Query 013134
Match_columns 449
No_of_seqs 402 out of 2193
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 00:45:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013134.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013134hhsearch_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 1.4E-42 3E-47 334.8 25.3 324 12-384 6-345 (491)
2 KOG0802 E3 ubiquitin ligase [P 100.0 1.1E-36 2.4E-41 324.7 23.5 320 37-386 14-343 (543)
3 KOG4628 Predicted E3 ubiquitin 99.4 2.5E-13 5.4E-18 134.6 8.4 74 311-387 203-281 (348)
4 PF13639 zf-RING_2: Ring finge 99.3 7E-13 1.5E-17 93.6 2.0 41 336-380 1-44 (44)
5 PLN03208 E3 ubiquitin-protein 99.2 1.5E-11 3.3E-16 112.4 5.2 54 334-387 17-82 (193)
6 KOG0317 Predicted E3 ubiquitin 99.2 1.7E-11 3.7E-16 117.1 3.4 51 333-387 237-287 (293)
7 PHA02929 N1R/p28-like protein; 99.1 3.8E-11 8.3E-16 114.2 5.5 47 334-384 173-227 (238)
8 PF12678 zf-rbx1: RING-H2 zinc 99.1 2.8E-11 6E-16 95.0 3.0 43 334-380 18-73 (73)
9 PF15227 zf-C3HC4_4: zinc fing 99.1 4.9E-11 1.1E-15 83.2 2.1 42 338-379 1-42 (42)
10 KOG0823 Predicted E3 ubiquitin 99.1 1.5E-10 3.2E-15 107.7 5.5 53 334-387 46-98 (230)
11 PF13920 zf-C3HC4_3: Zinc fing 98.9 3.6E-10 7.7E-15 82.0 2.3 46 335-384 2-48 (50)
12 PF12861 zf-Apc11: Anaphase-pr 98.9 6.1E-10 1.3E-14 88.4 2.8 51 334-385 20-83 (85)
13 PF13923 zf-C3HC4_2: Zinc fing 98.9 8.6E-10 1.9E-14 75.7 2.1 38 338-379 1-39 (39)
14 cd00162 RING RING-finger (Real 98.9 2E-09 4.3E-14 75.2 3.5 44 337-383 1-45 (45)
15 smart00504 Ubox Modified RING 98.8 4.2E-09 9.1E-14 79.9 4.0 46 336-385 2-47 (63)
16 COG5540 RING-finger-containing 98.8 2.1E-09 4.4E-14 103.1 2.7 49 334-385 322-373 (374)
17 PHA02926 zinc finger-like prot 98.7 8.4E-09 1.8E-13 95.5 4.2 53 333-385 168-231 (242)
18 PF00097 zf-C3HC4: Zinc finger 98.7 6.8E-09 1.5E-13 71.9 2.4 40 338-379 1-41 (41)
19 KOG0320 Predicted E3 ubiquitin 98.7 8.5E-09 1.8E-13 92.2 2.5 47 336-386 132-180 (187)
20 smart00184 RING Ring finger. E 98.7 1.8E-08 3.9E-13 67.8 3.1 39 338-379 1-39 (39)
21 KOG1734 Predicted RING-contain 98.6 6.8E-07 1.5E-11 84.7 14.4 51 334-386 223-283 (328)
22 PF13445 zf-RING_UBOX: RING-ty 98.6 1.7E-08 3.7E-13 70.5 1.8 39 338-377 1-43 (43)
23 TIGR00599 rad18 DNA repair pro 98.6 4E-08 8.7E-13 100.2 4.1 48 334-385 25-72 (397)
24 KOG2164 Predicted E3 ubiquitin 98.6 4.8E-08 1E-12 100.3 4.4 59 335-393 186-245 (513)
25 COG5574 PEX10 RING-finger-cont 98.5 3.6E-08 7.7E-13 93.5 2.5 49 335-386 215-264 (271)
26 PF14634 zf-RING_5: zinc-RING 98.4 9.9E-08 2.1E-12 67.2 2.3 41 337-381 1-44 (44)
27 COG5194 APC11 Component of SCF 98.4 9.1E-08 2E-12 74.1 1.8 31 352-386 53-83 (88)
28 KOG1493 Anaphase-promoting com 98.3 1.4E-07 3.1E-12 72.3 1.0 50 334-384 19-81 (84)
29 KOG0828 Predicted E3 ubiquitin 98.3 4.4E-07 9.5E-12 92.3 4.6 49 334-385 570-635 (636)
30 PF04564 U-box: U-box domain; 98.3 3.2E-07 6.9E-12 72.0 2.2 49 335-386 4-52 (73)
31 KOG0287 Postreplication repair 98.3 2.3E-07 5.1E-12 90.3 0.7 47 336-386 24-70 (442)
32 COG5432 RAD18 RING-finger-cont 98.2 7.4E-07 1.6E-11 85.2 1.9 47 335-385 25-71 (391)
33 KOG2930 SCF ubiquitin ligase, 98.1 1.2E-06 2.6E-11 71.3 1.1 46 336-385 47-109 (114)
34 KOG0824 Predicted E3 ubiquitin 98.0 2.5E-06 5.4E-11 82.4 2.2 49 334-385 6-54 (324)
35 KOG2177 Predicted E3 ubiquitin 98.0 2.5E-06 5.4E-11 83.5 2.2 45 333-381 11-55 (386)
36 TIGR00570 cdk7 CDK-activating 98.0 5.2E-06 1.1E-10 81.7 4.2 50 335-387 3-57 (309)
37 PF11793 FANCL_C: FANCL C-term 97.9 2.3E-06 5E-11 66.5 0.5 51 335-385 2-67 (70)
38 COG5219 Uncharacterized conser 97.9 6.6E-06 1.4E-10 89.4 3.0 50 333-384 1467-1523(1525)
39 smart00744 RINGv The RING-vari 97.9 1.2E-05 2.6E-10 57.9 3.0 42 337-380 1-49 (49)
40 KOG4172 Predicted E3 ubiquitin 97.8 6.4E-06 1.4E-10 59.3 0.6 48 334-384 6-54 (62)
41 KOG0804 Cytoplasmic Zn-finger 97.8 6.2E-06 1.3E-10 83.5 0.8 43 336-384 176-222 (493)
42 PF14835 zf-RING_6: zf-RING of 97.7 6.7E-06 1.5E-10 61.7 0.2 46 336-387 8-54 (65)
43 KOG4265 Predicted E3 ubiquitin 97.7 1.5E-05 3.2E-10 79.1 2.2 49 333-385 288-337 (349)
44 KOG1039 Predicted E3 ubiquitin 97.7 6.8E-05 1.5E-09 75.4 6.5 53 334-386 160-223 (344)
45 KOG0827 Predicted E3 ubiquitin 97.7 1.8E-05 3.9E-10 78.8 1.9 48 335-383 4-55 (465)
46 KOG0978 E3 ubiquitin ligase in 97.6 2E-05 4.4E-10 85.0 2.0 49 335-386 643-691 (698)
47 KOG0311 Predicted E3 ubiquitin 97.6 1.1E-05 2.4E-10 79.6 -0.2 50 334-386 42-92 (381)
48 PF13705 TRC8_N: TRC8 N-termin 97.6 0.0086 1.9E-07 62.8 20.2 99 126-227 348-447 (508)
49 KOG4159 Predicted E3 ubiquitin 97.5 5.9E-05 1.3E-09 77.3 2.7 49 333-385 82-130 (398)
50 KOG1785 Tyrosine kinase negati 97.4 9.1E-05 2E-09 74.0 2.2 48 336-385 370-417 (563)
51 KOG2879 Predicted E3 ubiquitin 97.3 0.00067 1.4E-08 65.1 7.3 51 333-385 237-288 (298)
52 KOG1941 Acetylcholine receptor 97.2 0.00019 4.1E-09 71.6 2.7 45 335-381 365-413 (518)
53 KOG3970 Predicted E3 ubiquitin 97.2 0.00099 2.1E-08 62.0 6.7 54 333-386 48-107 (299)
54 KOG1645 RING-finger-containing 97.2 9E-05 2E-09 74.4 -0.1 48 334-383 3-55 (463)
55 KOG2114 Vacuolar assembly/sort 97.1 0.0004 8.8E-09 75.5 4.5 93 284-383 789-882 (933)
56 KOG1002 Nucleotide excision re 97.0 0.00055 1.2E-08 70.8 3.7 54 335-388 536-590 (791)
57 KOG0297 TNF receptor-associate 96.9 0.00038 8.3E-09 72.0 2.1 50 333-386 19-69 (391)
58 KOG0825 PHD Zn-finger protein 96.9 0.00026 5.5E-09 76.1 0.7 34 349-386 140-173 (1134)
59 KOG1571 Predicted E3 ubiquitin 96.9 0.00084 1.8E-08 66.9 4.2 45 333-384 303-347 (355)
60 COG5222 Uncharacterized conser 96.9 0.00099 2.1E-08 64.4 3.9 44 335-381 274-318 (427)
61 PF10367 Vps39_2: Vacuolar sor 96.8 0.0025 5.4E-08 53.2 5.3 31 333-363 76-108 (109)
62 COG5152 Uncharacterized conser 96.7 0.00068 1.5E-08 61.9 1.6 45 335-383 196-240 (259)
63 KOG4692 Predicted E3 ubiquitin 96.7 0.0033 7.2E-08 62.2 6.2 48 334-385 421-468 (489)
64 PF11789 zf-Nse: Zinc-finger o 96.6 0.00073 1.6E-08 50.2 0.9 43 334-378 10-53 (57)
65 KOG1813 Predicted E3 ubiquitin 96.6 0.00074 1.6E-08 65.4 1.0 47 334-384 240-286 (313)
66 PHA02825 LAP/PHD finger-like p 96.5 0.0023 4.9E-08 56.9 3.5 51 333-386 6-61 (162)
67 KOG4275 Predicted E3 ubiquitin 96.5 0.00057 1.2E-08 65.9 -0.5 42 335-384 300-342 (350)
68 KOG4445 Uncharacterized conser 96.4 0.0024 5.2E-08 62.0 2.9 52 335-386 115-188 (368)
69 KOG1428 Inhibitor of type V ad 96.3 0.0021 4.5E-08 73.0 2.5 53 333-385 3484-3545(3738)
70 PHA02862 5L protein; Provision 96.1 0.004 8.7E-08 54.3 2.6 48 335-385 2-54 (156)
71 KOG2660 Locus-specific chromos 96.1 0.0028 6E-08 62.5 1.7 49 334-386 14-63 (331)
72 KOG1814 Predicted E3 ubiquitin 96.0 0.0049 1.1E-07 62.4 3.0 55 328-382 177-238 (445)
73 PF14447 Prok-RING_4: Prokaryo 95.7 0.0046 1E-07 45.1 1.1 47 335-387 7-53 (55)
74 PF12906 RINGv: RING-variant d 95.6 0.0056 1.2E-07 43.6 1.3 40 338-379 1-47 (47)
75 COG5236 Uncharacterized conser 95.6 0.0073 1.6E-07 59.7 2.4 55 325-383 51-107 (493)
76 PF14570 zf-RING_4: RING/Ubox 95.3 0.014 3E-07 41.6 2.5 43 338-383 1-47 (48)
77 PF10272 Tmpp129: Putative tra 95.3 0.028 6E-07 57.1 5.5 34 353-386 311-353 (358)
78 KOG2034 Vacuolar sorting prote 95.1 0.03 6.5E-07 61.9 5.3 36 333-368 815-852 (911)
79 KOG3039 Uncharacterized conser 94.8 0.031 6.7E-07 53.0 3.8 52 335-390 221-276 (303)
80 KOG4185 Predicted E3 ubiquitin 94.7 0.018 4E-07 57.2 2.3 45 336-383 4-54 (296)
81 KOG1952 Transcription factor N 94.6 0.017 3.6E-07 63.3 1.9 52 330-381 186-244 (950)
82 KOG0826 Predicted E3 ubiquitin 94.4 0.088 1.9E-06 52.1 6.1 47 333-383 298-345 (357)
83 PF05290 Baculo_IE-1: Baculovi 94.3 0.19 4.1E-06 43.5 7.2 51 335-386 80-134 (140)
84 PHA03096 p28-like protein; Pro 94.3 0.024 5.2E-07 55.9 2.0 45 336-381 179-231 (284)
85 COG5175 MOT2 Transcriptional r 94.2 0.032 6.9E-07 55.1 2.7 52 333-387 12-67 (480)
86 KOG1001 Helicase-like transcri 93.6 0.025 5.4E-07 62.3 0.8 48 336-386 455-502 (674)
87 KOG3268 Predicted E3 ubiquitin 93.4 0.058 1.3E-06 48.7 2.7 51 336-386 166-230 (234)
88 KOG0802 E3 ubiquitin ligase [P 93.3 0.045 9.8E-07 59.2 2.2 58 322-387 466-523 (543)
89 KOG0827 Predicted E3 ubiquitin 92.7 0.014 3E-07 58.7 -2.5 47 335-385 196-246 (465)
90 PF05883 Baculo_RING: Baculovi 92.4 0.046 1E-06 47.5 0.6 32 335-366 26-66 (134)
91 PF07800 DUF1644: Protein of u 92.4 0.13 2.8E-06 45.9 3.4 34 335-368 2-48 (162)
92 KOG1940 Zn-finger protein [Gen 91.4 0.11 2.5E-06 50.7 2.0 43 335-381 158-204 (276)
93 KOG4739 Uncharacterized protei 91.2 0.065 1.4E-06 51.0 0.2 42 338-385 6-49 (233)
94 KOG3053 Uncharacterized conser 90.4 0.13 2.7E-06 49.3 1.2 52 334-385 19-83 (293)
95 PF04641 Rtf2: Rtf2 RING-finge 90.2 0.26 5.7E-06 48.2 3.4 49 334-387 112-164 (260)
96 COG5183 SSM4 Protein involved 90.1 0.21 4.6E-06 54.7 2.8 49 334-384 11-66 (1175)
97 KOG2932 E3 ubiquitin ligase in 89.8 0.13 2.8E-06 50.5 0.9 41 337-383 92-133 (389)
98 PF08746 zf-RING-like: RING-li 89.3 0.28 6.1E-06 34.2 2.0 40 338-379 1-43 (43)
99 KOG3161 Predicted E3 ubiquitin 89.1 0.17 3.8E-06 54.1 1.3 38 337-381 13-54 (861)
100 KOG4367 Predicted Zn-finger pr 88.3 0.44 9.6E-06 48.8 3.5 35 334-368 3-37 (699)
101 KOG3800 Predicted E3 ubiquitin 87.8 0.44 9.4E-06 46.6 3.0 46 337-385 2-52 (300)
102 KOG1100 Predicted E3 ubiquitin 86.8 0.21 4.6E-06 47.1 0.2 40 337-384 160-200 (207)
103 KOG0298 DEAD box-containing he 86.7 0.21 4.6E-06 57.5 0.1 45 335-383 1153-1198(1394)
104 KOG3899 Uncharacterized conser 86.6 0.37 7.9E-06 47.0 1.7 35 353-387 325-368 (381)
