Query 007666
Match_columns 594
No_of_seqs 494 out of 2329
Neff 6.8
Searched_HMMs 46136
Date Thu Mar 28 13:42:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007666.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007666hhsearch_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 3.8E-41 8.2E-46 340.6 28.7 326 11-385 5-346 (491)
2 KOG0802 E3 ubiquitin ligase [P 100.0 1.8E-39 3.8E-44 362.8 27.0 500 43-588 20-534 (543)
3 KOG4628 Predicted E3 ubiquitin 99.3 2.2E-12 4.8E-17 134.4 9.4 74 310-386 202-280 (348)
4 PF13639 zf-RING_2: Ring finge 99.2 9.4E-12 2E-16 92.5 1.5 41 336-380 1-44 (44)
5 KOG0317 Predicted E3 ubiquitin 99.0 1.1E-10 2.3E-15 117.4 3.0 51 333-387 237-287 (293)
6 KOG0823 Predicted E3 ubiquitin 99.0 2.3E-10 5.1E-15 112.0 3.4 53 334-387 46-98 (230)
7 PHA02929 N1R/p28-like protein; 99.0 4.2E-10 9.1E-15 112.7 4.9 48 334-385 173-228 (238)
8 PF12678 zf-rbx1: RING-H2 zinc 98.9 4.7E-10 1E-14 92.7 2.3 43 334-380 18-73 (73)
9 PF15227 zf-C3HC4_4: zinc fing 98.9 5.7E-10 1.2E-14 82.1 2.2 42 338-379 1-42 (42)
10 PLN03208 E3 ubiquitin-protein 98.9 8E-10 1.7E-14 106.5 3.8 54 334-387 17-82 (193)
11 PF13920 zf-C3HC4_3: Zinc fing 98.7 4.6E-09 9.9E-14 80.3 2.2 46 335-384 2-48 (50)
12 COG5540 RING-finger-containing 98.7 5.2E-09 1.1E-13 105.4 2.6 49 334-385 322-373 (374)
13 PF13923 zf-C3HC4_2: Zinc fing 98.7 7.2E-09 1.6E-13 75.0 2.0 38 338-379 1-39 (39)
14 PF12861 zf-Apc11: Anaphase-pr 98.7 8.4E-09 1.8E-13 86.5 2.6 51 334-385 20-83 (85)
15 cd00162 RING RING-finger (Real 98.6 1.7E-08 3.7E-13 73.9 3.0 44 337-383 1-45 (45)
16 smart00504 Ubox Modified RING 98.6 2.8E-08 6.1E-13 79.2 3.4 47 336-386 2-48 (63)
17 PF00097 zf-C3HC4: Zinc finger 98.5 4.7E-08 1E-12 71.3 2.3 40 338-379 1-41 (41)
18 KOG1734 Predicted RING-contain 98.5 2E-06 4.4E-11 85.8 14.4 51 334-386 223-283 (328)
19 PHA02926 zinc finger-like prot 98.5 6.1E-08 1.3E-12 94.5 3.4 52 334-385 169-231 (242)
20 COG5574 PEX10 RING-finger-cont 98.5 6.8E-08 1.5E-12 96.3 2.2 50 334-386 214-264 (271)
21 KOG2164 Predicted E3 ubiquitin 98.4 1.3E-07 2.8E-12 102.1 4.1 55 335-389 186-241 (513)
22 KOG0320 Predicted E3 ubiquitin 98.4 9.8E-08 2.1E-12 90.0 2.3 48 335-386 131-180 (187)
23 smart00184 RING Ring finger. E 98.4 1.3E-07 2.8E-12 66.7 2.5 39 338-379 1-39 (39)
24 TIGR00599 rad18 DNA repair pro 98.4 1.7E-07 3.8E-12 100.4 3.7 49 334-386 25-73 (397)
25 PF13445 zf-RING_UBOX: RING-ty 98.4 1.4E-07 3.1E-12 69.6 1.6 39 338-377 1-43 (43)
26 KOG0828 Predicted E3 ubiquitin 98.3 4.2E-06 9.2E-11 89.5 10.1 49 334-385 570-635 (636)
27 KOG1785 Tyrosine kinase negati 98.2 1.8E-06 4E-11 90.0 7.0 49 336-386 370-418 (563)
28 PF14634 zf-RING_5: zinc-RING 98.2 5.9E-07 1.3E-11 66.7 1.8 41 337-381 1-44 (44)
29 KOG0287 Postreplication repair 98.2 4.2E-07 9.1E-12 93.0 0.6 48 336-387 24-71 (442)
30 smart00546 CUE Domain that may 98.2 2.7E-06 5.9E-11 62.9 4.4 40 555-594 2-42 (43)
31 PF02845 CUE: CUE domain; Int 98.1 2.1E-06 4.6E-11 63.1 3.7 39 556-594 2-41 (42)
32 KOG1493 Anaphase-promoting com 98.1 6.3E-07 1.4E-11 72.8 0.5 51 334-385 19-82 (84)
33 PF04564 U-box: U-box domain; 98.1 1.3E-06 2.8E-11 72.2 2.0 48 336-386 5-52 (73)
34 COG5194 APC11 Component of SCF 98.1 1.5E-06 3.3E-11 71.2 1.7 31 352-386 53-83 (88)
35 KOG3970 Predicted E3 ubiquitin 98.0 4.3E-06 9.4E-11 81.3 3.4 89 333-433 48-142 (299)
36 COG5432 RAD18 RING-finger-cont 97.9 3.6E-06 7.8E-11 84.7 1.5 47 336-386 26-72 (391)
37 KOG2177 Predicted E3 ubiquitin 97.8 6.9E-06 1.5E-10 83.8 2.0 43 334-380 12-54 (386)
38 COG5219 Uncharacterized conser 97.7 2.5E-05 5.3E-10 89.0 3.3 50 333-384 1467-1523(1525)
39 TIGR00570 cdk7 CDK-activating 97.7 3.1E-05 6.7E-10 80.2 3.8 50 335-387 3-57 (309)
40 KOG0824 Predicted E3 ubiquitin 97.7 2E-05 4.4E-10 80.1 2.2 49 335-386 7-55 (324)
41 KOG2930 SCF ubiquitin ligase, 97.6 1.5E-05 3.3E-10 68.6 0.8 30 352-385 80-109 (114)
42 PF11793 FANCL_C: FANCL C-term 97.6 1.4E-05 3E-10 65.5 0.5 51 335-385 2-67 (70)
43 KOG4172 Predicted E3 ubiquitin 97.6 2.1E-05 4.5E-10 60.0 0.4 48 335-385 7-55 (62)
44 KOG0804 Cytoplasmic Zn-finger 97.5 2.2E-05 4.7E-10 83.6 0.5 43 336-384 176-222 (493)
45 PF13705 TRC8_N: TRC8 N-termin 97.5 0.0074 1.6E-07 66.6 19.8 105 126-233 348-453 (508)
46 PF14835 zf-RING_6: zf-RING of 97.5 3.4E-05 7.3E-10 61.3 0.7 45 336-386 8-53 (65)
47 KOG4265 Predicted E3 ubiquitin 97.5 5.3E-05 1.1E-09 79.1 2.2 50 333-386 288-338 (349)
48 KOG2114 Vacuolar assembly/sort 97.5 6.7E-05 1.5E-09 85.4 3.1 74 303-383 808-882 (933)
49 smart00744 RINGv The RING-vari 97.4 7.8E-05 1.7E-09 56.8 2.2 42 337-380 1-49 (49)
50 KOG0827 Predicted E3 ubiquitin 97.4 6E-05 1.3E-09 78.9 1.8 48 336-384 5-56 (465)
51 KOG0311 Predicted E3 ubiquitin 97.4 3.6E-05 7.8E-10 79.9 -0.4 50 334-386 42-92 (381)
52 KOG0978 E3 ubiquitin ligase in 97.4 6.4E-05 1.4E-09 85.3 1.4 49 336-387 644-692 (698)
53 KOG4159 Predicted E3 ubiquitin 97.2 0.00018 3.9E-09 77.6 2.6 49 333-385 82-130 (398)
54 KOG2879 Predicted E3 ubiquitin 97.0 0.0016 3.5E-08 65.7 7.4 51 333-385 237-288 (298)
55 KOG1039 Predicted E3 ubiquitin 96.9 0.00047 1E-08 73.0 2.2 53 334-386 160-223 (344)
56 KOG0825 PHD Zn-finger protein 96.8 0.00047 1E-08 77.7 1.7 46 337-386 125-173 (1134)
57 KOG1645 RING-finger-containing 96.8 0.00064 1.4E-08 71.9 2.2 48 334-383 3-55 (463)
58 KOG1571 Predicted E3 ubiquitin 96.7 0.0016 3.5E-08 68.3 4.4 45 334-385 304-348 (355)
59 KOG1941 Acetylcholine receptor 96.7 0.001 2.3E-08 69.8 2.7 46 335-382 365-414 (518)
60 KOG0297 TNF receptor-associate 96.5 0.0012 2.5E-08 71.8 2.2 50 333-386 19-69 (391)
61 KOG1002 Nucleotide excision re 96.5 0.0023 5E-08 69.5 3.9 53 335-387 536-589 (791)
62 COG5152 Uncharacterized conser 96.4 0.001 2.3E-08 63.9 0.8 44 336-383 197-240 (259)
63 KOG4692 Predicted E3 ubiquitin 96.3 0.0064 1.4E-07 63.3 5.7 48 334-385 421-468 (489)
64 PF11789 zf-Nse: Zinc-finger o 96.2 0.0017 3.7E-08 51.0 0.7 43 334-378 10-53 (57)
65 PF10367 Vps39_2: Vacuolar sor 96.2 0.0096 2.1E-07 52.2 5.5 30 334-363 77-108 (109)
66 KOG4445 Uncharacterized conser 96.1 0.002 4.3E-08 65.7 0.7 52 335-386 115-188 (368)
67 KOG1813 Predicted E3 ubiquitin 95.9 0.0025 5.4E-08 65.1 0.8 46 335-384 241-286 (313)
68 COG5222 Uncharacterized conser 95.9 0.0067 1.5E-07 61.8 3.4 43 336-381 275-318 (427)
69 KOG1428 Inhibitor of type V ad 95.9 0.0044 9.5E-08 73.6 2.4 54 333-386 3484-3546(3738)
70 KOG2660 Locus-specific chromos 95.6 0.0041 9E-08 64.5 0.8 48 335-386 15-63 (331)
71 PF11547 E3_UbLigase_EDD: E3 u 95.5 0.017 3.6E-07 43.1 3.5 38 557-594 11-49 (53)
72 KOG4275 Predicted E3 ubiquitin 95.5 0.0029 6.4E-08 64.3 -0.7 43 335-385 300-343 (350)
73 PHA02825 LAP/PHD finger-like p 95.3 0.014 3E-07 54.8 3.1 51 333-386 6-61 (162)
74 KOG2034 Vacuolar sorting prote 95.1 0.024 5.1E-07 65.7 4.6 35 333-367 815-851 (911)
75 KOG1814 Predicted E3 ubiquitin 95.0 0.014 3.1E-07 62.2 2.5 55 328-382 177-238 (445)
76 PHA02862 5L protein; Provision 94.9 0.017 3.8E-07 53.2 2.4 49 335-386 2-55 (156)
77 PF14447 Prok-RING_4: Prokaryo 94.6 0.018 4E-07 44.5 1.6 46 336-387 8-53 (55)
78 PF12906 RINGv: RING-variant d 94.5 0.019 4.2E-07 43.3 1.4 40 338-379 1-47 (47)
79 KOG3039 Uncharacterized conser 94.4 0.042 9E-07 54.9 3.9 62 335-400 221-286 (303)
80 COG5236 Uncharacterized conser 93.7 0.042 9E-07 57.3 2.5 56 325-384 51-108 (493)
81 KOG4185 Predicted E3 ubiquitin 93.6 0.039 8.4E-07 57.6 2.1 45 336-383 4-54 (296)
82 PF14570 zf-RING_4: RING/Ubox 93.5 0.048 1.1E-06 41.2 2.0 43 338-383 1-47 (48)
83 KOG0826 Predicted E3 ubiquitin 93.1 0.17 3.6E-06 52.8 5.7 46 334-383 299-345 (357)
84 KOG1952 Transcription factor N 93.0 0.051 1.1E-06 62.7 2.0 50 333-382 189-245 (950)
85 COG5175 MOT2 Transcriptional r 92.5 0.069 1.5E-06 55.5 2.1 50 334-386 13-66 (480)
86 PF10272 Tmpp129: Putative tra 92.4 0.16 3.4E-06 54.4 4.7 34 353-386 311-353 (358)
87 KOG3268 Predicted E3 ubiquitin 92.0 0.09 1.9E-06 50.1 1.9 51 336-386 166-230 (234)
88 PHA03096 p28-like protein; Pro 91.6 0.085 1.8E-06 54.8 1.5 46 336-382 179-232 (284)
89 KOG1001 Helicase-like transcri 91.1 0.069 1.5E-06 61.9 0.3 48 336-386 455-502 (674)
90 KOG1940 Zn-finger protein [Gen 91.0 0.12 2.6E-06 53.3 1.8 43 335-381 158-204 (276)
91 KOG0827 Predicted E3 ubiquitin 90.8 0.033 7.2E-07 58.9 -2.4 48 335-386 196-247 (465)
92 PF07800 DUF1644: Protein of u 90.2 0.25 5.5E-06 46.5 3.1 51 335-385 2-92 (162)
93 KOG4739 Uncharacterized protei 90.1 0.14 3.1E-06 51.3 1.4 43 337-385 5-49 (233)
94 PF05290 Baculo_IE-1: Baculovi 90.0 0.97 2.1E-05 41.4 6.6 50 336-386 81-134 (140)
95 KOG2932 E3 ubiquitin ligase in 89.9 0.12 2.6E-06 53.3 0.8 43 337-385 92-135 (389)
96 KOG0802 E3 ubiquitin ligase [P 89.3 0.23 5.1E-06 56.4 2.6 57 322-386 466-522 (543)
97 PF04641 Rtf2: Rtf2 RING-finge 89.0 0.28 6.1E-06 50.5 2.7 49 334-387 112-164 (260)
98 PF05883 Baculo_RING: Baculovi 88.9 0.12 2.6E-06 47.5 -0.1 32 335-366 26-66 (134)
99 KOG0943 Predicted ubiquitin-pr 87.8 2.1 4.5E-05 51.5 8.8 38 557-594 191-229 (3015)
100 KOG3161 Predicted E3 ubiquitin 86.7 0.26 5.7E-06 55.3 0.9 39 337-382 13-55 (861)
101 COG5183 SSM4 Protein involved 86.6 0.35 7.5E-06 55.7 1.8 51 334-386 11-68 (1175)
102 KOG3053 Uncharacterized conser 86.3 0.3 6.5E-06 49.3 1.0 52 334-385 19-83 (293)
103 KOG3800 Predicted E3 ubiquitin 85.3 0.59 1.3E-05 48.1 2.5 46 337-385 2-52 (300)
104 KOG0298 DEAD box-containing he 85.2 0.27 5.9E-06 59.4 0.1 44 336-383 1154-1198(1394)
105 KOG4367 Predicted Zn-finger pr 84.4 0.37 8E-06 51.8 0.6 34 335-368 4-37 (699)
106 KOG0801 Predicted E3 ubiquitin 83.7 0.38 8.3E-06 45.2 0.4 31 329-359 171-204 (205)
107 PF08746 zf-RING-like: RING-li 83.3 0.68 1.5E-05 34.2 1.5 40 338-379 1-43 (43)
108 KOG2817 Predicted E3 ubiquitin 82.2 2.9 6.3E-05 45.0 6.2 46 335-381 334-382 (394)
109 KOG1100 Predicted E3 ubiquitin 81.8 0.57 1.2E-05 46.6 0.8 41 337-385 160-201 (207)
110 KOG4362 Transcriptional regula 81.2 0.42 9.1E-06 54.8 -0.5 50 335-385 21-70 (684)
111 PF03854 zf-P11: P-11 zinc fin 80.3 0.54 1.2E-05 35.3 0.0 44 337-386 4-48 (50)
112 COG5220 TFB3 Cdk activating ki 77.5 0.92 2E-05 45.4 0.7 45 334-381 9-61 (314)
113 KOG0825 PHD Zn-finger protein 76.4 1.5 3.2E-05 50.7 1.9 49 335-383 96-153 (1134)
114 KOG0309 Conserved WD40 repeat- 76.2 1.6 3.4E-05 50.2 2.1 26 349-378 1044-1069(1081)
115 KOG3899 Uncharacterized conser 74.9 1.4 3E-05 45.3 1.2 34 353-386 325-367 (381)
116 KOG3039 Uncharacterized conser 74.6 0.68 1.5E-05 46.5 -1.1 34 335-368 43-76 (303)
117 KOG2066 Vacuolar assembly/sort 69.4 2.8 6.1E-05 48.6 2.1 35 334-368 783-824 (846)
118 KOG3002 Zn finger protein [Gen 66.9 3.2 7E-05 43.6 1.8 42 336-385 49-92 (299)
119 KOG1609 Protein involved in mR 65.5 3.1 6.7E-05 43.4 1.4 50 335-386 78-136 (323)
120 smart00249 PHD PHD zinc finger 64.7 2.6 5.6E-05 30.3 0.4 28 337-364 1-31 (47)
121 KOG4718 Non-SMC (structural ma 60.9 4.7 0.0001 39.9 1.6 45 336-384 182-227 (235)
122 KOG2068 MOT2 transcription fac 60.9 8.2 0.00018 40.7 3.4 47 336-386 250-300 (327)
123 KOG1812 Predicted E3 ubiquitin 60.8 6.6 0.00014 42.8 2.9 35 335-369 146-184 (384)
124 KOG0269 WD40 repeat-containing 58.0 6.5 0.00014 45.6 2.3 38 337-378 781-820 (839)
125 KOG3579 Predicted E3 ubiquitin 56.9 7.1 0.00015 40.3 2.1 34 336-369 269-306 (352)
126 PF02891 zf-MIZ: MIZ/SP-RING z 54.6 9 0.00019 29.2 1.9 45 337-382 4-50 (50)
