cols=53 Identities=28% Similarity=0.663 Sum_probs=39.9
Q ss_pred cCCCCCccCcccccC---------CccccCcccchHHHHHHHHHhCC--CCCCCccccccCCcC
Q 013469 333 AYDDECAICREPMAK---------AKKLLCNHLFHLACLRSWLDQGL--NEMYSCPTCRKPLFV 385 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~---------~~~LpCgH~FH~~Cl~~Wl~~~~--~~~~~CP~CR~~l~~ 385 (442)
+.+.+|+||+|..-+ +...+|+|.||..||+.|-+... ....+||+||.....
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 347899999998632 23349999999999999998531 123579999998643
No 18
>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=98.71 E-value=7.6e-09 Score=71.51 Aligned_cols=40 Identities=43% Similarity=1.032 Sum_probs=35.7
Q ss_pred CccCcccccCCc-cccCcccchHHHHHHHHHhCCCCCCCcccc
Q 013469 338 CAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 338 C~IC~e~~~~~~-~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
|+||.+.+.++. .++|||.||..|+++|++++ ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~--~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS--GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT--SSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhc--CCccCCcC
Confidence 899999999998 88999999999999999952 25789998
No 19
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=8.8e-09 Score=91.95 Aligned_cols=47 Identities=30% Similarity=0.733 Sum_probs=40.6
Q ss_pred CCCccCcccccCC--ccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 336 DECAICREPMAKA--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 336 ~~C~IC~e~~~~~--~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
..|+||++.+.+. +.+.|||+||..||+.-+.. ...||+||+.+..+
T Consensus 132 ~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~----~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN----TNKCPTCRKKITHK 180 (187)
T ss_pred cCCCceecchhhccccccccchhHHHHHHHHHHHh----CCCCCCcccccchh
Confidence 4699999999764 45799999999999999988 58999999987654
No 20
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=1.5e-06 Score=82.31 Aligned_cols=52 Identities=37% Similarity=0.832 Sum_probs=42.5
Q ss_pred CCCCCccCcccccC----------CccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 334 YDDECAICREPMAK----------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 334 ~~~~C~IC~e~~~~----------~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
+|..|++|-..+.. ..+|.|+|+||..||+.|..-++ +++||.|+..+..+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK--kqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK--KQTCPYCKEKVDLKR 284 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC--CCCCchHHHHhhHhh
Confidence 57789999988753 35789999999999999987654 589999998875543
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.65 E-value=2.1e-08 Score=67.35 Aligned_cols=39 Identities=41% Similarity=1.054 Sum_probs=34.8
Q ss_pred CccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCcccc
Q 013469 338 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 338 C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
|+||++..+.+..++|||.||..|+++|++++ +..||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~---~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSG---NNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhC---cCCCCCC
Confidence 89999998888889999999999999999843 5789987
No 22
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.59 E-value=2.2e-08 Score=69.86 Aligned_cols=39 Identities=31% Similarity=0.810 Sum_probs=23.7
Q ss_pred CccCcccccC----CccccCcccchHHHHHHHHHhCCCCCCCcc
Q 013469 338 CAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCP 377 (442)
Q Consensus 338 C~IC~e~~~~----~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP 377 (442)
|+||.| +.+ |+.|+|||+|+++|++++..++......||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 876 789999999999999999997532345787
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.54 E-value=5e-08 Score=99.33 Aligned_cols=48 Identities=27% Similarity=0.546 Sum_probs=43.4
Q ss_pred CCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
....|+||.+.+..++.++|||.||..|++.|+.. ...||.||.++..
T Consensus 25 ~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~----~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN----QPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC----CCCCCCCCCcccc
Confidence 46789999999999999999999999999999987 4689999998754
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=3.9e-08 Score=93.08 Aligned_cols=51 Identities=31% Similarity=0.701 Sum_probs=44.1
Q ss_pred CCCCCccCcccccCCccccCcccchHHHHHH-HHHhCCCCCCCccccccCCcCCC
Q 013469 334 YDDECAICREPMAKAKKLLCNHLFHLACLRS-WLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~-Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
.|..|+||++.+..+..+||||+||..||-. |-.++ ...||.||+...+++
T Consensus 214 ~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCRak~~pk~ 265 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCRAKVYPKK 265 (271)
T ss_pred cccceeeeecccCCcccccccchhhHHHHHHHHHhhc---cccCchhhhhccchh
Confidence 3678999999999999999999999999999 88774 345999999876653
No 25
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.53 E-value=4.1e-08 Score=75.87 Aligned_cols=31 Identities=39% Similarity=0.876 Sum_probs=28.1
Q ss_pred cCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 352 LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 352 pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
.|+|.||.+||.+||.. +..||+||++....
T Consensus 53 ~CnHaFH~HCI~rWL~T----k~~CPld~q~w~~~ 83 (88)
T COG5194 53 VCNHAFHDHCIYRWLDT----KGVCPLDRQTWVLA 83 (88)
T ss_pred ecchHHHHHHHHHHHhh----CCCCCCCCceeEEe
Confidence 79999999999999998 68999999988654
No 26
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=3.5e-08 Score=75.60 Aligned_cols=50 Identities=38% Similarity=0.868 Sum_probs=39.4
Q ss_pred CCCCCccCcccccCC---ccc----------cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKA---KKL----------LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~---~~L----------pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
.+++|-||+-+|+.. -++ -|.|.||..||.+|+..+.+ +..||+||++..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~ts-q~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTS-QGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccc-cccCCcchheeE
Confidence 456899999888632 122 69999999999999987654 479999999864
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=6.9e-08 Score=99.01 Aligned_cols=59 Identities=25% Similarity=0.543 Sum_probs=48.5
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhC-CCCCCCccccccCCcCCCcccccC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPLFVGRREIEAN 393 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~-~~~~~~CP~CR~~l~~~~~~~~~~ 393 (442)
+..|+||+++...++.+.|||+||..||-+.+..+ ......||+||..+..++......
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI 245 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence 77899999999999999999999999999988764 223468999999998865544333
No 28
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.41 E-value=1.3e-07 Score=66.50 Aligned_cols=41 Identities=34% Similarity=0.844 Sum_probs=34.2
Q ss_pred CCccCccccc---CCccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 337 ECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 337 ~C~IC~e~~~---~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
.|+||.+++. .+..++|||+||..|+.+.... ...||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~----~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGK----SVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCC----CCCCcCCCC
Confidence 4999999993 3466799999999999998832 589999985
No 29
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=2.6e-06 Score=86.71 Aligned_cols=49 Identities=37% Similarity=0.871 Sum_probs=38.7
Q ss_pred CCCCCccCcccccC------C-----------ccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 334 YDDECAICREPMAK------A-----------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 334 ~~~~C~IC~e~~~~------~-----------~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
....|+||+.+.+- + ..+||.|+||..|+.+|.+.- +..||+||+++++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y---kl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY---KLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh---cccCCccCCCCCC
Confidence 35679999998741 1 224999999999999999952 4699999998864
No 30
>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=98.31 E-value=2.5e-07 Score=72.43 Aligned_cols=49 Identities=27% Similarity=0.407 Sum_probs=39.6
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
+..|+||.+-|.+|+.+||||.|.+.||.+|++++ +.+||.|++++...
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~---~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQN---GGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTT---SSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcC---CCCCCCCCCcCCcc
Confidence 45799999999999999999999999999999984 58999999988654
No 31
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.23 E-value=2.8e-07 Score=89.70 Aligned_cols=48 Identities=29% Similarity=0.566 Sum_probs=43.5
Q ss_pred CCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
..|-||.|.|..|..+||||.||.-||+..|.. +..||+|+.++.+.+
T Consensus 24 LRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~----~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 24 LRCGICFEYFNIPMITPCSHTFCSLCIRKFLSY----KPQCPTCCVTVTESD 71 (442)
T ss_pred HHHhHHHHHhcCceeccccchHHHHHHHHHhcc----CCCCCceecccchhh
Confidence 479999999999999999999999999999988 689999998876543
No 32
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=5.3e-07 Score=73.20 Aligned_cols=47 Identities=36% Similarity=0.805 Sum_probs=36.4
Q ss_pred CCCCccCccccc---------------CC--ccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 335 DDECAICREPMA---------------KA--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~---------------~~--~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
-+.|+||+...- ++ ..-.|+|.||..||.+|+++ ++.||+|.++...
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt----r~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT----RNVCPLDNKEWVF 109 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh----cCcCCCcCcceeE
Confidence 367999986541 11 12379999999999999999 6999999987754
No 33
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.13 E-value=8.1e-07 Score=84.83 Aligned_cols=48 Identities=27% Similarity=0.546 Sum_probs=43.2
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
-..|-||-+.+..+..++|||.||.-||+..|.. +..||.||.+....
T Consensus 25 ~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~----qp~CP~Cr~~~~es 72 (391)
T COG5432 25 MLRCRICDCRISIPCETTCGHTFCSLCIRRHLGT----QPFCPVCREDPCES 72 (391)
T ss_pred HHHhhhhhheeecceecccccchhHHHHHHHhcC----CCCCccccccHHhh
Confidence 3579999999999999999999999999999988 68999999876543
No 34
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=3.2e-06 Score=81.52 Aligned_cols=49 Identities=27% Similarity=0.582 Sum_probs=43.0
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
..+|+||...+..|+.++|+|.||.-||+.-...+ ..+||+||+++...
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~nd---k~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKND---KKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcC---CCCCceecCCCCcc
Confidence 56899999999999999999999999999866664 57899999999654
No 35
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.00 E-value=4.8e-06 Score=81.77 Aligned_cols=50 Identities=30% Similarity=0.680 Sum_probs=38.0
Q ss_pred CCCCccCcccc-cCC-ccc---cCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 335 DDECAICREPM-AKA-KKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 335 ~~~C~IC~e~~-~~~-~~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
+..||+|..+- ..+ .++ +|||.||.+|+...+..+ +..||.|+.++....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~---~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---SGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC---CCCCCCCCCccchhh
Confidence 56899999963 222 222 799999999999977654 468999999886654
No 36
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=3.5e-06 Score=82.23 Aligned_cols=45 Identities=36% Similarity=0.665 Sum_probs=40.0
Q ss_pred cCCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
.....|+||++.+..++.+||||.||..|+..+... ...||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~----~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEG----PLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcCccccccchHhHHHHHHhcCC----CcCCcccCC
Confidence 346689999999999988999999999999999882 589999994
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.91 E-value=2.9e-06 Score=65.86 Aligned_cols=51 Identities=29% Similarity=0.632 Sum_probs=25.4
Q ss_pred CCCCccCccccc-C---Ccc----ccCcccchHHHHHHHHHhCCCC-------CCCccccccCCcC
Q 013469 335 DDECAICREPMA-K---AKK----LLCNHLFHLACLRSWLDQGLNE-------MYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~-~---~~~----LpCgH~FH~~Cl~~Wl~~~~~~-------~~~CP~CR~~l~~ 385 (442)
+.+|.||.+... . +.. -.|++.||..||.+|+....+. ...||.|++++.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 457999998765 2 222 2799999999999999863211 1369999998753
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.90 E-value=6e-06 Score=89.51 Aligned_cols=50 Identities=30% Similarity=0.745 Sum_probs=39.1
Q ss_pred cCCCCCccCcccccC-----C--ccccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 333 AYDDECAICREPMAK-----A--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~-----~--~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
+.-++|+||..-... | +.-.|.|.||..|+.+|...+. +.+||.||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~--~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSA--RSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcC--CCCCCccccccc
Confidence 445789999987651 2 2236999999999999999864 579999998764
No 39
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=4.7e-06 Score=59.86 Aligned_cols=47 Identities=32% Similarity=0.629 Sum_probs=38.7
Q ss_pred CCCCccCcccccCCccccCccc-chHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~-FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
+++|.||+|...+.+...|||. .|..|-.+.+... +..||+||+++.