105 PF03854 zf-P11: P-11 zinc fin 86.0 0.29 6.2E-06 34.6 0.5 44 337-386 4-48 (50)
106 KOG2817 Predicted E3 ubiquitin 85.1 0.58 1.3E-05 47.7 2.4 45 336-381 335-382 (394)
107 KOG3002 Zn finger protein [Gen 84.9 0.62 1.4E-05 46.4 2.5 43 336-385 49-92 (299)
108 COG5220 TFB3 Cdk activating ki 84.2 0.55 1.2E-05 44.6 1.6 45 334-381 9-61 (314)
109 KOG0309 Conserved WD40 repeat- 83.8 0.6 1.3E-05 51.0 1.9 26 349-378 1044-1069(1081)
110 KOG0801 Predicted E3 ubiquitin 83.5 0.35 7.6E-06 43.1 -0.0 30 330-359 172-204 (205)
111 KOG4362 Transcriptional regula 82.0 0.42 9.2E-06 52.1 -0.0 50 335-385 21-70 (684)
112 KOG1609 Protein involved in mR 77.6 1.2 2.7E-05 44.2 1.6 50 335-386 78-136 (323)
113 KOG0825 PHD Zn-finger protein 75.0 2.4 5.2E-05 46.8 3.0 50 334-383 95-153 (1134)
114 KOG0824 Predicted E3 ubiquitin 75.0 1.9 4.1E-05 42.5 2.0 49 333-385 103-152 (324)
115 PF02891 zf-MIZ: MIZ/SP-RING z 74.5 1.1 2.4E-05 32.3 0.3 46 336-382 3-50 (50)
116 PF07191 zinc-ribbons_6: zinc- 74.3 0.26 5.7E-06 38.0 -3.2 41 336-385 2-42 (70)
117 KOG3039 Uncharacterized conser 72.1 1 2.2E-05 43.0 -0.5 33 336-368 44-76 (303)
118 KOG2066 Vacuolar assembly/sort 71.8 2.3 5E-05 47.0 2.0 36 333-368 782-824 (846)
119 KOG2068 MOT2 transcription fac 70.8 4.6 0.0001 40.4 3.7 46 336-385 250-299 (327)
120 smart00249 PHD PHD zinc finger 69.6 1.9 4E-05 29.4 0.5 28 337-364 1-31 (47)
121 KOG0269 WD40 repeat-containing 69.0 3.4 7.3E-05 45.5 2.5 38 337-378 781-820 (839)
122 KOG1812 Predicted E3 ubiquitin 68.4 4.5 9.7E-05 41.9 3.2 35 335-369 146-184 (384)
123 KOG1829 Uncharacterized conser 66.3 3.4 7.4E-05 44.7 1.9 41 334-381 510-558 (580)
124 KOG1815 Predicted E3 ubiquitin 64.5 4.8 0.0001 42.5 2.6 36 334-369 69-105 (444)
125 KOG4718 Non-SMC (structural ma 64.0 3.5 7.7E-05 38.6 1.3 43 336-382 182-225 (235)
126 smart00132 LIM Zinc-binding do 59.3 5.8 0.00013 25.8 1.4 36 337-384 1-38 (39)
127 KOG3842 Adaptor protein Pellin 57.6 10 0.00022 37.7 3.2 52 334-385 340-415 (429)
128 KOG3579 Predicted E3 ubiquitin 56.1 6.7 0.00015 38.4 1.7 34 336-369 269-306 (352)
129 PF00412 LIM: LIM domain; Int 55.2 8 0.00017 27.9 1.7 37 338-386 1-39 (58)
130 PF04710 Pellino: Pellino; In 55.0 4.2 9E-05 41.7 0.1 32 349-383 305-338 (416)
131 PF13901 DUF4206: Domain of un 53.4 6.7 0.00014 36.8 1.2 39 334-381 151-197 (202)
132 PF00628 PHD: PHD-finger; Int 53.0 1.1 2.4E-05 31.8 -3.2 45 337-381 1-50 (51)
133 PF06844 DUF1244: Protein of u 52.2 8.8 0.00019 29.2 1.4 13 356-368 11-23 (68)
134 KOG3113 Uncharacterized conser 48.1 14 0.0003 35.6 2.4 48 334-387 110-161 (293)
135 PRK12495 hypothetical protein; 46.1 85 0.0018 29.8 7.2 57 303-385 14-70 (226)
136 PF04216 FdhE: Protein involve 46.0 6.2 0.00013 39.1 -0.3 45 334-382 171-220 (290)
137 PF10571 UPF0547: Uncharacteri 45.8 12 0.00027 23.1 1.1 21 337-357 2-24 (26)
138 PLN02915 cellulose synthase A 45.5 48 0.001 38.5 6.5 48 334-384 14-68 (1044)
139 PLN02189 cellulose synthase 43.2 33 0.0007 39.8 4.8 48 334-384 33-87 (1040)
140 COG5109 Uncharacterized conser 41.6 15 0.00033 36.5 1.7 44 336-380 337-383 (396)
141 PF14446 Prok-RING_1: Prokaryo 40.7 23 0.0005 26.0 2.1 29 334-362 4-36 (54)
142 KOG1729 FYVE finger containing 38.4 17 0.00037 36.1 1.5 51 335-385 168-226 (288)
143 PLN02638 cellulose synthase A 38.4 39 0.00085 39.3 4.5 48 334-384 16-70 (1079)
144 PF14569 zf-UDP: Zinc-binding 38.3 55 0.0012 25.9 3.9 48 334-384 8-62 (80)
145 PLN02436 cellulose synthase A 37.6 40 0.00086 39.3 4.4 48 334-384 35-89 (1094)
146 PLN02400 cellulose synthase 37.6 50 0.0011 38.6 5.1 48 334-384 35-89 (1085)
147 PF04710 Pellino: Pellino; In 37.4 11 0.00024 38.7 0.0 51 335-385 328-402 (416)
148 KOG3005 GIY-YIG type nuclease 37.4 16 0.00035 35.6 1.1 48 336-383 183-242 (276)
149 KOG4185 Predicted E3 ubiquitin 37.4 7.3 0.00016 38.6 -1.3 46 335-383 207-266 (296)
150 KOG3842 Adaptor protein Pellin 35.5 17 0.00036 36.3 0.8 47 334-383 289-351 (429)
151 PLN02195 cellulose synthase A 33.5 89 0.0019 36.2 6.2 49 333-384 4-59 (977)
152 cd04718 BAH_plant_2 BAH, or Br 33.3 14 0.0003 32.9 -0.0 30 357-386 2-31 (148)
153 PF01363 FYVE: FYVE zinc finge 32.1 16 0.00034 27.7 0.1 31 335-365 9-43 (69)
154 PF02318 FYVE_2: FYVE-type zin 30.9 55 0.0012 27.8 3.3 45 334-381 53-102 (118)
155 COG3492 Uncharacterized protei 30.5 28 0.0006 28.3 1.2 13 357-369 43-55 (104)
156 PRK03564 formate dehydrogenase 29.6 24 0.00052 35.4 0.9 44 334-381 186-234 (309)
157 cd00065 FYVE FYVE domain; Zinc 28.1 43 0.00094 24.0 1.9 31 336-366 3-37 (57)
158 PF10497 zf-4CXXC_R1: Zinc-fin 27.2 68 0.0015 26.8 3.1 30 354-383 37-71 (105)
159 smart00064 FYVE Protein presen 26.7 48 0.001 24.9 2.0 33 335-367 10-46 (68)
160 KOG2231 Predicted E3 ubiquitin 26.6 48 0.001 36.7 2.6 49 337-385 2-53 (669)
161 KOG2071 mRNA cleavage and poly 26.3 28 0.0006 37.7 0.7 30 336-365 514-556 (579)
162 TIGR01562 FdhE formate dehydro 26.2 40 0.00087 33.8 1.8 44 335-382 184-233 (305)
163 PF06750 DiS_P_DiS: Bacterial 26.0 2.3E+02 0.0049 23.0 5.9 39 335-386 33-71 (92)
164 KOG1245 Chromatin remodeling c 25.7 47 0.001 40.2 2.5 50 334-383 1107-1159(1404)
165 TIGR02921 PEP_integral PEP-CTE 25.2 3.9E+02 0.0085 29.5 8.8 31 81-112 168-198 (952)
166 KOG2041 WD40 repeat protein [G 24.9 34 0.00074 37.9 1.1 44 333-384 1129-1185(1189)
167 PF04423 Rad50_zn_hook: Rad50 24.6 24 0.00051 25.5 -0.1 12 374-385 21-32 (54)
168 COG4357 Zinc finger domain con 23.9 42 0.0009 27.6 1.1 14 373-386 80-93 (105)
169 PF14169 YdjO: Cold-inducible 23.1 48 0.001 24.8 1.2 23 364-386 28-52 (59)
170 cd00350 rubredoxin_like Rubred 22.6 38 0.00083 21.9 0.6 10 373-382 17-26 (33)
171 COG0353 RecR Recombinational D 21.3 1.6E+02 0.0035 27.5 4.6 16 334-349 65-80 (198)
172 TIGR02652 conserved hypothetic 21.0 34 0.00075 30.0 0.2 13 373-385 9-21 (163)
173 PF09654 DUF2396: Protein of u 20.9 35 0.00076 29.9 0.2 13 373-385 6-18 (161)
174 KOG4443 Putative transcription 20.1 54 0.0012 36.0 1.4 32 352-383 40-72 (694)
No 1
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.4e-42 Score=334.84 Aligned_cols=324 Identities=24% Similarity=0.370 Sum_probs=236.8
Q ss_pred HHHHHHHhHHHHHHHhhhhhccccchhhcccCcchhHHHHHHHHh-chhHHHHHHHHHHHHHHHHHHHHHHHhcccCcHH
Q 013134 12 STILSFVGLQFWTEFSLDKLRTDGLVVENVIHLESANRVLELLLR-SYATVALLANFVLNVFVLINLCLKTIFFGELYPA 90 (449)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-s~~~~~vl~N~~~~~~~l~~~~lq~lfFG~LR~~ 90 (449)
|...+++++.-+.+-++. ...+.|+.++.-+| |++.++++.|+.++.+.++|+++++++||+||..
T Consensus 6 y~l~~~Vl~~l~~~~~~~-------------~s~t~ys~l~~t~~ls~~hi~i~~~~ill~~~l~~~~l~~llFGsLr~~ 72 (491)
T COG5243 6 YVLASLVLFGLSVLLSLY-------------SSATVYSALVMTSQLSPVHITIGLNVILLLFFLIANALKTLLFGSLRTF 72 (491)
T ss_pred hhHHHHHHHHHHHHHHHh-------------ccceeeeeeeeeeccCcchhHHHHHHHHHHHHHHHHHHHHHhhhhhHHH
Confidence 455566666555555443 34567777777777 9999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccCcchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchH--HHHHHHHHH
Q 013134 91 ETRKFVERLINYVIYKGTFLPLVIPPTVFQAGLWSVWLTVLCSLKMFQALARDRLERLNASPSATPWTY--FRVFSALLF 168 (449)
Q Consensus 91 E~e~l~er~~~~~~~k~~fl~~vi~~~~~~~~~w~~~f~~L~fLk~fh~L~~dR~e~l~~sp~~~~~~h--~R~~~lL~~ 168 (449)
|.|+++|++| |++. ++.+...++++.... .+...+..|+++|+||||+++|.|... -.++....| -|..+.+.+
T Consensus 73 E~e~~~E~l~-~tlt-~~ll~iS~F~e~i~f-s~~~l~~~Ll~~kvfhwil~~R~er~~-~~st~~~~~ifSrfS~~~~l 148 (491)
T COG5243 73 ELELLYEQLW-ITLT-EILLAISVFREAISF-SFFMLLSTLLFAKVFHWILSFRTERLQ-IQSTDQRFHIFSRFSCAYFL 148 (491)
T ss_pred HHHHHHHhhH-HHHH-HHHHHHHHHHhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 9999999999 4443 444455555553221 245677888999999999999999763 233444444 699999999
Q ss_pred HHHHHHHHHHHHHHHhhhCCcchhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccchhhhhhhhcchhh
Q 013134 169 VLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLE 248 (449)
Q Consensus 169 ll~~d~~~i~~~~~~~~~~g~s~~ll~~fE~~~l~~~tl~~~l~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~we 248 (449)
+.++|..+|..|+..-...+.++..++..|+-.. ...+++. .+..+.-. ++.+++ -+
T Consensus 149 L~ild~~li~~CiSs~~liD~~~lfL~~c~F~~~-ll~l~s~-----------------~n~~cV~n--~~~~dd---Dd 205 (491)
T COG5243 149 LSILDASLIYLCISSEHLIDKSTLFLFVCEFSVL-LLNLTSE-----------------ANKLCVYN--YEARDD---DD 205 (491)
T ss_pred HHHHhHHHHHHHhhhHhhhhhhHHHHHHHHHHHH-HHHHHHh-----------------hcccceee--cccccc---cc
Confidence 9999999999999654444444433333343211 1111110 01111000 000111 14
Q ss_pred hhhhhhhhHHhHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCh
Q 013134 249 WKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATS 328 (449)
Q Consensus 249 ~kg~~i~~~~f~~dl~~~~~~l~~~~~~~~~~g~~~~i~~~vl~~~ir~~~~~l~~r~~~~~~~r~~~~~~~~~~~~~~~ 328 (449)
.|..+.++.|+.-|=++++.+...++..+..+.+|+.+++.++ .. +.++.+|++.+.+++++.+.+++.+|+++.
T Consensus 206 ~rs~~~f~~~v~y~g~tllays~l~~~~~~~~r~Pi~l~r~~~-t~----~~AL~~~i~~~~~~~r~~kdl~~~~~t~t~ 280 (491)
T COG5243 206 ERSTYLFRLEVCYDGLTLLAYSLLFMYQFPYVRVPIYLIRQMY-TC----FYALFRRIREHARFRRATKDLNAMYPTATE 280 (491)
T ss_pred cceeeeeeeehHHHHHHHHHHHHHHHhhccchhchHHHHHHHH-HH----HHHHHHHHHHHHHHHHHhhHHHhhcchhhh
Confidence 5667777788888888887777777777767779998888754 33 346778899999999999999999999999
Q ss_pred hhhccCCCCCccCcccc-c------------CCccccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 329 EELRAYDDECAICREPM-A------------KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 329 ~~l~~~~~~C~IC~~~~-~------------~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
|++.+.|..|.||+|++ . .|++|||||++|.+|++.|+++ +++||+||.++.