127 KOG3842 Adaptor protein Pellin 52.3 11 0.00025 39.3 2.7 52 334-385 340-415 (429)
128 PF00628 PHD: PHD-finger; Int 51.4 2.1 4.5E-05 32.2 -2.1 45 337-381 1-50 (51)
129 PF07191 zinc-ribbons_6: zinc- 49.7 2.1 4.5E-05 35.1 -2.4 41 336-385 2-42 (70)
130 KOG1829 Uncharacterized conser 49.1 5.6 0.00012 45.3 -0.0 40 335-381 511-558 (580)
131 PF04216 FdhE: Protein involve 48.1 6.1 0.00013 41.3 0.0 44 335-382 172-220 (290)
132 KOG1815 Predicted E3 ubiquitin 43.9 13 0.00029 41.3 1.9 36 334-369 69-105 (444)
133 smart00132 LIM Zinc-binding do 43.1 16 0.00035 25.0 1.6 35 337-383 1-37 (39)
134 PF14569 zf-UDP: Zinc-binding 41.1 38 0.00082 28.4 3.6 48 335-385 9-63 (80)
135 KOG3113 Uncharacterized conser 40.6 19 0.00041 36.7 2.1 48 334-387 110-161 (293)
136 PLN02189 cellulose synthase 40.1 35 0.00076 41.6 4.6 48 335-385 34-88 (1040)
137 PLN02436 cellulose synthase A 38.2 39 0.00084 41.3 4.6 48 335-385 36-90 (1094)
138 PF04710 Pellino: Pellino; In 38.0 11 0.00024 40.8 0.1 33 349-384 305-339 (416)
139 PF06937 EURL: EURL protein; 36.4 97 0.0021 32.0 6.4 19 356-377 56-74 (285)
140 PF06844 DUF1244: Protein of u 36.3 19 0.00041 29.1 1.2 12 357-368 12-23 (68)
141 PF00412 LIM: LIM domain; Int 36.3 21 0.00047 27.1 1.5 37 338-386 1-39 (58)
142 PF10571 UPF0547: Uncharacteri 34.3 23 0.00049 23.4 1.1 21 337-357 2-24 (26)
143 PF13901 DUF4206: Domain of un 33.4 27 0.00058 34.6 2.0 39 334-381 151-197 (202)
144 PF14446 Prok-RING_1: Prokaryo 33.4 25 0.00054 27.4 1.4 29 334-362 4-36 (54)
145 PF02318 FYVE_2: FYVE-type zin 33.2 43 0.00092 30.1 3.1 45 334-381 53-102 (118)
146 PRK12495 hypothetical protein; 33.0 5.3E+02 0.011 26.1 13.6 58 302-385 13-70 (226)
147 cd04718 BAH_plant_2 BAH, or Br 33.0 18 0.00039 34.1 0.6 30 357-386 2-31 (148)
148 PLN02638 cellulose synthase A 32.6 54 0.0012 40.2 4.6 48 335-385 17-71 (1079)
149 COG5109 Uncharacterized conser 32.1 25 0.00054 36.9 1.5 44 336-380 337-383 (396)
150 TIGR01562 FdhE formate dehydro 31.6 29 0.00063 36.7 2.0 44 335-382 184-233 (305)
151 KOG3005 GIY-YIG type nuclease 31.3 24 0.00051 36.3 1.2 49 336-384 183-243 (276)
152 PLN02400 cellulose synthase 31.1 66 0.0014 39.5 5.0 48 335-385 36-90 (1085)
153 KOG0824 Predicted E3 ubiquitin 30.3 22 0.00048 37.1 0.8 48 334-385 104-152 (324)
154 KOG4185 Predicted E3 ubiquitin 29.8 15 0.00032 38.3 -0.5 46 335-383 207-266 (296)
155 PRK03564 formate dehydrogenase 29.7 40 0.00087 35.7 2.6 44 334-381 186-234 (309)
156 PF04710 Pellino: Pellino; In 29.4 18 0.00039 39.2 0.0 51 335-385 328-402 (416)
157 PF01363 FYVE: FYVE zinc finge 28.6 26 0.00055 28.0 0.8 30 335-364 9-42 (69)
158 TIGR02921 PEP_integral PEP-CTE 28.5 2.3E+02 0.0049 32.8 8.2 29 83-112 170-198 (952)
159 PLN02915 cellulose synthase A 27.4 87 0.0019 38.3 5.1 49 334-385 14-69 (1044)
160 KOG3842 Adaptor protein Pellin 26.9 27 0.00058 36.7 0.7 47 334-383 289-351 (429)
161 PF12660 zf-TFIIIC: Putative z 24.7 9.6 0.00021 33.4 -2.6 50 336-386 15-68 (99)
162 KOG1245 Chromatin remodeling c 23.4 75 0.0016 40.5 3.8 49 335-383 1108-1159(1404)
163 KOG1818 Membrane trafficking a 22.9 1.1E+02 0.0023 35.5 4.6 44 336-379 166-217 (634)
164 KOG2231 Predicted E3 ubiquitin 22.5 61 0.0013 37.8 2.6 28 337-364 2-30 (669)
165 KOG2807 RNA polymerase II tran 22.2 94 0.002 33.0 3.6 43 335-381 330-375 (378)
166 KOG3816 Cell differentiation r 21.6 2.9E+02 0.0063 30.1 7.1 27 340-366 93-119 (526)
167 KOG1812 Predicted E3 ubiquitin 21.4 41 0.00088 36.8 0.9 42 334-379 305-351 (384)
168 KOG4451 Uncharacterized conser 20.2 73 0.0016 32.1 2.2 17 373-389 263-279 (286)
169 TIGR00622 ssl1 transcription f 20.1 1.3E+02 0.0027 27.2 3.5 42 335-380 55-110 (112)
No 1
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.8e-41 Score=340.61 Aligned_cols=326 Identities=24% Similarity=0.362 Sum_probs=237.3
Q ss_pred HHHHHHHhhhhHhhhhhhhcccccCceeccccccchhHHHHHHHHh-chhHHHHHHHHHHHHHHHHHHHHHHHHcccCcH
Q 007666 11 ASTILSFVGLQFWTEFSLDKLRTDGLVVENVIHLESANRVLELLLR-SYATVALLANFVLNVFVLINLCLKTIFFGELYP 89 (594)
Q Consensus 11 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-s~~~v~vL~N~~~~~~~ll~~~lq~lfFG~LR~ 89 (594)
+|...+++++....+-++. .....|++++.-+| |.++++++.|++++++.++++++++++||+||.
T Consensus 5 ~y~l~~~Vl~~l~~~~~~~-------------~s~t~ys~l~~t~~ls~~hi~i~~~~ill~~~l~~~~l~~llFGsLr~ 71 (491)
T COG5243 5 LYVLASLVLFGLSVLLSLY-------------SSATVYSALVMTSQLSPVHITIGLNVILLLFFLIANALKTLLFGSLRT 71 (491)
T ss_pred ehhHHHHHHHHHHHHHHHh-------------ccceeeeeeeeeeccCcchhHHHHHHHHHHHHHHHHHHHHHhhhhhHH
Confidence 3555666666555555443 34455667777777 899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCCcchh--HHHHHHHH
Q 007666 90 AETRKFVERLINYVIYKGTFLPLVIPPTVFQAGLWSVWLTVLCSLKMFQALARDRLERLNASPSATPWTY--FRVFSALL 167 (594)
Q Consensus 90 ~E~e~L~er~~~f~~~k~~fl~~vi~~~~~~~~~w~~wF~~L~~LK~fh~L~~dRve~L~~SP~~~~~~h--~Rl~~lL~ 167 (594)
.|.|+++|++| |++. ++.++..++++.... .+..++..|+++|+||||+++|+|.+. -.++..+.| -|..+.++
T Consensus 72 ~E~e~~~E~l~-~tlt-~~ll~iS~F~e~i~f-s~~~l~~~Ll~~kvfhwil~~R~er~~-~~st~~~~~ifSrfS~~~~ 147 (491)
T COG5243 72 FELELLYEQLW-ITLT-EILLAISVFREAISF-SFFMLLSTLLFAKVFHWILSFRTERLQ-IQSTDQRFHIFSRFSCAYF 147 (491)
T ss_pred HHHHHHHHhhH-HHHH-HHHHHHHHHHhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 99999999999 4443 444455555553221 245677888999999999999999863 223444444 59999999
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCchhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccchhhhhhccccch
Q 007666 168 FVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLL 247 (594)
Q Consensus 168 ~ll~~d~~~i~~~~~~~~~~g~s~~ll~~fE~~~l~~~tl~~ll~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~g~~w 247 (594)
++.++|..+|..|+..-...+.++..++..|+..+ ...++.. ++..+... ++.++ .-
T Consensus 148 lL~ild~~li~~CiSs~~liD~~~lfL~~c~F~~~-ll~l~s~-----------------~n~~cV~n--~~~~d---dD 204 (491)
T COG5243 148 LLSILDASLIYLCISSEHLIDKSTLFLFVCEFSVL-LLNLTSE-----------------ANKLCVYN--YEARD---DD 204 (491)
T ss_pred HHHHHhHHHHHHHhhhHhhhhhhHHHHHHHHHHHH-HHHHHHh-----------------hcccceee--ccccc---cc
Confidence 99999999999998654333333333333343221 1111110 01011000 00000 01
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCc
Q 007666 248 EWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDAT 327 (594)
Q Consensus 248 e~kg~~i~y~~f~~dl~~l~~~l~~~l~~~~~~g~~~~lv~~vl~l~ir~~~~~l~~r~~~~~~~r~~~~~l~~~~p~~~ 327 (594)
+.|..+.+|.++..|=++++.+...+...+..+.+|+.+++.++ .. +.++.+|++.+.+++++.|.+++.+|.++
T Consensus 205 d~rs~~~f~~~v~y~g~tllays~l~~~~~~~~r~Pi~l~r~~~-t~----~~AL~~~i~~~~~~~r~~kdl~~~~~t~t 279 (491)
T COG5243 205 DERSTYLFRLEVCYDGLTLLAYSLLFMYQFPYVRVPIYLIRQMY-TC----FYALFRRIREHARFRRATKDLNAMYPTAT 279 (491)
T ss_pred ccceeeeeeeehHHHHHHHHHHHHHHHhhccchhchHHHHHHHH-HH----HHHHHHHHHHHHHHHHHhhHHHhhcchhh
Confidence 34566667788888888888887777777777889999888753 33 34677899999999999999999999999
Q ss_pred hhhhhcCCCccccccccc-c------------cccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 328 SEELRAYDDECAICREPM-A------------KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 328 ~eel~~~~~~C~IC~e~~-~------------~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.|++...|..|.||+|++ . .||+|||||++|.+|++.|+++ +++||+||.++.-
T Consensus 280 ~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER----qQTCPICr~p~if 346 (491)
T COG5243 280 EEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER----QQTCPICRRPVIF 346 (491)
T ss_pred hhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh----ccCCCcccCcccc
Confidence 999998999999999995 3 3589999999999999999999 7999999999644
No 2
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.8e-39 Score=362.80 Aligned_cols=500 Identities=27% Similarity=0.252 Sum_probs=371.0
Q ss_pred ccchhHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHHcccCcHHHHHHHHHHHHHHHHHHHhhcc-cccccchhhh
Q 007666 43 HLESANRVLELLLRSYATVALLANFVLNVFVLINLCLKTIFFGELYPAETRKFVERLINYVIYKGTFLP-LVIPPTVFQA 121 (594)
Q Consensus 43 ~~~~~~~~~~~l~~s~~~v~vL~N~~~~~~~ll~~~lq~lfFG~LR~~E~e~L~er~~~f~~~k~~fl~-~vi~~~~~~~ 121 (594)
...|++++.+|+++++.+++++.|+.++...++.+.+|.+|||.|+..|.||+.|++|+|.+++.+|.. .+.+++.+.
T Consensus 20 ~~~q~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~sl~~~~~g~l~~~~~e~~~~~l~~~~~~~~~~~~~~~~~~~~~~- 98 (543)
T KOG0802|consen 20 GSAQSISTTVLLLSSPTSLAVLLNRALVVLALILLSLQLIFFGALLLSEAEHLSHSLWNLIGLKYTFLLGYVTFRTVLS- 98 (543)
T ss_pred hhhcccccceeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccchhh-
Confidence 344588999999999999999999999999999999999999999999999999999999999999977 445567777
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHh-hCCCchhHHHHHHhH
Q 007666 122 GLWSVWLTVLCSLKMFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFK-TLDSSMFLLLFFEPL 200 (594)
Q Consensus 122 ~~w~~wF~~L~~LK~fh~L~~dRve~L~~SP~~~~~~h~Rl~~lL~~ll~~d~~~i~~~~~~~~-~~g~s~~ll~~fE~~ 200 (594)
..|..|+..++++|+||||++||+++|+++|..+.+.|+|+...+..+...|...+..++.... ..+.++.+.+.+|.+
T Consensus 99 ~~~~~~~~~l~~l~~~~~l~~~~~~~l~~~~~~~~~~~~~v~~~~~~l~~~~~~~~~~s~~~~~~t~~~~~l~~~~~~~~ 178 (543)
T KOG0802|consen 99 ELFSLWLLLLLFLHVFHLLASDRLPRLFFSPLITTLNHFRVVSVLFALLIVDGHLVYNSLKTAYRTYGLSMLIELTFPSL 178 (543)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHhCcchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhheeccchHHH
Confidence 7799999999999999999999999999999999999999999999999999988877765544 778888778899998
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccchhhhhhccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 007666 201 SVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLR 280 (594)
Q Consensus 201 ~l~~~tl~~ll~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~g~~we~kg~~i~y~~f~~dl~~l~~~l~~~l~~~~~~ 280 (594)
++.+.+....+.|.++..+ +.. -..|+++..+.++.+...+...+.....++.+.+..+
T Consensus 179 ~~~~~~~~~~~~y~l~~~~-----------~~~----------~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~ 237 (543)
T KOG0802|consen 179 LVVFWTALVILQYVLHSTA-----------DHI----------HIRSEDLSLLTFTLIIFGCMTLLVLLIMSAVISLVVH 237 (543)
T ss_pred HHHHHHHHHHHHHHHhcch-----------hhc----------CcccCccceeechhHHHhhhhHHHHHhhhHHHHHHHh
Confidence 8887777766665543221 000 1235778888888888888888888888888999889
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhhCCCCchhh--hhcCCCccccccccccc-----ccccc
Q 007666 281 GMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGH-LHAALPDATSEE--LRAYDDECAICREPMAK-----AKKLL 352 (594)
Q Consensus 281 g~~~~lv~~vl~l~ir~~~~~l~~r~~~~~~~r~~~~~-l~~~~p~~~~ee--l~~~~~~C~IC~e~~~~-----~~~lp 352 (594)
++++++.+.+.... +....++.+...+.++..+. +...++.++.++ ....++.|+||+|++.. ++++|
T Consensus 238 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~e~l~~~~~~~~~rL~ 313 (543)
T KOG0802|consen 238 GILLGLVADLYNTP----FLEVERRLRELAPLRRVILATLQTGLPGATLEERGLALSDELCIICLEELHSGHNITPKRLP 313 (543)
T ss_pred HhhhhhhHHHhhhh----hhhHHHHccchHHHHHHhhccccccccccChHHhhhhhcCCeeeeechhhccccccccceee
Confidence 89999887754332 34566777777888877777 778889898887 66789999999999988 79999
Q ss_pred cCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCCccccCCCCCCCCCchHHHHHHhccCCCCCCCCC--CCCCCCCCCC
Q 007666 353 CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTG--QTLPTGVFPN 430 (594)
Q Consensus 353 CgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~--~~~~~~~~~~ 430 (594)
|||+||..|+++|+++ .++||+||..+...................+..+.+ .+..+. +..+....+.