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~---~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKAL---HGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHcc---CCcCcchhhHHH
Confidence 5789999999888788899998 8999976655532 679999999874
No 40
>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=97.84 E-value=1.4e-05 Score=57.43 Aligned_cols=42 Identities=24% Similarity=0.694 Sum_probs=32.2
Q ss_pred CCccCcccc--cCCccccCc-----ccchHHHHHHHHHhCCCCCCCccccc
Q 013469 337 ECAICREPM--AKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCR 380 (442)
Q Consensus 337 ~C~IC~e~~--~~~~~LpCg-----H~FH~~Cl~~Wl~~~~~~~~~CP~CR 380 (442)
.|.||++.. +++...||. |.+|..|+++|+..+. ..+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~--~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG--NKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC--CCcCCCCC
Confidence 489999833 234556886 9999999999998753 35899995
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.81 E-value=5.4e-06 Score=83.81 Aligned_cols=43 Identities=44% Similarity=0.976 Sum_probs=36.6
Q ss_pred CCCccCcccccCC----ccccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 336 DECAICREPMAKA----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 336 ~~C~IC~e~~~~~----~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
.+|++|+|.|+.. ....|.|.||..|+..|.. .+||+||-...
T Consensus 176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~------~scpvcR~~q~ 222 (493)
T KOG0804|consen 176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD------SSCPVCRYCQS 222 (493)
T ss_pred CCcchhHhhcCccccceeeeecccccchHHHhhccc------CcChhhhhhcC
Confidence 4899999999864 3458999999999999986 59999997554
No 42
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=1.2e-05 Score=79.74 Aligned_cols=50 Identities=32% Similarity=0.618 Sum_probs=43.4
Q ss_pred cCCCCCccCcccccCCccccCccc-chHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 333 AYDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~LpCgH~-FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
+.+.+|.||+.+-++...|||-|. -|..|-+..--+ ++.||+||+++...
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q----~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQ----TNNCPICRQPIEEL 338 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHh----hcCCCccccchHhh
Confidence 446789999999999999999999 999999887666 58999999998554
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.70 E-value=7.9e-06 Score=61.25 Aligned_cols=46 Identities=28% Similarity=0.790 Sum_probs=25.1
Q ss_pred CCCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 336 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
..|++|.+.++.|+.+ .|.|+||..|+++-+. ..||+|+.|...++
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~------~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG------SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTT------TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcC------CCCCCcCChHHHHH
Confidence 4799999999999864 8999999999977443 46999999876554
No 44
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=1.6e-05 Score=78.92 Aligned_cols=49 Identities=33% Similarity=0.819 Sum_probs=35.7
Q ss_pred CCCCccCcccccCCccc----cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 335 DDECAICREPMAKAKKL----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~L----pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
...|.||-+-......+ .|||+||..|+.+|.+..+. ..+||.||-.+.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps-~R~cpic~ik~~ 56 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPS-NRGCPICQIKLQ 56 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCc-cCCCCceeeccc
Confidence 34799994443333233 69999999999999998753 268999994443
No 45
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.68 E-value=2.9e-05 Score=77.28 Aligned_cols=48 Identities=35% Similarity=0.720 Sum_probs=40.3
Q ss_pred CCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
+.|-||-|.=++.+.=||||..|..|+..|=..+ +.++||.||..+..
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd--~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSD--EGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccC--CCCCCCceeeEecc
Confidence 3599999987777777999999999999997654 25899999998843
No 46
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=2e-05 Score=84.97 Aligned_cols=50 Identities=20% Similarity=0.522 Sum_probs=43.9
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
-..|+.|-....+.+...|||+||..|+++-+... +..||.|..++...+
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etR---qRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETR---QRKCPKCNAAFGAND 692 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHh---cCCCCCCCCCCCccc
Confidence 34799999998898999999999999999999875 689999999886554
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.56 E-value=0.00016 Score=72.70 Aligned_cols=53 Identities=36% Similarity=0.732 Sum_probs=39.9
Q ss_pred CCCCCccCcccccCCc-----c---ccCcccchHHHHHHHHHhCC---CCCCCccccccCCcCC
Q 013469 334 YDDECAICREPMAKAK-----K---LLCNHLFHLACLRSWLDQGL---NEMYSCPTCRKPLFVG 386 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~-----~---LpCgH~FH~~Cl~~Wl~~~~---~~~~~CP~CR~~l~~~ 386 (442)
.+.+|.||+|...+.. . .+|.|.||..|++.|-+..+ .-.+.||.||.+....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 4778999999876543 2 46999999999999985431 1137899999876443
No 48
>PF13705 TRC8_N: TRC8 N-terminal domain
Probab=97.53 E-value=0.012 Score=61.60 Aligned_cols=104 Identities=16% Similarity=0.293 Sum_probs=82.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCcchhHHHHHHH-HHHHH
Q 013469 126 VWLTVLCSLKMFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEP-LSVAF 204 (442)
Q Consensus 126 ~~F~~L~~lK~fh~l~~dRve~l~~sp~~~~~~h~R~~~lL~~ll~~d~~~i~~~~~~~~~~g~~~~ll~~fE~-~~l~~ 204 (442)
.+..+-..++..|-+.+..+-.|.+|.+.+.++|+|.+++.++++++..++ .+..+++...+++++...-+ +...+
T Consensus 348 l~lv~ta~Lh~~~ei~~pvLmsL~As~~~s~~rH~R~L~v~~~Ll~~P~~~---~y~l~~~~~i~tWll~v~s~~~~t~v 424 (508)
T PF13705_consen 348 LFLVLTALLHSLHEIVDPVLMSLSASHNRSFWRHFRALSVCLFLLVFPLYL---SYYLWSFFPIDTWLLIVTSFCVETIV 424 (508)
T ss_pred HHHHHHHHHHHHHHHhHHHHHhccCCCCchHHHHHHHHHHHHHHHHHHHHH---HHHHHHhCChHHHHHHHHHHHHHHHH
Confidence 344444699999999999999999999999999999999999999988864 45666677788877655443 33457
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCCccc
Q 013469 205 ETMQAILVHGFQLLDIWLHHSAGNSTNC 232 (442)
Q Consensus 205 ~~l~~~l~~~~~l~d~~~~~~~~~~~~~ 232 (442)
+++.++.+|++.++|.+++..|++-+|.
T Consensus 425 kv~~sl~iY~Lf~vd~~~~~~WE~LDD~ 452 (508)
T PF13705_consen 425 KVLGSLAIYILFMVDARREEPWEKLDDY 452 (508)
T ss_pred HHHHHHHHHHHHHHHhhcccchhhcccE
Confidence 7888899999999999876666655443
No 49
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=2.2e-05 Score=77.34 Aligned_cols=50 Identities=34% Similarity=0.646 Sum_probs=42.4
Q ss_pred CCCCCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
.+..|+||++-++..... .|+|.||..||..=+..+ .+.||+||+.+..+
T Consensus 42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~g---n~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSG---NNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhc---CCCCchHHhhcccc
Confidence 466899999998877665 699999999999888876 68999999988554
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00011 Score=75.18 Aligned_cols=49 Identities=35% Similarity=0.686 Sum_probs=43.6
Q ss_pred cCCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
..+..|.||...+..++.+||||.||..||.+-+.+ ...||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~----~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQ----ETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHHhcc----CCCCccccccccc
Confidence 457789999999999999999999999999887765 5899999998865
No 51
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.30 E-value=0.00019 Score=77.94 Aligned_cols=95 Identities=16% Similarity=0.366 Sum_probs=59.1
Q ss_pred hhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCChhhhccCCCCCccCcccccCC-ccccCcccchHH
Q 013469 282 MAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKA-KKLLCNHLFHLA 360 (442)
Q Consensus 282 ~~~~i~~~v~~~~ir~~~~~l~~r~~~~~~~r~~~~~~~~~~~~~~~~el~~~~~~C~IC~e~~~~~-~~LpCgH~FH~~ 360 (442)
+-++++++.+--.++.--.++.+.-+...++++.++++++.+.+....+-.-....|..|..+.+-| +...|||.||.+
T Consensus 787 ltls~IkD~ii~~l~~~~~~I~qd~~~Ie~yk~~i~e~r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqh 866 (933)
T KOG2114|consen 787 LTLSVIKDYIIKWLNKYSTIIEQDEDAIEVYKKDIEEKRQELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQH 866 (933)
T ss_pred eEEehhHHHHHHHHHhhhHHHHhhHHHHHHHHHHHHHHHHHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHH
Confidence 3456666655444443333333333444456666666665544332221111234899999999877 677999999999
Q ss_pred HHHHHHHhCCCCCCCccccccCC
Q 013469 361 CLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 361 Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
|+. ++ ...||.|+...
T Consensus 867 C~e---~~----~~~CP~C~~e~ 882 (933)
T KOG2114|consen 867 CLE---DK----EDKCPKCLPEL 882 (933)
T ss_pred hhc---cC----cccCCccchhh
Confidence 997 22 47999998743
No 52
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.30 E-value=0.00023 Score=70.92 Aligned_cols=45 Identities=40% Similarity=0.910 Sum_probs=37.1
Q ss_pred CCCCccCcccccC----CccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 335 DDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 335 ~~~C~IC~e~~~~----~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
+..|..|-+.+.. -..|||.|+||..|+...++++. ..+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~--~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG--TRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC--CCCCccHHH
Confidence 5679999998743 24579999999999999998865 479999993
No 53
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=0.00061 Score=65.26 Aligned_cols=50 Identities=24% Similarity=0.589 Sum_probs=40.4
Q ss_pred cCCCCCccCcccccCCcc-ccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 333 AYDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~-LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
..+.+|++|-++...|-. .+|||+||.-|+..=...+. ..+||.|..+..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a--sf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA--SFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh--hcccCccCCCCc
Confidence 457899999999888855 47999999999998665422 479999988765
No 54
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.28 E-value=0.00013 Score=73.15 Aligned_cols=48 Identities=31% Similarity=0.789 Sum_probs=39.4
Q ss_pred CCCCCccCcccccCC-----ccccCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 334 YDDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~-----~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
.+.+|+||++.+..+ +.+.|||.|-.+|++.|+.+.. ...||.|...-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~--~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKT--KMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhh--hhhCcccCChh
Confidence 467999999998765 5579999999999999996432 47899998654
No 55
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.13 E-value=0.00036 Score=71.99 Aligned_cols=55 Identities=25% Similarity=0.677 Sum_probs=45.1
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCC-CCCCCccccccCCcCCCcc
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGL-NEMYSCPTCRKPLFVGRRE 389 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~-~~~~~CP~CR~~l~~~~~~ 389 (442)
+.+|-+|.++-++.....|.|.||+.|+..+...-. +.+-+||+|...+.-+..+
T Consensus 536 ~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse 591 (791)
T KOG1002|consen 536 EVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSE 591 (791)
T ss_pred ceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccc
Confidence 458999999999999999999999999999887531 2247999999888665443
No 56
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.09 E-value=0.00019 Score=76.99 Aligned_cols=35 Identities=23% Similarity=0.378 Sum_probs=29.5
Q ss_pred cccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCCc
Q 013469 350 KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRR 388 (442)
Q Consensus 350 ~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~~ 388 (442)
+-+|+|.||.+|+..|-.. .++||+||..+..-.+
T Consensus 141 ~k~c~H~FC~~Ci~sWsR~----aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 141 EKHTAHYFCEECVGSWSRC----AQTCPVDRGEFGEVKV 175 (1134)
T ss_pred ccccccccHHHHhhhhhhh----cccCchhhhhhheeee
Confidence 3489999999999999998 5899999988755433
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.96 E-value=0.00035 Score=72.11 Aligned_cols=50 Identities=28% Similarity=0.580 Sum_probs=44.1
Q ss_pred cCCCCCccCcccccCCcc-ccCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 333 AYDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~-LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
+.+..|++|...+.+|.+ ..|||.||..|+.+|+.+ ++.||.||+.+...