T Consensus 281 eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER----qQTCPICr~p~i 345 (491)
T COG5243 281 EQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER----QQTCPICRRPVI 345 (491)
T ss_pred hhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh----ccCCCcccCccc
Confidence 99999999999999994 3 3599999999999999999999 699999999953
No 2
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.1e-36 Score=324.72 Aligned_cols=320 Identities=33% Similarity=0.447 Sum_probs=267.9
Q ss_pred hhhcccCcchhHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHhhcc-cccC
Q 013134 37 VVENVIHLESANRVLELLLRSYATVALLANFVLNVFVLINLCLKTIFFGELYPAETRKFVERLINYVIYKGTFLP-LVIP 115 (449)
Q Consensus 37 ~~~~~~~~~~~~~~~~~l~~s~~~~~vl~N~~~~~~~l~~~~lq~lfFG~LR~~E~e~l~er~~~~~~~k~~fl~-~vi~ 115 (449)
+.+++....|++++.+|+++++.+++++.|+.++...++.+.++.+|||.|+..|.||+.|++|+|.+++.+|.. .+.+
T Consensus 14 ~~~~~~~~~q~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~sl~~~~~g~l~~~~~e~~~~~l~~~~~~~~~~~~~~~~~ 93 (543)
T KOG0802|consen 14 IFSAYLGSAQSISTTVLLLSSPTSLAVLLNRALVVLALILLSLQLIFFGALLLSEAEHLSHSLWNLIGLKYTFLLGYVTF 93 (543)
T ss_pred HHHHHHhhhcccccceeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccc
Confidence 334445556699999999999999999999999999999999999999999999999999999999999999977 4445
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhh-hCCcchhHH
Q 013134 116 PTVFQAGLWSVWLTVLCSLKMFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFK-TLDSSMFLL 194 (449)
Q Consensus 116 ~~~~~~~~w~~~f~~L~fLk~fh~L~~dR~e~l~~sp~~~~~~h~R~~~lL~~ll~~d~~~i~~~~~~~~-~~g~s~~ll 194 (449)
++.+. ..|..|+.+++++|+||||++||+++|+.+|..+.+.|.|+...+..+...|...+..++.... ..|.++.+.
T Consensus 94 ~~~~~-~~~~~~~~~l~~l~~~~~l~~~~~~~l~~~~~~~~~~~~~v~~~~~~l~~~~~~~~~~s~~~~~~t~~~~~l~~ 172 (543)
T KOG0802|consen 94 RTVLS-ELFSLWLLLLLFLHVFHLLASDRLPRLFFSPLITTLNHFRVVSVLFALLIVDGHLVYNSLKTAYRTYGLSMLIE 172 (543)
T ss_pred cchhh-HHHHHHHHHHHHHHHHHHHHHhHHHHHHhCcchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhheec
Confidence 77777 6899999999999999999999999999999999999999999999999999988877776554 678887777
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccchhhhhhhhcchhhhhhhhhhhHHhHHHHHHHHHHHHHHH
Q 013134 195 LFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYI 274 (449)
Q Consensus 195 ~~fE~~~l~~~tl~~~l~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~we~kg~~i~~~~f~~dl~~~~~~l~~~~ 274 (449)
+.+|.+.+.+.+....+.|.++..+ +. . -..|+++..+.++.+...+.........+..
T Consensus 173 ~~~~~~~~~~~~~~~~~~y~l~~~~-----------~~--------~--~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~~ 231 (543)
T KOG0802|consen 173 LTFPSLLVVFWTALVILQYVLHSTA-----------DH--------I--HIRSEDLSLLTFTLIIFGCMTLLVLLIMSAV 231 (543)
T ss_pred cchHHHHHHHHHHHHHHHHHHhcch-----------hh--------c--CcccCccceeechhHHHhhhhHHHHHhhhHH
Confidence 8899988887777766665443221 00 0 1245778888888888888888888888888
Q ss_pred HHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhCCCCChhh--hccCCCCCccCcccccC----
Q 013134 275 HIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGH-LHAALPDATSEE--LRAYDDECAICREPMAK---- 347 (449)
Q Consensus 275 ~~~~~~g~~~~i~~~vl~~~ir~~~~~l~~r~~~~~~~r~~~~~-~~~~~~~~~~~~--l~~~~~~C~IC~~~~~~---- 347 (449)
+.+..+++++++.+.+.... +....++.+...+.++.... +...++.++.++ ....++.|+||+|++..
T Consensus 232 ~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~e~l~~~~~~ 307 (543)
T KOG0802|consen 232 ISLVVHGILLGLVADLYNTP----FLEVERRLRELAPLRRVILATLQTGLPGATLEERGLALSDELCIICLEELHSGHNI 307 (543)
T ss_pred HHHHHhHhhhhhhHHHhhhh----hhhHHHHccchHHHHHHhhccccccccccChHHhhhhhcCCeeeeechhhcccccc
Confidence 88888888888887654332 35566777777888877777 788889998887 66789999999999988
Q ss_pred -CccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 348 -AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 348 -~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
++++||||+||.+|+++|+++ +++||+||..+...
T Consensus 308 ~~~rL~C~Hifh~~CL~~W~er----~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 308 TPKRLPCGHIFHDSCLRSWFER----QQTCPTCRTVLYDY 343 (543)
T ss_pred ccceeecccchHHHHHHHHHHH----hCcCCcchhhhhcc
Confidence 799999999999999999999 69999999965443
No 3
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=2.5e-13 Score=134.61 Aligned_cols=74 Identities=31% Similarity=0.605 Sum_probs=54.8
Q ss_pred HHHHHHHHHhhhCCCCChhhhcc--CCCCCccCcccccCCc---cccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 311 KLRIALGHLHAALPDATSEELRA--YDDECAICREPMAKAK---KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 311 ~~r~~~~~~~~~~~~~~~~~l~~--~~~~C~IC~~~~~~~~---~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
+.++..+++-+++|..+..+..+ ..+.|+||+|+|+.+. .|||+|.||..|+++||.+. +..||+||+++..
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---RTFCPVCKRDIRT 279 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhc---CccCCCCCCcCCC
Confidence 44455566666677665443322 1248999999998874 47999999999999999884 4679999998865
Q ss_pred CC
Q 013134 386 GR 387 (449)
Q Consensus 386 ~~ 387 (449)
..
T Consensus 280 ~~ 281 (348)
T KOG4628|consen 280 DS 281 (348)
T ss_pred CC
Confidence 43
No 4
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.31 E-value=7e-13 Score=93.62 Aligned_cols=41 Identities=49% Similarity=1.176 Sum_probs=35.0
Q ss_pred CCCccCcccccC---CccccccccchHhHHHHHHHhCCCCCCCccccC
Q 013134 336 DECAICREPMAK---AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (449)
Q Consensus 336 ~~C~IC~~~~~~---~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR 380 (449)
++|+||++++.. ...++|||.||.+|+.+|+++ +.+||+||
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 356899999999999999999 57999998
No 5
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.20 E-value=1.5e-11 Score=112.36 Aligned_cols=54 Identities=28% Similarity=0.655 Sum_probs=45.2
Q ss_pred CCCCCccCcccccCCccccccccchHhHHHHHHHhC------------CCCCCCccccCcCCcCCC
Q 013134 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG------------LNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~------------~~~~~~CP~CR~~l~~~~ 387 (449)
.+.+|+||++.+++++.++|||.||..||.+|+... ..+...||.||+++....
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 467899999999999999999999999999998642 112468999999996644
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=1.7e-11 Score=117.09 Aligned_cols=51 Identities=24% Similarity=0.710 Sum_probs=45.7
Q ss_pred cCCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
..+..|++|+|...+|..+||||+||..||.+|... +..||.||++..+.+
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 345789999999999999999999999999999988 578999999887653
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.15 E-value=3.8e-11 Score=114.25 Aligned_cols=47 Identities=38% Similarity=0.924 Sum_probs=40.1
Q ss_pred CCCCCccCcccccCC--------ccccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKA--------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~--------~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
.+.+|+||++++.++ +..+|||.||..|+.+|+++ +.+||+||.++.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~----~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE----KNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc----CCCCCCCCCEee
Confidence 467999999987653 34589999999999999987 689999999875
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=99.13 E-value=2.8e-11 Score=94.97 Aligned_cols=43 Identities=49% Similarity=1.143 Sum_probs=35.0
Q ss_pred CCCCCccCcccccCC-------------ccccccccchHhHHHHHHHhCCCCCCCccccC
Q 013134 334 YDDECAICREPMAKA-------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~-------------~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR 380 (449)
.++.|+||++++.++ ...+|||.||..||.+|+++ +.+||+||
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 466799999999432 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=99.08 E-value=4.9e-11 Score=83.17 Aligned_cols=42 Identities=31% Similarity=0.759 Sum_probs=33.3
Q ss_pred CccCcccccCCccccccccchHhHHHHHHHhCCCCCCCcccc
Q 013134 338 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (449)
Q Consensus 338 C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~C 379 (449)
|+||++.+++|+.|+|||.||..||.+|+++....+..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999999999999999999999999998764434689998
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=1.5e-10 Score=107.74 Aligned_cols=53 Identities=30% Similarity=0.663 Sum_probs=46.6
Q ss_pred CCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
..-+|.||+|.-++|+.+.|||.||..||.+|++.... ++.||+||..+..+.
T Consensus 46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~-~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPN-SKECPVCKAEVSIDT 98 (230)
T ss_pred CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCC-CeeCCccccccccce
Confidence 45689999999999999999999999999999987543 588999999987654
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=98.95 E-value=3.6e-10 Score=82.00 Aligned_cols=46 Identities=39% Similarity=0.820 Sum_probs=40.4
Q ss_pred CCCCccCcccccCCcccccccc-chHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
+..|.||++...+...+||||. ||..|..+|+++ ...||+||+++.
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 4689999999999888999999 999999999996 699999999874
No 12
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.92 E-value=6.1e-10 Score=88.42 Aligned_cols=51 Identities=37% Similarity=0.826 Sum_probs=40.1
Q ss_pred CCCCCccCcccccC------------C-ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 334 YDDECAICREPMAK------------A-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~~------------~-~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
.|+.|.||+..|+. | +.-.|+|.||.+||.+|++++.. +..||+||++...
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 47789999988862 1 22379999999999999997533 5799999998643
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=98.87 E-value=8.6e-10 Score=75.70 Aligned_cols=38 Identities=29% Similarity=0.835 Sum_probs=33.4
Q ss_pred CccCcccccCC-ccccccccchHhHHHHHHHhCCCCCCCcccc
Q 013134 338 CAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (449)
Q Consensus 338 C~IC~~~~~~~-~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~C 379 (449)
|+||++.+.++ +.++|||.||.+|+.+|+++ +..||.|
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 57899999999999999998 4899998
No 14
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.86 E-value=2e-09 Score=75.17 Aligned_cols=44 Identities=43% Similarity=1.105 Sum_probs=37.3
Q ss_pred CCccCcccccCCcccc-ccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 337 ECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 337 ~C~IC~~~~~~~~~Lp-CgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
+|+||++.+.++..++ |||.||..|++.|++++ +..||.||.++
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 5999999996666654 99999999999999873 47899999863
No 15
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.80 E-value=4.2e-09 Score=79.87 Aligned_cols=46 Identities=22% Similarity=0.292 Sum_probs=42.1
Q ss_pred CCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
..|+||.+.+++|+.+||||+|++.|+.+|+++ +..||.|++++..
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~----~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLS----HGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH----CCCCCCCcCCCCh
Confidence 469999999999999999999999999999988 5799999998754
No 16
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=2.1e-09 Score=103.08 Aligned_cols=49 Identities=37% Similarity=0.798 Sum_probs=41.4
Q ss_pred CCCCCccCcccccCC---ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 334 YDDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~---~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
.+-+|+||++++.+. +.|||.|.||..|+.+|+..- +..||+||.++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y---~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGY---SNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhh---cccCCccCCCCCC
Confidence 356899999999765 347999999999999999842 5899999999875
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.73 E-value=8.4e-09 Score=95.48 Aligned_cols=53 Identities=28% Similarity=0.669 Sum_probs=40.0
Q ss_pred cCCCCCccCcccccC---------CccccccccchHhHHHHHHHhC--CCCCCCccccCcCCcC
Q 013134 333 AYDDECAICREPMAK---------AKKLLCNHLFHLACLRSWLDQG--LNEMYSCPTCRKPLFV 385 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~---------~~~LpCgH~Fh~~Cl~~Wl~~~--~~~~~~CP~CR~~l~~ 385 (449)
+.+.+|+||+|...+ +...+|+|.||..||+.|-+.. .....+||.||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 357899999998632 2334899999999999999853 1124679999998753
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.72 E-value=6.8e-09 Score=71.89 Aligned_cols=40 Identities=43% Similarity=1.032 Sum_probs=35.7
Q ss_pred CccCcccccCCc-cccccccchHhHHHHHHHhCCCCCCCcccc
Q 013134 338 CAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (449)
Q Consensus 338 C~IC~~~~~~~~-~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~C 379 (449)
|+||.+.+.++. .++|||.||..|+++|++++ +...||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~--~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS--GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT--SSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhc--CCccCCcC
Confidence 899999999998 88999999999999999952 25789998
No 19
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=8.5e-09 Score=92.16 Aligned_cols=47 Identities=30% Similarity=0.733 Sum_probs=40.4
Q ss_pred CCCccCcccccCC--ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 336 DECAICREPMAKA--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 336 ~~C~IC~~~~~~~--~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
..|+||++.+.+. +...|||+||..||+.-+.. ...||+||+.+..+
T Consensus 132 ~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~----~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN----TNKCPTCRKKITHK 180 (187)
T ss_pred cCCCceecchhhccccccccchhHHHHHHHHHHHh----CCCCCCcccccchh
Confidence 4799999998764 45799999999999999988 58999999977553
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.66 E-value=1.8e-08 Score=67.80 Aligned_cols=39 Identities=41% Similarity=1.054 Sum_probs=34.9
Q ss_pred CccCcccccCCccccccccchHhHHHHHHHhCCCCCCCcccc
Q 013134 338 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (449)
Q Consensus 338 C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~C 379 (449)
|+||++..+.+..++|||.||..|++.|++++ +..||.|
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 89999998888899999999999999999843 5789988
No 21
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=6.8e-07 Score=84.71 Aligned_cols=51 Identities=35% Similarity=0.818 Sum_probs=41.8
Q ss_pred CCCCCccCcccccC----------CccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 334 YDDECAICREPMAK----------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 334 ~~~~C~IC~~~~~~----------~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
+|..|++|-..+.. .-+|.|+|+||..||+.|..-++ +++||.|++.+..+
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 47789999987743 34689999999999999987654 58999999887554
No 22
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.60 E-value=1.7e-08 Score=70.52 Aligned_cols=39 Identities=31% Similarity=0.810 Sum_probs=23.8
Q ss_pred CccCcccccC----CccccccccchHhHHHHHHHhCCCCCCCcc
Q 013134 338 CAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCP 377 (449)
Q Consensus 338 C~IC~~~~~~----~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP 377 (449)
|+||.| +.+ |+.|||||+|+.+|++++.+++......||
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 889999999999999999997532345777
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.57 E-value=4e-08 Score=100.21 Aligned_cols=48 Identities=27% Similarity=0.546 Sum_probs=43.4
Q ss_pred CCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
....|+||.+.+..|+.+||||.||..|++.|+.. ...||.||.++..