T Consensus 314 C~Hifh~~CL~~W~er----~qtCP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~ 383 (543)
T KOG0802|consen 314 CGHIFHDSCLRSWFER----QQTCPTCRTVLYDYVLWQIAALQTWLLVVTTKSALE------VLKVPVSLATYTLFMVET 383 (543)
T ss_pred cccchHHHHHHHHHHH----hCcCCcchhhhhccccccccCCccccccccceeccc------ccccccccccCccccccc
Confidence 9999999999999999 699999999665543222222222222211111111 111111 1111222233
Q ss_pred CCCCCCCCCCCcccccccccCCCCCCcCcCCCCCCCCCCCCCccccccchh-hHHHHHHhhhccccccccccccccccc-
Q 007666 431 QTQPPVEGSPWRLSSYISMNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLS-RVQMMMRHLASVGETYAQTAIEDTSWS- 508 (594)
Q Consensus 431 ~~~~~~~~~~~r~s~~~s~~~~~~~swl~~~~~~~~~~a~~S~~~~s~g~~-rv~~~~r~~~s~~~~~~~~~~~~~~~~- 508 (594)
......|+...+ .....+.+...+..++....+++......+.+ .+..+++...+..+.+.. .+++.++
T Consensus 384 ~~~~~~e~~~~~-------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 454 (543)
T KOG0802|consen 384 RREEPWENLDDL-------IYYVRSTGNSIEFLFGKVVFGNGASPVIFESGSQIRAAMMCIHSYFNIYLR--AEPGWSSF 454 (543)
T ss_pred ccccccCCCcch-------hhhcCccchhhHhhhhhhcccccchhheecCCccccccceeeeeecccccc--cccccCcc
Confidence 322233222222 44556666777776666666666555554444 677888888888888776 4555555
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCccccccccccccchHHHHHHHHHHHhhCCCCChHHHHHHhhccCchhhh
Q 007666 509 LWPMNPSQASASGSPVPPAVPGRHPGN-TGGAHARSTSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATIT 587 (594)
Q Consensus 509 ~~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~p~~p~~~~~~~~~~~~~~~~~ 587 (594)
.|++.+.+...+.|...|..-...++. +.+++-+ .++++...-....++...|||+-|..|.+...+|-..+++...|
T Consensus 455 ~~~~~~~~~~~~~s~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~~~~~~~ 533 (543)
T KOG0802|consen 455 LNRRSAVKKINSLSEATPSQLREPNDVCAICYQEM-SARITPCSHALCLRKWLYVQEVCPLCHTYMKEDDFLSKNSSEST 533 (543)
T ss_pred cCccccccccCCCCCCChhhhhcccCcchHHHHHH-HhccccccchhHHHhhhhhccccCCCchhhhcccccCccccccc
Confidence 677777877777777665444444333 5566666 44544443466677888999999999999999998888887766
Q ss_pred H
Q 007666 588 V 588 (594)
Q Consensus 588 ~ 588 (594)
.
T Consensus 534 ~ 534 (543)
T KOG0802|consen 534 A 534 (543)
T ss_pred h
Confidence 3
No 3
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=2.2e-12 Score=134.42 Aligned_cols=74 Identities=31% Similarity=0.626 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHhhCCCCchhhhhcC--CCcccccccccccc---cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCc
Q 007666 310 IKLRIALGHLHAALPDATSEELRAY--DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 310 ~~~r~~~~~l~~~~p~~~~eel~~~--~~~C~IC~e~~~~~---~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~ 384 (594)
.+.++..+++.+++|..+..+..+. .+.|+||+|+|+++ +.|||+|.||..||++||.+. +..||+||+++.
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---r~~CPvCK~di~ 278 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---RTFCPVCKRDIR 278 (348)
T ss_pred hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhc---CccCCCCCCcCC
Confidence 4555666777777777765544321 24899999999887 457999999999999999884 467999999886
Q ss_pred CC
Q 007666 385 VG 386 (594)
Q Consensus 385 ~~ 386 (594)
..
T Consensus 279 ~~ 280 (348)
T KOG4628|consen 279 TD 280 (348)
T ss_pred CC
Confidence 64
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=99.16 E-value=9.4e-12 Score=92.52 Aligned_cols=41 Identities=49% Similarity=1.176 Sum_probs=35.0
Q ss_pred Cccccccccccc---ccccccCCccchhhHHHHHHcCCCCCCCCcCcc
Q 007666 336 DECAICREPMAK---AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (594)
Q Consensus 336 ~~C~IC~e~~~~---~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR 380 (594)
++|+||++++.. ...++|||.||.+|+.+|+++ +.+||+||
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 467899999999999999998 57999997
No 5
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=1.1e-10 Score=117.40 Aligned_cols=51 Identities=24% Similarity=0.710 Sum_probs=46.0
Q ss_pred cCCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
+.+..|.+|+|...+|..+||||+||+.||.+|+.. ...||.||....+.+
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 356789999999999999999999999999999988 578999999987653
No 6
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=2.3e-10 Score=111.98 Aligned_cols=53 Identities=30% Similarity=0.663 Sum_probs=47.1
Q ss_pred CCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
...+|.||+|.-++|+.+.|||.||+.||.+||+.... .+.||+||..+..++
T Consensus 46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~-~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPN-SKECPVCKAEVSIDT 98 (230)
T ss_pred CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCC-CeeCCccccccccce
Confidence 45689999999999999999999999999999987544 578999999998764
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.97 E-value=4.2e-10 Score=112.71 Aligned_cols=48 Identities=38% Similarity=0.898 Sum_probs=40.4
Q ss_pred CCCcccccccccccc--------cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAKA--------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~--------~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.+.+|+||++++.++ ...+|||.||..||.+|+++ +.+||+||.++..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~----~~tCPlCR~~~~~ 228 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE----KNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc----CCCCCCCCCEeeE
Confidence 467899999997653 34589999999999999987 6899999998753
No 8
>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=98.92 E-value=4.7e-10 Score=92.73 Aligned_cols=43 Identities=49% Similarity=1.143 Sum_probs=34.9
Q ss_pred CCCcccccccccccc-------------cccccCCccchhhHHHHHHcCCCCCCCCcCcc
Q 007666 334 YDDECAICREPMAKA-------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~-------------~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR 380 (594)
.++.|+||++++.++ ...+|||.||..||.+|++. +.+||+||
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 356799999999432 23489999999999999998 57999998
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.90 E-value=5.7e-10 Score=82.11 Aligned_cols=42 Identities=31% Similarity=0.759 Sum_probs=33.1
Q ss_pred ccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCc
Q 007666 338 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (594)
Q Consensus 338 C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~C 379 (594)
|+||++.|++|+.|+|||.||..||.+|.++.......||.|
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 899999999999999999999999999998754433689998
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.90 E-value=8e-10 Score=106.48 Aligned_cols=54 Identities=28% Similarity=0.655 Sum_probs=45.1
Q ss_pred CCCcccccccccccccccccCCccchhhHHHHHHcC------------CCCCCCCcCcccCCcCCC
Q 007666 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG------------LNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~------------~~~~~~CP~CR~~~~~~~ 387 (594)
.+.+|+||++.+++++.++|||.||+.||..|+... ......||+||.++...+
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 456899999999999999999999999999998642 112468999999997654
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.73 E-value=4.6e-09 Score=80.26 Aligned_cols=46 Identities=39% Similarity=0.820 Sum_probs=40.4
Q ss_pred CCcccccccccccccccccCCc-cchhhHHHHHHcCCCCCCCCcCcccCCc
Q 007666 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~-Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~ 384 (594)
+..|.||++...+...+||||. ||..|...|+++ ...||+||+++.
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 4689999999999889999999 999999999996 689999999875
No 12
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.72 E-value=5.2e-09 Score=105.42 Aligned_cols=49 Identities=37% Similarity=0.798 Sum_probs=41.4
Q ss_pred CCCcccccccccccc---cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~---~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.+-+|+||++++.+. +.|||.|.||..|+.+|+..- +..||+||.++++
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 346899999999765 457999999999999999843 5799999999875
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=98.69 E-value=7.2e-09 Score=74.99 Aligned_cols=38 Identities=29% Similarity=0.835 Sum_probs=33.4
Q ss_pred ccccccccccc-cccccCCccchhhHHHHHHcCCCCCCCCcCc
Q 007666 338 CAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (594)
Q Consensus 338 C~IC~e~~~~~-~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~C 379 (594)
|+||++.+.++ +.++|||.||.+|+..|+++ +..||.|
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 89999999999 67899999999999999998 5899998
No 14
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.69 E-value=8.4e-09 Score=86.52 Aligned_cols=51 Identities=37% Similarity=0.826 Sum_probs=40.3
Q ss_pred CCCccccccccccc------------c-cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAK------------A-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~------------~-~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.|+.|.||+..|+. | +.-.|+|.||..||.+|++++.. +..||+||++...
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 37789999999862 1 12279999999999999987533 5799999998754
No 15
>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=98.65 E-value=1.7e-08 Score=73.86 Aligned_cols=44 Identities=41% Similarity=1.057 Sum_probs=37.1
Q ss_pred ccccccccccccccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 337 ECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 337 ~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
+|+||++.+.++..+ +|||.||..|+..|++++ ...||.||..+
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 499999999666655 499999999999999873 47899999754
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=98.61 E-value=2.8e-08 Score=79.19 Aligned_cols=47 Identities=21% Similarity=0.280 Sum_probs=42.5
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
..|+||.+.+++|+.++|||+|++.||.+|+++ +..||.|+.++..+
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~----~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLS----HGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH----CCCCCCCcCCCChh
Confidence 369999999999999999999999999999987 57999999987543
No 17
>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=98.52 E-value=4.7e-08 Score=71.28 Aligned_cols=40 Identities=43% Similarity=1.032 Sum_probs=35.7
Q ss_pred cccccccccccc-ccccCCccchhhHHHHHHcCCCCCCCCcCc
Q 007666 338 CAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (594)
Q Consensus 338 C~IC~e~~~~~~-~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~C 379 (594)
|+||.+.+.++. .++|||.||..|+.+|+++. ....||.|
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 88999999999999999942 26789998
No 18
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=2e-06 Score=85.77 Aligned_cols=51 Identities=35% Similarity=0.818 Sum_probs=42.0
Q ss_pred CCCccccccccccc----------ccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 334 YDDECAICREPMAK----------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 334 ~~~~C~IC~e~~~~----------~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
+|..|++|-..+.. ..+|.|+|+||..||+.|..-++ .++||.|+..+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK--kqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK--KQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC--CCCCchHHHHhhHh
Confidence 57789999987743 24789999999999999987654 58999999988654
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=98.51 E-value=6.1e-08 Score=94.51 Aligned_cols=52 Identities=29% Similarity=0.675 Sum_probs=39.5
Q ss_pred CCCccccccccccc---------ccccccCCccchhhHHHHHHcC--CCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAK---------AKKLLCNHLFHLACLRSWLDQG--LNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~---------~~~lpCgH~Fh~~Cl~~wl~~~--~~~~~~CP~CR~~~~~ 385 (594)
.+.+|+||+|...+ +...+|+|.||..||+.|.+.. .....+||+||..+..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 46789999998633 2334899999999999999753 1224579999998754
No 20
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=6.8e-08 Score=96.34 Aligned_cols=50 Identities=32% Similarity=0.697 Sum_probs=43.5
Q ss_pred CCCcccccccccccccccccCCccchhhHHH-HHHcCCCCCCCCcCcccCCcCC
Q 007666 334 YDDECAICREPMAKAKKLLCNHLFHLACLRS-WLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~-wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.|..|+||++....+..++|||+||+.||.. |-.++ ..-||.||+.+.++
T Consensus 214 ~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccCCcccccccchhhHHHHHHHHHhhc---cccCchhhhhccch
Confidence 3678999999999999999999999999998 87773 23499999988765
No 21
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=1.3e-07 Score=102.08 Aligned_cols=55 Identities=27% Similarity=0.640 Sum_probs=46.2
Q ss_pred CCcccccccccccccccccCCccchhhHHHHHHcC-CCCCCCCcCcccCCcCCCcc
Q 007666 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPLFVGRRE 389 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~-~~~~~~CP~CR~~~~~~~~~ 389 (594)
+..|+||+++...|..+.|||+||..||.+.+... ......||+||..+..++..
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 67899999999999999999999999998877654 22356999999999886544
No 22
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=9.8e-08 Score=89.99 Aligned_cols=48 Identities=29% Similarity=0.717 Sum_probs=41.0
Q ss_pred CCcccccccccccc--cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 335 DDECAICREPMAKA--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 335 ~~~C~IC~e~~~~~--~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
-..|+||++.+.+. +-+.|||+||..||+.-++. ...||+|++.+..+
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~----~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN----TNKCPTCRKKITHK 180 (187)
T ss_pred ccCCCceecchhhccccccccchhHHHHHHHHHHHh----CCCCCCcccccchh
Confidence 35799999999764 45799999999999999988 68999999987654
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.42 E-value=1.3e-07 Score=66.73 Aligned_cols=39 Identities=41% Similarity=1.054 Sum_probs=34.7
Q ss_pred ccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCc
Q 007666 338 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (594)
Q Consensus 338 C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~C 379 (594)
|+||++....+..++|||.||..|++.|++.. ...||.|
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 89999998888899999999999999999832 5789998
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.39 E-value=1.7e-07 Score=100.43 Aligned_cols=49 Identities=27% Similarity=0.538 Sum_probs=43.8
Q ss_pred CCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
....|+||.+.+.+|+.++|||.||..|+..|+.. ...||+||..+...
T Consensus 25 ~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~----~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN----QPKCPLCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC----CCCCCCCCCccccc
Confidence 45689999999999999999999999999999987 46899999987653
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.37 E-value=1.4e-07 Score=69.60 Aligned_cols=39 Identities=31% Similarity=0.810 Sum_probs=23.6
Q ss_pred cccccccccc----ccccccCCccchhhHHHHHHcCCCCCCCCc
Q 007666 338 CAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCP 377 (594)
Q Consensus 338 C~IC~e~~~~----~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP 377 (594)
|+||.| +.+ |+.|+|||+|+.+|+.++.+++......||
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 877 899999999999999999986432245777
No 26
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=4.2e-06 Score=89.49 Aligned_cols=49 Identities=37% Similarity=0.871 Sum_probs=38.9
Q ss_pred CCCccccccccccc------c-----------cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAK------A-----------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~------~-----------~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
....|+||+.+.+- + ..+||.|+||..|+..|.+.. +..||+||++++.
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 34679999988741 1 235999999999999999952 4599999998864
No 27
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.25 E-value=1.8e-06 Score=90.00 Aligned_cols=49 Identities=35% Similarity=0.698 Sum_probs=42.2
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.-|.||-|.-++.+.-||||..|..|+..|-..+ ++++||.||.++...