T Consensus 19 ~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~----~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN----HQKCPVCRQELTQA 69 (391)
T ss_pred cccccCccccccccCCCCCCCCCCcccccccchhhcc----CcCCcccccccchh
Confidence 456789999999999988 599999999999999998 68999999877443
No 58
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.0011 Score=66.04 Aligned_cols=45 Identities=24% Similarity=0.566 Sum_probs=34.6
Q ss_pred cCCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
+..+.|.||.++..+.+.+||||.=| |..---. ..+||+||+.+.
T Consensus 303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-----l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-----LPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccceeeecCCcEEE--chHHHhh-----CCCCchhHHHHH
Confidence 34678999999999999999999955 5433222 357999999774
No 59
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.0023 Score=63.25 Aligned_cols=49 Identities=22% Similarity=0.425 Sum_probs=43.4
Q ss_pred cCCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
.+|+.|+||...--.++..||+|.-|+.||.+-+-+ .+.|=.|+..+..
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN----~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMN----CKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhc----CCeeeEecceeee
Confidence 357899999998888888999999999999999988 5899999988754
No 60
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.0022 Score=59.68 Aligned_cols=54 Identities=33% Similarity=0.853 Sum_probs=43.6
Q ss_pred cCCCCCccCcccccC--CccccCcccchHHHHHHHHHhC----CCCCCCccccccCCcCC
Q 013469 333 AYDDECAICREPMAK--AKKLLCNHLFHLACLRSWLDQG----LNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~--~~~LpCgH~FH~~Cl~~Wl~~~----~~~~~~CP~CR~~l~~~ 386 (442)
+++..|..|-.++.. ..+|.|-|+||.+|+..|-.+- .+....||.|.+++++.
T Consensus 48 DY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 456689999998865 4788999999999999997652 23357899999998764
No 61
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.80 E-value=0.0022 Score=53.47 Aligned_cols=31 Identities=23% Similarity=0.860 Sum_probs=25.4
Q ss_pred cCCCCCccCcccccCCc--cccCcccchHHHHH
Q 013469 333 AYDDECAICREPMAKAK--KLLCNHLFHLACLR 363 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~--~LpCgH~FH~~Cl~ 363 (442)
+.+..|++|...+.... ..||||++|..|++
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 34678999999997753 45999999999975
No 62
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.67 E-value=0.00064 Score=50.48 Aligned_cols=43 Identities=21% Similarity=0.517 Sum_probs=29.9
Q ss_pred CCCCCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCccc
Q 013469 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPT 378 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~ 378 (442)
.+..|+|....+++|++- .|||+|-++.|.++++++ ....||.
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~--~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRN--GSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTT--S-EE-SC
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhc--CCCCCCC
Confidence 356899999999999764 999999999999999442 2578998
No 63
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.60 E-value=0.00046 Score=66.48 Aligned_cols=42 Identities=31% Similarity=0.680 Sum_probs=35.4
Q ss_pred CCCCccCcccccCCccccCccc-chHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~-FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
+..|+||++...++..|+|||. -|.+|-+. -+.||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr--------m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR--------MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc--------cccCchHHHHHH
Confidence 6679999999999999999997 78888533 368999998764
No 64
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.56 E-value=0.00093 Score=60.92 Aligned_cols=45 Identities=22% Similarity=0.421 Sum_probs=39.8
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
...|-||-++++.|+...|||.||..|-..-.+. ...|-.|.+..
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~k----g~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQK----GDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhcc----CCcceecchhh
Confidence 4479999999999999999999999998887777 58999998754
No 65
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.46 E-value=0.0026 Score=56.40 Aligned_cols=51 Identities=27% Similarity=0.668 Sum_probs=38.9
Q ss_pred cCCCCCccCcccccCCccccCcc-----cchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 333 AYDDECAICREPMAKAKKLLCNH-----LFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~LpCgH-----~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
..+..|-||+++-+. ..-||.- .-|.+|++.|+..++ ..+||.|+.+....
T Consensus 6 ~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~--~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSK--NKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCC--CCcccccCCeEEEE
Confidence 457789999998643 3457764 459999999998753 47999999987443
No 66
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0012 Score=63.90 Aligned_cols=46 Identities=22% Similarity=0.429 Sum_probs=40.8
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
...|-||+.++..|+...|||.||..|-.+-+++ ...|++|.+...
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk----~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQK----GEKCYVCSQQTH 286 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhcccccc----CCcceecccccc
Confidence 4569999999999999999999999998888877 589999988653
No 67
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.34 E-value=0.002 Score=72.98 Aligned_cols=53 Identities=38% Similarity=0.749 Sum_probs=41.0
Q ss_pred cCCCCCccCcccc---cCCccccCcccchHHHHHHHHHhCC--CC----CCCccccccCCcC
Q 013469 333 AYDDECAICREPM---AKAKKLLCNHLFHLACLRSWLDQGL--NE----MYSCPTCRKPLFV 385 (442)
Q Consensus 333 ~~~~~C~IC~e~~---~~~~~LpCgH~FH~~Cl~~Wl~~~~--~~----~~~CP~CR~~l~~ 385 (442)
+.|+.|-||..+- ..+.+|.|+|+||..|.+.-|++.= ++ -.+||+|+.++..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 4578899998764 2457899999999999999888741 11 2489999998854
No 68
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.12 E-value=0.0029 Score=61.33 Aligned_cols=52 Identities=29% Similarity=0.693 Sum_probs=38.7
Q ss_pred CCCCccCcccccCC---ccccCcccchHHHHHHHHHhC-------------------CCCCCCccccccCCcCC
Q 013469 335 DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQG-------------------LNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 335 ~~~C~IC~e~~~~~---~~LpCgH~FH~~Cl~~Wl~~~-------------------~~~~~~CP~CR~~l~~~ 386 (442)
...|.||+--|.+. .+++|.|.+|..|+...|..- .+....||+||..+...
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 56899999998765 467999999999988765421 01134799999988543
No 69
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.12 E-value=0.0054 Score=59.35 Aligned_cols=44 Identities=25% Similarity=0.667 Sum_probs=36.8
Q ss_pred CCCCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 335 DDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
...|+.|..-...+.++ -|||.||.+||..-|... ...||.|.+
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~ds---Df~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDS---DFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhc---cccCCCccc
Confidence 36799999999999888 589999999999766543 489999954
No 70
>PHA02862 5L protein; Provisional
Probab=96.10 E-value=0.0042 Score=54.12 Aligned_cols=48 Identities=21% Similarity=0.706 Sum_probs=37.2
Q ss_pred CCCCccCcccccCCccccCc-----ccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 335 DDECAICREPMAKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCg-----H~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
++.|-||+++-++. .-||. ..-|.+|+.+|+... ++..||.|+.+...
T Consensus 2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S--~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYS--KKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcC--CCcCccCCCCeEEE
Confidence 56899999986543 45776 568999999999764 35799999988743
No 71
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0043 Score=62.69 Aligned_cols=56 Identities=27% Similarity=0.464 Sum_probs=39.1
Q ss_pred ChhhhccCCCCCccCcccccC---CccccCcccchHHHHHHHHHhC----CCCCCCccccccC
Q 013469 327 TSEELRAYDDECAICREPMAK---AKKLLCNHLFHLACLRSWLDQG----LNEMYSCPTCRKP 382 (442)
Q Consensus 327 ~~~el~~~~~~C~IC~e~~~~---~~~LpCgH~FH~~Cl~~Wl~~~----~~~~~~CP~CR~~ 382 (442)
+.++.......|.||+++... -+++||+|+||++|++...... ......||-|..+
T Consensus 176 ~~~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 176 TLEKFVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred HHHHHHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 334444456689999998643 2678999999999999987642 1113568776653
No 72
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.04 E-value=0.0028 Score=62.36 Aligned_cols=48 Identities=25% Similarity=0.612 Sum_probs=41.4
Q ss_pred CCCCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 335 DDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
-.+|.+|...+.++-.. -|=|.||++||-..++. ...||+|...+...
T Consensus 15 ~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~----~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE----SKYCPTCDIVIHKT 63 (331)
T ss_pred ceehhhccceeecchhHHHHHHHHHHHHHHHHHHH----hccCCccceeccCc
Confidence 45899999999888654 79999999999999998 58999999877544
No 73
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.81 E-value=0.0037 Score=45.56 Aligned_cols=47 Identities=26% Similarity=0.547 Sum_probs=37.4
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
+..|..|...-.....+||||.-+..|..-+= -+.||.|.+++...+
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~r------YngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGER------YNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChhh------ccCCCCCCCcccCCC
Confidence 45688888887778899999999999975533 368999999886553
No 74
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.59 E-value=0.0076 Score=59.50 Aligned_cols=55 Identities=20% Similarity=0.495 Sum_probs=41.8
Q ss_pred CCCChhhhccCCCCCccCcccccCCccccCcccchHHHHH---HHHHhCCCCCCCccccccCC
Q 013469 324 PDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLR---SWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 324 ~~~~~~el~~~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~---~Wl~~~~~~~~~CP~CR~~l 383 (442)
.+++.++-++++..|.||-+...-...+||+|.-|-.|-- .... ++.||.||...
T Consensus 50 ttsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~-----~K~C~~CrTE~ 107 (493)
T COG5236 50 TTSSADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM-----QKGCPLCRTET 107 (493)
T ss_pred ccccccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh-----ccCCCcccccc
Confidence 3344455555677899999998888899999999999943 3333 48999999865
No 75
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.54 E-value=0.0064 Score=43.25 Aligned_cols=40 Identities=28% Similarity=0.711 Sum_probs=27.1
Q ss_pred CccCcccccCCc--cccCc-----ccchHHHHHHHHHhCCCCCCCcccc
Q 013469 338 CAICREPMAKAK--KLLCN-----HLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 338 C~IC~e~~~~~~--~LpCg-----H~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
|-||+++-++.. ..||+ -.-|.+|+++|+..+. ..+|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~--~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESG--NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT---SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcC--CCcCCCC
Confidence 678988866543 44776 3679999999998632 4679987
No 76
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.45 E-value=0.021 Score=63.01 Aligned_cols=36 Identities=28% Similarity=0.576 Sum_probs=28.2
Q ss_pred cCCCCCccCcccccCC--ccccCcccchHHHHHHHHHh
Q 013469 333 AYDDECAICREPMAKA--KKLLCNHLFHLACLRSWLDQ 368 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~--~~LpCgH~FH~~Cl~~Wl~~ 368 (442)
+.++.|.+|..++... ...||||.||.+|+.+-...