T Consensus 25 ~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~----~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN----QPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC----CCCCCCCCCcccc
Confidence 46789999999999999999999999999999987 4689999998754
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=4.8e-08 Score=100.35 Aligned_cols=59 Identities=25% Similarity=0.543 Sum_probs=48.7
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhC-CCCCCCccccCcCCcCCCcccccC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPLFVGRREIEAN 393 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~-~~~~~~CP~CR~~l~~~~~~~~~~ 393 (449)
+..|+||+++...|..+.|||+||..||-+.+..+ ......||+||..+..++......
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI 245 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence 77999999999999999999999999999988765 233578999999998865544333
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=3.6e-08 Score=93.47 Aligned_cols=49 Identities=33% Similarity=0.726 Sum_probs=43.0
Q ss_pred CCCCccCcccccCCccccccccchHhHHHH-HHHhCCCCCCCccccCcCCcCC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRS-WLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~-Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
|..|+||++....+..+||||+||..||-. |-.++ ...||.||+...++
T Consensus 215 d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCRak~~pk 264 (271)
T COG5574 215 DYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCRAKVYPK 264 (271)
T ss_pred ccceeeeecccCCcccccccchhhHHHHHHHHHhhc---cccCchhhhhccch
Confidence 668999999999999999999999999999 87763 34599999988664
No 26
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.44 E-value=9.9e-08 Score=67.22 Aligned_cols=41 Identities=34% Similarity=0.844 Sum_probs=34.2
Q ss_pred CCccCccccc---CCccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 337 ECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 337 ~C~IC~~~~~---~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
.|+||.+++. .+..++|||+||.+|+...... ...||+||+
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 3466799999999999998832 589999985
No 27
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.43 E-value=9.1e-08 Score=74.05 Aligned_cols=31 Identities=39% Similarity=0.876 Sum_probs=28.0
Q ss_pred cccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 352 LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 352 pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
.|.|.||.+||.+||.. +..||+||++....
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 68999999987654
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=1.4e-07 Score=72.34 Aligned_cols=50 Identities=34% Similarity=0.784 Sum_probs=38.7
Q ss_pred CCCCCccCcccccCC------------cc-ccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKA------------KK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~------------~~-LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
.+++|-||+-+|+.. .. --|.|.||.+||.+|+..+.+ +..||+||++..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~ts-q~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTS-QGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccc-cccCCcchheeE
Confidence 456899999888631 11 269999999999999987544 578999999764
No 29
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=4.4e-07 Score=92.31 Aligned_cols=49 Identities=37% Similarity=0.871 Sum_probs=38.7
Q ss_pred CCCCCccCcccccC------C-----------ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 334 YDDECAICREPMAK------A-----------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~~------~-----------~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
...+|+||+.+.+- + ...||.|+||..|+.+|.+.- +..||+||+++++
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 35689999988641 1 224999999999999999942 4699999999864
No 30
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.30 E-value=3.2e-07 Score=71.97 Aligned_cols=49 Identities=27% Similarity=0.407 Sum_probs=39.4
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
+..|+||.+-|++|+.+||||.|.+.||..|++++ +.+||.|++++...
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~---~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQN---GGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTT---SSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcC---CCCCCCCCCcCCcc
Confidence 34799999999999999999999999999999984 58999999988654
No 31
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.26 E-value=2.3e-07 Score=90.33 Aligned_cols=47 Identities=30% Similarity=0.580 Sum_probs=43.0
Q ss_pred CCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
..|-||.|.|..|..+||||.||.-||+..|.. +..||+|+.++...
T Consensus 24 LRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~----~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 24 LRCGICFEYFNIPMITPCSHTFCSLCIRKFLSY----KPQCPTCCVTVTES 70 (442)
T ss_pred HHHhHHHHHhcCceeccccchHHHHHHHHHhcc----CCCCCceecccchh
Confidence 479999999999999999999999999999988 69999999887553
No 32
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.16 E-value=7.4e-07 Score=85.23 Aligned_cols=47 Identities=28% Similarity=0.555 Sum_probs=42.6
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
-..|-||-+.+..|..++|||.||.-||+..|.. +..||.||.+...
T Consensus 25 ~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~----qp~CP~Cr~~~~e 71 (391)
T COG5432 25 MLRCRICDCRISIPCETTCGHTFCSLCIRRHLGT----QPFCPVCREDPCE 71 (391)
T ss_pred HHHhhhhhheeecceecccccchhHHHHHHHhcC----CCCCccccccHHh
Confidence 3579999999999999999999999999999988 6999999987644
No 33
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.2e-06 Score=71.27 Aligned_cols=46 Identities=37% Similarity=0.843 Sum_probs=35.6
Q ss_pred CCCccCccccc---------------CC--ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 336 DECAICREPMA---------------KA--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 336 ~~C~IC~~~~~---------------~~--~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
+.|+||+.-.- ++ ..-.|+|.||..||.+|+++ ++.||+|.++...
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt----r~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT----RNVCPLDNKEWVF 109 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh----cCcCCCcCcceeE
Confidence 67999986531 11 12379999999999999999 6999999887643
No 34
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=2.5e-06 Score=82.38 Aligned_cols=49 Identities=27% Similarity=0.575 Sum_probs=43.1
Q ss_pred CCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
...+|+||+.+...|+.++|+|.||.-||+.-...+ ..+||+||.++..
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~nd---k~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKND---KKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcC---CCCCceecCCCCc
Confidence 356899999999999999999999999998876664 5789999999955
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=2.5e-06 Score=83.50 Aligned_cols=45 Identities=36% Similarity=0.665 Sum_probs=40.1
Q ss_pred cCCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
.....|+||++.++.++.+||||.||..|+..++.. ...||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~----~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEG----PLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcCccccccchHhHHHHHHhcCC----CcCCcccCC
Confidence 346689999999999988999999999999999882 589999994
No 36
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.00 E-value=5.2e-06 Score=81.70 Aligned_cols=50 Identities=28% Similarity=0.694 Sum_probs=37.9
Q ss_pred CCCCccCccc-ccCCc-c-c--cccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 335 DDECAICREP-MAKAK-K-L--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 335 ~~~C~IC~~~-~~~~~-~-L--pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
+..||+|..+ +..+. + + +|||.||.+|+...+..+ ...||.|+.++...+
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 4689999995 33332 2 2 799999999999977654 468999999886643
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.94 E-value=2.3e-06 Score=66.49 Aligned_cols=51 Identities=29% Similarity=0.611 Sum_probs=25.4
Q ss_pred CCCCccCccccc-C---Ccc----ccccccchHhHHHHHHHhCCCCC-------CCccccCcCCcC
Q 013134 335 DDECAICREPMA-K---AKK----LLCNHLFHLACLRSWLDQGLNEM-------YSCPTCRKPLFV 385 (449)
Q Consensus 335 ~~~C~IC~~~~~-~---~~~----LpCgH~Fh~~Cl~~Wl~~~~~~~-------~~CP~CR~~l~~ 385 (449)
+.+|.||.+... . +.. -.|++.||..||.+|+....+.+ ..||.|++++.-
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 457999998764 2 222 27999999999999998632211 259999998753
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.89 E-value=6.6e-06 Score=89.36 Aligned_cols=50 Identities=30% Similarity=0.745 Sum_probs=39.3
Q ss_pred cCCCCCccCcccccC-----C--ccccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 333 AYDDECAICREPMAK-----A--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~-----~--~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
+.-++|+||..-+.. | +.-.|.|.||..|+.+|...+. +.+||.||.+++
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 456789999987651 2 2236999999999999998754 589999998764
No 39
>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=97.86 E-value=1.2e-05 Score=57.91 Aligned_cols=42 Identities=24% Similarity=0.694 Sum_probs=32.4
Q ss_pred CCccCcccc--cCCcccccc-----ccchHhHHHHHHHhCCCCCCCccccC
Q 013134 337 ECAICREPM--AKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCR 380 (449)
Q Consensus 337 ~C~IC~~~~--~~~~~LpCg-----H~Fh~~Cl~~Wl~~~~~~~~~CP~CR 380 (449)
.|.||++.. +++...||. |.+|..|+.+|+..+. ..+||+|+
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 334556986 8999999999998753 35899995
No 40
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=6.4e-06 Score=59.26 Aligned_cols=48 Identities=31% Similarity=0.645 Sum_probs=38.5
Q ss_pred CCCCCccCcccccCCcccccccc-chHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
-+++|.||+|...+.+.-.|||. .|..|-.+-+... +..||+||+++.
T Consensus 6 ~~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~---~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKAL---HGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcchHHHHHcchHHhHHHHHHHHHHcc---CCcCcchhhHHH
Confidence 35789999999888777899998 6888976655432 689999999874
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.79 E-value=6.2e-06 Score=83.52 Aligned_cols=43 Identities=44% Similarity=0.993 Sum_probs=36.4
Q ss_pred CCCccCcccccCCc----cccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 336 DECAICREPMAKAK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 336 ~~C~IC~~~~~~~~----~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
.+|++|+|.|+... ...|.|.||..|+..|.. .+||+||--..
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 48999999997643 458999999999999985 59999997544
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.75 E-value=6.7e-06 Score=61.68 Aligned_cols=46 Identities=28% Similarity=0.790 Sum_probs=24.9
Q ss_pred CCCccCcccccCCccc-cccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 336 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
..|++|.+.++.|+.+ .|.|+||..|++.-+. ..||+|+.|...++
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~------~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG------SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTT------TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcC------CCCCCcCChHHHHH
Confidence 4799999999999865 8999999999977442 46999998876543
No 43
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.5e-05 Score=79.13 Aligned_cols=49 Identities=33% Similarity=0.661 Sum_probs=42.1
Q ss_pred cCCCCCccCcccccCCcccccccc-chHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 333 AYDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~LpCgH~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
+.+.+|.||+.+-++...|||-|. -|..|-+..--+ ++.||+||+++..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q----~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQ----TNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHh----hcCCCccccchHh
Confidence 346789999999999999999998 799998886655 5899999999854
No 44
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=6.8e-05 Score=75.37 Aligned_cols=53 Identities=36% Similarity=0.732 Sum_probs=39.8
Q ss_pred CCCCCccCcccccCCc-----c---ccccccchHhHHHHHHHhCC---CCCCCccccCcCCcCC
Q 013134 334 YDDECAICREPMAKAK-----K---LLCNHLFHLACLRSWLDQGL---NEMYSCPTCRKPLFVG 386 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~-----~---LpCgH~Fh~~Cl~~Wl~~~~---~~~~~CP~CR~~l~~~ 386 (449)
.+..|.||+|...+.. . .+|.|.||.+|++.|-+... .-.+.||.||.+....
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 4778999999875433 2 46999999999999985431 1137999999876443
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=1.8e-05 Score=78.76 Aligned_cols=48 Identities=33% Similarity=0.876 Sum_probs=35.4
Q ss_pred CCCCccCcccccCCccc----cccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 335 DDECAICREPMAKAKKL----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~L----pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
...|.||-+-.....-+ .|||+||..|+..|++..+.+ ..||+||-.+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~-R~cpic~ik~ 55 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN-RGCPICQIKL 55 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc-CCCCceeecc
Confidence 35799994443332222 599999999999999987643 6999999444
No 46
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=2e-05 Score=85.01 Aligned_cols=49 Identities=20% Similarity=0.535 Sum_probs=43.5
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
-..|+.|-..+++.+...|||+||..|+++-++.. +..||.|.+++...
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etR---qRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETR---QRKCPKCNAAFGAN 691 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHh---cCCCCCCCCCCCcc
Confidence 35799999999999999999999999999999875 68999999988654
No 47
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=1.1e-05 Score=79.59 Aligned_cols=50 Identities=34% Similarity=0.646 Sum_probs=42.5
Q ss_pred CCCCCccCcccccCCccc-cccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
.+-.|+||++-++..... .|+|.||..||..-+..+ .+.||+||+.+..+
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 466899999999887666 599999999998888876 68999999988553
No 48
>PF13705 TRC8_N: TRC8 N-terminal domain
Probab=97.58 E-value=0.0086 Score=62.84 Aligned_cols=99 Identities=17% Similarity=0.303 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCcchhHHHHHh-hHHHHH
Q 013134 126 VWLTVLCSLKMFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFE-PLSVAF 204 (449)
Q Consensus 126 ~~f~~L~fLk~fh~L~~dR~e~l~~sp~~~~~~h~R~~~lL~~ll~~d~~~i~~~~~~~~~~g~s~~ll~~fE-~~~l~~ 204 (449)
.+..+-..++..|-+.+..+-.|++|++.+.++|.|.+++.++++++..++. +...++...+++++...- ++...+
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 3444556999999999999999999999999999999999999999988744 555667778887654433 344567
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Q 013134 205 ETMQAILVHGFQLLDIWLHHSAG 227 (449)
Q Consensus 205 ~tl~~~l~~~~~l~d~~~~~~~~ 227 (449)
+++.++.+|++.++|.+....|+
T Consensus 425 kv~~sl~iY~Lf~vd~~~~~~WE 447 (508)
T PF13705_consen 425 KVLGSLAIYILFMVDARREEPWE 447 (508)
T ss_pred HHHHHHHHHHHHHHHhhcccchh
Confidence 88889999999999987544443
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=5.9e-05 Score=77.31 Aligned_cols=49 Identities=35% Similarity=0.686 Sum_probs=43.6
Q ss_pred cCCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
..+..|.||...+.+|+.+||||.||..||..-+.+ ...||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~----~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQ----ETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHHhcc----CCCCccccccccc
Confidence 457789999999999999999999999999887765 6899999998865
No 50
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.35 E-value=9.1e-05 Score=73.97 Aligned_cols=48 Identities=35% Similarity=0.720 Sum_probs=40.5
Q ss_pred CCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
+.|-||-|.=++.+.=||||..|..|+..|-..+ ++++||.||.++..
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd--~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSD--EGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccC--CCCCCCceeeEecc
Confidence 3599999997777777999999999999998654 26899999998843
No 51
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=0.00067 Score=65.08 Aligned_cols=51 Identities=24% Similarity=0.566 Sum_probs=40.9
Q ss_pred cCCCCCccCcccccCCcc-ccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 333 AYDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~-LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
..+.+|++|-++...|-. .+|||+||.-|+..-..-+. ..+||.|-.+..+
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 457899999999888855 47999999999988665422 4799999887653
No 52
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.22 E-value=0.00019 Score=71.64 Aligned_cols=45 Identities=40% Similarity=0.910 Sum_probs=37.0
Q ss_pred CCCCccCcccccC----CccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 335 DDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 335 ~~~C~IC~~~~~~----~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
+..|..|-+.+.. -..|||.|+||..|+...++++. ..+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~--~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG--TRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC--CCCCccHHH
Confidence 5679999987742 24579999999999999998865 479999994
No 53
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00099 Score=61.97 Aligned_cols=54 Identities=33% Similarity=0.853 Sum_probs=43.4
Q ss_pred cCCCCCccCcccccC--CccccccccchHhHHHHHHHhC----CCCCCCccccCcCCcCC
Q 013134 333 AYDDECAICREPMAK--AKKLLCNHLFHLACLRSWLDQG----LNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~--~~~LpCgH~Fh~~Cl~~Wl~~~----~~~~~~CP~CR~~l~~~ 386 (449)
+++..|..|-..+.. ..+|.|-|.||.+|+.+|-.+- .+....||-|.+++++.