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd--~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSD--EGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccC--CCCCCCceeeEeccc
Confidence 4599999998888888999999999999997553 368999999998654
No 28
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.21 E-value=5.9e-07 Score=66.73 Aligned_cols=41 Identities=34% Similarity=0.844 Sum_probs=34.1
Q ss_pred cccccccccc---cccccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 337 ECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 337 ~C~IC~e~~~---~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
.|+||.+.+. .+..++|||+||..|+...... ...||+||+
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 4999999992 3467799999999999988733 589999985
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.18 E-value=4.2e-07 Score=93.03 Aligned_cols=48 Identities=29% Similarity=0.566 Sum_probs=44.2
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
..|.||.|.|..|..+||+|.||.-||+..|.. +..||.|+.++.+.+
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 689999999887753
No 30
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=98.15 E-value=2.7e-06 Score=62.87 Aligned_cols=40 Identities=23% Similarity=0.380 Sum_probs=37.4
Q ss_pred HHHHHHHHHhhCCCCChHHHHHHhh-ccCchhhhHHhhhcC
Q 007666 555 ILAMAETVREVLPHMPEDLIFQDLQ-RTNSATITVNNLLQM 594 (594)
Q Consensus 555 ~~~~~~~v~~~~p~~p~~~~~~~~~-~~~~~~~~~~~~~~~ 594 (594)
...++++++||||+++.+.|.++|. .+|+|+.||++||++
T Consensus 2 ~~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 3568999999999999999999999 999999999999985
No 31
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=98.15 E-value=2.1e-06 Score=63.13 Aligned_cols=39 Identities=21% Similarity=0.429 Sum_probs=34.8
Q ss_pred HHHHHHHHhhCCCCChHHHHHHh-hccCchhhhHHhhhcC
Q 007666 556 LAMAETVREVLPHMPEDLIFQDL-QRTNSATITVNNLLQM 594 (594)
Q Consensus 556 ~~~~~~v~~~~p~~p~~~~~~~~-~~~~~~~~~~~~~~~~ 594 (594)
..++++++||||+++.+.|.++| +..++||.||++|||+
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 36889999999999999999999 7778999999999984
No 32
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=6.3e-07 Score=72.78 Aligned_cols=51 Identities=33% Similarity=0.792 Sum_probs=39.6
Q ss_pred CCCccccccccccc------------cccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAK------------AKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~------------~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.+++|.||+-+|+. |..+ -|.|.||..||.+|+..+.+ +..||+||+....
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~ts-q~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTS-QGQCPMCRQTWQF 82 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccc-cccCCcchheeEe
Confidence 35689999988863 1122 69999999999999987544 5799999998653
No 33
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.10 E-value=1.3e-06 Score=72.22 Aligned_cols=48 Identities=27% Similarity=0.397 Sum_probs=39.2
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
..|+||.+-|.+|+.+||||+|.+.||..|+++. +..||.|+.++...
T Consensus 5 f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~---~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 5 FLCPITGELMRDPVILPSGHTYERSAIERWLEQN---GGTDPFTRQPLSES 52 (73)
T ss_dssp GB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTT---SSB-TTT-SB-SGG
T ss_pred cCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcC---CCCCCCCCCcCCcc
Confidence 4799999999999999999999999999999884 58999999988764
No 34
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.07 E-value=1.5e-06 Score=71.20 Aligned_cols=31 Identities=39% Similarity=0.876 Sum_probs=27.9
Q ss_pred ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 352 LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 352 pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.|.|.||..||..||.. +..||+||++....
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 58999999987653
No 35
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=4.3e-06 Score=81.31 Aligned_cols=89 Identities=27% Similarity=0.576 Sum_probs=66.9
Q ss_pred cCCCcccccccccccc--cccccCCccchhhHHHHHHc----CCCCCCCCcCcccCCcCCCccccCCCCCCCCCchHHHH
Q 007666 333 AYDDECAICREPMAKA--KKLLCNHLFHLACLRSWLDQ----GLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLA 406 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~--~~lpCgH~Fh~~Cl~~wl~~----~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~e~~~ 406 (594)
+++..|..|-..+.++ .+|.|-|.||+.|+++|-.+ ..+.+..||.|..+++.. .+...+ .+
T Consensus 48 DY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp--~NlvsP----------va 115 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP--INLVSP----------VA 115 (299)
T ss_pred CCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC--ccccch----------hH
Confidence 3567899999998765 67899999999999999765 245578999999999874 332333 24
Q ss_pred HHhccCCCCCCCCCCCCCCCCCCCCCC
Q 007666 407 RQLSMGLDRQNNTGQTLPTGVFPNQTQ 433 (594)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 433 (594)
+.+++.+.+.|..+.+.+...++....
T Consensus 116 ~aLre~L~qvNWaRagLGLpll~E~~s 142 (299)
T KOG3970|consen 116 EALREQLKQVNWARAGLGLPLLPELNS 142 (299)
T ss_pred HHHHHHHHhhhHHhhccCCccchhhcC
Confidence 556666678888888888888776543
No 36
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.91 E-value=3.6e-06 Score=84.69 Aligned_cols=47 Identities=28% Similarity=0.579 Sum_probs=43.0
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
..|-||-+.+..|..++|||.||.-||+..|.. +..||.||.+....
T Consensus 26 lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~----qp~CP~Cr~~~~es 72 (391)
T COG5432 26 LRCRICDCRISIPCETTCGHTFCSLCIRRHLGT----QPFCPVCREDPCES 72 (391)
T ss_pred HHhhhhhheeecceecccccchhHHHHHHHhcC----CCCCccccccHHhh
Confidence 579999999999999999999999999999988 68999999987654
No 37
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=6.9e-06 Score=83.79 Aligned_cols=43 Identities=37% Similarity=0.702 Sum_probs=38.8
Q ss_pred CCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcc
Q 007666 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR 380 (594)
....|+||++.+.+++.+||||.||..|+..+... ...||.||
T Consensus 12 ~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~----~~~Cp~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREPVLLPCGHNFCRACLTRSWEG----PLSCPVCR 54 (386)
T ss_pred ccccChhhHHHhhcCccccccchHhHHHHHHhcCC----CcCCcccC
Confidence 45689999999999988999999999999998872 58999999
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.68 E-value=2.5e-05 Score=89.04 Aligned_cols=50 Identities=30% Similarity=0.745 Sum_probs=39.3
Q ss_pred cCCCccccccccccc-----c--cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCc
Q 007666 333 AYDDECAICREPMAK-----A--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~-----~--~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~ 384 (594)
..-++|+||..-+.. | +.-.|.|-||..|+.+|..... +.+||.||.+++
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 3336999999999999998753 589999998764
No 39
>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=97.67 E-value=3.1e-05 Score=80.22 Aligned_cols=50 Identities=28% Similarity=0.694 Sum_probs=37.6
Q ss_pred CCcccccccc-ccccc-c-c--ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 335 DDECAICREP-MAKAK-K-L--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 335 ~~~C~IC~e~-~~~~~-~-l--pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
+..|++|..+ +..+. + + +|||.||..|+...+..+ ...||.|+.++....
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 4579999986 33332 2 2 799999999999976554 468999999887653
No 40
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=2e-05 Score=80.12 Aligned_cols=49 Identities=27% Similarity=0.582 Sum_probs=41.8
Q ss_pred CCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
+.+|+||+....-|+.++|+|.||..||+.=...+ ..+||+||.++...
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 56899999999999999999999999998655443 46899999998653
No 41
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=1.5e-05 Score=68.57 Aligned_cols=30 Identities=37% Similarity=0.907 Sum_probs=27.0
Q ss_pred ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 352 LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 352 pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.|.|.||..||..|+++ ...||+|.++...
T Consensus 80 ~CNHaFH~hCisrWlkt----r~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKT----RNVCPLDNKEWVF 109 (114)
T ss_pred ecchHHHHHHHHHHHhh----cCcCCCcCcceeE
Confidence 79999999999999999 6999999887654
No 42
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.63 E-value=1.4e-05 Score=65.52 Aligned_cols=51 Identities=29% Similarity=0.659 Sum_probs=25.1
Q ss_pred CCcccccccccc-c---cccc----ccCCccchhhHHHHHHcCCCC-------CCCCcCcccCCcC
Q 007666 335 DDECAICREPMA-K---AKKL----LCNHLFHLACLRSWLDQGLNE-------MYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~-~---~~~l----pCgH~Fh~~Cl~~wl~~~~~~-------~~~CP~CR~~~~~ 385 (594)
+.+|.||.+... . +... .|++.||..||.+|+....+. ..+||.|+.++.-
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 357999998865 2 2222 799999999999998752111 1369999998764
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=2.1e-05 Score=59.96 Aligned_cols=48 Identities=31% Similarity=0.596 Sum_probs=38.4
Q ss_pred CCcccccccccccccccccCCc-cchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~-Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
+++|.||+|...+.+...|||. .|.+|-..-++.. +..||+||+++..
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~---~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKAL---HGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHcc---CCcCcchhhHHHH
Confidence 5789999999888888899997 6888865544432 6899999998753
No 44
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.54 E-value=2.2e-05 Score=83.64 Aligned_cols=43 Identities=44% Similarity=0.993 Sum_probs=36.4
Q ss_pred Cccccccccccccc----ccccCCccchhhHHHHHHcCCCCCCCCcCcccCCc
Q 007666 336 DECAICREPMAKAK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 336 ~~C~IC~e~~~~~~----~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~ 384 (594)
.+|++|+|.|++.. ...|.|.||..|+..|.. .+||+||....
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 58999999998753 458999999999999975 58999998654
No 45
>PF13705 TRC8_N: TRC8 N-terminal domain
Probab=97.54 E-value=0.0074 Score=66.58 Aligned_cols=105 Identities=16% Similarity=0.275 Sum_probs=83.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhhcCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHhH-HHHH
Q 007666 126 VWLTVLCSLKMFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPL-SVAF 204 (594)
Q Consensus 126 ~wF~~L~~LK~fh~L~~dRve~L~~SP~~~~~~h~Rl~~lL~~ll~~d~~~i~~~~~~~~~~g~s~~ll~~fE~~-~l~~ 204 (594)
.+..+-.+++..|-+.+..+-.|.+|.+.+.++|+|.+++.++++++.+++. +..+++...+++++...-+. ...+
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 LFLVLTALLHSLHEIVDPVLMSLSASHNRSFWRHFRALSVCLFLLVFPLYLS---YYLWSFFPIDTWLLIVTSFCVETIV 424 (508)
T ss_pred HHHHHHHHHHHHHHHhHHHHHhccCCCCchHHHHHHHHHHHHHHHHHHHHHH---HHHHHhCChHHHHHHHHHHHHHHHH
Confidence 3444446999999999999999999999999999999999999999988754 55566677788776555443 3457
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCCcccc
Q 007666 205 ETMQAILVHGFQLLDIWLHHSAGNSTNCA 233 (594)
Q Consensus 205 ~tl~~ll~~~~~l~d~~~~~~~~~~~~~~ 233 (594)
+++.++.+|+++++|.+.+..|++.+|+.
T Consensus 425 kv~~sl~iY~Lf~vd~~~~~~WE~LDD~V 453 (508)
T PF13705_consen 425 KVLGSLAIYILFMVDARREEPWEKLDDYV 453 (508)
T ss_pred HHHHHHHHHHHHHHHhhcccchhhcccEE
Confidence 78889999999999998776666655543
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.47 E-value=3.4e-05 Score=61.29 Aligned_cols=45 Identities=29% Similarity=0.783 Sum_probs=24.2
Q ss_pred Cccccccccccccccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
-.|++|.+.+++|+.+ .|.|+||..|+..-+ ...||+|+.+--.+
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~------~~~CPvC~~Paw~q 53 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCI------GSECPVCHTPAWIQ 53 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGT------TTB-SSS--B-S-S
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhc------CCCCCCcCChHHHH
Confidence 4799999999999865 899999999997633 24699999876554
No 47
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=5.3e-05 Score=79.12 Aligned_cols=50 Identities=32% Similarity=0.618 Sum_probs=42.3
Q ss_pred cCCCcccccccccccccccccCCc-cchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 333 AYDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~lpCgH~-Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
+...+|.||+.+-++...|||.|. .|..|-+..--+ +..||+||+++...
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 346789999999999999999998 788998876555 57999999998653
No 48
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.46 E-value=6.7e-05 Score=85.35 Aligned_cols=74 Identities=19% Similarity=0.411 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhCCCCchhhhhcCCCcccccccccccc-cccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 303 IKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 303 ~~r~~~~~~~r~~~~~l~~~~p~~~~eel~~~~~~C~IC~e~~~~~-~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
.+.-+...++++.++++++.+.+....+..-....|..|.-+++-| +...|||.||.+|+. +. ...||.|+.
T Consensus 808 ~qd~~~Ie~yk~~i~e~r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~----~~~CP~C~~ 880 (933)
T KOG2114|consen 808 EQDEDAIEVYKKDIEEKRQELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DK----EDKCPKCLP 880 (933)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHHhhc---cC----cccCCccch
Confidence 3333445556777777776665544333222345899999999988 567999999999997 22 589999998
Q ss_pred CC
Q 007666 382 PL 383 (594)
Q Consensus 382 ~~ 383 (594)
+.
T Consensus 881 e~ 882 (933)
T KOG2114|consen 881 EL 882 (933)
T ss_pred hh
Confidence 44
No 49
>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=97.44 E-value=7.8e-05 Score=56.77 Aligned_cols=42 Identities=24% Similarity=0.694 Sum_probs=32.1
Q ss_pred ccccccccc--ccccccccC-----CccchhhHHHHHHcCCCCCCCCcCcc
Q 007666 337 ECAICREPM--AKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCR 380 (594)
Q Consensus 337 ~C~IC~e~~--~~~~~lpCg-----H~Fh~~Cl~~wl~~~~~~~~~CP~CR 380 (594)
.|.||++.. +++...||. |.+|..|+..|+.... ..+||+|+
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 489999832 334556885 8999999999997742 35899995
No 50
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=6e-05 Score=78.89 Aligned_cols=48 Identities=33% Similarity=0.857 Sum_probs=35.4
Q ss_pred Cccccccccccccccc----ccCCccchhhHHHHHHcCCCCCCCCcCcccCCc
Q 007666 336 DECAICREPMAKAKKL----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~l----pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~ 384 (594)
..|.||-+-+.....+ .|||+||..|+.+|++..+. ...||+||-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps-~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPS-NRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCc-cCCCCceeeccc
Confidence 4799995444433333 59999999999999987643 369999994443
No 51
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=3.6e-05 Score=79.89 Aligned_cols=50 Identities=34% Similarity=0.646 Sum_probs=42.4
Q ss_pred CCCccccccccccccccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.+..|+||++-++..... -|+|.||.+||..=+..+ ++.||+||+.+..+
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 456899999999888776 599999999998777765 68999999998654
No 52
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=6.4e-05 Score=85.25 Aligned_cols=49 Identities=20% Similarity=0.560 Sum_probs=43.6
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
-.|+.|-+...+.+...|||.||..|+..-+..+ +..||.|-..+...+
T Consensus 644 LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etR---qRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 644 LKCSVCNTRWKDAVITKCGHVFCEECVQTRYETR---QRKCPKCNAAFGAND 692 (698)
T ss_pred eeCCCccCchhhHHHHhcchHHHHHHHHHHHHHh---cCCCCCCCCCCCccc
Confidence 5799999999999999999999999999999875 689999999887653
No 53
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.20 E-value=0.00018 Score=77.61 Aligned_cols=49 Identities=35% Similarity=0.686 Sum_probs=43.8
Q ss_pred cCCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
..+..|.||...+..|+.+||||.||..||..-+.+ ...||.||.++..
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 456789999999999999999999999999886665 6899999999875
No 54
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.0016 Score=65.73 Aligned_cols=51 Identities=24% Similarity=0.613 Sum_probs=40.5
Q ss_pred cCCCccccccccccccccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 333 AYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
..+.+|++|-++...|... +|||+||.-|+..=..-+. ..+||.|-.+...
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a--sf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA--SFTCPLCGENVEP 288 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh--hcccCccCCCCcc
Confidence 4678999999999988665 6999999999986544321 4799999887753
No 55
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.00047 Score=72.99 Aligned_cols=53 Identities=36% Similarity=0.732 Sum_probs=39.8
Q ss_pred CCCccccccccccccc-----c---cccCCccchhhHHHHHHcCC---CCCCCCcCcccCCcCC
Q 007666 334 YDDECAICREPMAKAK-----K---LLCNHLFHLACLRSWLDQGL---NEMYSCPTCRKPLFVG 386 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~-----~---lpCgH~Fh~~Cl~~wl~~~~---~~~~~CP~CR~~~~~~ 386 (594)
.+..|.||+|...+.. . .+|.|.||..|++.|-.... .-.+.||.||......