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHHc
Confidence 3578999999987543 45599999999999876543
No 77
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=95.25 E-value=0.029 Score=56.79 Aligned_cols=34 Identities=26% Similarity=0.816 Sum_probs=25.7
Q ss_pred CcccchHHHHHHHHHhCCC---------CCCCccccccCCcCC
Q 013469 353 CNHLFHLACLRSWLDQGLN---------EMYSCPTCRKPLFVG 386 (442)
Q Consensus 353 CgH~FH~~Cl~~Wl~~~~~---------~~~~CP~CR~~l~~~ 386 (442)
|-...|.+|+-+|+..+++ ++.+||+||++++-.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 4467899999999976532 246899999998654
No 78
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.22 E-value=0.015 Score=41.43 Aligned_cols=42 Identities=29% Similarity=0.732 Sum_probs=21.2
Q ss_pred CccCcccccCC-cc-c--cCcccchHHHHHHHHHhCCCCCCCccccccC
Q 013469 338 CAICREPMAKA-KK-L--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (442)
Q Consensus 338 C~IC~e~~~~~-~~-L--pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (442)
|++|.++++.. +. . +||+..|..|...-++.. ...||-||++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~---~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE---GGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS----SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc---CCCCCCCCCC
Confidence 78999998433 22 2 689999999977766532 5799999986
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.05 E-value=0.022 Score=53.86 Aligned_cols=53 Identities=17% Similarity=0.248 Sum_probs=43.1
Q ss_pred CCCCCccCcccccCCc---cc-cCcccchHHHHHHHHHhCCCCCCCccccccCCcCCCccc
Q 013469 334 YDDECAICREPMAKAK---KL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREI 390 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~---~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~~~~ 390 (442)
....|++|++.+.+.. .| ||||+++..|..+.+.. ...||+|-.++.+.+...
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~----D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK----DMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc----cccccCCCCcCcccceEe
Confidence 3568999999997643 33 99999999999999887 489999999987765443
No 80
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.76 E-value=0.017 Score=63.17 Aligned_cols=51 Identities=31% Similarity=0.844 Sum_probs=37.2
Q ss_pred hccCCCCCccCcccccCCcc----ccCcccchHHHHHHHHHhC---CCCCCCcccccc
Q 013469 331 LRAYDDECAICREPMAKAKK----LLCNHLFHLACLRSWLDQG---LNEMYSCPTCRK 381 (442)
Q Consensus 331 l~~~~~~C~IC~e~~~~~~~----LpCgH~FH~~Cl~~Wl~~~---~~~~~~CP~CR~ 381 (442)
+.....+|.||.+.+..... -.|-|+||..||++|..+. ....-.||.|+.
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 33456689999999875322 1588999999999998763 112357999984
No 81
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.67 E-value=0.024 Score=55.92 Aligned_cols=51 Identities=27% Similarity=0.531 Sum_probs=36.4
Q ss_pred CCCCCccCcccccCCcc----ccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 334 YDDECAICREPMAKAKK----LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~----LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
+++.|+.|+|+|+...+ -|||-.-|.-|...--+. . ...||-||+...+.+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~-l--ngrcpacrr~y~den 67 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN-L--NGRCPACRRKYDDEN 67 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhh-c--cCCChHhhhhccccc
Confidence 46679999999986543 389988888886543322 2 469999999775543
No 82
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.55 E-value=0.021 Score=56.64 Aligned_cols=45 Identities=31% Similarity=0.704 Sum_probs=38.1
Q ss_pred CCCccCcccccC------CccccCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 336 DECAICREPMAK------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 336 ~~C~IC~e~~~~------~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
..|-||-+++.. |+.|.|||.+|..|+.+-+... ...||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~---~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS---RILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCc---eeeccCCCCcc
Confidence 479999999964 5778899999999998877764 57899999985
No 83
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.48 E-value=0.13 Score=50.81 Aligned_cols=47 Identities=19% Similarity=0.475 Sum_probs=38.7
Q ss_pred cCCCCCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 333 AYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
.....|++|+..-.++..+ .-|-+||..|+-+.+.+ ...||+=..+.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~----~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN----YGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHh----cCCCCccCCcc
Confidence 3456899999998877666 45999999999999997 78999876554
No 84
>PHA03096 p28-like protein; Provisional
Probab=94.17 E-value=0.026 Score=55.61 Aligned_cols=46 Identities=24% Similarity=0.520 Sum_probs=33.1
Q ss_pred CCCccCcccccCC--------ccccCcccchHHHHHHHHHhCCCCCCCccccccC
Q 013469 336 DECAICREPMAKA--------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (442)
Q Consensus 336 ~~C~IC~e~~~~~--------~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (442)
..|.||+|..... ..-.|.|.||..|++.|-..... ..+||.||..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~-~e~~~~c~~~ 232 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLY-KETEPENRRL 232 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhh-cccCccccch
Confidence 4799999986431 11279999999999999876532 3566666653
No 85
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.11 E-value=0.21 Score=43.15 Aligned_cols=51 Identities=25% Similarity=0.451 Sum_probs=40.7
Q ss_pred CCCCccCcccccCCccc----cCcccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 335 DDECAICREPMAKAKKL----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~L----pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
-.+|.||.|.-.+.+-| -||-.-|..|--..++... ....||.|+.+.-..
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~-~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN-LYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc-cCCCCCccccccccc
Confidence 35799999998887666 4999999999888777643 368999999887543
No 86
>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=93.60 E-value=0.23 Score=44.28 Aligned_cols=51 Identities=31% Similarity=0.546 Sum_probs=35.8
Q ss_pred CCCCccCcccccCCccccC------------cc-cchHHHHHHHHHhCC---------------------------CCCC
Q 013469 335 DDECAICREPMAKAKKLLC------------NH-LFHLACLRSWLDQGL---------------------------NEMY 374 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpC------------gH-~FH~~Cl~~Wl~~~~---------------------------~~~~ 374 (442)
|-+|+||+|...+++.|-| +- .-|..|+++.-+... ....
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 81 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL 81 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence 5689999999888777654 32 257899998755320 0135
Q ss_pred CccccccCCcC
Q 013469 375 SCPTCRKPLFV 385 (442)
Q Consensus 375 ~CP~CR~~l~~ 385 (442)
.||+||..+..
T Consensus 82 ~CPLCRG~V~G 92 (162)
T PF07800_consen 82 ACPLCRGEVKG 92 (162)
T ss_pred cCccccCceec
Confidence 79999998844
No 87
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.43 E-value=0.028 Score=61.74 Aligned_cols=49 Identities=31% Similarity=0.613 Sum_probs=40.8
Q ss_pred CCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
..|.||.+ .+.+...+|||.||.+|+..-++...+ ..||.||..+...+
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~--~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSEN--APCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccC--CCCcHHHHHHHHHH
Confidence 68999999 777788899999999999998877532 47999998875543
No 88
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.99 E-value=0.058 Score=58.24 Aligned_cols=60 Identities=37% Similarity=0.680 Sum_probs=49.7
Q ss_pred cCCCCChhhhccCCCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCCcc
Q 013469 322 ALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRRE 389 (442)
Q Consensus 322 ~~~~~~~~el~~~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~~~ 389 (442)
..+.++.+++.+.++.|.+|.+++ ..+..+|. |..|++.|+.. +..||.|++....++..
T Consensus 466 ~~s~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~----~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 466 SLSEATPSQLREPNDVCAICYQEM-SARITPCS---HALCLRKWLYV----QEVCPLCHTYMKEDDFL 525 (543)
T ss_pred CCCCCChhhhhcccCcchHHHHHH-Hhcccccc---chhHHHhhhhh----ccccCCCchhhhccccc
Confidence 456667788888889999999999 66777898 89999999998 58999999987665433
No 89
>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=92.75 E-value=0.041 Score=47.71 Aligned_cols=32 Identities=22% Similarity=0.554 Sum_probs=26.4
Q ss_pred CCCCccCcccccC--C-ccccCc------ccchHHHHHHHH
Q 013469 335 DDECAICREPMAK--A-KKLLCN------HLFHLACLRSWL 366 (442)
Q Consensus 335 ~~~C~IC~e~~~~--~-~~LpCg------H~FH~~Cl~~Wl 366 (442)
.-+|.||.+...+ + +-++|| |.||.+|+++|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 3479999999977 4 345787 999999999994
No 90
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.52 E-value=0.015 Score=58.28 Aligned_cols=47 Identities=28% Similarity=0.649 Sum_probs=40.0
Q ss_pred CCCCccCcccccC----CccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 335 DDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~~----~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
-..|+||.+.+.. ...+-|||..|..|+++|+.. ...||.||+.+..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~----~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT----KRKLPSCRRELPK 246 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH----HHHhHHHHhhhhh
Confidence 3579999988754 466789999999999999998 5899999998854
No 91
>PF04641 Rtf2: Rtf2 RING-finger
Probab=91.43 E-value=0.13 Score=50.28 Aligned_cols=49 Identities=20% Similarity=0.393 Sum_probs=38.3
Q ss_pred CCCCCccCcccccCCcc----ccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 334 YDDECAICREPMAKAKK----LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~----LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
....|||...+|....+ .||||+|...++++-- . ...||.|-.++...+
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~----~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-K----SKKCPVCGKPFTEED 164 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-c----cccccccCCccccCC
Confidence 45689999999965322 3999999999999863 2 368999999987654
No 92
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=91.42 E-value=0.1 Score=49.53 Aligned_cols=43 Identities=26% Similarity=0.609 Sum_probs=28.1
Q ss_pred CCccCccccc-CC-ccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 337 ECAICREPMA-KA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 337 ~C~IC~e~~~-~~-~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
.|--|..--. ++ ..+.|+|+||..|... .. ...||+||+++..
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~----~~--~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKA----SS--PDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhccc----CC--ccccccccceeee
Confidence 3665554433 22 2348999999999743 11 2499999998743
No 93
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.77 E-value=0.14 Score=50.07 Aligned_cols=43 Identities=35% Similarity=0.838 Sum_probs=36.3
Q ss_pred CCCCccCccccc----CCccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 335 DDECAICREPMA----KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 335 ~~~C~IC~e~~~----~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
+..|+||.+.+. .+..++|||.-|..|.+.-... +.+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~----~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE----GYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc----CCCCCcccc
Confidence 345999999864 4678899999999999998877 589999988
No 94
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.52 E-value=0.21 Score=54.72 Aligned_cols=51 Identities=24% Similarity=0.563 Sum_probs=38.5
Q ss_pred CCCCCccCcccccCCccc--cCc-----ccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 334 YDDECAICREPMAKAKKL--LCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~L--pCg-----H~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
++..|-||+.+-.+...| ||. -.-|.+|+-+|++.++ ...|-+|+.+..-+
T Consensus 11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~--~~kCdiChy~~~Fk 68 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSG--TKKCDICHYEYKFK 68 (1175)
T ss_pred cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCC--Ccceeeecceeeee
Confidence 457899999876544444 776 3479999999998653 47899999887544
No 95
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.36 E-value=0.19 Score=45.41 Aligned_cols=50 Identities=30% Similarity=0.730 Sum_probs=34.7
Q ss_pred CCccCccccc-------CCccccCcccchHHHHHHHHHhCCCCC-------CCccccccCCcCC
Q 013469 337 ECAICREPMA-------KAKKLLCNHLFHLACLRSWLDQGLNEM-------YSCPTCRKPLFVG 386 (442)
Q Consensus 337 ~C~IC~e~~~-------~~~~LpCgH~FH~~Cl~~Wl~~~~~~~-------~~CP~CR~~l~~~ 386 (442)
.|.||...-- .+.-..||.-||.-|+..||+.-...+ ..||.|..++..+
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 5888875432 234458999999999999997521111 3699999887543
No 96
>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=90.13 E-value=0.21 Score=34.74 Aligned_cols=40 Identities=25% Similarity=0.747 Sum_probs=22.7
Q ss_pred CccCcccccCCccc---cCcccchHHHHHHHHHhCCCCCCCcccc
Q 013469 338 CAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 338 C~IC~e~~~~~~~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
|.+|.+-...+.+= .|+=.+|..|++.++.... ...||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~--~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRS--NPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-S--S-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCC--CCCCcCC
Confidence 67788776665443 4888999999999998742 1379988
No 97
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=88.68 E-value=0.35 Score=47.10 Aligned_cols=48 Identities=25% Similarity=0.526 Sum_probs=36.1
Q ss_pred CCccCccccc-CC-ccc---cCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 337 ECAICREPMA-KA-KKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 337 ~C~IC~e~~~-~~-~~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
.|++|..+-- .| .++ ||||.-|.+|...-...+ ...||.|-..+....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g---~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG---PAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcC---CCCCCcccchhhhcc
Confidence 5899987642 22 222 999999999999998886 579999987764443
No 98
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.12 E-value=0.25 Score=47.29 Aligned_cols=50 Identities=26% Similarity=0.676 Sum_probs=36.8
Q ss_pred CCCCCccCcccccCCccc----cCc-----ccchHHHHHHHHHhCCC----CCCCccccccCC
Q 013469 334 YDDECAICREPMAKAKKL----LCN-----HLFHLACLRSWLDQGLN----EMYSCPTCRKPL 383 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~L----pCg-----H~FH~~Cl~~Wl~~~~~----~~~~CP~CR~~l 383 (442)
.|..|=||...=++...- ||- |.-|.+|+..|+..+.. +.-+||-|+...