T Consensus 48 DY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 456789999988865 4678999999999999997652 23467899999998763
No 54
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=9e-05 Score=74.41 Aligned_cols=48 Identities=31% Similarity=0.797 Sum_probs=39.3
Q ss_pred CCCCCccCcccccCC-----ccccccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 334 YDDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~-----~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
.+.+|+||++.++.+ +.+.|||.|-..|++.|+-+. ....||.|...-
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 467899999999765 457899999999999999642 257899998654
No 55
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.14 E-value=0.0004 Score=75.54 Aligned_cols=93 Identities=16% Similarity=0.361 Sum_probs=54.5
Q ss_pred hHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCChhhhccCCCCCccCcccccCC-ccccccccchHhHH
Q 013134 284 FHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKA-KKLLCNHLFHLACL 362 (449)
Q Consensus 284 ~~i~~~vl~~~ir~~~~~l~~r~~~~~~~r~~~~~~~~~~~~~~~~~l~~~~~~C~IC~~~~~~~-~~LpCgH~Fh~~Cl 362 (449)
+.++++.+--.++.--..+.+.-+...++++.++++++.+.+....+-.-....|..|..+++-| +...|||.||.+|+
T Consensus 789 ls~IkD~ii~~l~~~~~~I~qd~~~Ie~yk~~i~e~r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~ 868 (933)
T KOG2114|consen 789 LSVIKDYIIKWLNKYSTIIEQDEDAIEVYKKDIEEKRQELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCL 868 (933)
T ss_pred EehhHHHHHHHHHhhhHHHHhhHHHHHHHHHHHHHHHHHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHHhh
Confidence 44455544333333222333333334445666666655443332111111234899999999887 56799999999998
Q ss_pred HHHHHhCCCCCCCccccCcCC
Q 013134 363 RSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 363 ~~Wl~~~~~~~~~CP~CR~~l 383 (449)
. +. ...||.|+-..
T Consensus 869 e---~~----~~~CP~C~~e~ 882 (933)
T KOG2114|consen 869 E---DK----EDKCPKCLPEL 882 (933)
T ss_pred c---cC----cccCCccchhh
Confidence 7 22 48999998743
No 56
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.00 E-value=0.00055 Score=70.79 Aligned_cols=54 Identities=24% Similarity=0.667 Sum_probs=44.8
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCC-CCCCCccccCcCCcCCCc
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGL-NEMYSCPTCRKPLFVGRR 388 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~-~~~~~CP~CR~~l~~~~~ 388 (449)
+..|-+|.++-+++....|.|.||+.|++++.+.-. .+.-+||+|...+..+..
T Consensus 536 ~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 536 EVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred ceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 457999999999999999999999999999887532 234799999988876543
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.95 E-value=0.00038 Score=71.96 Aligned_cols=50 Identities=28% Similarity=0.580 Sum_probs=44.3
Q ss_pred cCCCCCccCcccccCCcc-ccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 333 AYDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~-LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
+.+..|++|...+.+|.. ..|||.||..|+.+|+.+ ++.||.||+.+...
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 456789999999999998 599999999999999998 68999999887543
No 58
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.94 E-value=0.00026 Score=76.11 Aligned_cols=34 Identities=24% Similarity=0.384 Sum_probs=28.9
Q ss_pred ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 349 KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 349 ~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
.+.+|+|.||.+|+..|-+. .++||+||..+..-
T Consensus 140 ~~k~c~H~FC~~Ci~sWsR~----aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 140 SEKHTAHYFCEECVGSWSRC----AQTCPVDRGEFGEV 173 (1134)
T ss_pred cccccccccHHHHhhhhhhh----cccCchhhhhhhee
Confidence 34589999999999999988 58999999887543
No 59
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.00084 Score=66.91 Aligned_cols=45 Identities=24% Similarity=0.607 Sum_probs=34.2
Q ss_pred cCCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 333 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
...+.|.||.++..+.+.+||||.=| |..- .+. -.+||.||+.+.
T Consensus 303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~c--s~~---l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLC--SKH---LPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccceeeecCCcEEE--chHH--Hhh---CCCCchhHHHHH
Confidence 34678999999999999999999954 5432 221 367999999774
No 60
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.86 E-value=0.00099 Score=64.39 Aligned_cols=44 Identities=25% Similarity=0.661 Sum_probs=37.2
Q ss_pred CCCCccCcccccCCcccc-ccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 335 DDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~Lp-CgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
...|+.|......+.++| |||.||.+||..-|... ...||.|.+
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~ds---Df~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDS---DFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhc---cccCCCccc
Confidence 468999999999999985 89999999998776543 489999954
No 61
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.76 E-value=0.0025 Score=53.25 Aligned_cols=31 Identities=23% Similarity=0.860 Sum_probs=25.3
Q ss_pred cCCCCCccCcccccCCc--cccccccchHhHHH
Q 013134 333 AYDDECAICREPMAKAK--KLLCNHLFHLACLR 363 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~--~LpCgH~Fh~~Cl~ 363 (449)
+.+..|++|...+.... ..||||++|..|.+
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 34678999999997653 45999999999975
No 62
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.73 E-value=0.00068 Score=61.89 Aligned_cols=45 Identities=22% Similarity=0.421 Sum_probs=39.7
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
...|.||.++++.|+...|||.||..|-..-.+. ...|-.|-+..
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~k----g~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQK----GDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhcc----CCcceecchhh
Confidence 4589999999999999999999999998777776 58999997754
No 63
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0033 Score=62.22 Aligned_cols=48 Identities=23% Similarity=0.426 Sum_probs=43.1
Q ss_pred CCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
+|+.|+||...--.++..||+|.=|..||.+.+.. .+.|=.|+..+..
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 57789999998888889999999999999999987 6899999998764
No 64
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.62 E-value=0.00073 Score=50.23 Aligned_cols=43 Identities=21% Similarity=0.517 Sum_probs=30.0
Q ss_pred CCCCCccCcccccCCcc-ccccccchHhHHHHHHHhCCCCCCCccc
Q 013134 334 YDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPT 378 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~-LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~ 378 (449)
.+..|+|....+++|++ ..|||+|-++.|.++++++ ....||.
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 4899999999999999442 2578998
No 65
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.60 E-value=0.00074 Score=65.42 Aligned_cols=47 Identities=21% Similarity=0.420 Sum_probs=41.2
Q ss_pred CCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
....|-||..++..|+...|||.||..|-.+-+++ ...|++|.+...
T Consensus 240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk----~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQK----GEKCYVCSQQTH 286 (313)
T ss_pred CCccccccccccccchhhcCCceeehhhhcccccc----CCcceecccccc
Confidence 34569999999999999999999999998887877 589999987654
No 66
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.52 E-value=0.0023 Score=56.89 Aligned_cols=51 Identities=27% Similarity=0.679 Sum_probs=39.1
Q ss_pred cCCCCCccCcccccCCccccccc-----cchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 333 AYDDECAICREPMAKAKKLLCNH-----LFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~LpCgH-----~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
..+..|-||+++-. +..-||.- .-|.+|++.|+..+. ..+||.|+.+....
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 45778999999864 33458775 349999999998753 57999999987543
No 67
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.48 E-value=0.00057 Score=65.94 Aligned_cols=42 Identities=31% Similarity=0.680 Sum_probs=35.2
Q ss_pred CCCCccCcccccCCcccccccc-chHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 335 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
+..|+||++...++..|+|||. -|.+|-+. -+.||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr--------m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR--------MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc--------cccCchHHHHHH
Confidence 5679999999999999999997 48888543 468999998764
No 68
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.38 E-value=0.0024 Score=61.97 Aligned_cols=52 Identities=29% Similarity=0.693 Sum_probs=38.7
Q ss_pred CCCCccCcccccCC---ccccccccchHhHHHHHHHhC-------------------CCCCCCccccCcCCcCC
Q 013134 335 DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQG-------------------LNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 335 ~~~C~IC~~~~~~~---~~LpCgH~Fh~~Cl~~Wl~~~-------------------~~~~~~CP~CR~~l~~~ 386 (449)
..+|.||+--|.+. .+++|-|.+|..|+...|..- .+-...||+||..+...
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 56899999988765 467999999999997765430 01134699999988554
No 69
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.32 E-value=0.0021 Score=73.01 Aligned_cols=53 Identities=38% Similarity=0.749 Sum_probs=41.1
Q ss_pred cCCCCCccCcccc---cCCccccccccchHhHHHHHHHhCC--CC----CCCccccCcCCcC
Q 013134 333 AYDDECAICREPM---AKAKKLLCNHLFHLACLRSWLDQGL--NE----MYSCPTCRKPLFV 385 (449)
Q Consensus 333 ~~~~~C~IC~~~~---~~~~~LpCgH~Fh~~Cl~~Wl~~~~--~~----~~~CP~CR~~l~~ 385 (449)
+.|+.|.||..+- ..+.+|.|+|+||.+|.+.-|++.- ++ --+||+|+.++..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 4678899998764 3458899999999999999888741 11 2479999998854
No 70
>PHA02862 5L protein; Provisional
Probab=96.09 E-value=0.004 Score=54.31 Aligned_cols=48 Identities=21% Similarity=0.683 Sum_probs=37.2
Q ss_pred CCCCccCcccccCCcccccc-----ccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 335 DDECAICREPMAKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCg-----H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
++.|-||+++-++. .-||. ..-|.+|+.+|+.... +..||.|+.+...
T Consensus 2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~--k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSK--KKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCC--CcCccCCCCeEEE
Confidence 56899999986443 46876 4579999999997543 5799999998744
No 71
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.06 E-value=0.0028 Score=62.53 Aligned_cols=49 Identities=24% Similarity=0.579 Sum_probs=42.1
Q ss_pred CCCCCccCcccccCCccc-cccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 334 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
...+|.+|...+.++... .|=|.||++||-..++. ...||+|...+-..
T Consensus 14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~----~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE----SKYCPTCDIVIHKT 63 (331)
T ss_pred cceehhhccceeecchhHHHHHHHHHHHHHHHHHHH----hccCCccceeccCc
Confidence 356899999999988665 69999999999999998 59999999877543
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.97 E-value=0.0049 Score=62.38 Aligned_cols=55 Identities=25% Similarity=0.484 Sum_probs=38.4
Q ss_pred hhhhccCCCCCccCcccccC---CccccccccchHhHHHHHHHhCC----CCCCCccccCcC
Q 013134 328 SEELRAYDDECAICREPMAK---AKKLLCNHLFHLACLRSWLDQGL----NEMYSCPTCRKP 382 (449)
Q Consensus 328 ~~~l~~~~~~C~IC~~~~~~---~~~LpCgH~Fh~~Cl~~Wl~~~~----~~~~~CP~CR~~ 382 (449)
.++.......|.||.+.... -+++||+|+||++|++....... ...-.||-|..+
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 33444456689999998643 26789999999999999976421 123467776553
No 73
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.70 E-value=0.0046 Score=45.10 Aligned_cols=47 Identities=26% Similarity=0.574 Sum_probs=37.0
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
+..|..|...-.....+||||.-+..|...+ + -+.||.|-+++...+
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--r----YngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--R----YNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChh--h----ccCCCCCCCcccCCC
Confidence 4568888888778889999999999996543 2 478999999886543
No 74
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.63 E-value=0.0056 Score=43.62 Aligned_cols=40 Identities=28% Similarity=0.711 Sum_probs=27.0
Q ss_pred CccCcccccCCc--ccccc-----ccchHhHHHHHHHhCCCCCCCcccc
Q 013134 338 CAICREPMAKAK--KLLCN-----HLFHLACLRSWLDQGLNEMYSCPTC 379 (449)
Q Consensus 338 C~IC~~~~~~~~--~LpCg-----H~Fh~~Cl~~Wl~~~~~~~~~CP~C 379 (449)
|-||+++-.+.. ..||+ -.-|.+|+.+|+.... ..+|++|
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 678998765543 45876 3569999999998632 4689988
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.58 E-value=0.0073 Score=59.67 Aligned_cols=55 Identities=22% Similarity=0.506 Sum_probs=41.3
Q ss_pred CCChhhhccCCCCCccCcccccCCccccccccchHhHHHHH--HHhCCCCCCCccccCcCC
Q 013134 325 DATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSW--LDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 325 ~~~~~~l~~~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~W--l~~~~~~~~~CP~CR~~l 383 (449)
+.+.++-.+.+..|.||-+...-...+||+|.-|..|--.- |.. ++.||.||...
T Consensus 51 tsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~----~K~C~~CrTE~ 107 (493)
T COG5236 51 TSSADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM----QKGCPLCRTET 107 (493)
T ss_pred cccccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh----ccCCCcccccc
Confidence 34445544566789999999888889999999999994321 333 48999999865
No 76
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.33 E-value=0.014 Score=41.62 Aligned_cols=43 Identities=28% Similarity=0.715 Sum_probs=21.0
Q ss_pred CccCcccccCC-cc-c--cccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 338 CAICREPMAKA-KK-L--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 338 C~IC~~~~~~~-~~-L--pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
|++|.+++... +. . +||+-.|..|...-++.. ...||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~---~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE---GGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS----SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc---CCCCCCCCCCC
Confidence 78999998432 22 3 688989999977766532 58999999863
No 77
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=95.29 E-value=0.028 Score=57.05 Aligned_cols=34 Identities=26% Similarity=0.816 Sum_probs=25.0
Q ss_pred ccccchHhHHHHHHHhCCC---------CCCCccccCcCCcCC
Q 013134 353 CNHLFHLACLRSWLDQGLN---------EMYSCPTCRKPLFVG 386 (449)
Q Consensus 353 CgH~Fh~~Cl~~Wl~~~~~---------~~~~CP~CR~~l~~~ 386 (449)
|...+|.+|+-+|+..+++ .+-+||+||+++...
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 3356788999999876432 246899999998754
No 78
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.08 E-value=0.03 Score=61.87 Aligned_cols=36 Identities=28% Similarity=0.576 Sum_probs=27.8
Q ss_pred cCCCCCccCcccccCC--ccccccccchHhHHHHHHHh
Q 013134 333 AYDDECAICREPMAKA--KKLLCNHLFHLACLRSWLDQ 368 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~--~~LpCgH~Fh~~Cl~~Wl~~ 368 (449)
+.++.|.+|.-++-.. ..-||||.||+.|+..-...