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 4678999999876543 2 36999999999999974431 1137999999986543
No 56
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.83 E-value=0.00047 Score=77.66 Aligned_cols=46 Identities=22% Similarity=0.434 Sum_probs=34.4
Q ss_pred cccccccccccc---cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 337 ECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 337 ~C~IC~e~~~~~---~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.|++|+..+.+. .+-+|+|.||..|+..|-+. ..+||+||..+..-
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~----aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC----AQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhHHHHHHHHHhhccccccccccHHHHhhhhhhh----cccCchhhhhhhee
Confidence 344555444332 34589999999999999988 68999999987654
No 57
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00064 Score=71.92 Aligned_cols=48 Identities=31% Similarity=0.797 Sum_probs=39.0
Q ss_pred CCCcccccccccccc-----cccccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 334 YDDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~-----~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
...+|+||++.++.+ +.+.|||.|-.+||+.|+.+. ....||.|..+-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~--~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKK--TKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhh--hhhhCcccCChh
Confidence 356899999999765 456899999999999999632 257999998764
No 58
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0016 Score=68.26 Aligned_cols=45 Identities=24% Similarity=0.577 Sum_probs=34.8
Q ss_pred CCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
..+.|.||.++.++.+.+||||.-| |..--.. ..+||+||+.+..
T Consensus 304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-----l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-----LPQCPVCRQRIRL 348 (355)
T ss_pred CCCceEEecCCccceeeecCCcEEE--chHHHhh-----CCCCchhHHHHHH
Confidence 4578999999999999999999855 6533222 3579999997753
No 59
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.66 E-value=0.001 Score=69.82 Aligned_cols=46 Identities=39% Similarity=0.880 Sum_probs=37.5
Q ss_pred CCcccccccccccc----cccccCCccchhhHHHHHHcCCCCCCCCcCcccC
Q 007666 335 DDECAICREPMAKA----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (594)
Q Consensus 335 ~~~C~IC~e~~~~~----~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~ 382 (594)
+..|..|-|.+... .-|||.|+||..|+...|+++. ..+||.||+-
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~--~rsCP~Crkl 414 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG--TRSCPNCRKL 414 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC--CCCCccHHHH
Confidence 45799999987532 4579999999999999998764 4799999943
No 60
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.53 E-value=0.0012 Score=71.85 Aligned_cols=50 Identities=28% Similarity=0.580 Sum_probs=44.2
Q ss_pred cCCCcccccccccccccc-cccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 333 AYDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~-lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
+.+..|++|...+.+|.. ..|||.||..|+.+|+.. +..||.|+..+...
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 68999998887553
No 61
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.47 E-value=0.0023 Score=69.52 Aligned_cols=53 Identities=25% Similarity=0.646 Sum_probs=44.0
Q ss_pred CCcccccccccccccccccCCccchhhHHHHHHcC-CCCCCCCcCcccCCcCCC
Q 007666 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~-~~~~~~CP~CR~~~~~~~ 387 (594)
+-.|.+|.++-+++....|.|.||+.|+.+....- .+.+.+||+|...+..+.
T Consensus 536 ~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 536 EVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred ceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 45799999999999999999999999998887642 223579999999887653
No 62
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.42 E-value=0.001 Score=63.90 Aligned_cols=44 Identities=23% Similarity=0.436 Sum_probs=38.8
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
..|.||.++++.|+.+.|||.||..|-..-.+. ...|-+|-+..
T Consensus 197 F~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~k----g~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESPVVTECGHSFCSLCAIRKYQK----GDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccchhhhhcchhHHHHHHHHHhcc----CCcceecchhh
Confidence 479999999999999999999999998776666 58999997754
No 63
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.29 E-value=0.0064 Score=63.28 Aligned_cols=48 Identities=23% Similarity=0.426 Sum_probs=42.9
Q ss_pred CCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
+|+.|+||...--..+..||+|.-|..||.+.+-+ .+.|=.|+..+..
T Consensus 421 Ed~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN----~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMN----CKRCFFCKTTVID 468 (489)
T ss_pred ccccCcceecccchhhccCCCCchHHHHHHHHHhc----CCeeeEecceeee
Confidence 46789999998888888999999999999999887 6899999998864
No 64
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.18 E-value=0.0017 Score=51.04 Aligned_cols=43 Identities=21% Similarity=0.517 Sum_probs=29.9
Q ss_pred CCCcccccccccccccc-cccCCccchhhHHHHHHcCCCCCCCCcC
Q 007666 334 YDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPT 378 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~-lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~ 378 (594)
.+..|+|....+++|++ ..|||+|-++.|.+++.++ ....||.
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 35689999999999977 4899999999999999432 2579998
No 65
>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=96.17 E-value=0.0096 Score=52.21 Aligned_cols=30 Identities=23% Similarity=0.882 Sum_probs=24.9
Q ss_pred CCCcccccccccccc--cccccCCccchhhHH
Q 007666 334 YDDECAICREPMAKA--KKLLCNHLFHLACLR 363 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~--~~lpCgH~Fh~~Cl~ 363 (594)
.+..|++|...+... ...||||+||..|++
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 456899999999775 345999999999974
No 66
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.07 E-value=0.002 Score=65.69 Aligned_cols=52 Identities=29% Similarity=0.693 Sum_probs=39.4
Q ss_pred CCcccccccccccc---cccccCCccchhhHHHHHHcC-------------------CCCCCCCcCcccCCcCC
Q 007666 335 DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQG-------------------LNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 335 ~~~C~IC~e~~~~~---~~lpCgH~Fh~~Cl~~wl~~~-------------------~~~~~~CP~CR~~~~~~ 386 (594)
...|.||+-.|.+. .+++|.|.||..|+...|..- .+-...||+||..+...
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 56899999999765 467999999999998765430 11235799999998654
No 67
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.94 E-value=0.0025 Score=65.09 Aligned_cols=46 Identities=22% Similarity=0.429 Sum_probs=40.4
Q ss_pred CCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCc
Q 007666 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~ 384 (594)
...|-||.++|..|+...|||.||..|-..-+++ ...|++|.+...
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 4569999999999999999999999998777776 589999987654
No 68
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.87 E-value=0.0067 Score=61.80 Aligned_cols=43 Identities=26% Similarity=0.672 Sum_probs=35.9
Q ss_pred Ccccccccccccccccc-cCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 336 DECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lp-CgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
..|+.|..-+..+.++| |+|.||.+||..=|... ...||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~ds---Df~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDS---DFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhc---cccCCCccc
Confidence 57999999999999985 89999999998655432 589999954
No 69
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.86 E-value=0.0044 Score=73.64 Aligned_cols=54 Identities=35% Similarity=0.665 Sum_probs=41.9
Q ss_pred cCCCcccccccccc---cccccccCCccchhhHHHHHHcCCCC------CCCCcCcccCCcCC
Q 007666 333 AYDDECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNE------MYSCPTCRKPLFVG 386 (594)
Q Consensus 333 ~~~~~C~IC~e~~~---~~~~lpCgH~Fh~~Cl~~wl~~~~~~------~~~CP~CR~~~~~~ 386 (594)
+.|+.|-||..+-- .+.+|.|+|+||..|.+.-|+++-.. -.+||+|+.++...
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 46789999987642 34789999999999999888875221 24899999988653
No 70
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.60 E-value=0.0041 Score=64.53 Aligned_cols=48 Identities=25% Similarity=0.612 Sum_probs=41.7
Q ss_pred CCccccccccccccccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 335 DDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
-.+|.+|...+.++... -|=|.||..||...++. ...||+|...+-..
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 35799999999998665 69999999999999988 68999999887654
No 71
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=95.53 E-value=0.017 Score=43.08 Aligned_cols=38 Identities=34% Similarity=0.531 Sum_probs=32.8
Q ss_pred HHHHHHHhhCCCCChHHHHHHhhccC-chhhhHHhhhcC
Q 007666 557 AMAETVREVLPHMPEDLIFQDLQRTN-SATITVNNLLQM 594 (594)
Q Consensus 557 ~~~~~v~~~~p~~p~~~~~~~~~~~~-~~~~~~~~~~~~ 594 (594)
.+.+|++.||+.-+-++|++.|+||| .|...|||||-|
T Consensus 11 dlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR 49 (53)
T PF11547_consen 11 DLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSR 49 (53)
T ss_dssp HHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 46789999999999999999999998 699999999853
No 72
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.50 E-value=0.0029 Score=64.32 Aligned_cols=43 Identities=30% Similarity=0.649 Sum_probs=34.8
Q ss_pred CCcccccccccccccccccCCc-cchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~-Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
+.-|+||++...++..|+|||. -|..|-.. -..||+||+.+..
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr--------m~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR--------MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc--------cccCchHHHHHHH
Confidence 5679999999999999999996 56777532 3589999997643
No 73
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.30 E-value=0.014 Score=54.84 Aligned_cols=51 Identities=27% Similarity=0.679 Sum_probs=38.7
Q ss_pred cCCCcccccccccccccccccCC-----ccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 333 AYDDECAICREPMAKAKKLLCNH-----LFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~~~lpCgH-----~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
..+..|-||.++-. ...-||.- .-|.+|++.|+.... ...||+|+.+....
T Consensus 6 ~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~--~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSK--NKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCC--CCcccccCCeEEEE
Confidence 45678999999854 33457764 449999999998753 57999999987653
No 74
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.05 E-value=0.024 Score=65.75 Aligned_cols=35 Identities=29% Similarity=0.598 Sum_probs=27.5
Q ss_pred cCCCccccccccccc-c-cccccCCccchhhHHHHHH
Q 007666 333 AYDDECAICREPMAK-A-KKLLCNHLFHLACLRSWLD 367 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~-~-~~lpCgH~Fh~~Cl~~wl~ 367 (594)
+.++.|.+|..++-. | ...||||.||++|+..-..
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 356899999998753 3 4569999999999976543
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.01 E-value=0.014 Score=62.19 Aligned_cols=55 Identities=25% Similarity=0.457 Sum_probs=38.6
Q ss_pred hhhhhcCCCccccccccccc---ccccccCCccchhhHHHHHHcC----CCCCCCCcCcccC
Q 007666 328 SEELRAYDDECAICREPMAK---AKKLLCNHLFHLACLRSWLDQG----LNEMYSCPTCRKP 382 (594)
Q Consensus 328 ~eel~~~~~~C~IC~e~~~~---~~~lpCgH~Fh~~Cl~~wl~~~----~~~~~~CP~CR~~ 382 (594)
.++.......|.||.++..- -+++||+|+||..|++...... .-....||-|...
T Consensus 177 ~~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 177 LEKFVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred HHHHHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 34444456689999998643 3678999999999999886542 1113478877664
No 76
>PHA02862 5L protein; Provisional
Probab=94.88 E-value=0.017 Score=53.21 Aligned_cols=49 Identities=20% Similarity=0.661 Sum_probs=37.8
Q ss_pred CCcccccccccccccccccC-----CccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 335 DDECAICREPMAKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCg-----H~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
++.|-||.++-++. .-||. ..-|.+|+..|+.... ...||.|+.+...+
T Consensus 2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~--k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSK--KKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCC--CcCccCCCCeEEEE
Confidence 46899999986544 45775 5679999999996532 57999999987653
No 77
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.63 E-value=0.018 Score=44.51 Aligned_cols=46 Identities=26% Similarity=0.567 Sum_probs=36.4
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
..|..|...-.....+||||..+..|-..+ + -+-||.|-+++...+
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--r----YngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLICDNCFPGE--R----YNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEccccccccccccccceeeccccChh--h----ccCCCCCCCcccCCC
Confidence 468888888777889999999999996543 2 468999999887653
No 78
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.49 E-value=0.019 Score=43.26 Aligned_cols=40 Identities=28% Similarity=0.711 Sum_probs=27.0
Q ss_pred cccccccccccc--ccccC-----CccchhhHHHHHHcCCCCCCCCcCc
Q 007666 338 CAICREPMAKAK--KLLCN-----HLFHLACLRSWLDQGLNEMYSCPTC 379 (594)
Q Consensus 338 C~IC~e~~~~~~--~lpCg-----H~Fh~~Cl~~wl~~~~~~~~~CP~C 379 (594)
|-||+++-++.. ..||+ ..-|..|+..|+.... ..+|++|
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 678998866543 44775 3679999999998632 4689988
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.37 E-value=0.042 Score=54.91 Aligned_cols=62 Identities=16% Similarity=0.222 Sum_probs=46.6
Q ss_pred CCccccccccccccc---cc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCCccccCCCCCCCCC
Q 007666 335 DDECAICREPMAKAK---KL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVS 400 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~---~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~ 400 (594)
...|++|.+.+.+.. .| ||||+++.+|....+.. ...||+|-.++...+.........+-..
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~----D~v~pv~d~plkdrdiI~LqrGGTGfa~ 286 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK----DMVDPVTDKPLKDRDIIGLQRGGTGFAE 286 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc----cccccCCCCcCcccceEeeecccccccc
Confidence 457999999997653 33 99999999999998887 5899999999887655443333333333
No 80
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.69 E-value=0.042 Score=57.28 Aligned_cols=56 Identities=21% Similarity=0.474 Sum_probs=42.3
Q ss_pred CCchhhhhcCCCcccccccccccccccccCCccchhhHHHH--HHcCCCCCCCCcCcccCCc
Q 007666 325 DATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSW--LDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 325 ~~~~eel~~~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~w--l~~~~~~~~~CP~CR~~~~ 384 (594)
+.+.++..+.+..|.||.+...-.-.+||+|-.|-.|--.. |.. .+.||.||.+..
T Consensus 51 tsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~----~K~C~~CrTE~e 108 (493)
T COG5236 51 TSSADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM----QKGCPLCRTETE 108 (493)
T ss_pred cccccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh----ccCCCccccccc
Confidence 34455555567789999999888889999999999995322 333 489999998753
No 81
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.55 E-value=0.039 Score=57.64 Aligned_cols=45 Identities=31% Similarity=0.704 Sum_probs=38.1
Q ss_pred Cccccccccccc------ccccccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 336 DECAICREPMAK------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 336 ~~C~IC~e~~~~------~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
..|.||-++|.. |+.|.|||.+|..|+..-+... ...||.||.+.
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 5778999999999998777664 57899999986
No 82
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.55 E-value=0.048 Score=41.21 Aligned_cols=43 Identities=30% Similarity=0.719 Sum_probs=20.0
Q ss_pred ccccccccccc-c-cc--ccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 338 CAICREPMAKA-K-KL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 338 C~IC~e~~~~~-~-~l--pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
|++|.++++.. + .. +||+-.|..|...-++. +...||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~---~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN---EGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS---S-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc---cCCCCCCCCCCC
Confidence 78999998543 2 23 68898888886665542 268999999863
No 83
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.09 E-value=0.17 Score=52.77 Aligned_cols=46 Identities=20% Similarity=0.483 Sum_probs=37.9
Q ss_pred CCCccccccccccccccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
....|++|+..-.+|..+ .-|-+||..|+.+.+.+ ...||+=-.+.
T Consensus 299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~----~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN----YGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCCceEEecceEEeHHHHHHHHHh----cCCCCccCCcc
Confidence 456899999998887666 46999999999999987 78999865544
No 84
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=92.97 E-value=0.051 Score=62.69 Aligned_cols=50 Identities=30% Similarity=0.836 Sum_probs=36.5
Q ss_pred cCCCccccccccccccc-cc---ccCCccchhhHHHHHHcCC---CCCCCCcCcccC
Q 007666 333 AYDDECAICREPMAKAK-KL---LCNHLFHLACLRSWLDQGL---NEMYSCPTCRKP 382 (594)
Q Consensus 333 ~~~~~C~IC~e~~~~~~-~l---pCgH~Fh~~Cl~~wl~~~~---~~~~~CP~CR~~ 382 (594)
....+|.||.+.+.... .+ .|-|+||..||+.|-.+.. ...-.||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 44568999999986432 22 5889999999999986531 123489999843
No 85
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.53 E-value=0.069 Score=55.55 Aligned_cols=50 Identities=30% Similarity=0.550 Sum_probs=35.3
Q ss_pred CCCcccccccccccccc----cccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 334 YDDECAICREPMAKAKK----LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~----lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
+++.|+.|+|+++...+ -|||...|+-|...-- ++. ...||-||+.....
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~ir-q~l--ngrcpacrr~y~de 66 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIR-QNL--NGRCPACRRKYDDE 66 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHH-hhc--cCCChHhhhhcccc
Confidence 45679999999976533 3789887877754332 222 56999999977654
No 86
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=92.44 E-value=0.16 Score=54.41 Aligned_cols=34 Identities=26% Similarity=0.804 Sum_probs=24.6
Q ss_pred cCCccchhhHHHHHHcCC---------CCCCCCcCcccCCcCC
Q 007666 353 CNHLFHLACLRSWLDQGL---------NEMYSCPTCRKPLFVG 386 (594)
Q Consensus 353 CgH~Fh~~Cl~~wl~~~~---------~~~~~CP~CR~~~~~~ 386 (594)
|...+|.+|+-+|+..+. ..+..||+||+.+...