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 456799999876654332 775 88999999999976422 134799999875
No 99
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.91 E-value=0.24 Score=53.01 Aligned_cols=38 Identities=26% Similarity=0.646 Sum_probs=30.3
Q ss_pred CCccCccccc----CCccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 337 ECAICREPMA----KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 337 ~C~IC~e~~~----~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
.|.||...+. .++.+-|||.-|+.|+..-.. .+|| |+.
T Consensus 13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp-~~~ 54 (861)
T KOG3161|consen 13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP-TKR 54 (861)
T ss_pred hchHHHHHHHHHhcCcccccccchHHHHHHHhHhh------ccCC-CCc
Confidence 5999988774 468889999999999977554 5899 544
No 100
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=87.84 E-value=0.17 Score=49.63 Aligned_cols=41 Identities=37% Similarity=0.815 Sum_probs=29.3
Q ss_pred CCccCcccccC-CccccCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 337 ECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 337 ~C~IC~e~~~~-~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
-|--|--++.. ++..||.|+||.+|-+. .. .+.||.|-..+
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~----dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARS--DS----DKICPLCDDRV 133 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhc--Cc----cccCcCcccHH
Confidence 46666655543 46679999999999754 22 36999997665
No 101
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.75 E-value=0.17 Score=47.65 Aligned_cols=40 Identities=38% Similarity=0.708 Sum_probs=31.7
Q ss_pred CCccCcccccCCccccCccc-chHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 337 ECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 337 ~C~IC~e~~~~~~~LpCgH~-FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
.|-.|.+.-.....+||.|. +|..|-.+ -..||+|+.+..
T Consensus 160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGEREATVLLLPCRHLCLCGICDES--------LRICPICRSPKT 200 (207)
T ss_pred cceecCcCCceEEeecccceEeccccccc--------CccCCCCcChhh
Confidence 39999998777677899987 88999654 257999998653
No 102
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=87.05 E-value=0.67 Score=47.46 Aligned_cols=35 Identities=29% Similarity=0.496 Sum_probs=31.1
Q ss_pred CCCCCccCcccccCCccccCcccchHHHHHHHHHh
Q 013469 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQ 368 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~ 368 (442)
++..|+||-.-+++|..|||+|..|..|-++-+.+
T Consensus 3 eelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 3 EELKCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred ccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 35679999999999999999999999999876655
No 103
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=86.38 E-value=0.23 Score=57.15 Aligned_cols=44 Identities=25% Similarity=0.511 Sum_probs=38.4
Q ss_pred CCCccCccccc-CCccccCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 336 DECAICREPMA-KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 336 ~~C~IC~e~~~-~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
..|.||.+.+. .+-..-|||-+|..|...|+.+ +..||+|+...
T Consensus 1154 ~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~----~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA----SSRCPICKSIK 1198 (1394)
T ss_pred cchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH----hccCcchhhhh
Confidence 47999999998 5667799999999999999999 68999998543
No 104
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.98 E-value=0.49 Score=48.10 Aligned_cols=45 Identities=22% Similarity=0.539 Sum_probs=34.8
Q ss_pred CCCccCccccc---CCccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 336 DECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 336 ~~C~IC~e~~~---~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
..|||=.+.-. .|.+|.|||+-.++-+.+.-+.+.. ...||.|=.
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~-sfKCPYCP~ 382 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQ-SFKCPYCPV 382 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCe-eeeCCCCCc
Confidence 47999777653 5799999999999999987766422 368999943
No 105
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.60 E-value=0.26 Score=43.93 Aligned_cols=30 Identities=30% Similarity=0.662 Sum_probs=23.9
Q ss_pred hhccCCCCCccCcccccCC---ccccCcccchH
Q 013469 330 ELRAYDDECAICREPMAKA---KKLLCNHLFHL 359 (442)
Q Consensus 330 el~~~~~~C~IC~e~~~~~---~~LpCgH~FH~ 359 (442)
.+.+...+|.||+|++... .+|||--+||+
T Consensus 172 VL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 172 VLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 3445567899999999865 56899999996
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.57 E-value=0.47 Score=46.21 Aligned_cols=35 Identities=29% Similarity=0.600 Sum_probs=26.2
Q ss_pred CcccchHHHHHHHHHhCC---------CCCCCccccccCCcCCC
Q 013469 353 CNHLFHLACLRSWLDQGL---------NEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 353 CgH~FH~~Cl~~Wl~~~~---------~~~~~CP~CR~~l~~~~ 387 (442)
|....|.+|+-+|+...+ .++.+||+||+.++-.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 557899999999975432 12579999999986654
No 107
>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=85.12 E-value=0.33 Score=34.31 Aligned_cols=44 Identities=32% Similarity=0.681 Sum_probs=25.2
Q ss_pred CCccCcccccCCccccCc-ccchHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 337 ECAICREPMAKAKKLLCN-HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 337 ~C~IC~e~~~~~~~LpCg-H~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
.|--|+-. +.-...|+ |..|..|+...+.+ +..||+|..+++.+
T Consensus 4 nCKsCWf~--~k~Li~C~dHYLCl~CLt~ml~~----s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFA--NKGLIKCSDHYLCLNCLTLMLSR----SDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S----SSEEE-SS-EEEHHHHHHT-SS----SSEETTTTEE----
T ss_pred cChhhhhc--CCCeeeecchhHHHHHHHHHhcc----ccCCCcccCcCccc
Confidence 36666643 23344787 99999999999988 68999999988754
No 108
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=84.71 E-value=0.29 Score=53.29 Aligned_cols=50 Identities=26% Similarity=0.557 Sum_probs=41.6
Q ss_pred CCCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
..+|+||...+.++..+.|.|.|+..|+..-+..... ...||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~-~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKG-PKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeeccchhhhhHHHHhhhhhceeeccCc-cccchhhhhhhhh
Confidence 4579999999999999999999999999887766433 4789999976643
No 109
>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=84.68 E-value=0.52 Score=44.66 Aligned_cols=47 Identities=28% Similarity=0.641 Sum_probs=35.3
Q ss_pred CCCCCccCccccc--CCccc---c-CcccchHHHHHHHHHhCCCCCCCcc--ccccCC
Q 013469 334 YDDECAICREPMA--KAKKL---L-CNHLFHLACLRSWLDQGLNEMYSCP--TCRKPL 383 (442)
Q Consensus 334 ~~~~C~IC~e~~~--~~~~L---p-CgH~FH~~Cl~~Wl~~~~~~~~~CP--~CR~~l 383 (442)
.|..||+|..+-- ...++ | |-|.-|.+|.+.-+..+ +..|| -|..-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~G---pAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRG---PAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCC---CCCCCCccHHHHH
Confidence 3668999997742 22333 5 99999999999999886 57899 785433
No 110
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=82.40 E-value=0.89 Score=45.24 Aligned_cols=43 Identities=28% Similarity=0.549 Sum_probs=32.9
Q ss_pred CCCccCcccccCCcc-ccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 336 DECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~-LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
.+|+||.+.+..|.. =+=||.-|..|=.+ . ...||.||.++..
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~----~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRTK---V----SNKCPTCRLPIGN 92 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhhh---h----cccCCcccccccc
Confidence 479999999988743 24479999999642 2 4799999998853
No 111
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=81.81 E-value=0.8 Score=50.01 Aligned_cols=26 Identities=27% Similarity=0.648 Sum_probs=22.6
Q ss_pred ccccCcccchHHHHHHHHHhCCCCCCCccc
Q 013469 349 KKLLCNHLFHLACLRSWLDQGLNEMYSCPT 378 (442)
Q Consensus 349 ~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~ 378 (442)
....|||+-|.+|.+.|++. +..||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~----gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRT----GDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhc----CCcCCC
Confidence 34589999999999999998 479986
No 112
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=80.88 E-value=0.94 Score=44.96 Aligned_cols=49 Identities=22% Similarity=0.527 Sum_probs=37.2
Q ss_pred CCCCccCcccccC----CccccCc-----ccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 335 DDECAICREPMAK----AKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~~----~~~LpCg-----H~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
+..|-||.++... +...||. +..|+.|+..|..... ...|..|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~--~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKG--NITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcccc--Ceeeeccccccee
Confidence 4689999997754 3456776 6679999999998432 5799999886644
No 113
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.26 E-value=1.8 Score=47.65 Aligned_cols=50 Identities=16% Similarity=0.150 Sum_probs=35.6
Q ss_pred CCCCCccCcccccCC----cccc---CcccchHHHHHHHHHhC--CCCCCCccccccCC
Q 013469 334 YDDECAICREPMAKA----KKLL---CNHLFHLACLRSWLDQG--LNEMYSCPTCRKPL 383 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~----~~Lp---CgH~FH~~Cl~~Wl~~~--~~~~~~CP~CR~~l 383 (442)
..++|.+|.-++..+ -..| |+|.+|..||.+|.++- ...+..|+.|..-+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 456788888877662 2334 99999999999999863 22245678887655
No 114
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=76.53 E-value=0.93 Score=32.61 Aligned_cols=46 Identities=26% Similarity=0.576 Sum_probs=22.8
Q ss_pred CCCccCcccccCCccc-cCcccchHHHHHHHHHhCC-CCCCCccccccC
Q 013469 336 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGL-NEMYSCPTCRKP 382 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~-~~~~~CP~CR~~ 382 (442)
..|+|....++.|.+. .|.|.-|. =+..|++... ...-.||.|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CF-Dl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCF-DLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--E-EHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceE-CHHHHHHHhhccCCeECcCCcCc
Confidence 3699999999888665 89998442 2566776531 113479999874
No 115
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=72.54 E-value=2.1 Score=47.17 Aligned_cols=36 Identities=25% Similarity=0.582 Sum_probs=28.5
Q ss_pred cCCCCCccCccccc-------CCccccCcccchHHHHHHHHHh
Q 013469 333 AYDDECAICREPMA-------KAKKLLCNHLFHLACLRSWLDQ 368 (442)
Q Consensus 333 ~~~~~C~IC~e~~~-------~~~~LpCgH~FH~~Cl~~Wl~~ 368 (442)
..++.|.-|.++.. ..+.+.|||.||+.|+..-..+
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~ 824 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR 824 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh
Confidence 34668999998864 2356799999999999887776
No 116
>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 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=71.21 E-value=0.32 Score=37.47 Aligned_cols=41 Identities=27% Similarity=0.676 Sum_probs=24.0
Q ss_pred CCCccCcccccCCccccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
..|+.|..+++... ||..|..|-...... ..||.|.+++..