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHHc
Confidence 4578999999887433 45699999999999776543
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.75 E-value=0.031 Score=53.01 Aligned_cols=52 Identities=17% Similarity=0.262 Sum_probs=42.6
Q ss_pred CCCCccCcccccCC---ccc-cccccchHhHHHHHHHhCCCCCCCccccCcCCcCCCccc
Q 013134 335 DDECAICREPMAKA---KKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREI 390 (449)
Q Consensus 335 ~~~C~IC~~~~~~~---~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~~~~ 390 (449)
...|++|++.+.+. ..| ||||+++..|....+.. ...||+|-.++.+++-..
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~----D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK----DMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc----cccccCCCCcCcccceEe
Confidence 45799999999764 333 99999999999999887 489999999987765443
No 80
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.69 E-value=0.018 Score=57.18 Aligned_cols=45 Identities=31% Similarity=0.704 Sum_probs=38.1
Q ss_pred CCCccCcccccC------CccccccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 336 DECAICREPMAK------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 336 ~~C~IC~~~~~~------~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
..|-||-+++.. |+.|.|||.+|..|+..-+... ...||.||.+.
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 479999999864 6778999999999998877764 57899999985
No 81
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.61 E-value=0.017 Score=63.35 Aligned_cols=52 Identities=31% Similarity=0.852 Sum_probs=37.3
Q ss_pred hhccCCCCCccCcccccCCc-cc---cccccchHhHHHHHHHhCCC---CCCCccccCc
Q 013134 330 ELRAYDDECAICREPMAKAK-KL---LCNHLFHLACLRSWLDQGLN---EMYSCPTCRK 381 (449)
Q Consensus 330 ~l~~~~~~C~IC~~~~~~~~-~L---pCgH~Fh~~Cl~~Wl~~~~~---~~~~CP~CR~ 381 (449)
++.....+|.||.+.++.-. .. .|-|+||..||++|-.+... ..=.||.|+.
T Consensus 186 ~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 186 QLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred HHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 33345668999999986432 22 57899999999999876321 2347999984
No 82
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.38 E-value=0.088 Score=52.07 Aligned_cols=47 Identities=19% Similarity=0.442 Sum_probs=39.0
Q ss_pred cCCCCCccCcccccCCcccc-ccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 333 AYDDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~Lp-CgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
.....|++|+..-.+|..+. -|-+||..|+-+.+.. ...||+=-.+.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~----~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN----YGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHh----cCCCCccCCcc
Confidence 34568999999988887775 5999999999999987 68999865544
No 83
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.30 E-value=0.19 Score=43.49 Aligned_cols=51 Identities=25% Similarity=0.451 Sum_probs=40.3
Q ss_pred CCCCccCcccccCCccc----cccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 335 DDECAICREPMAKAKKL----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~L----pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
--+|.||.|.-.+.+.| =||-.-|..|--..++... ..+.||.|+.++...
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~-~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN-LYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc-cCCCCCccccccccc
Confidence 35799999998887766 3999999999888776543 368999999987543
No 84
>PHA03096 p28-like protein; Provisional
Probab=94.26 E-value=0.024 Score=55.94 Aligned_cols=45 Identities=27% Similarity=0.592 Sum_probs=32.5
Q ss_pred CCCccCcccccCC-------ccc-cccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 336 DECAICREPMAKA-------KKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 336 ~~C~IC~~~~~~~-------~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
..|.||++..... ..| .|.|.||..|++.|-.... ....||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~-~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL-YKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh-hcccCccccc
Confidence 5799999976421 123 6999999999999987643 2456666664
No 85
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.24 E-value=0.032 Score=55.15 Aligned_cols=52 Identities=29% Similarity=0.541 Sum_probs=36.7
Q ss_pred cCCCCCccCcccccCCcc----ccccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 333 AYDDECAICREPMAKAKK----LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~----LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
++++-|+.|+|+++...+ -|||-..|.-|...- +++. ...||-||+...+++
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~i-rq~l--ngrcpacrr~y~den 67 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNI-RQNL--NGRCPACRRKYDDEN 67 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHH-Hhhc--cCCChHhhhhccccc
Confidence 346679999999976544 278888888886543 2322 469999999776544
No 86
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.60 E-value=0.025 Score=62.30 Aligned_cols=48 Identities=29% Similarity=0.565 Sum_probs=40.4
Q ss_pred CCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
..|.||.+ .+.+...+|||.||..|+..-++... ...||.||..+...
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 77788899999999999999887753 24899999877543
No 87
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.44 E-value=0.058 Score=48.70 Aligned_cols=51 Identities=29% Similarity=0.719 Sum_probs=35.9
Q ss_pred CCCccCcccccC-------CccccccccchHhHHHHHHHhCCCCC-------CCccccCcCCcCC
Q 013134 336 DECAICREPMAK-------AKKLLCNHLFHLACLRSWLDQGLNEM-------YSCPTCRKPLFVG 386 (449)
Q Consensus 336 ~~C~IC~~~~~~-------~~~LpCgH~Fh~~Cl~~Wl~~~~~~~-------~~CP~CR~~l~~~ 386 (449)
..|.||...--+ +.-..||.-||.-|+..||+.-...+ ..||.|..++..+
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 358888864322 34468999999999999997521111 2599999887554
No 88
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.35 E-value=0.045 Score=59.21 Aligned_cols=58 Identities=38% Similarity=0.738 Sum_probs=49.2
Q ss_pred hCCCCChhhhccCCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 322 ALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 322 ~~~~~~~~~l~~~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
..+.++.+++.+.++.|.||++++ ..+..+|. |..|++.|+.. +..||.|++....++
T Consensus 466 ~~s~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~----~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 466 SLSEATPSQLREPNDVCAICYQEM-SARITPCS---HALCLRKWLYV----QEVCPLCHTYMKEDD 523 (543)
T ss_pred CCCCCChhhhhcccCcchHHHHHH-Hhcccccc---chhHHHhhhhh----ccccCCCchhhhccc
Confidence 466677888888899999999999 67777898 89999999988 589999999876654
No 89
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.75 E-value=0.014 Score=58.67 Aligned_cols=47 Identities=28% Similarity=0.649 Sum_probs=40.0
Q ss_pred CCCCccCcccccC----CccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 335 DDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 335 ~~~C~IC~~~~~~----~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
-..|+||.+.++. ...+-|||.+|..||++|+.. ...||.||+.++.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~----~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT----KRKLPSCRRELPK 246 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH----HHHhHHHHhhhhh
Confidence 3579999988754 466789999999999999998 5899999998854
No 90
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=92.42 E-value=0.046 Score=47.48 Aligned_cols=32 Identities=22% Similarity=0.554 Sum_probs=26.3
Q ss_pred CCCCccCcccccC--Cc-ccccc------ccchHhHHHHHH
Q 013134 335 DDECAICREPMAK--AK-KLLCN------HLFHLACLRSWL 366 (449)
Q Consensus 335 ~~~C~IC~~~~~~--~~-~LpCg------H~Fh~~Cl~~Wl 366 (449)
.-+|.||++...+ ++ .++|| |.||.+|++.|-
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 3479999999877 43 45787 999999999994
No 91
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=92.39 E-value=0.13 Score=45.85 Aligned_cols=34 Identities=35% Similarity=0.617 Sum_probs=25.1
Q ss_pred CCCCccCcccccCCccccc------------ccc-chHhHHHHHHHh
Q 013134 335 DDECAICREPMAKAKKLLC------------NHL-FHLACLRSWLDQ 368 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpC------------gH~-Fh~~Cl~~Wl~~ 368 (449)
+-.|+||+|...+++.|-| +-. -|.+|+++.-+.
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka 48 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKA 48 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHH
Confidence 5589999999888777644 433 378999887543
No 92
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=91.38 E-value=0.11 Score=50.75 Aligned_cols=43 Identities=35% Similarity=0.838 Sum_probs=36.1
Q ss_pred CCCCccCccccc----CCccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 335 DDECAICREPMA----KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 335 ~~~C~IC~~~~~----~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
+..|+||.+.+. .+..++|||.-|..|.+..... +.+||+|.+
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 345999999764 5678899999999999888776 589999988
No 93
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=91.21 E-value=0.065 Score=51.02 Aligned_cols=42 Identities=26% Similarity=0.591 Sum_probs=27.5
Q ss_pred CccCccccc-CC-ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 338 CAICREPMA-KA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 338 C~IC~~~~~-~~-~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
|.-|...-. ++ ..+.|+|+||..|...-. ...||+||+++..
T Consensus 6 Cn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~------~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 6 CNKCFRFPSQDPFFLTACRHVFCEPCLKASS------PDVCPLCKKSIRI 49 (233)
T ss_pred eccccccCCCCceeeeechhhhhhhhcccCC------ccccccccceeee
Confidence 555554332 22 234899999999974311 2499999998743
No 94
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.36 E-value=0.13 Score=49.30 Aligned_cols=52 Identities=25% Similarity=0.671 Sum_probs=38.0
Q ss_pred CCCCCccCcccccCCcc----cccc-----ccchHhHHHHHHHhCCC----CCCCccccCcCCcC
Q 013134 334 YDDECAICREPMAKAKK----LLCN-----HLFHLACLRSWLDQGLN----EMYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~----LpCg-----H~Fh~~Cl~~Wl~~~~~----~~~~CP~CR~~l~~ 385 (449)
.|..|=||.+.=++... =||- |.-|.+|+..|+.++.. +.-+||.|+.+...
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 46679999987665433 2774 88999999999976422 23479999987644
No 95
>PF04641 Rtf2: Rtf2 RING-finger
Probab=90.17 E-value=0.26 Score=48.18 Aligned_cols=49 Identities=18% Similarity=0.341 Sum_probs=37.9
Q ss_pred CCCCCccCcccccCC---cc-ccccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 334 YDDECAICREPMAKA---KK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~---~~-LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
....|||+..+|... +. .||||+|...+++.-- . ...||.|-.++...+
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 456899999999543 22 3999999999998862 2 368999999987554
No 96
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.08 E-value=0.21 Score=54.69 Aligned_cols=49 Identities=24% Similarity=0.580 Sum_probs=37.4
Q ss_pred CCCCCccCcccccCCccc--cccc-----cchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKAKKL--LCNH-----LFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~L--pCgH-----~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
.+..|-||+.+-.....| ||.. .-|.+|+-+|++.+. ...|-+|+.+..
T Consensus 11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~--~~kCdiChy~~~ 66 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSG--TKKCDICHYEYK 66 (1175)
T ss_pred cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCC--Ccceeeecceee
Confidence 357899999876544444 8863 469999999999754 478999998773
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.82 E-value=0.13 Score=50.45 Aligned_cols=41 Identities=37% Similarity=0.815 Sum_probs=29.2
Q ss_pred CCccCcccccC-CccccccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 337 ECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 337 ~C~IC~~~~~~-~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
.|--|--.... ++.+||.|+||.+|-+. +. .+.||.|-..+
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~----dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARS--DS----DKICPLCDDRV 133 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhc--Cc----cccCcCcccHH
Confidence 46666555433 46779999999999754 22 37999997665
No 98
>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=89.25 E-value=0.28 Score=34.19 Aligned_cols=40 Identities=25% Similarity=0.747 Sum_probs=22.7
Q ss_pred CccCcccccCCccc---cccccchHhHHHHHHHhCCCCCCCcccc
Q 013134 338 CAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLNEMYSCPTC 379 (449)
Q Consensus 338 C~IC~~~~~~~~~L---pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~C 379 (449)
|.+|.+-...+.+= .|+=.+|..|++.++.... ...||.|
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 67788776665543 4888999999999998742 2379988
No 99
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.13 E-value=0.17 Score=54.06 Aligned_cols=38 Identities=26% Similarity=0.646 Sum_probs=30.6
Q ss_pred CCccCccccc----CCccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 337 ECAICREPMA----KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 337 ~C~IC~~~~~----~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
.|.||+..+. .|+.+-|||.-|.+|+..-.. .+|| |+.
T Consensus 13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp-~~~ 54 (861)
T KOG3161|consen 13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP-TKR 54 (861)
T ss_pred hchHHHHHHHHHhcCcccccccchHHHHHHHhHhh------ccCC-CCc
Confidence 5999988774 478889999999999977553 5899 654
No 100
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=88.28 E-value=0.44 Score=48.77 Aligned_cols=35 Identities=29% Similarity=0.496 Sum_probs=31.2
Q ss_pred CCCCCccCcccccCCccccccccchHhHHHHHHHh
Q 013134 334 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQ 368 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~ 368 (449)
++..|+||-.-+++|..|||||..|..|-++-+.+
T Consensus 3 eelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 3 EELKCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred ccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 35679999999999999999999999999877655
No 101
>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=87.85 E-value=0.44 Score=46.57 Aligned_cols=46 Identities=26% Similarity=0.551 Sum_probs=35.1
Q ss_pred CCccCcccc-cCC-ccc---cccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 337 ECAICREPM-AKA-KKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 337 ~C~IC~~~~-~~~-~~L---pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
.|++|..+- ..| .++ ||||.-|.+|...-...+ ...||.|-..+-.
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 599998753 222 222 999999999999998886 5799999876643
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.78 E-value=0.21 Score=47.09 Aligned_cols=40 Identities=38% Similarity=0.708 Sum_probs=30.9
Q ss_pred CCccCcccccCCcccccccc-chHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 337 ECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 337 ~C~IC~~~~~~~~~LpCgH~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
.|-.|.+.-.....+||.|. +|..|-.+ -..||+|+.+..
T Consensus 160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGEREATVLLLPCRHLCLCGICDES--------LRICPICRSPKT 200 (207)
T ss_pred cceecCcCCceEEeecccceEeccccccc--------CccCCCCcChhh
Confidence 39999998777677899987 77888543 267999998654
No 103
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=86.68 E-value=0.21 Score=57.49 Aligned_cols=45 Identities=24% Similarity=0.503 Sum_probs=38.9
Q ss_pred CCCCccCccccc-CCccccccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 335 DDECAICREPMA-KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 335 ~~~C~IC~~~~~-~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
...|.||.+.+. .+-..-|||.+|..|...|+.+ +..||+|+...