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 345668899999986542 2256999999987653
No 87
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.97 E-value=0.09 Score=50.09 Aligned_cols=51 Identities=29% Similarity=0.740 Sum_probs=36.4
Q ss_pred Ccccccccccccc-------cccccCCccchhhHHHHHHcCCCC-------CCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQGLNE-------MYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~-------~~lpCgH~Fh~~Cl~~wl~~~~~~-------~~~CP~CR~~~~~~ 386 (594)
..|.||...--++ .-..||.-||.-|+..||+.-... -..||.|..++..+
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 4688888654332 345899999999999998752110 13899999988654
No 88
>PHA03096 p28-like protein; Provisional
Probab=91.58 E-value=0.085 Score=54.85 Aligned_cols=46 Identities=26% Similarity=0.562 Sum_probs=32.3
Q ss_pred Ccccccccccccc-------ccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccC
Q 007666 336 DECAICREPMAKA-------KKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (594)
Q Consensus 336 ~~C~IC~e~~~~~-------~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~ 382 (594)
..|.||+|..... ..| .|.|.||..|++.|-.... ....||.||..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~-~~e~~~~c~~~ 232 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL-YKETEPENRRL 232 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh-hcccCccccch
Confidence 4799999986432 123 6999999999999986543 23456666543
No 89
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.13 E-value=0.069 Score=61.89 Aligned_cols=48 Identities=29% Similarity=0.565 Sum_probs=40.1
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
..|.||.+ .+.+...+|||.||.+|+..-++... ...||.||..+..+
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~--~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSE--NAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhcccccc--CCCCcHHHHHHHHH
Confidence 68999999 77788889999999999988776543 34899999988665
No 90
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.98 E-value=0.12 Score=53.29 Aligned_cols=43 Identities=35% Similarity=0.838 Sum_probs=36.1
Q ss_pred CCcccccccccc----cccccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 335 DDECAICREPMA----KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 335 ~~~C~IC~e~~~----~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
+..|+||.+.+. .+..++|||.-|..|.+..... +.+||+|.+
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 4678899999999999888776 589999988
No 91
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.81 E-value=0.033 Score=58.89 Aligned_cols=48 Identities=27% Similarity=0.638 Sum_probs=40.8
Q ss_pred CCccccccccccc----ccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 335 DDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 335 ~~~C~IC~e~~~~----~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
...|+||.+.+.. ...+-|||.+|..||++|+.. ...||.|++.+...
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~----~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT----KRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH----HHHhHHHHhhhhhh
Confidence 3579999988754 466799999999999999998 58999999998754
No 92
>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=90.20 E-value=0.25 Score=46.51 Aligned_cols=51 Identities=31% Similarity=0.546 Sum_probs=35.4
Q ss_pred CCccccccccccccccccc------------CC-ccchhhHHHHHHcCC---------------------------CCCC
Q 007666 335 DDECAICREPMAKAKKLLC------------NH-LFHLACLRSWLDQGL---------------------------NEMY 374 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpC------------gH-~Fh~~Cl~~wl~~~~---------------------------~~~~ 374 (594)
+-.|+||+|..-+++.|-| +- .-|..|+++.-+... ....
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 81 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL 81 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence 4589999999887776644 32 247889998754310 0135
Q ss_pred CCcCcccCCcC
Q 007666 375 SCPTCRKPLFV 385 (594)
Q Consensus 375 ~CP~CR~~~~~ 385 (594)
.||+||..+..
T Consensus 82 ~CPLCRG~V~G 92 (162)
T PF07800_consen 82 ACPLCRGEVKG 92 (162)
T ss_pred cCccccCceec
Confidence 79999999864
No 93
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=90.07 E-value=0.14 Score=51.33 Aligned_cols=43 Identities=26% Similarity=0.627 Sum_probs=28.8
Q ss_pred cccccccccc-cc-cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 337 ECAICREPMA-KA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 337 ~C~IC~e~~~-~~-~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.|.-|..--. ++ ..+.|+|+||..|... . ....||+||+++..
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~----~--~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKA----S--SPDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhccc----C--Cccccccccceeee
Confidence 4666665433 22 2358999999999742 1 12399999999644
No 94
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=90.04 E-value=0.97 Score=41.40 Aligned_cols=50 Identities=26% Similarity=0.486 Sum_probs=38.5
Q ss_pred Cccccccccccccccc----ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKAKKL----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~l----pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.+|.||.|.-.+.+.| -||-..|..|--..++-.. ....||.|+......
T Consensus 81 YeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~-~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 81 YECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN-LYPVCPVCKTSFKSS 134 (140)
T ss_pred eeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc-cCCCCCccccccccc
Confidence 4799999998887766 4999999999765544322 267999999987653
No 95
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.94 E-value=0.12 Score=53.31 Aligned_cols=43 Identities=35% Similarity=0.742 Sum_probs=30.8
Q ss_pred ccccccccccc-ccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 337 ECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 337 ~C~IC~e~~~~-~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.|--|--.... ++.+||+|+||.+|-+. +. .+.||.|-..+..
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~----dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARS--DS----DKICPLCDDRVQR 135 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhc--Cc----cccCcCcccHHHH
Confidence 46667655543 46779999999999753 22 5799999877643
No 96
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.32 E-value=0.23 Score=56.45 Aligned_cols=57 Identities=39% Similarity=0.753 Sum_probs=48.4
Q ss_pred hCCCCchhhhhcCCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 322 ALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 322 ~~p~~~~eel~~~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.++.++.+++.+..+.|.||++++ ..+..+|. |..|++.|+.. +..||.|++....+
T Consensus 466 ~~s~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~----~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 466 SLSEATPSQLREPNDVCAICYQEM-SARITPCS---HALCLRKWLYV----QEVCPLCHTYMKED 522 (543)
T ss_pred CCCCCChhhhhcccCcchHHHHHH-Hhcccccc---chhHHHhhhhh----ccccCCCchhhhcc
Confidence 456667778888889999999999 67777898 89999999988 58999999988765
No 97
>PF04641 Rtf2: Rtf2 RING-finger
Probab=89.01 E-value=0.28 Score=50.46 Aligned_cols=49 Identities=18% Similarity=0.357 Sum_probs=38.1
Q ss_pred CCCccccccccccccc----ccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 334 YDDECAICREPMAKAK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~----~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
....|+|+..+|.... ..||||+|...|+..-- . ...||+|-.++...+
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 4467999999995432 23999999999998762 2 468999999988654
No 98
>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=88.94 E-value=0.12 Score=47.51 Aligned_cols=32 Identities=22% Similarity=0.554 Sum_probs=26.3
Q ss_pred CCccccccccccc--cc-ccccC------CccchhhHHHHH
Q 007666 335 DDECAICREPMAK--AK-KLLCN------HLFHLACLRSWL 366 (594)
Q Consensus 335 ~~~C~IC~e~~~~--~~-~lpCg------H~Fh~~Cl~~wl 366 (594)
.-+|.||++...+ ++ -++|| |.||.+|+..|-
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 43 35787 999999999994
No 99
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=87.78 E-value=2.1 Score=51.51 Aligned_cols=38 Identities=34% Similarity=0.513 Sum_probs=32.7
Q ss_pred HHHHHHHhhCCCCChHHHHHHhhccC-chhhhHHhhhcC
Q 007666 557 AMAETVREVLPHMPEDLIFQDLQRTN-SATITVNNLLQM 594 (594)
Q Consensus 557 ~~~~~v~~~~p~~p~~~~~~~~~~~~-~~~~~~~~~~~~ 594 (594)
.+..+++.||-.-.-++|++.|+||| .|.-.|||||-|
T Consensus 191 ELInnaQqVLQGKSRdVIIRELQRTgLdVNeAVNNLLSR 229 (3015)
T KOG0943|consen 191 ELINNAQQVLQGKSRDVIIRELQRTGLDVNEAVNNLLSR 229 (3015)
T ss_pred HHHHHHHHHHhCCchhHHHHHHHHhCCcHHHHHHhhhcc
Confidence 35567777888999999999999998 799999999964
No 100
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.70 E-value=0.26 Score=55.33 Aligned_cols=39 Identities=26% Similarity=0.623 Sum_probs=30.4
Q ss_pred cccccccccc----cccccccCCccchhhHHHHHHcCCCCCCCCcCcccC
Q 007666 337 ECAICREPMA----KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (594)
Q Consensus 337 ~C~IC~e~~~----~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~ 382 (594)
.|.||+..|. .|+.+.|||..|..|+..-.. .+|| |+..
T Consensus 13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp-~~~D 55 (861)
T KOG3161|consen 13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP-TKRD 55 (861)
T ss_pred hchHHHHHHHHHhcCcccccccchHHHHHHHhHhh------ccCC-CCcc
Confidence 5999988774 578889999999999975443 5899 6543
No 101
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.65 E-value=0.35 Score=55.68 Aligned_cols=51 Identities=24% Similarity=0.563 Sum_probs=38.1
Q ss_pred CCCccccccccccccccc--ccC-----CccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 334 YDDECAICREPMAKAKKL--LCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~l--pCg-----H~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.+..|-||+.+-.....| ||+ ...|++|+-+|+.-.+ ...|-+|+.+..-+
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 356899999775443333 887 3479999999998543 57899999987654
No 102
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.30 E-value=0.3 Score=49.29 Aligned_cols=52 Identities=25% Similarity=0.676 Sum_probs=38.0
Q ss_pred CCCccccccccccccccc----ccC-----CccchhhHHHHHHcCCC----CCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAKAKKL----LCN-----HLFHLACLRSWLDQGLN----EMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~l----pCg-----H~Fh~~Cl~~wl~~~~~----~~~~CP~CR~~~~~ 385 (594)
.+..|-||.+.=++...- ||. |.-|..|+..|.+++.. ....||.|+.+...
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 456799999887665332 774 89999999999976421 23489999998654
No 103
>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=85.27 E-value=0.59 Score=48.10 Aligned_cols=46 Identities=26% Similarity=0.551 Sum_probs=34.8
Q ss_pred ccccccccc-ccc-ccc---ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 337 ECAICREPM-AKA-KKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 337 ~C~IC~e~~-~~~-~~l---pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.|++|..+- ..| .++ +|||..|.+|.+.-...+ ...||-|-..+-.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g---~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG---PAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcC---CCCCCcccchhhh
Confidence 599998763 222 222 999999999999988876 5799999776544
No 104
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=85.16 E-value=0.27 Score=59.35 Aligned_cols=44 Identities=25% Similarity=0.511 Sum_probs=38.6
Q ss_pred Ccccccccccc-cccccccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 336 DECAICREPMA-KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 336 ~~C~IC~e~~~-~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
..|.||++.+. .+-...|||.+|..|...|+.. +..||.|+...
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 5667799999999999999998 68999998543
No 105
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=84.42 E-value=0.37 Score=51.79 Aligned_cols=34 Identities=29% Similarity=0.537 Sum_probs=30.1
Q ss_pred CCcccccccccccccccccCCccchhhHHHHHHc
Q 007666 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQ 368 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~ 368 (594)
+..|+||..-|++|..|||+|..|..|-+.-+.+
T Consensus 4 elkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 4 ELKCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 4579999999999999999999999998766554
No 106
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.75 E-value=0.38 Score=45.25 Aligned_cols=31 Identities=29% Similarity=0.670 Sum_probs=24.2
Q ss_pred hhhhcCCCcccccccccccc---cccccCCccch
Q 007666 329 EELRAYDDECAICREPMAKA---KKLLCNHLFHL 359 (594)
Q Consensus 329 eel~~~~~~C~IC~e~~~~~---~~lpCgH~Fh~ 359 (594)
+.+.+...+|.||+|+++.+ .+|||-.+||+
T Consensus 171 DVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 171 DVLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred chhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 33445567899999999876 46799999986
No 107
>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=83.27 E-value=0.68 Score=34.22 Aligned_cols=40 Identities=25% Similarity=0.747 Sum_probs=22.4
Q ss_pred cccccccccccccc---ccCCccchhhHHHHHHcCCCCCCCCcCc
Q 007666 338 CAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (594)
Q Consensus 338 C~IC~e~~~~~~~l---pCgH~Fh~~Cl~~wl~~~~~~~~~CP~C 379 (594)
|.+|.+-...+.+= .|+=.+|..|+..++.... ...||.|
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 66777776665443 4888999999999987742 2379988
No 108
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.15 E-value=2.9 Score=44.99 Aligned_cols=46 Identities=22% Similarity=0.507 Sum_probs=35.3
Q ss_pred CCcccccccccc---cccccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 335 DDECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 335 ~~~C~IC~e~~~---~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
-..|||=.+.-. .|.+|.|||+.+.+-++..-+.+.. ...||.|=.
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~-sfKCPYCP~ 382 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQ-SFKCPYCPV 382 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCe-eeeCCCCCc
Confidence 457999777654 4799999999999999887666422 368999943
No 109
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.81 E-value=0.57 Score=46.63 Aligned_cols=41 Identities=37% Similarity=0.683 Sum_probs=30.9
Q ss_pred cccccccccccccccccCCc-cchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 337 ECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 337 ~C~IC~e~~~~~~~lpCgH~-Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.|-.|.+.-.....+||.|. +|..|-.+ -..||+|+.+...
T Consensus 160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 160 SCRKCGEREATVLLLPCRHLCLCGICDES--------LRICPICRSPKTS 201 (207)
T ss_pred cceecCcCCceEEeecccceEeccccccc--------CccCCCCcChhhc
Confidence 39999998777777899986 77778533 2579999986543
No 110
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=81.17 E-value=0.42 Score=54.80 Aligned_cols=50 Identities=26% Similarity=0.557 Sum_probs=41.2
Q ss_pred CCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
..+|+||.+.+.++..+.|.|.||..|+..-+..... ...||+|+..+..
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 3479999999999999999999999999876655432 5799999977654
No 111
>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=80.34 E-value=0.54 Score=35.34 Aligned_cols=44 Identities=32% Similarity=0.681 Sum_probs=24.9
Q ss_pred cccccccccccccccccC-CccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 337 ECAICREPMAKAKKLLCN-HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 337 ~C~IC~e~~~~~~~lpCg-H~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
.|.-|+-. +.-...|. |..|..|+...+.+ +..||+|..+++.+
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 35566643 22334676 99999999998888 68999999988754
No 112
>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=77.53 E-value=0.92 Score=45.38 Aligned_cols=45 Identities=29% Similarity=0.690 Sum_probs=34.2
Q ss_pred CCCccccccccc-ccc-cc-c--c-cCCccchhhHHHHHHcCCCCCCCCc--Cccc
Q 007666 334 YDDECAICREPM-AKA-KK-L--L-CNHLFHLACLRSWLDQGLNEMYSCP--TCRK 381 (594)
Q Consensus 334 ~~~~C~IC~e~~-~~~-~~-l--p-CgH~Fh~~Cl~~wl~~~~~~~~~CP--~CR~ 381 (594)
.|..|++|..+- -.| .+ | | |-|..|.+|.+.-+..+ ...|| -|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~G---pAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRG---PAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCC---CCCCCCccHHH
Confidence 456899999774 233 23 3 6 99999999999988876 57999 6744
No 113
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=76.37 E-value=1.5 Score=50.66 Aligned_cols=49 Identities=16% Similarity=0.171 Sum_probs=35.3
Q ss_pred CCcccccccccccc----cccc---cCCccchhhHHHHHHcC--CCCCCCCcCcccCC
Q 007666 335 DDECAICREPMAKA----KKLL---CNHLFHLACLRSWLDQG--LNEMYSCPTCRKPL 383 (594)
Q Consensus 335 ~~~C~IC~e~~~~~----~~lp---CgH~Fh~~Cl~~wl~~~--~~~~~~CP~CR~~~ 383 (594)
.+.|.+|..++..+ -..| |+|.+|..||.+|.++- ......|+.|...+
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 46788888877663 2334 99999999999998763 22245778887765
No 114
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=76.19 E-value=1.6 Score=50.22 Aligned_cols=26 Identities=27% Similarity=0.648 Sum_probs=22.6
Q ss_pred cccccCCccchhhHHHHHHcCCCCCCCCcC
Q 007666 349 KKLLCNHLFHLACLRSWLDQGLNEMYSCPT 378 (594)
Q Consensus 349 ~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~ 378 (594)
....|+|+-|.+|...|++. +..||.