T Consensus 2 ~~CP~C~~~L~~~~----~~~~C~~C~~~~~~~-----a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYHCEACQKDYKKE-----AFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET----TEEEETTT--EEEEE-----EE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC----CEEECccccccceec-----ccCCCcccHHHH
Confidence 47999999976533 788888887654433 689999998743
No 118
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.74 E-value=4.1 Score=42.12 Aligned_cols=35 Identities=29% Similarity=0.640 Sum_probs=26.3
Q ss_pred CCCCccCcccccCC----ccccCcccchHHHHHHHHHhC
Q 013469 335 DDECAICREPMAKA----KKLLCNHLFHLACLRSWLDQG 369 (442)
Q Consensus 335 ~~~C~IC~e~~~~~----~~LpCgH~FH~~Cl~~Wl~~~ 369 (442)
..+|.||..+...+ ....|+|.||.+|.++-++.+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 56899999443332 235799999999999988754
No 119
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=67.38 E-value=2.2 Score=46.03 Aligned_cols=41 Identities=27% Similarity=0.698 Sum_probs=26.0
Q ss_pred CCCCCccCccc-----cc-C--CccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 334 YDDECAICREP-----MA-K--AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 334 ~~~~C~IC~e~-----~~-~--~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
.+..|.+|... |+ + -+...||++||..|++. + +..||.|-+
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~---s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----K---SPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----c---CCCCCchHH
Confidence 35578888322 11 1 13358999999999754 2 345999944
No 120
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=65.46 E-value=3 Score=38.98 Aligned_cols=45 Identities=22% Similarity=0.597 Sum_probs=35.9
Q ss_pred CCCccCcccccCCc-cccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 336 DECAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 336 ~~C~IC~e~~~~~~-~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
..|.+|.+-.-.++ .-.||=.+|..|+...+++ ...||.|..-+.
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~----~~~cphc~d~w~ 227 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQR----RDICPHCGDLWT 227 (235)
T ss_pred HHHhHhHHHhheeeccCcccchhhhHHHHHHhcc----cCcCCchhcccC
Confidence 47999998765543 4588889999999999998 589999965443
No 121
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.54 E-value=5.3 Score=42.09 Aligned_cols=36 Identities=31% Similarity=0.560 Sum_probs=31.3
Q ss_pred CCCCCccCcccccC-CccccCcccchHHHHHHHHHhC
Q 013469 334 YDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQG 369 (442)
Q Consensus 334 ~~~~C~IC~e~~~~-~~~LpCgH~FH~~Cl~~Wl~~~ 369 (442)
.+.+|-||.+.... ...+.|||.||..|....+.++
T Consensus 69 ~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 69 GDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred ccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhhe
Confidence 45689999999885 6778999999999999998875
No 122
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=63.21 E-value=4.5 Score=44.52 Aligned_cols=38 Identities=24% Similarity=0.579 Sum_probs=27.0
Q ss_pred CCccCcccccCCcc--ccCcccchHHHHHHHHHhCCCCCCCccc
Q 013469 337 ECAICREPMAKAKK--LLCNHLFHLACLRSWLDQGLNEMYSCPT 378 (442)
Q Consensus 337 ~C~IC~e~~~~~~~--LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~ 378 (442)
.|.+|......... --|||.-|.+|+++|+... ..||.
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~----s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKA----SPCAK 820 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhcC----CCCcc
Confidence 46677665543222 2599999999999999984 55655
No 123
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=62.36 E-value=7.3 Score=38.59 Aligned_cols=52 Identities=23% Similarity=0.467 Sum_probs=36.6
Q ss_pred CCCCCccCccccc-----------------CC--ccccCcccchHHHHHHHHHhCCCC-----CCCccccccCCcC
Q 013469 334 YDDECAICREPMA-----------------KA--KKLLCNHLFHLACLRSWLDQGLNE-----MYSCPTCRKPLFV 385 (442)
Q Consensus 334 ~~~~C~IC~e~~~-----------------~~--~~LpCgH~FH~~Cl~~Wl~~~~~~-----~~~CP~CR~~l~~ 385 (442)
.+.+|++|+..-. .+ ..-||||+--..-.+-|-+...+. +..||.|-+.+..
T Consensus 340 ~~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 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 4678999997532 11 223999998888888898765332 4679999887643
No 124
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=60.52 E-value=9.3 Score=38.22 Aligned_cols=46 Identities=30% Similarity=0.579 Sum_probs=34.0
Q ss_pred CCCccCcccccCCc--c--ccCcccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 336 DECAICREPMAKAK--K--LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 336 ~~C~IC~e~~~~~~--~--LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
..|+||-++..... . -||||.-|..|+..-... ..+||.||.+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~----~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG----DGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhccccc----CCCCCccCCcccc
Confidence 57999999885432 2 378888888888776655 5899999966543
No 125
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.33 E-value=6.2 Score=37.80 Aligned_cols=33 Identities=15% Similarity=0.242 Sum_probs=30.1
Q ss_pred CCCccCcccccCCccccCcccchHHHHHHHHHh
Q 013469 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQ 368 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~LpCgH~FH~~Cl~~Wl~~ 368 (442)
+-|+.|+.+..+|+..|=||+|++.||-+.+..
T Consensus 44 dcCsLtLqPc~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 44 DCCSLTLQPCRDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred ceeeeecccccCCccCCCCeeeeHHHHHHHHHH
Confidence 569999999999999999999999999988754
No 126
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.02 E-value=7.2 Score=37.52 Aligned_cols=47 Identities=15% Similarity=0.207 Sum_probs=35.9
Q ss_pred CCCCccCcccccCCc----cccCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 335 DDECAICREPMAKAK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~----~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
...|+|-.-+|.... ..+|||+|-..-+++-= ..+|++|.+.....+
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik------as~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK------ASVCHVCGAAYQEDD 161 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHhh------hccccccCCcccccC
Confidence 457999888887653 34999999988876632 369999999886654
No 127
>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=58.74 E-value=5.9 Score=25.68 Aligned_cols=35 Identities=34% Similarity=0.883 Sum_probs=25.0
Q ss_pred CCccCcccccCC-ccc-cCcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 337 ECAICREPMAKA-KKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 337 ~C~IC~e~~~~~-~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
.|..|.+.+... ..+ .=+..||..| ..|..|+.++
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~C------------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPEC------------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccC------------CCCcccCCcC
Confidence 378888887664 232 3468899888 5888888765
No 128
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.90 E-value=11 Score=37.34 Aligned_cols=47 Identities=28% Similarity=0.588 Sum_probs=39.2
Q ss_pred CCCCCccCcccccCCccc-cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~L-pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
..+.|-||...+.-+.+- -|.|-|+..|.+.|... ...||-||....
T Consensus 104 ~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~----~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAM----GNDCPDCRGKIS 151 (324)
T ss_pred CccceeeeeeeEEecccccCceeeeeecCCchhhhh----hhccchhhcCcC
Confidence 467899999988766554 49999999999999998 589999997663
No 129
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=56.41 E-value=5.5 Score=37.32 Aligned_cols=39 Identities=31% Similarity=0.762 Sum_probs=27.5
Q ss_pred CCCCCccCccc-----ccCC---ccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 334 YDDECAICREP-----MAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 334 ~~~~C~IC~e~-----~~~~---~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
.+..|-+|.++ |+.. +--.|+-+||..|..+ ..||.|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcHh
Confidence 46789999864 2221 2237999999999752 47999954
No 130
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.83 E-value=7.3 Score=38.07 Aligned_cols=34 Identities=26% Similarity=0.614 Sum_probs=29.5
Q ss_pred CCCccCcccccCCccccCc----ccchHHHHHHHHHhC
Q 013469 336 DECAICREPMAKAKKLLCN----HLFHLACLRSWLDQG 369 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~LpCg----H~FH~~Cl~~Wl~~~ 369 (442)
..|.+|.|.+++.....|- |.||..|-++-++++
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 4699999999998777774 999999999999875
No 131
>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=54.70 E-value=8.9 Score=27.60 Aligned_cols=38 Identities=32% Similarity=0.824 Sum_probs=29.3
Q ss_pred CccCcccccCCccc--cCcccchHHHHHHHHHhCCCCCCCccccccCCcCCC
Q 013469 338 CAICREPMAKAKKL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (442)
Q Consensus 338 C~IC~e~~~~~~~L--pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (442)
|.-|.+.+...... .-|..||.+| ..|-.|++++....