T Consensus 1153 ~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~----~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA----SSRCPICKSIK 1198 (1394)
T ss_pred ccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH----hccCcchhhhh
Confidence 348999999998 5566789999999999999999 68999998544
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.61 E-value=0.37 Score=46.98 Aligned_cols=35 Identities=29% Similarity=0.618 Sum_probs=26.2
Q ss_pred ccccchHhHHHHHHHhCCC---------CCCCccccCcCCcCCC
Q 013134 353 CNHLFHLACLRSWLDQGLN---------EMYSCPTCRKPLFVGR 387 (449)
Q Consensus 353 CgH~Fh~~Cl~~Wl~~~~~---------~~~~CP~CR~~l~~~~ 387 (449)
|....|.+|+-+|+...++ ++-+||+||+.+...+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 5577889999999864321 2578999999987654
No 105
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=86.01 E-value=0.29 Score=34.61 Aligned_cols=44 Identities=32% Similarity=0.681 Sum_probs=25.0
Q ss_pred CCccCcccccCCcccccc-ccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 337 ECAICREPMAKAKKLLCN-HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 337 ~C~IC~~~~~~~~~LpCg-H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
.|--|+-. +.-...|+ |.-|..|+...+.+ +..||+|..+++.+
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 35666643 22345786 88899999999887 68999999988753
No 106
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.15 E-value=0.58 Score=47.66 Aligned_cols=45 Identities=22% Similarity=0.539 Sum_probs=34.6
Q ss_pred CCCccCccccc---CCccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 336 DECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 336 ~~C~IC~~~~~---~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
-.|||=.+.-. +|.+|.|||+..+.-+.+.-+.+.. +..||.|-.
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~-sfKCPYCP~ 382 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQ-SFKCPYCPV 382 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCe-eeeCCCCCc
Confidence 47999777553 5799999999999999887665422 368999944
No 107
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=84.92 E-value=0.62 Score=46.40 Aligned_cols=43 Identities=28% Similarity=0.549 Sum_probs=33.2
Q ss_pred CCCccCcccccCCccc-cccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 336 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
.+|+||.+.+..|..- +=||.-|.+|=.+ . ...||.||.++..
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~----~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRTK---V----SNKCPTCRLPIGN 92 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhhh---h----cccCCcccccccc
Confidence 4799999999887432 3379999999642 2 4799999998864
No 108
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=84.18 E-value=0.55 Score=44.58 Aligned_cols=45 Identities=27% Similarity=0.681 Sum_probs=34.5
Q ss_pred CCCCCccCcccc-cCC-ccc---c-ccccchHhHHHHHHHhCCCCCCCcc--ccCc
Q 013134 334 YDDECAICREPM-AKA-KKL---L-CNHLFHLACLRSWLDQGLNEMYSCP--TCRK 381 (449)
Q Consensus 334 ~~~~C~IC~~~~-~~~-~~L---p-CgH~Fh~~Cl~~Wl~~~~~~~~~CP--~CR~ 381 (449)
.|..|++|..+- -.| .++ | |-|..|.+|...-+..+ ...|| -|-+
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 466899999863 223 333 5 99999999999999887 57899 7754
No 109
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=83.79 E-value=0.6 Score=51.00 Aligned_cols=26 Identities=27% Similarity=0.648 Sum_probs=22.7
Q ss_pred ccccccccchHhHHHHHHHhCCCCCCCccc
Q 013134 349 KKLLCNHLFHLACLRSWLDQGLNEMYSCPT 378 (449)
Q Consensus 349 ~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~ 378 (449)
....|||+-|.+|.+.|++. +..||.
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 44689999999999999998 478986
No 110
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.50 E-value=0.35 Score=43.15 Aligned_cols=30 Identities=30% Similarity=0.662 Sum_probs=23.7
Q ss_pred hhccCCCCCccCcccccCC---ccccccccchH
Q 013134 330 ELRAYDDECAICREPMAKA---KKLLCNHLFHL 359 (449)
Q Consensus 330 ~l~~~~~~C~IC~~~~~~~---~~LpCgH~Fh~ 359 (449)
.+.+...+|.||+|++..+ .+|||=.+||+
T Consensus 172 VL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 172 VLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 3445567899999999876 46899999986
No 111
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=82.05 E-value=0.42 Score=52.13 Aligned_cols=50 Identities=26% Similarity=0.557 Sum_probs=41.3
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
..+|+||...+.++..+.|.|.|+..|+..-+..... ...||+|+..+..
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 4579999999999999999999999998776665332 5789999976644
No 112
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=77.56 E-value=1.2 Score=44.24 Aligned_cols=50 Identities=22% Similarity=0.495 Sum_probs=37.4
Q ss_pred CCCCccCcccccC----Ccccccc-----ccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 335 DDECAICREPMAK----AKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 335 ~~~C~IC~~~~~~----~~~LpCg-----H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
+..|-||.++... +...||. +..|..|+..|..... ...|..|.......
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 4679999997654 3456876 5679999999997422 57999999866443
No 113
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=74.97 E-value=2.4 Score=46.78 Aligned_cols=50 Identities=16% Similarity=0.150 Sum_probs=34.8
Q ss_pred CCCCCccCcccccCC----cccc---ccccchHhHHHHHHHhC--CCCCCCccccCcCC
Q 013134 334 YDDECAICREPMAKA----KKLL---CNHLFHLACLRSWLDQG--LNEMYSCPTCRKPL 383 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~----~~Lp---CgH~Fh~~Cl~~Wl~~~--~~~~~~CP~CR~~l 383 (449)
..++|.+|.-++.++ -..| |+|.+|..||.+|.++- ...+..||.|..-+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 346788888777652 2334 99999999999999863 12235678777644
No 114
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.96 E-value=1.9 Score=42.49 Aligned_cols=49 Identities=27% Similarity=0.551 Sum_probs=40.8
Q ss_pred cCCCCCccCcccccCCccc-cccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 333 AYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
+.++.|-||...+.-+.+- -|.|-|+..|.++|.+. ...||-||....+
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~----~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAM----GNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhh----hhccchhhcCcCc
Confidence 4567899999998877655 49999999999999998 5899999986633
No 115
>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=74.50 E-value=1.1 Score=32.25 Aligned_cols=46 Identities=26% Similarity=0.576 Sum_probs=23.0
Q ss_pred CCCccCcccccCCccc-cccccchHhHHHHHHHhCC-CCCCCccccCcC
Q 013134 336 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGL-NEMYSCPTCRKP 382 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~L-pCgH~Fh~~Cl~~Wl~~~~-~~~~~CP~CR~~ 382 (449)
..|+|....++.|.+. .|.|.-|. =+.+|++... ...-.||+|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CF-Dl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCF-DLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--E-EHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceE-CHHHHHHHhhccCCeECcCCcCc
Confidence 3699999999888765 79998543 2567776531 112479999874
No 116
>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=74.26 E-value=0.26 Score=37.98 Aligned_cols=41 Identities=27% Similarity=0.676 Sum_probs=24.0
Q ss_pred CCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
..|+.|..+++... ||..|..|-.....+ ..||.|.+++..
T Consensus 2 ~~CP~C~~~L~~~~----~~~~C~~C~~~~~~~-----a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYHCEACQKDYKKE-----AFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET----TEEEETTT--EEEEE-----EE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC----CEEECccccccceec-----ccCCCcccHHHH
Confidence 47999999976533 777888887654433 689999998743
No 117
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.09 E-value=1 Score=43.03 Aligned_cols=33 Identities=15% Similarity=0.242 Sum_probs=30.1
Q ss_pred CCCccCcccccCCccccccccchHhHHHHHHHh
Q 013134 336 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQ 368 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~ 368 (449)
+.|+.|+.+..+|+..|=||+|++.||.+.+..
T Consensus 44 dcCsLtLqPc~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 44 DCCSLTLQPCRDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred ceeeeecccccCCccCCCCeeeeHHHHHHHHHH
Confidence 579999999999999999999999999887654
No 118
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.78 E-value=2.3 Score=47.01 Aligned_cols=36 Identities=25% Similarity=0.582 Sum_probs=28.4
Q ss_pred cCCCCCccCccccc-------CCccccccccchHhHHHHHHHh
Q 013134 333 AYDDECAICREPMA-------KAKKLLCNHLFHLACLRSWLDQ 368 (449)
Q Consensus 333 ~~~~~C~IC~~~~~-------~~~~LpCgH~Fh~~Cl~~Wl~~ 368 (449)
..++.|.-|.++.- ..+.+.|||.||..|+..-..+
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~ 824 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR 824 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh
Confidence 34668999998754 2356799999999999887766
No 119
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=70.83 E-value=4.6 Score=40.39 Aligned_cols=46 Identities=33% Similarity=0.621 Sum_probs=33.8
Q ss_pred CCCccCcccccCC--ccc--cccccchHhHHHHHHHhCCCCCCCccccCcCCcC
Q 013134 336 DECAICREPMAKA--KKL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 385 (449)
Q Consensus 336 ~~C~IC~~~~~~~--~~L--pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~ 385 (449)
..|+||-++.... -.+ ||||.-|..|+..-... ..+||.||++...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~----~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG----DGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhccccc----CCCCCccCCcccc
Confidence 6899999987433 233 67888788887776655 5899999966543
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 KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=68.99 E-value=3.4 Score=45.54 Aligned_cols=38 Identities=24% Similarity=0.577 Sum_probs=27.8
Q ss_pred CCccCcccccCCccc--cccccchHhHHHHHHHhCCCCCCCccc
Q 013134 337 ECAICREPMAKAKKL--LCNHLFHLACLRSWLDQGLNEMYSCPT 378 (449)
Q Consensus 337 ~C~IC~~~~~~~~~L--pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~ 378 (449)
.|.+|.......... -|||.-|.+|+++|+.. ...||.
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 456665
No 122
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.36 E-value=4.5 Score=41.91 Aligned_cols=35 Identities=29% Similarity=0.640 Sum_probs=26.3
Q ss_pred CCCCccCcccccCC----ccccccccchHhHHHHHHHhC
Q 013134 335 DDECAICREPMAKA----KKLLCNHLFHLACLRSWLDQG 369 (449)
Q Consensus 335 ~~~C~IC~~~~~~~----~~LpCgH~Fh~~Cl~~Wl~~~ 369 (449)
..+|.||..+...+ ....|+|.||..|.++.++..
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 56899999444332 235799999999999988753
No 123
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=66.31 E-value=3.4 Score=44.70 Aligned_cols=41 Identities=27% Similarity=0.719 Sum_probs=26.3
Q ss_pred CCCCCccCccc-----cc-C--CccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 334 YDDECAICREP-----MA-K--AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 334 ~~~~C~IC~~~-----~~-~--~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
....|.+|... |+ + -+...||++||..|++. . +..||.|-+
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~----s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---K----SPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---c----CCCCCchHH
Confidence 35578888432 21 1 13458999999999744 2 345999943
No 124
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.52 E-value=4.8 Score=42.52 Aligned_cols=36 Identities=31% Similarity=0.560 Sum_probs=31.1
Q ss_pred CCCCCccCcccccC-CccccccccchHhHHHHHHHhC
Q 013134 334 YDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQG 369 (449)
Q Consensus 334 ~~~~C~IC~~~~~~-~~~LpCgH~Fh~~Cl~~Wl~~~ 369 (449)
.+.+|-||.+.... ...++|||.||..|....+.++
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 6778999999999999988775
No 125
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=63.98 E-value=3.5 Score=38.58 Aligned_cols=43 Identities=23% Similarity=0.648 Sum_probs=34.8
Q ss_pred CCCccCcccccCCc-cccccccchHhHHHHHHHhCCCCCCCccccCcC
Q 013134 336 DECAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (449)
Q Consensus 336 ~~C~IC~~~~~~~~-~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (449)
..|.+|.+-.-.++ .-.||=-+|..|+...+++ ...||.|..-
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~----~~~cphc~d~ 225 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQR----RDICPHCGDL 225 (235)
T ss_pred HHHhHhHHHhheeeccCcccchhhhHHHHHHhcc----cCcCCchhcc
Confidence 47999998765443 4588888999999999998 5899999543
No 126
>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=59.28 E-value=5.8 Score=25.78 Aligned_cols=36 Identities=33% Similarity=0.811 Sum_probs=25.4
Q ss_pred CCccCcccccCC-ccc-cccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 337 ECAICREPMAKA-KKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 337 ~C~IC~~~~~~~-~~L-pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
.|..|.+.+... ..+ .=+..||..| ..|..|+.++.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~C------------f~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPEC------------FKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccC------------CCCcccCCcCc
Confidence 378888887664 333 3468899888 58888887663
No 127
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=57.64 E-value=10 Score=37.70 Aligned_cols=52 Identities=23% Similarity=0.475 Sum_probs=36.1
Q ss_pred CCCCCccCccccc--------------C---C--ccccccccchHhHHHHHHHhCCCC-----CCCccccCcCCcC
Q 013134 334 YDDECAICREPMA--------------K---A--KKLLCNHLFHLACLRSWLDQGLNE-----MYSCPTCRKPLFV 385 (449)
Q Consensus 334 ~~~~C~IC~~~~~--------------~---~--~~LpCgH~Fh~~Cl~~Wl~~~~~~-----~~~CP~CR~~l~~ 385 (449)
.+..|++|+..-. + + ..-||||+--.+-.+-|-+-..+. +..||.|-+.+..
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 4678999997521 1 1 224999998888888887765332 4679999887644
No 128
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.12 E-value=6.7 Score=38.36 Aligned_cols=34 Identities=26% Similarity=0.632 Sum_probs=29.8
Q ss_pred CCCccCcccccCCccccc----cccchHhHHHHHHHhC
Q 013134 336 DECAICREPMAKAKKLLC----NHLFHLACLRSWLDQG 369 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~LpC----gH~Fh~~Cl~~Wl~~~ 369 (449)
..|.+|.|.+++.....| +|.||..|-++-++++
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 469999999999877777 5999999999999875
No 129
>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=55.19 E-value=8 Score=27.91 Aligned_cols=37 Identities=32% Similarity=0.849 Sum_probs=28.9
Q ss_pred CccCcccccCCccc--cccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 338 CAICREPMAKAKKL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 338 C~IC~~~~~~~~~L--pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
|.-|.+.+...... .-|..||.+| ..|-.|++++...
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 67788887755444 7889999988 6999999988654
No 130
>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=55.01 E-value=4.2 Score=41.67 Aligned_cols=32 Identities=25% Similarity=0.540 Sum_probs=0.0
Q ss_pred ccccccccchHhHHHHHHHhCCC--CCCCccccCcCC
Q 013134 349 KKLLCNHLFHLACLRSWLDQGLN--EMYSCPTCRKPL 383 (449)
Q Consensus 349 ~~LpCgH~Fh~~Cl~~Wl~~~~~--~~~~CP~CR~~l 383 (449)
+-+.|||++-.+ .|-.++.. ....||+||+.-
T Consensus 305 VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 305 VYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp -------------------------------------
T ss_pred eeccccceeeec---ccccccccccccccCCCccccC
Confidence 457999987553 56543221 257999999854
No 131
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=53.43 E-value=6.7 Score=36.84 Aligned_cols=39 Identities=31% Similarity=0.762 Sum_probs=27.5
Q ss_pred CCCCCccCccc-----ccCC---ccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 334 YDDECAICREP-----MAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 334 ~~~~C~IC~~~-----~~~~---~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
.+..|-+|.++ |+.. +--.|+-+||..|..+ ..||.|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcHh
Confidence 46789999864 2221 2237999999999752 57999954
No 132
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=53.00 E-value=1.1 Score=31.84 Aligned_cols=45 Identities=22% Similarity=0.620 Sum_probs=28.5
Q ss_pred CCccCcccccCCccc---cccccchHhHHHHHHHhC--CCCCCCccccCc
Q 013134 337 ECAICREPMAKAKKL---LCNHLFHLACLRSWLDQG--LNEMYSCPTCRK 381 (449)
Q Consensus 337 ~C~IC~~~~~~~~~L---pCgH~Fh~~Cl~~Wl~~~--~~~~~~CP~CR~ 381 (449)
.|.||...-.....+ .|+..||..|+..-.... ....-.||.|+.