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 45689999999999999998 578885
No 115
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.93 E-value=1.4 Score=45.31 Aligned_cols=34 Identities=29% Similarity=0.621 Sum_probs=25.2
Q ss_pred cCCccchhhHHHHHHcCC---------CCCCCCcCcccCCcCC
Q 007666 353 CNHLFHLACLRSWLDQGL---------NEMYSCPTCRKPLFVG 386 (594)
Q Consensus 353 CgH~Fh~~Cl~~wl~~~~---------~~~~~CP~CR~~~~~~ 386 (594)
|....|.+|+-+|+..+. ..+.+||+||+.+...
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 557788899999975431 1257999999998754
No 116
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.61 E-value=0.68 Score=46.54 Aligned_cols=34 Identities=15% Similarity=0.191 Sum_probs=30.4
Q ss_pred CCcccccccccccccccccCCccchhhHHHHHHc
Q 007666 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQ 368 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~ 368 (594)
-+-|+.|+.++.+|+..|=||+|+++||.+.+..
T Consensus 43 FdcCsLtLqPc~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred cceeeeecccccCCccCCCCeeeeHHHHHHHHHH
Confidence 3579999999999999999999999999887644
No 117
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.36 E-value=2.8 Score=48.63 Aligned_cols=35 Identities=26% Similarity=0.588 Sum_probs=27.1
Q ss_pred CCCcccccccccc-------cccccccCCccchhhHHHHHHc
Q 007666 334 YDDECAICREPMA-------KAKKLLCNHLFHLACLRSWLDQ 368 (594)
Q Consensus 334 ~~~~C~IC~e~~~-------~~~~lpCgH~Fh~~Cl~~wl~~ 368 (594)
.++.|.-|.++.. ..+.+.|||.||..|+..-..+
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~ 824 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR 824 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh
Confidence 4568999998754 3366799999999999766555
No 118
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=66.90 E-value=3.2 Score=43.61 Aligned_cols=42 Identities=31% Similarity=0.740 Sum_probs=32.8
Q ss_pred Cccccccccccccccccc--CCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 336 DECAICREPMAKAKKLLC--NHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpC--gH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
.+|+||.+.+..| ...| ||+-|..|-.+ . ...||.||.++..
T Consensus 49 leCPvC~~~l~~P-i~QC~nGHlaCssC~~~---~----~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP-IFQCDNGHLACSSCRTK---V----SNKCPTCRLPIGN 92 (299)
T ss_pred ccCchhhccCccc-ceecCCCcEehhhhhhh---h----cccCCcccccccc
Confidence 4799999998877 3466 68888888642 2 5789999999874
No 119
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=65.52 E-value=3.1 Score=43.44 Aligned_cols=50 Identities=22% Similarity=0.510 Sum_probs=37.5
Q ss_pred CCcccccccccccc----cccccC-----CccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 335 DDECAICREPMAKA----KKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 335 ~~~C~IC~e~~~~~----~~lpCg-----H~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
+..|-||.++.... ...||. +..|+.|+..|..... ...|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~--~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKG--NITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcccc--Ceeeecccccceec
Confidence 36799999977543 456775 6679999999997422 57999998876543
No 120
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=60.95 E-value=4.7 Score=39.85 Aligned_cols=45 Identities=22% Similarity=0.633 Sum_probs=35.9
Q ss_pred Ccccccccccccc-cccccCCccchhhHHHHHHcCCCCCCCCcCcccCCc
Q 007666 336 DECAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (594)
Q Consensus 336 ~~C~IC~e~~~~~-~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~ 384 (594)
..|.+|.+-.-.+ +.-.||-.+|..|+...+++ ...||.|-.-.+
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 4799999876544 34588889999999999988 689999965444
No 122
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=60.87 E-value=8.2 Score=40.74 Aligned_cols=47 Identities=32% Similarity=0.610 Sum_probs=34.3
Q ss_pred Ccccccccccccc--ccc--ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMAKA--KKL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~~~--~~l--pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
..|+||.++.... ..+ ||||.-|..|+..-... +.+||.||.+...+
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~----~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG----DGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhccccc----CCCCCccCCccccC
Confidence 5799999988543 233 68888888887665554 68999999665543
No 123
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.79 E-value=6.6 Score=42.84 Aligned_cols=35 Identities=29% Similarity=0.640 Sum_probs=26.0
Q ss_pred CCcccccccccccc----cccccCCccchhhHHHHHHcC
Q 007666 335 DDECAICREPMAKA----KKLLCNHLFHLACLRSWLDQG 369 (594)
Q Consensus 335 ~~~C~IC~e~~~~~----~~lpCgH~Fh~~Cl~~wl~~~ 369 (594)
..+|.||..+...+ ....|+|.||.+|..+..+..
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 45899999444332 234799999999999887753
No 124
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=58.03 E-value=6.5 Score=45.56 Aligned_cols=38 Identities=24% Similarity=0.577 Sum_probs=28.1
Q ss_pred ccccccccccccccc--ccCCccchhhHHHHHHcCCCCCCCCcC
Q 007666 337 ECAICREPMAKAKKL--LCNHLFHLACLRSWLDQGLNEMYSCPT 378 (594)
Q Consensus 337 ~C~IC~e~~~~~~~l--pCgH~Fh~~Cl~~wl~~~~~~~~~CP~ 378 (594)
.|.+|.......... .|||.-|.+|+++|+.. ...||.
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~----~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFK----ASPCAK 820 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhc----CCCCcc
Confidence 577777665443222 59999999999999998 466665
No 125
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.90 E-value=7.1 Score=40.25 Aligned_cols=34 Identities=26% Similarity=0.632 Sum_probs=29.7
Q ss_pred Cccccccccccccccccc----CCccchhhHHHHHHcC
Q 007666 336 DECAICREPMAKAKKLLC----NHLFHLACLRSWLDQG 369 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpC----gH~Fh~~Cl~~wl~~~ 369 (594)
..|.+|.|.+++.....| .|-||..|-++-++++
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 469999999999988888 5999999999888764
No 126
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=54.55 E-value=9 Score=29.20 Aligned_cols=45 Identities=27% Similarity=0.640 Sum_probs=22.0
Q ss_pred ccccccccccccccc-ccCCccchhhHHHHHHcCC-CCCCCCcCcccC
Q 007666 337 ECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGL-NEMYSCPTCRKP 382 (594)
Q Consensus 337 ~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~-~~~~~CP~CR~~ 382 (594)
.|+|....++.|.+- .|.|.-|.+ +..|++... ...-.||+|.++
T Consensus 4 ~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 699999999888665 799975433 456765421 113479999864
No 127
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=52.30 E-value=11 Score=39.34 Aligned_cols=52 Identities=23% Similarity=0.475 Sum_probs=35.8
Q ss_pred CCCcccccccccc--------------c---c--cccccCCccchhhHHHHHHcCCCC-----CCCCcCcccCCcC
Q 007666 334 YDDECAICREPMA--------------K---A--KKLLCNHLFHLACLRSWLDQGLNE-----MYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~--------------~---~--~~lpCgH~Fh~~Cl~~wl~~~~~~-----~~~CP~CR~~~~~ 385 (594)
.+.+|++|+..-. + + ..-||||+--..-..-|-+...+. +..||.|-..+..
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 3578999996531 1 1 123999987777788887765432 4689999887654
No 128
>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=51.36 E-value=2.1 Score=32.20 Aligned_cols=45 Identities=22% Similarity=0.592 Sum_probs=28.7
Q ss_pred ccccccccccccccc---ccCCccchhhHHHHHHc--CCCCCCCCcCccc
Q 007666 337 ECAICREPMAKAKKL---LCNHLFHLACLRSWLDQ--GLNEMYSCPTCRK 381 (594)
Q Consensus 337 ~C~IC~e~~~~~~~l---pCgH~Fh~~Cl~~wl~~--~~~~~~~CP~CR~ 381 (594)
.|.||...-.+...+ .|+..||..|+..-... .....-.||.|+.
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 68899999998654321 1111468998864
No 129
>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=49.71 E-value=2.1 Score=35.07 Aligned_cols=41 Identities=27% Similarity=0.646 Sum_probs=23.2
Q ss_pred CcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 336 ~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
..|+.|..+++... +|..|..|-..... ...||.|.+++..
T Consensus 2 ~~CP~C~~~L~~~~----~~~~C~~C~~~~~~-----~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYHCEACQKDYKK-----EAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET----TEEEETTT--EEEE-----EEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC----CEEECcccccccee-----cccCCCcccHHHH
Confidence 46999999975433 67777778654333 3789999998754
No 130
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=49.11 E-value=5.6 Score=45.30 Aligned_cols=40 Identities=28% Similarity=0.754 Sum_probs=25.5
Q ss_pred CCcccccccc-----cc-c--ccccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 335 DDECAICREP-----MA-K--AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 335 ~~~C~IC~e~-----~~-~--~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
...|.+|... |+ + -+...||++||..|++. . +..||.|-+
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~----s~~CPrC~R 558 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---K----SPCCPRCER 558 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---c----CCCCCchHH
Confidence 4568888322 11 1 13458999999999743 2 345999944
No 131
>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=48.09 E-value=6.1 Score=41.28 Aligned_cols=44 Identities=20% Similarity=0.384 Sum_probs=20.3
Q ss_pred CCcccccccccccccccc-----cCCccchhhHHHHHHcCCCCCCCCcCcccC
Q 007666 335 DDECAICREPMAKAKKLL-----CNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~lp-----CgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~ 382 (594)
...|++|-....-..... -.|.+|.-|-..|-.. ...||.|-..
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~----R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV----RIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE------TTS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec----CCCCcCCCCC
Confidence 468999998754322111 1466777888889666 4789999554
No 132
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.91 E-value=13 Score=41.27 Aligned_cols=36 Identities=31% Similarity=0.560 Sum_probs=30.6
Q ss_pred CCCccccccccccc-ccccccCCccchhhHHHHHHcC
Q 007666 334 YDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQG 369 (594)
Q Consensus 334 ~~~~C~IC~e~~~~-~~~lpCgH~Fh~~Cl~~wl~~~ 369 (594)
.+.+|.||.+.... ...+.|||.||..|....+.++
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 6778999999999999888764
No 133
>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=43.13 E-value=16 Score=25.03 Aligned_cols=35 Identities=34% Similarity=0.883 Sum_probs=24.3
Q ss_pred cccccccccccc-ccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 337 ECAICREPMAKA-KKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 337 ~C~IC~e~~~~~-~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
.|..|.+.+... ..+ .=+..||..| ..|..|+.++
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 222 3468899888 4688887765
No 134
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=41.10 E-value=38 Score=28.39 Aligned_cols=48 Identities=19% Similarity=0.430 Sum_probs=19.9
Q ss_pred CCccccccccccc---ccc----cccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAK---AKK----LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~---~~~----lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
...|.||-++... +.. -.|+---|+.|..-=.+.+ .+.||.|+.....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg---~q~CpqCkt~ykr 63 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEG---NQVCPQCKTRYKR 63 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS----SB-TTT--B---
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcC---cccccccCCCccc
Confidence 4579999998742 221 2677778899986444443 6899999976643
No 135
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.57 E-value=19 Score=36.71 Aligned_cols=48 Identities=15% Similarity=0.188 Sum_probs=36.4
Q ss_pred CCCccccccccccccc----ccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCCC
Q 007666 334 YDDECAICREPMAKAK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~----~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~~ 387 (594)
....|+|-.-+|.... ..+|||+|-..-+.+.= ..+|++|.+.....+
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik------as~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK------ASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh------hccccccCCcccccC
Confidence 3457999888887643 34999999988876532 479999999887764
No 136
>PLN02189 cellulose synthase
Probab=40.09 E-value=35 Score=41.55 Aligned_cols=48 Identities=17% Similarity=0.439 Sum_probs=32.8
Q ss_pred CCccccccccccc---ccc-c---ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAK---AKK-L---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~---~~~-l---pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
...|.||-|+... +.. . .|+---|+.|..- -+ +.+++.||.|+.....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyey-er--~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEY-ER--REGTQNCPQCKTRYKR 88 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhh-hh--hcCCccCcccCCchhh
Confidence 4589999999752 211 2 4777789999842 22 2237899999998764
No 137
>PLN02436 cellulose synthase A
Probab=38.22 E-value=39 Score=41.29 Aligned_cols=48 Identities=17% Similarity=0.473 Sum_probs=32.7
Q ss_pred CCccccccccccc---ccc-c---ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAK---AKK-L---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~---~~~-l---pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
...|.||-|+... +.. . .|+---|+.|..- -++ .+++.||.|+.....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyey-er~--eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEY-ERR--EGNQACPQCKTRYKR 90 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhh-hhh--cCCccCcccCCchhh
Confidence 4589999999742 221 2 4777789999842 222 237899999998763
No 138
>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=37.98 E-value=11 Score=40.76 Aligned_cols=33 Identities=24% Similarity=0.488 Sum_probs=0.0
Q ss_pred cccccCCccchhhHHHHHHcCC--CCCCCCcCcccCCc
Q 007666 349 KKLLCNHLFHLACLRSWLDQGL--NEMYSCPTCRKPLF 384 (594)
Q Consensus 349 ~~lpCgH~Fh~~Cl~~wl~~~~--~~~~~CP~CR~~~~ 384 (594)
+-+.|||++-. ..|-.+.. ....+||+||..-+
T Consensus 305 VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 305 VYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp --------------------------------------
T ss_pred eeccccceeee---cccccccccccccccCCCccccCC
Confidence 34689998653 35754321 12579999998643
No 139
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=36.43 E-value=97 Score=32.00 Aligned_cols=19 Identities=21% Similarity=0.398 Sum_probs=13.7
Q ss_pred ccchhhHHHHHHcCCCCCCCCc
Q 007666 356 LFHLACLRSWLDQGLNEMYSCP 377 (594)
Q Consensus 356 ~Fh~~Cl~~wl~~~~~~~~~CP 377 (594)
.-|++|..+|-... ++.||
T Consensus 56 RGHrdCFEK~HlIa---nQ~~p 74 (285)
T PF06937_consen 56 RGHRDCFEKYHLIA---NQDCP 74 (285)
T ss_pred cchHHHHHHHHHHH---cCCCC
Confidence 35799999995432 57888
No 140
>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=36.35 E-value=19 Score=29.11 Aligned_cols=12 Identities=33% Similarity=0.949 Sum_probs=9.1
Q ss_pred cchhhHHHHHHc
Q 007666 357 FHLACLRSWLDQ 368 (594)
Q Consensus 357 Fh~~Cl~~wl~~ 368 (594)
||+.||..|...
T Consensus 12 FCRNCLskWy~~ 23 (68)
T PF06844_consen 12 FCRNCLSKWYRE 23 (68)
T ss_dssp --HHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 999999999875
No 141
>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=36.25 E-value=21 Score=27.09 Aligned_cols=37 Identities=32% Similarity=0.849 Sum_probs=28.4
Q ss_pred cccccccccccccc--ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 338 CAICREPMAKAKKL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 338 C~IC~e~~~~~~~l--pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
|.-|.+.+...... .-|..||.+| ..|-.|+.++...
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~C------------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPEC------------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTT------------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccc------------cccCCCCCccCCC
Confidence 67788887755443 6789999988 4799999988765
No 142
>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=34.32 E-value=23 Score=23.36 Aligned_cols=21 Identities=24% Similarity=0.610 Sum_probs=11.2
Q ss_pred ccccccccccccccc-c-cCCcc
Q 007666 337 ECAICREPMAKAKKL-L-CNHLF 357 (594)
Q Consensus 337 ~C~IC~e~~~~~~~l-p-CgH~F 357 (594)
.|+-|........+. | |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 466666665443222 3 66665
No 143
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=33.40 E-value=27 Score=34.60 Aligned_cols=39 Identities=31% Similarity=0.749 Sum_probs=27.1
Q ss_pred CCCcccccccc-----cccc---cccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 334 YDDECAICREP-----MAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 334 ~~~~C~IC~e~-----~~~~---~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
.+..|-+|.++ |+.. +.-.|+-+||..|.. ...||.|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~---------~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR---------KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC---------CCCCCCcHh
Confidence 35689999864 2221 223799999999974 257999954
No 144
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=33.37 E-value=25 Score=27.41 Aligned_cols=29 Identities=17% Similarity=0.485 Sum_probs=21.8
Q ss_pred CCCccccccccccc--ccc--cccCCccchhhH
Q 007666 334 YDDECAICREPMAK--AKK--LLCNHLFHLACL 362 (594)
Q Consensus 334 ~~~~C~IC~e~~~~--~~~--lpCgH~Fh~~Cl 362 (594)
....|.+|-+.+.+ ... -.||-.+|++|-
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 35679999999953 222 269999999994
No 145
>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=33.22 E-value=43 Score=30.12 Aligned_cols=45 Identities=22% Similarity=0.483 Sum_probs=26.8
Q ss_pred CCCcccccccccccc-----cccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 334 YDDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~-----~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
.+..|++|..+|.-. ....|+|.+|..|-.. ......-.|.+|..