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~C------------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPEC------------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTT------------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccc------------cccCCCCCccCCCe
Confidence 67788888765444 7889999988 58999999886553
No 132
>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=53.55 E-value=1.4 Score=31.25 Aligned_cols=45 Identities=22% Similarity=0.620 Sum_probs=28.8
Q ss_pred CCccCcccccCCccc---cCcccchHHHHHHHHHhC--CCCCCCcccccc
Q 013469 337 ECAICREPMAKAKKL---LCNHLFHLACLRSWLDQG--LNEMYSCPTCRK 381 (442)
Q Consensus 337 ~C~IC~e~~~~~~~L---pCgH~FH~~Cl~~Wl~~~--~~~~~~CP~CR~ 381 (442)
.|.||...-.....+ .|+..||..|+..=.... ....-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 388898854444444 688999999986543311 111468998864
No 133
>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=52.90 E-value=4.7 Score=41.22 Aligned_cols=32 Identities=25% Similarity=0.528 Sum_probs=0.0
Q ss_pred ccccCcccchHHHHHHHHHhCC--CCCCCccccccCC
Q 013469 349 KKLLCNHLFHLACLRSWLDQGL--NEMYSCPTCRKPL 383 (442)
Q Consensus 349 ~~LpCgH~FH~~Cl~~Wl~~~~--~~~~~CP~CR~~l 383 (442)
+-+.|||++-.+ .|-.++. ....+||+||+.-
T Consensus 305 VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 305 VYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp -------------------------------------
T ss_pred eeccccceeeec---ccccccccccccccCCCccccC
Confidence 447899986553 5654321 1247999999754
No 134
>PLN02400 cellulose synthase
Probab=50.02 E-value=30 Score=40.20 Aligned_cols=48 Identities=17% Similarity=0.479 Sum_probs=31.9
Q ss_pred CCCCCccCcccccCCc----cc---cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKAK----KL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~----~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
....|-||-|+..... -. .|+-=-|+.|.+- ++ +..++.||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEY--ER-keGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEY--ER-KDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhhe--ec-ccCCccCcccCCccc
Confidence 4568999999975321 12 4665588999832 22 122689999998764
No 135
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=49.57 E-value=9.7 Score=37.80 Aligned_cols=44 Identities=23% Similarity=0.489 Sum_probs=32.5
Q ss_pred CCCccCcccc---cCCccccCcccchHHHHHHHHHhCCCCCCCccccc
Q 013469 336 DECAICREPM---AKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (442)
Q Consensus 336 ~~C~IC~e~~---~~~~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR 380 (442)
..||+=.+.- ..|..+.|||+.-..-++..-+.+. ....||.|-
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~-~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGV-LSFKCPYCP 383 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCc-EEeeCCCCC
Confidence 4688755543 3578899999999999988655543 357899993
No 136
>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=48.80 E-value=11 Score=28.67 Aligned_cols=13 Identities=31% Similarity=0.764 Sum_probs=9.6
Q ss_pred cchHHHHHHHHHh
Q 013469 356 LFHLACLRSWLDQ 368 (442)
Q Consensus 356 ~FH~~Cl~~Wl~~ 368 (442)
-||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999976
No 137
>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=47.35 E-value=11 Score=23.30 Aligned_cols=21 Identities=24% Similarity=0.610 Sum_probs=11.0
Q ss_pred CCccCcccccCCccc-c-Ccccc
Q 013469 337 ECAICREPMAKAKKL-L-CNHLF 357 (442)
Q Consensus 337 ~C~IC~e~~~~~~~L-p-CgH~F 357 (442)
.|+-|........+. | |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 466666665433222 3 66655
No 138
>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=47.15 E-value=5.4 Score=39.45 Aligned_cols=45 Identities=20% Similarity=0.363 Sum_probs=19.7
Q ss_pred CCCCCccCcccccCCcccc-----CcccchHHHHHHHHHhCCCCCCCccccccC
Q 013469 334 YDDECAICREPMAKAKKLL-----CNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~Lp-----CgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (442)
....|++|-..-.-..... --|.+|.-|-.+|-.. ...||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~----R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV----RIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE------TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec----CCCCcCCCCC
Confidence 3468999998753211110 1356777788888766 5799999654
No 139
>PLN02189 cellulose synthase
Probab=46.77 E-value=23 Score=40.90 Aligned_cols=48 Identities=19% Similarity=0.454 Sum_probs=32.7
Q ss_pred CCCCCccCcccccCC----ccc---cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKA----KKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~----~~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
....|.||-|+.... .-. .|+---|+.|.+-=-+.+ ++.||.|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg---~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREG---TQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcC---CccCcccCCchh
Confidence 456899999997532 112 466668999984322222 689999998764
No 140
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=44.79 E-value=30 Score=40.06 Aligned_cols=48 Identities=17% Similarity=0.468 Sum_probs=32.9
Q ss_pred CCCCCccCcccccCCc----cc---cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKAK----KL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~----~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
....|-||-|+..... -. .|+---|+.|.+-=.+.+ ++.||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g---~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEG---NQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcC---CccCCccCCchh
Confidence 4568999999975321 12 566668999984322222 689999998764
No 141
>PLN02436 cellulose synthase A
Probab=44.23 E-value=26 Score=40.55 Aligned_cols=48 Identities=19% Similarity=0.477 Sum_probs=32.6
Q ss_pred CCCCCccCcccccCC---c-cc---cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKA---K-KL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~---~-~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
....|-||-|+.... . -. .|+---|+.|.+-=-+.+ ++.||.|+....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg---~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREG---NQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcC---CccCcccCCchh
Confidence 356899999997432 1 12 466668999984322222 689999998764
No 142
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=44.20 E-value=29 Score=40.24 Aligned_cols=48 Identities=21% Similarity=0.476 Sum_probs=32.2
Q ss_pred CCCCCccCcccccCCc----cc---cCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKAK----KL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~----~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
....|-||-|+..... -. .||-=-|+.|.+- =++. .++.||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEY-Er~e--G~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEY-ERKD--GNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhh-hhhc--CCccCCccCCchh
Confidence 3568999999975321 12 4666689999843 2222 2689999998764
No 143
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=43.96 E-value=40 Score=26.56 Aligned_cols=48 Identities=19% Similarity=0.423 Sum_probs=20.3
Q ss_pred CCCCCccCcccccCC---c-c---ccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKA---K-K---LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~---~-~---LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
....|-||-++.... . . -.|+---|+.|..-=.+.+ .+.||.|+.+..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg---~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEG---NQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS----SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcC---cccccccCCCcc
Confidence 466899999987432 1 1 2577777899986544444 689999997653
No 144
>PRK12495 hypothetical protein; Provisional
Probab=43.35 E-value=99 Score=29.36 Aligned_cols=41 Identities=15% Similarity=0.284 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCChhhhccCCCCCccCccccc
Q 013469 302 IIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMA 346 (442)
Q Consensus 302 l~~r~~~~~~~r~~~~~~~~~~~~~~~~el~~~~~~C~IC~e~~~ 346 (442)
|.+|...-...|+..++|.+.+-.... .....|..|-.++-
T Consensus 13 LREKye~d~~~R~~~~~ma~lL~~gat----msa~hC~~CG~PIp 53 (226)
T PRK12495 13 LREKYEQDEQKREATERMSELLLQGAT----MTNAHCDECGDPIF 53 (226)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHhhcc----cchhhcccccCccc
Confidence 334444334455566665543322111 23557999988754
No 145
>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=42.45 E-value=8.3 Score=39.52 Aligned_cols=51 Identities=24% Similarity=0.492 Sum_probs=0.0
Q ss_pred CCCCccCccccc-----------------CC--ccccCcccchHHHHHHHHHhCCCC-----CCCccccccCCcC
Q 013469 335 DDECAICREPMA-----------------KA--KKLLCNHLFHLACLRSWLDQGLNE-----MYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~-----------------~~--~~LpCgH~FH~~Cl~~Wl~~~~~~-----~~~CP~CR~~l~~ 385 (442)
+.+|++|+..-. .+ .--||||+--.+..+-|-+-..+. +..||-|-.++..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 678999997631 01 224999999999999998765332 3579999888753
No 146
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=41.91 E-value=21 Score=26.09 Aligned_cols=30 Identities=17% Similarity=0.473 Sum_probs=22.4
Q ss_pred CCCCCccCcccccC--Ccc--ccCcccchHHHHH
Q 013469 334 YDDECAICREPMAK--AKK--LLCNHLFHLACLR 363 (442)
Q Consensus 334 ~~~~C~IC~e~~~~--~~~--LpCgH~FH~~Cl~ 363 (442)
.+..|++|-+++.+ ... -.||-.+|+.|..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 35689999999953 222 2699999999953
No 147
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=39.55 E-value=11 Score=37.40 Aligned_cols=45 Identities=22% Similarity=0.471 Sum_probs=26.0
Q ss_pred CCCCccCcccccCC--------------ccccCcccchHHHHHHHHHhC--CCCCCCccccccC
Q 013469 335 DDECAICREPMAKA--------------KKLLCNHLFHLACLRSWLDQG--LNEMYSCPTCRKP 382 (442)
Q Consensus 335 ~~~C~IC~e~~~~~--------------~~LpCgH~FH~~Cl~~Wl~~~--~~~~~~CP~CR~~ 382 (442)
..+|++=+..+.-| +-|.|||+-.. ..|=.+. .++...||+||..
T Consensus 290 RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~---H~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 290 RPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGY---HNWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred CCCCCcccceeecccccccccccccCCeEEEeccccccc---cccccccccCcccCcCCeeeee
Confidence 44677777665322 33689987322 1354332 1224689999964
No 148
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.78 E-value=15 Score=36.17 Aligned_cols=46 Identities=24% Similarity=0.456 Sum_probs=36.1
Q ss_pred CCCCccCcccccC------Ccccc--------CcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 335 DDECAICREPMAK------AKKLL--------CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 335 ~~~C~IC~e~~~~------~~~Lp--------CgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
+..|.||...+.. +..+. |||.-|..|+..-+.+. ...||.||...
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~---~~~cp~~~~~~ 266 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQA---GIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHh---hhcCCccccee
Confidence 4579999988762 34455 99999999999988874 36899998753
No 149
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=38.76 E-value=15 Score=35.73 Aligned_cols=49 Identities=31% Similarity=0.594 Sum_probs=34.0
Q ss_pred CCCCccCcccccCC-------ccccCcccchHHHHHHHHHhC-----CCCCCCccccccCC
Q 013469 335 DDECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQG-----LNEMYSCPTCRKPL 383 (442)
Q Consensus 335 ~~~C~IC~e~~~~~-------~~LpCgH~FH~~Cl~~Wl~~~-----~~~~~~CP~CR~~l 383 (442)
...|-+|.+++.+. ..-.|+-++|..|+..-+... .+....||.|++.+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 35899999998432 223588899999999843332 12246899999855
No 150
>PLN02195 cellulose synthase A
Probab=35.93 E-value=67 Score=37.04 Aligned_cols=48 Identities=23% Similarity=0.313 Sum_probs=32.9
Q ss_pred CCCCCccCcccccCCc-------cccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 334 YDDECAICREPMAKAK-------KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~-------~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
....|.||-|+....+ .-.|+---|+.|.+- =++. .++.||.|+....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyey-er~e--g~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEY-EIKE--GRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhh-hhhc--CCccCCccCCccc
Confidence 4568999999875321 125777789999843 2222 2689999998765
No 151
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=35.64 E-value=11 Score=33.40 Aligned_cols=30 Identities=33% Similarity=0.562 Sum_probs=22.4
Q ss_pred chHHHHHHHHHhCCCCCCCccccccCCcCC
Q 013469 357 FHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (442)
Q Consensus 357 FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (442)
||..|+++-|.+-+...-.||.|+..-...
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~ 31 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQ 31 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCC
Confidence 799999988876544456899998765443
No 152
>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=35.09 E-value=14 Score=27.91 Aligned_cols=31 Identities=16% Similarity=0.489 Sum_probs=16.3
Q ss_pred CCCCccCcccccCCcc----ccCcccchHHHHHHH
Q 013469 335 DDECAICREPMAKAKK----LLCNHLFHLACLRSW 365 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~----LpCgH~FH~~Cl~~W 365 (442)
...|.+|...|.--.+ -.||++||..|....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 4689999999965322 279999999997543
No 153
>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=33.85 E-value=46 Score=27.79 Aligned_cols=48 Identities=27% Similarity=0.614 Sum_probs=30.3
Q ss_pred CCCCCccCcccccCC--------ccccC---cccchHHHHHHHHHhC-----CCCCCCcccccc
Q 013469 334 YDDECAICREPMAKA--------KKLLC---NHLFHLACLRSWLDQG-----LNEMYSCPTCRK 381 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~--------~~LpC---gH~FH~~Cl~~Wl~~~-----~~~~~~CP~CR~ 381 (442)
.+..|--|+..-.+. +.-.| .=.||..||..+.... ....-.||.||.
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 355677777643221 22355 5669999999887653 122467999986
No 154
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=31.82 E-value=20 Score=35.86 Aligned_cols=44 Identities=16% Similarity=0.397 Sum_probs=27.6
Q ss_pred CCCCCccCcccccCCc-cc--cCc--ccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 334 YDDECAICREPMAKAK-KL--LCN--HLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~-~L--pCg--H~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
....|++|-..-.... ++ .=| |..|.-|-..|-.. ...||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~----R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV----RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc----CccCCCCCC
Confidence 4578999998743211 11 112 44566677788766 578999975
No 155
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=31.05 E-value=54 Score=27.77 Aligned_cols=45 Identities=22% Similarity=0.483 Sum_probs=26.2
Q ss_pred CCCCCccCcccccCC-----ccccCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 334 YDDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~-----~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
.+..|++|..++.-. .-..|+|..|..|-.. ..+...-.|.+|+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~---~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY---SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE---TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc---CCCCCCEEChhhHH
Confidence 466899999987421 2237889998888543 21111235888764
No 156
>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=29.70 E-value=38 Score=24.30 Aligned_cols=31 Identities=19% Similarity=0.613 Sum_probs=22.9
Q ss_pred CCCccCcccccCCcc----ccCcccchHHHHHHHH
Q 013469 336 DECAICREPMAKAKK----LLCNHLFHLACLRSWL 366 (442)
Q Consensus 336 ~~C~IC~e~~~~~~~----LpCgH~FH~~Cl~~Wl 366 (442)
..|.+|...|....+ -.||++||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 479999988865322 3799999999976543
No 157
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=28.70 E-value=33 Score=34.31 Aligned_cols=44 Identities=18% Similarity=0.396 Sum_probs=27.7
Q ss_pred CCCCccCcccccCCcc-c---cCc--ccchHHHHHHHHHhCCCCCCCccccccC
Q 013469 335 DDECAICREPMAKAKK-L---LCN--HLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~-L---pCg--H~FH~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (442)
...|++|-..-..... . .=| |..|.-|-..|-.. ...||.|-.+
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~----R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV----RVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc----CccCCCCCCC
Confidence 4589999987532111 0 112 44566677788766 5799999764
No 158
>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 KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=27.12 E-value=28 Score=35.02 Aligned_cols=13 Identities=15% Similarity=0.774 Sum_probs=10.2
Q ss_pred CCCCCccCccccc
Q 013469 334 YDDECAICREPMA 346 (442)
Q Consensus 334 ~~~~C~IC~e~~~ 346 (442)
.++.|++|-|...
T Consensus 14 l~ElCPVCGDkVS 26 (475)
T KOG4218|consen 14 LGELCPVCGDKVS 26 (475)
T ss_pred cccccccccCccc
Confidence 4678999998764
No 160
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.10 E-value=36 Score=27.57 Aligned_cols=13 Identities=31% Similarity=0.910 Sum_probs=11.6
Q ss_pred chHHHHHHHHHhC
Q 013469 357 FHLACLRSWLDQG 369 (442)
Q Consensus 357 FH~~Cl~~Wl~~~ 369 (442)
||+.|+..|....
T Consensus 43 FCRNCLs~Wy~ea 55 (104)
T COG3492 43 FCRNCLSNWYREA 55 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999864
No 161
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=26.28 E-value=29 Score=22.45 Aligned_cols=10 Identities=40% Similarity=1.248 Sum_probs=7.8
Q ss_pred CCCccccccC
Q 013469 373 MYSCPTCRKP 382 (442)
Q Consensus 373 ~~~CP~CR~~ 382 (442)
...||.|..+
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 4799999763
No 162
>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=25.91 E-value=21 Score=25.75 Aligned_cols=12 Identities=42% Similarity=0.896 Sum_probs=5.9
Q ss_pred CCccccccCCcC
Q 013469 374 YSCPTCRKPLFV 385 (442)
Q Consensus 374 ~~CP~CR~~l~~ 385 (442)
..||+|.+++..
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 389999887754
No 163
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=25.62 E-value=31 Score=41.56 Aligned_cols=50 Identities=38% Similarity=0.715 Sum_probs=39.7
Q ss_pred CCCCCccCcccccCCcccc---CcccchHHHHHHHHHhCCCCCCCccccccCC
Q 013469 334 YDDECAICREPMAKAKKLL---CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (442)
Q Consensus 334 ~~~~C~IC~e~~~~~~~Lp---CgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (442)
.+..|.+|+.....-..++ |.-.||..|++.-+.......-.||.||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3557999999877755554 5677999999999988766667999998765
No 164
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=24.57 E-value=34 Score=37.84 Aligned_cols=44 Identities=23% Similarity=0.484 Sum_probs=27.3
Q ss_pred cCCCCCccCcccccCCc-------------cccCcccchHHHHHHHHHhCCCCCCCccccccCCc
Q 013469 333 AYDDECAICREPMAKAK-------------KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (442)
Q Consensus 333 ~~~~~C~IC~e~~~~~~-------------~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (442)
+++..|+-|...|..+. ...|.|.-|..=| +....||.|.....
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EI--------s~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEI--------SKYNCCPLCHSMES 1185 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEccccccccccccc--------cccccCccccChhh
Confidence 34567887777765321 1257787665433 22678999987653
No 165
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=24.05 E-value=32 Score=37.16 Aligned_cols=30 Identities=33% Similarity=0.657 Sum_probs=23.3
Q ss_pred CCCccCccccc-------------CCccccCcccchHHHHHHH
Q 013469 336 DECAICREPMA-------------KAKKLLCNHLFHLACLRSW 365 (442)
Q Consensus 336 ~~C~IC~e~~~-------------~~~~LpCgH~FH~~Cl~~W 365 (442)
..|+||.|.|+ +++.+.=|-+||..|+..-
T Consensus 514 ~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 514 ASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred cCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 46999999986 3455567899999998653
No 166
>TIGR02921 PEP_integral PEP-CTERM family integral membrane protein. Members of this protein family, found in three different species so far, have a PEP-CTERM sequence at the carboxyl-terminus (see model TIGR02595), but are unusual among PEP-CTERM proteins in having multiple predicted transmembrane segments. The function is unknown. It is proposed that a member of the EpsH family, to be designated exosortase (see TIGR02602), recognizes and cleaves PEP-CTERM proteins in a manner analogous to the cleavage of LPXTG proteins by sortase (see Haft, et al., 2006).
Probab=23.96 E-value=3.8e+02 Score=29.55 Aligned_cols=31 Identities=23% Similarity=0.366 Sum_probs=24.8
Q ss_pred HHhcccCcHHHHHHHHHHHHHHHHHHHHhccc
Q 013469 81 TIFFGELYPAETRKFVERLINYVIYKGTFLPL 112 (442)
Q Consensus 81 ~lfFG~LR~~E~e~l~er~~~~~~~k~~fl~~ 112 (442)
.-||--|-.+|.||+-+- |||+.|...|+.+
T Consensus 168 ~gff~l~~~i~~~~~~~i-~nyil~~~a~i~g 198 (952)
T TIGR02921 168 AGFFELLEEIEFEHLGDI-FNYILFHTAFICG 198 (952)
T ss_pred hHHHHHHHHHHHHhHHHH-HHHHHHHHHHHHH
Confidence 346878888999999885 6999998777765
No 167
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.41 E-value=36 Score=35.17 Aligned_cols=42 Identities=21% Similarity=0.500 Sum_probs=29.5
Q ss_pred CCCCCccCcccccC---C--ccccCcccchHHHHHHHHHhCCCCCCCcccc
Q 013469 334 YDDECAICREPMAK---A--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 334 ~~~~C~IC~e~~~~---~--~~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
.-..|+.|.-..+. + ..=.|||-||..|..+|... +..|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~----~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH----NGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhC----CccccCc
Confidence 35679999876542 2 11259999999999999876 3556554
No 168
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=22.07 E-value=46 Score=36.43 Aligned_cols=32 Identities=31% Similarity=0.814 Sum_probs=24.0
Q ss_pred cCcccchHHHHHHHHHhC-CCCCCCccccccCC
Q 013469 352 LCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPL 383 (442)
Q Consensus 352 pCgH~FH~~Cl~~Wl~~~-~~~~~~CP~CR~~l 383 (442)
.||-.+|..|+..|+... ......||-||.-.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 699999999999999864 11135799888543
No 169
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.59 E-value=68 Score=35.50 Aligned_cols=49 Identities=22% Similarity=0.392 Sum_probs=36.8
Q ss_pred CCccCcccccCCccccCcc-cchHHHHHHHHHhC--CCCCCCccccccCCcC
Q 013469 337 ECAICREPMAKAKKLLCNH-LFHLACLRSWLDQG--LNEMYSCPTCRKPLFV 385 (442)
Q Consensus 337 ~C~IC~e~~~~~~~LpCgH-~FH~~Cl~~Wl~~~--~~~~~~CP~CR~~l~~ 385 (442)
.|+||-...+-...-.||| .-|..|........ ......||.||..+..
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 5999999888777789999 79999977654332 1224678999997643
No 170
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=21.09 E-value=1.1e+02 Score=30.90 Aligned_cols=43 Identities=21% Similarity=0.600 Sum_probs=28.6
Q ss_pred CCCCccCcccccCCccc---cCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 335 DDECAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~~L---pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
+..|-.|.++....... .|.|.||.+|=.=-=++ -..||-|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHes----Lh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHES----LHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhh----hhcCCCcCC
Confidence 44599997766554332 68899999994322222 368999963
No 171
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=21.01 E-value=1.3e+02 Score=29.24 Aligned_cols=43 Identities=16% Similarity=0.434 Sum_probs=29.7
Q ss_pred CCCCccCcccccCCc-cccCcccchHHHHHHHHHhCCCCCCCcccc
Q 013469 335 DDECAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~-~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~C 379 (442)
+..|||=..++..|+ .-.|||+|-++=+.+.+.... ...||+=
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~--~i~CPv~ 219 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEI--TIRCPVL 219 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCc--eeecccc
Confidence 567999877777775 458999999988877664311 2346653
No 172
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.01 E-value=1.3e+02 Score=25.49 Aligned_cols=42 Identities=24% Similarity=0.594 Sum_probs=30.4
Q ss_pred CCCCccCcccccCCc--------------cccCcccchHHHHHHHHHhCCCCCCCccccc
Q 013469 335 DDECAICREPMAKAK--------------KLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (442)
Q Consensus 335 ~~~C~IC~e~~~~~~--------------~LpCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR 380 (442)
+..|--|..++.++. --.|++.||.+|=.-+=+. -.+||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~----Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES----LHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh----ccCCcCCC
Confidence 346999999886431 2379999999996555454 46899996
No 173
>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=20.35 E-value=73 Score=23.50 Aligned_cols=43 Identities=23% Similarity=0.657 Sum_probs=29.6
Q ss_pred CCccCcccccCCc--cccCc--ccchHHHHHHHHHhCCCCCCCccccccCCcC
Q 013469 337 ECAICREPMAKAK--KLLCN--HLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (442)
Q Consensus 337 ~C~IC~e~~~~~~--~LpCg--H~FH~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (442)
.|-.|-.++.... ..=|. ..||..|...-+. ..||.|...+..
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~------~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN------GVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc------CcCcCCCCcccc
Confidence 5666766664332 33455 3499999998774 599999887654
No 174
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.31 E-value=91 Score=32.84 Aligned_cols=44 Identities=30% Similarity=0.477 Sum_probs=32.9
Q ss_pred cCCCCCccC-cccccCCccc--cCcccchHHHHHHHHHhCCCCCCCcccccc
Q 013469 333 AYDDECAIC-REPMAKAKKL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (442)
Q Consensus 333 ~~~~~C~IC-~e~~~~~~~L--pCgH~FH~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (442)
..++.|++| .+.|.+...+ -|.-.||..|++.-+.. ..||.|.+
T Consensus 217 ~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~-----~~~~~c~~ 263 (448)
T KOG0314|consen 217 PEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALIS-----KSMCVCGA 263 (448)
T ss_pred CccccCceecchhhHHHHHhhhhhcccCCcccccccccc-----ccCCcchh
Confidence 457899999 6666665544 68899999999887775 56777654
No 175
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=20.12 E-value=79 Score=31.01 Aligned_cols=51 Identities=27% Similarity=0.537 Sum_probs=30.8
Q ss_pred CCCCccCcccccC---------CccccCcccchHHH-HHHHHHhCC------CCCCCccccccCCcC
Q 013469 335 DDECAICREPMAK---------AKKLLCNHLFHLAC-LRSWLDQGL------NEMYSCPTCRKPLFV 385 (442)
Q Consensus 335 ~~~C~IC~e~~~~---------~~~LpCgH~FH~~C-l~~Wl~~~~------~~~~~CP~CR~~l~~ 385 (442)
-..|.+|-..+.. .-.|||.-.+|..= -++||.|+. .....||.|++.+-+
T Consensus 161 a~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 161 AFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred cccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence 4578889887753 12244443333322 248999872 224689999987743
Done!