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 2347899999998643 11111236888865
No 146
>PRK12495 hypothetical protein; Provisional
Probab=33.04 E-value=5.3e+02 Score=26.05 Aligned_cols=58 Identities=19% Similarity=0.405 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhCCCCchhhhhcCCCcccccccccccccccccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 302 IIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 302 l~~r~~~~~~~r~~~~~l~~~~p~~~~eel~~~~~~C~IC~e~~~~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
|.+|...-...|+..++|-+.+-... ......|..|-.++- .. +....||.|..
T Consensus 13 LREKye~d~~~R~~~~~ma~lL~~ga----tmsa~hC~~CG~PIp--------------------a~--pG~~~Cp~CQ~ 66 (226)
T PRK12495 13 LREKYEQDEQKREATERMSELLLQGA----TMTNAHCDECGDPIF--------------------RH--DGQEFCPTCQQ 66 (226)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHhhc----ccchhhcccccCccc--------------------CC--CCeeECCCCCC
Confidence 33444444445566666544322111 123457888887743 00 11467999987
Q ss_pred CCcC
Q 007666 382 PLFV 385 (594)
Q Consensus 382 ~~~~ 385 (594)
.+..
T Consensus 67 ~~~~ 70 (226)
T PRK12495 67 PVTE 70 (226)
T ss_pred cccc
Confidence 7654
No 147
>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=32.99 E-value=18 Score=34.07 Aligned_cols=30 Identities=33% Similarity=0.562 Sum_probs=22.9
Q ss_pred cchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 357 FHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 357 Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
||..||++=|..-+...=.||.|+..-..+
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~ 31 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQ 31 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCC
Confidence 799999988876555456999998765443
No 148
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=32.63 E-value=54 Score=40.20 Aligned_cols=48 Identities=21% Similarity=0.528 Sum_probs=32.6
Q ss_pred CCccccccccccc---cc----ccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAK---AK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~---~~----~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
...|.||-|+... +. .-.|+-=-|+.|.. .-++ ..++.||.|+.....
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~--eG~q~CPqCktrYkr 71 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERK--DGNQSCPQCKTKYKR 71 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhh--cCCccCCccCCchhh
Confidence 4589999999743 21 12566668999984 2222 237899999988763
No 149
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=32.09 E-value=25 Score=36.94 Aligned_cols=44 Identities=23% Similarity=0.495 Sum_probs=32.6
Q ss_pred Ccccccccccc---cccccccCCccchhhHHHHHHcCCCCCCCCcCcc
Q 007666 336 DECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (594)
Q Consensus 336 ~~C~IC~e~~~---~~~~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR 380 (594)
..|++-.|.-. .|..+.|||+.-..-++..-+.+.. ...||.|-
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~-~FKCPYCP 383 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVL-SFKCPYCP 383 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcE-EeeCCCCC
Confidence 56887665543 4688999999999998876555433 46899993
No 150
>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=31.59 E-value=29 Score=36.67 Aligned_cols=44 Identities=18% Similarity=0.391 Sum_probs=28.7
Q ss_pred CCccccccccccccccc----cc--CCccchhhHHHHHHcCCCCCCCCcCcccC
Q 007666 335 DDECAICREPMAKAKKL----LC--NHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~l----pC--gH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~ 382 (594)
...|++|-..-...... .= .|..|.-|-..|-.. ...||.|-..
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 45899999875322111 11 255666788888766 5899999653
No 151
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=31.30 E-value=24 Score=36.34 Aligned_cols=49 Identities=31% Similarity=0.565 Sum_probs=33.9
Q ss_pred Ccccccccccccc--c-----ccccCCccchhhHHHHHHcC-----CCCCCCCcCcccCCc
Q 007666 336 DECAICREPMAKA--K-----KLLCNHLFHLACLRSWLDQG-----LNEMYSCPTCRKPLF 384 (594)
Q Consensus 336 ~~C~IC~e~~~~~--~-----~lpCgH~Fh~~Cl~~wl~~~-----~~~~~~CP~CR~~~~ 384 (594)
..|-+|.+++.+. . .-.|+-++|..|+-.-+... .+-...||.|++-+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 5799999998432 1 12588899999998743332 123569999998653
No 152
>PLN02400 cellulose synthase
Probab=31.10 E-value=66 Score=39.48 Aligned_cols=48 Identities=17% Similarity=0.457 Sum_probs=32.7
Q ss_pred CCccccccccccc---cc----ccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 335 DDECAICREPMAK---AK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~~---~~----~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
...|.||-|+... +. .-.|+---|+.|.. . ..+..++.||.|+.....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-Y--ERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-Y--ERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh-e--ecccCCccCcccCCcccc
Confidence 4589999999743 21 12566668999983 2 222337899999988764
No 153
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.33 E-value=22 Score=37.12 Aligned_cols=48 Identities=27% Similarity=0.564 Sum_probs=40.0
Q ss_pred CCCccccccccccccccc-ccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~~l-pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
..+.|-||...+.-+.+- -|.|-|+..|...|... ...||.||.....
T Consensus 104 ~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~----~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAM----GNDCPDCRGKISP 152 (324)
T ss_pred CccceeeeeeeEEecccccCceeeeeecCCchhhhh----hhccchhhcCcCc
Confidence 456899999998877665 49999999999999988 5899999987643
No 154
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.77 E-value=15 Score=38.26 Aligned_cols=46 Identities=24% Similarity=0.456 Sum_probs=36.0
Q ss_pred CCccccccccccc------ccccc--------cCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 335 DDECAICREPMAK------AKKLL--------CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 335 ~~~C~IC~e~~~~------~~~lp--------CgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
+..|.||...+.. |..+. |||..|..|+..-+.+. ...||.||...
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 4579999988862 34455 99999999999887764 36899998753
No 155
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=29.69 E-value=40 Score=35.67 Aligned_cols=44 Identities=16% Similarity=0.397 Sum_probs=28.6
Q ss_pred CCCccccccccccccc-cc--cc--CCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 334 YDDECAICREPMAKAK-KL--LC--NHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~~-~l--pC--gH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
....|++|-..-.... ++ .= .|..|.-|-..|--. ...||.|-.
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 4578999998753221 11 11 255666788888766 578999965
No 156
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=29.41 E-value=18 Score=39.19 Aligned_cols=51 Identities=24% Similarity=0.492 Sum_probs=0.0
Q ss_pred CCcccccccccc-----------------cc--cccccCCccchhhHHHHHHcCCCC-----CCCCcCcccCCcC
Q 007666 335 DDECAICREPMA-----------------KA--KKLLCNHLFHLACLRSWLDQGLNE-----MYSCPTCRKPLFV 385 (594)
Q Consensus 335 ~~~C~IC~e~~~-----------------~~--~~lpCgH~Fh~~Cl~~wl~~~~~~-----~~~CP~CR~~~~~ 385 (594)
..+|++|+..-. .| ..-||||+-=....+-|-+-..+. +..||.|-.++..
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 568999996531 11 123999998888888897665332 3589999988764
No 157
>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=28.58 E-value=26 Score=28.04 Aligned_cols=30 Identities=17% Similarity=0.523 Sum_probs=16.0
Q ss_pred CCcccccccccccccc----cccCCccchhhHHH
Q 007666 335 DDECAICREPMAKAKK----LLCNHLFHLACLRS 364 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~----lpCgH~Fh~~Cl~~ 364 (594)
...|.+|...|.--.+ -.||++||..|...
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 4689999999964322 27999999999754
No 158
>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=28.55 E-value=2.3e+02 Score=32.75 Aligned_cols=29 Identities=24% Similarity=0.495 Sum_probs=23.4
Q ss_pred HcccCcHHHHHHHHHHHHHHHHHHHhhccc
Q 007666 83 FFGELYPAETRKFVERLINYVIYKGTFLPL 112 (594)
Q Consensus 83 fFG~LR~~E~e~L~er~~~f~~~k~~fl~~ 112 (594)
||--|-.+|.||+-+ +|||++|...|+.+
T Consensus 170 ff~l~~~i~~~~~~~-i~nyil~~~a~i~g 198 (952)
T TIGR02921 170 FFELLEEIEFEHLGD-IFNYILFHTAFICG 198 (952)
T ss_pred HHHHHHHHHHHhHHH-HHHHHHHHHHHHHH
Confidence 677788899999955 57999998777665
No 159
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=27.40 E-value=87 Score=38.34 Aligned_cols=49 Identities=14% Similarity=0.375 Sum_probs=33.2
Q ss_pred CCCcccccccccccc---c----ccccCCccchhhHHHHHHcCCCCCCCCcCcccCCcC
Q 007666 334 YDDECAICREPMAKA---K----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~---~----~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~ 385 (594)
....|.||-|+.... . .-.|+---|+.|..-=.+. +++.||.|+.....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~---g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSE---GNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCchhh
Confidence 345799999997432 1 1257777999998422222 37899999998764
No 160
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=26.92 E-value=27 Score=36.66 Aligned_cols=47 Identities=21% Similarity=0.404 Sum_probs=27.3
Q ss_pred CCCcccccccccccc--------------cccccCCccchhhHHHHHHcC--CCCCCCCcCcccCC
Q 007666 334 YDDECAICREPMAKA--------------KKLLCNHLFHLACLRSWLDQG--LNEMYSCPTCRKPL 383 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~--------------~~lpCgH~Fh~~Cl~~wl~~~--~~~~~~CP~CR~~~ 383 (594)
...+|++=+..+.-| +-|.|||+--. ..|=.+. ......||+||..-
T Consensus 289 ~RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~---H~WG~~e~~g~~~r~CPmC~~~g 351 (429)
T KOG3842|consen 289 ARPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGY---HNWGVRENTGQRERECPMCRVVG 351 (429)
T ss_pred cCCCCCcccceeecccccccccccccCCeEEEeccccccc---cccccccccCcccCcCCeeeeec
Confidence 345788877766432 23699986221 2453222 22257899998753
No 161
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=24.72 E-value=9.6 Score=33.37 Aligned_cols=50 Identities=22% Similarity=0.650 Sum_probs=16.4
Q ss_pred Ccccccccccc--ccccccc--CCccchhhHHHHHHcCCCCCCCCcCcccCCcCC
Q 007666 336 DECAICREPMA--KAKKLLC--NHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (594)
Q Consensus 336 ~~C~IC~e~~~--~~~~lpC--gH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~~~~ 386 (594)
+.|++|.+.+. +.....| ||.|- .|-...+.-..+.-..|+.|.......
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w~-RC~lT~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVWP-RCALTFLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp --------------SSEEE-TTS-EEE-B-SSS-SBS-SS-EEE-TTT--EEE-G
T ss_pred ccccccccccccCCcCEeECCCCCEEe-eeeeeeeeeccCCeeEcCCCCCEEecC
Confidence 57999999764 4445556 68874 455454433333347999998776543
No 162
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=23.43 E-value=75 Score=40.49 Aligned_cols=49 Identities=37% Similarity=0.691 Sum_probs=39.0
Q ss_pred CCccccccccccccccc---ccCCccchhhHHHHHHcCCCCCCCCcCcccCC
Q 007666 335 DDECAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~l---pCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~~~ 383 (594)
...|.+|+.....-..+ -|.-.||..|++.-+..-+...=.||-||..-
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 45799999987765554 46677999999998887666667999999876
No 163
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.87 E-value=1.1e+02 Score=35.53 Aligned_cols=44 Identities=23% Similarity=0.491 Sum_probs=31.2
Q ss_pred Ccccccccccccc----cccccCCccchhhHHHHHHcCC----CCCCCCcCc
Q 007666 336 DECAICREPMAKA----KKLLCNHLFHLACLRSWLDQGL----NEMYSCPTC 379 (594)
Q Consensus 336 ~~C~IC~e~~~~~----~~lpCgH~Fh~~Cl~~wl~~~~----~~~~~CP~C 379 (594)
+.|-.|...|..- ..-.||-+||..|...-+..+. .....|=.|
T Consensus 166 ~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 166 EECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred cccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhh
Confidence 6899999998643 3458999999999765433321 124688888
No 164
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.54 E-value=61 Score=37.78 Aligned_cols=28 Identities=25% Similarity=0.466 Sum_probs=14.6
Q ss_pred cccccccccccccccccCC-ccchhhHHH
Q 007666 337 ECAICREPMAKAKKLLCNH-LFHLACLRS 364 (594)
Q Consensus 337 ~C~IC~e~~~~~~~lpCgH-~Fh~~Cl~~ 364 (594)
.|+||-...+-...-.||| .-|..|...
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R 30 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVR 30 (669)
T ss_pred CcceeecCccccccccccccccchhhhhh
Confidence 3555555544444445665 555555443
No 165
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=22.17 E-value=94 Score=33.00 Aligned_cols=43 Identities=21% Similarity=0.578 Sum_probs=29.2
Q ss_pred CCcccccccccccccc---cccCCccchhhHHHHHHcCCCCCCCCcCccc
Q 007666 335 DDECAICREPMAKAKK---LLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~~---lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR~ 381 (594)
+..|-.|.++...... -.|.|.||.+|-.---++ -..||-|..
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 3459999777655433 368999999995422233 468999963
No 166
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=21.58 E-value=2.9e+02 Score=30.12 Aligned_cols=27 Identities=26% Similarity=0.695 Sum_probs=19.3
Q ss_pred ccccccccccccccCCccchhhHHHHH
Q 007666 340 ICREPMAKAKKLLCNHLFHLACLRSWL 366 (594)
Q Consensus 340 IC~e~~~~~~~lpCgH~Fh~~Cl~~wl 366 (594)
||.-..-....-||+...|..|...|-
T Consensus 93 ~C~~VvCNNE~C~~~~~MH~qCF~~WE 119 (526)
T KOG3816|consen 93 ICSFVVCNNEHCPCSTWMHLQCFYEWE 119 (526)
T ss_pred hceEEeecCCCCChhhHHHHHHHHHHH
Confidence 444433334467999999999999883
No 167
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.40 E-value=41 Score=36.76 Aligned_cols=42 Identities=21% Similarity=0.522 Sum_probs=29.5
Q ss_pred CCCcccccccccccc---c--ccccCCccchhhHHHHHHcCCCCCCCCcCc
Q 007666 334 YDDECAICREPMAKA---K--KLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (594)
Q Consensus 334 ~~~~C~IC~e~~~~~---~--~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~C 379 (594)
.-..|++|.-..+.. - .=.|||-||..|...|... +..|..|
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 356799998765432 1 1259999999999999876 3556554
No 168
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=20.19 E-value=73 Score=32.05 Aligned_cols=17 Identities=18% Similarity=0.368 Sum_probs=12.4
Q ss_pred CCCCcCcccCCcCCCcc
Q 007666 373 MYSCPTCRKPLFVGRRE 389 (594)
Q Consensus 373 ~~~CP~CR~~~~~~~~~ 389 (594)
...||+|+..--..+|.
T Consensus 263 APiCPlCKaKsRSrNPK 279 (286)
T KOG4451|consen 263 APICPLCKAKSRSRNPK 279 (286)
T ss_pred CCCCcchhhccccCCCC
Confidence 47999999876555444
No 169
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.07 E-value=1.3e+02 Score=27.19 Aligned_cols=42 Identities=24% Similarity=0.594 Sum_probs=30.9
Q ss_pred CCccccccccccccc--------------ccccCCccchhhHHHHHHcCCCCCCCCcCcc
Q 007666 335 DDECAICREPMAKAK--------------KLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (594)
Q Consensus 335 ~~~C~IC~e~~~~~~--------------~lpCgH~Fh~~Cl~~wl~~~~~~~~~CP~CR 380 (594)
...|--|...|.++. --.|++.||.+|-.-+-+. -.+||-|-
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 346999999886531 2379999999996555554 47899995
Done!