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 378888844444444 688999999986543321 111467888864
No 133
>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=52.22 E-value=8.8 Score=29.18 Aligned_cols=13 Identities=31% Similarity=0.764 Sum_probs=9.6
Q ss_pred cchHhHHHHHHHh
Q 013134 356 LFHLACLRSWLDQ 368 (449)
Q Consensus 356 ~Fh~~Cl~~Wl~~ 368 (449)
-||++||.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999976
No 134
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.07 E-value=14 Score=35.65 Aligned_cols=48 Identities=15% Similarity=0.200 Sum_probs=35.5
Q ss_pred CCCCCccCcccccCC----ccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCCC
Q 013134 334 YDDECAICREPMAKA----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 387 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~----~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~~ 387 (449)
....|+|-.-+|... ...+|||+|-..-+++-= ..+|++|.+.....+
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 345799988887654 334999999988876632 379999999876543
No 135
>PRK12495 hypothetical protein; Provisional
Probab=46.05 E-value=85 Score=29.85 Aligned_cols=57 Identities=19% Similarity=0.405 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhCCCCChhhhccCCCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcC
Q 013134 303 IKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (449)
Q Consensus 303 ~~r~~~~~~~r~~~~~~~~~~~~~~~~~l~~~~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (449)
.++..+-...|+..++|.+.+-.... .....|..|-.++- . .+....||.|...
T Consensus 14 REKye~d~~~R~~~~~ma~lL~~gat----msa~hC~~CG~PIp---a-------------------~pG~~~Cp~CQ~~ 67 (226)
T PRK12495 14 REKYEQDEQKREATERMSELLLQGAT----MTNAHCDECGDPIF---R-------------------HDGQEFCPTCQQP 67 (226)
T ss_pred HHHHhhhHHHHHHHHHHHHHHHhhcc----cchhhcccccCccc---C-------------------CCCeeECCCCCCc
Confidence 33443334455555555443322111 23457888887753 1 1114679999877
Q ss_pred CcC
Q 013134 383 LFV 385 (449)
Q Consensus 383 l~~ 385 (449)
+..
T Consensus 68 ~~~ 70 (226)
T PRK12495 68 VTE 70 (226)
T ss_pred ccc
Confidence 644
No 136
>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=46.01 E-value=6.2 Score=39.12 Aligned_cols=45 Identities=20% Similarity=0.363 Sum_probs=19.6
Q ss_pred CCCCCccCcccccCCcccc-----ccccchHhHHHHHHHhCCCCCCCccccCcC
Q 013134 334 YDDECAICREPMAKAKKLL-----CNHLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~Lp-----CgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (449)
....|++|=..-.-..... --|.+|.-|-.+|-.. +..||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~----R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV----RIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE------TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec----CCCCcCCCCC
Confidence 3468999998753221111 1355677788888666 5799999653
No 137
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=45.83 E-value=12 Score=23.07 Aligned_cols=21 Identities=24% Similarity=0.610 Sum_probs=11.0
Q ss_pred CCccCcccccCCccc-c-ccccc
Q 013134 337 ECAICREPMAKAKKL-L-CNHLF 357 (449)
Q Consensus 337 ~C~IC~~~~~~~~~L-p-CgH~F 357 (449)
.|+-|........+. | |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 466666665433222 3 66655
No 138
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=45.50 E-value=48 Score=38.52 Aligned_cols=48 Identities=17% Similarity=0.448 Sum_probs=32.7
Q ss_pred CCCCCccCcccccCC---c----cccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKA---K----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~---~----~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
....|-||-|+.... . .-.|+---|+.|..-=.+.+ ++.||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g---~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEG---NQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcC---CccCCccCCchh
Confidence 356899999986432 1 12577668999984322222 689999998764
No 139
>PLN02189 cellulose synthase
Probab=43.21 E-value=33 Score=39.81 Aligned_cols=48 Identities=17% Similarity=0.421 Sum_probs=32.4
Q ss_pred CCCCCccCcccccCC---c-cc---cccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKA---K-KL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~---~-~L---pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
....|.||-|+.... . .. .||-=-|+.|..-=-+. ++++||.|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~e---g~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERRE---GTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCchh
Confidence 356899999997522 1 12 46666799998432222 2689999998764
No 140
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=41.58 E-value=15 Score=36.49 Aligned_cols=44 Identities=23% Similarity=0.459 Sum_probs=32.2
Q ss_pred CCCccCcccc---cCCccccccccchHhHHHHHHHhCCCCCCCccccC
Q 013134 336 DECAICREPM---AKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 380 (449)
Q Consensus 336 ~~C~IC~~~~---~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR 380 (449)
-.||+=.+.- ..|..+.|||+.-..-++..-+.+ .....||.|-
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG-~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNG-VLSFKCPYCP 383 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcC-cEEeeCCCCC
Confidence 4688755544 357889999999999888755554 3357899994
No 141
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=40.73 E-value=23 Score=25.95 Aligned_cols=29 Identities=17% Similarity=0.485 Sum_probs=22.1
Q ss_pred CCCCCccCccccc--CCcc--ccccccchHhHH
Q 013134 334 YDDECAICREPMA--KAKK--LLCNHLFHLACL 362 (449)
Q Consensus 334 ~~~~C~IC~~~~~--~~~~--LpCgH~Fh~~Cl 362 (449)
.+..|++|-++++ +... -.||-.+|+.|.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 3568999999995 3322 269999999994
No 142
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=38.42 E-value=17 Score=36.09 Aligned_cols=51 Identities=18% Similarity=0.390 Sum_probs=31.7
Q ss_pred CCCCccCcc-cccCCc----cccccccchHhHHHHHHH-hC--CCCCCCccccCcCCcC
Q 013134 335 DDECAICRE-PMAKAK----KLLCNHLFHLACLRSWLD-QG--LNEMYSCPTCRKPLFV 385 (449)
Q Consensus 335 ~~~C~IC~~-~~~~~~----~LpCgH~Fh~~Cl~~Wl~-~~--~~~~~~CP~CR~~l~~ 385 (449)
...|.+|-. +|..-. .-.||++||..|-..-+. .. .+....|+.|-..+..
T Consensus 168 a~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 168 ATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELEK 226 (288)
T ss_pred ceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHhc
Confidence 457999998 554321 138999999999654221 11 1112379999776654
No 143
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=38.37 E-value=39 Score=39.31 Aligned_cols=48 Identities=21% Similarity=0.434 Sum_probs=32.0
Q ss_pred CCCCCccCcccccCC---c----cccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKA---K----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~---~----~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
....|-||-|+.... . .-.||-=-|+.|..-=-+. .++.||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~e---G~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKD---GNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCchh
Confidence 355899999986422 1 1256666899998332222 2689999998764
No 144
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=38.31 E-value=55 Score=25.85 Aligned_cols=48 Identities=19% Similarity=0.426 Sum_probs=20.5
Q ss_pred CCCCCccCcccccC---Cc----cccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAK---AK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~---~~----~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
....|-||-++... +. .-.|+---|+.|..-=.+.+ .+.||.|+.+..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg---~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEG---NQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS----SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcC---cccccccCCCcc
Confidence 35689999998742 21 12677777889986555544 689999997653
No 145
>PLN02436 cellulose synthase A
Probab=37.63 E-value=40 Score=39.25 Aligned_cols=48 Identities=17% Similarity=0.425 Sum_probs=32.3
Q ss_pred CCCCCccCcccccC---Cc-cc---cccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAK---AK-KL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~---~~-~L---pCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
....|-||-|+... +. .. .||---|+.|..-=-+. ++++||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~e---g~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERRE---GNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCchh
Confidence 35589999999742 21 12 46666899998432222 2689999998764
No 146
>PLN02400 cellulose synthase
Probab=37.62 E-value=50 Score=38.56 Aligned_cols=48 Identities=17% Similarity=0.445 Sum_probs=31.7
Q ss_pred CCCCCccCcccccCC---c----cccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 334 YDDECAICREPMAKA---K----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~---~----~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
....|-||-|+.... . .-.|+-=-|+.|..- ++ ...++.||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEY--ER-keGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEY--ER-KDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhhe--ec-ccCCccCcccCCccc
Confidence 356899999987432 1 125666678999732 22 222689999998764
No 147
>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=37.42 E-value=11 Score=38.70 Aligned_cols=51 Identities=24% Similarity=0.492 Sum_probs=0.0
Q ss_pred CCCCccCccccc-----------------CC--ccccccccchHhHHHHHHHhCCCC-----CCCccccCcCCcC
Q 013134 335 DDECAICREPMA-----------------KA--KKLLCNHLFHLACLRSWLDQGLNE-----MYSCPTCRKPLFV 385 (449)
Q Consensus 335 ~~~C~IC~~~~~-----------------~~--~~LpCgH~Fh~~Cl~~Wl~~~~~~-----~~~CP~CR~~l~~ 385 (449)
+.+|++|+..-. .| ..-||||+--.+..+-|-+-..+. +..||-|-.++..
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 668999997521 11 234999998888999997765332 3579999888753
No 148
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=37.42 E-value=16 Score=35.62 Aligned_cols=48 Identities=31% Similarity=0.552 Sum_probs=33.2
Q ss_pred CCCccCcccccCC-------ccccccccchHhHHHHHHHhCC-----CCCCCccccCcCC
Q 013134 336 DECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQGL-----NEMYSCPTCRKPL 383 (449)
Q Consensus 336 ~~C~IC~~~~~~~-------~~LpCgH~Fh~~Cl~~Wl~~~~-----~~~~~CP~CR~~l 383 (449)
..|-+|.+++.+. ..-.|+-++|..|+-.-+.... +....||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5899999998332 1225889999999988433321 2246899999855
No 149
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.35 E-value=7.3 Score=38.57 Aligned_cols=46 Identities=24% Similarity=0.456 Sum_probs=36.2
Q ss_pred CCCCccCcccccC------Ccccc--------ccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 335 DDECAICREPMAK------AKKLL--------CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 335 ~~~C~IC~~~~~~------~~~Lp--------CgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
+..|.||...+.. |..+. |||.-|..|+..-+.+. ...||.||...
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~---~~~cp~~~~~~ 266 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQA---GIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHh---hhcCCccccee
Confidence 4579999988762 44556 99999999999988774 36899999753
No 150
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=35.49 E-value=17 Score=36.25 Aligned_cols=47 Identities=21% Similarity=0.414 Sum_probs=27.7
Q ss_pred CCCCCccCcccccCC--------------ccccccccchHhHHHHHHHhCC--CCCCCccccCcCC
Q 013134 334 YDDECAICREPMAKA--------------KKLLCNHLFHLACLRSWLDQGL--NEMYSCPTCRKPL 383 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~--------------~~LpCgH~Fh~~Cl~~Wl~~~~--~~~~~CP~CR~~l 383 (449)
...+|++=+..+.-| +-|.|||+-.. ..|=.+.. ++...||+||..-
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 345688777765322 34799987322 24643321 2246899999643
No 151
>PLN02195 cellulose synthase A
Probab=33.46 E-value=89 Score=36.19 Aligned_cols=49 Identities=22% Similarity=0.366 Sum_probs=33.2
Q ss_pred cCCCCCccCcccccCC---c----cccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 333 AYDDECAICREPMAKA---K----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~---~----~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
.....|.||-|+.... . .-.||---|+.|..-=-+. .++.||.|+....
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~e---g~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKE---GRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhc---CCccCCccCCccc
Confidence 3456899999976432 1 1267777899998332222 2689999998765
No 152
>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=33.35 E-value=14 Score=32.91 Aligned_cols=30 Identities=33% Similarity=0.562 Sum_probs=22.1
Q ss_pred chHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 357 FHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 357 Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
||..||++=|.+-+...=.||.|+..-...
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~ 31 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQ 31 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCC
Confidence 789999888876544456899998765443
No 153
>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=32.14 E-value=16 Score=27.70 Aligned_cols=31 Identities=16% Similarity=0.489 Sum_probs=16.3
Q ss_pred CCCCccCcccccCCcc----ccccccchHhHHHHH
Q 013134 335 DDECAICREPMAKAKK----LLCNHLFHLACLRSW 365 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~----LpCgH~Fh~~Cl~~W 365 (449)
...|.+|...|.--.+ -.||++||..|....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 4689999999965332 279999999997543
No 154
>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=30.90 E-value=55 Score=27.80 Aligned_cols=45 Identities=22% Similarity=0.483 Sum_probs=25.5
Q ss_pred CCCCCccCcccccCC-----ccccccccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 334 YDDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~-----~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
.+..|++|..++.-. .-..|+|..|..|-.. ......-.|.+|++
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 467899999986421 2247888888888533 11111225777754
No 155
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.50 E-value=28 Score=28.26 Aligned_cols=13 Identities=31% Similarity=0.910 Sum_probs=11.6
Q ss_pred chHhHHHHHHHhC
Q 013134 357 FHLACLRSWLDQG 369 (449)
Q Consensus 357 Fh~~Cl~~Wl~~~ 369 (449)
||++|+..|....
T Consensus 43 FCRNCLs~Wy~ea 55 (104)
T COG3492 43 FCRNCLSNWYREA 55 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999863
No 156
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=29.57 E-value=24 Score=35.43 Aligned_cols=44 Identities=16% Similarity=0.397 Sum_probs=27.6
Q ss_pred CCCCCccCcccccCCc-cc--ccc--ccchHhHHHHHHHhCCCCCCCccccCc
Q 013134 334 YDDECAICREPMAKAK-KL--LCN--HLFHLACLRSWLDQGLNEMYSCPTCRK 381 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~-~L--pCg--H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~ 381 (449)
....|++|-..-.... ++ .=| |..|.-|-..|-.. +..||.|-.
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 4678999988743221 11 112 44556677788666 588999975
No 157
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=28.05 E-value=43 Score=24.03 Aligned_cols=31 Identities=19% Similarity=0.613 Sum_probs=22.6
Q ss_pred CCCccCcccccCCcc----ccccccchHhHHHHHH
Q 013134 336 DECAICREPMAKAKK----LLCNHLFHLACLRSWL 366 (449)
Q Consensus 336 ~~C~IC~~~~~~~~~----LpCgH~Fh~~Cl~~Wl 366 (449)
..|.+|...|....+ -.||++||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 469999888765322 3799999999975543
No 158
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=27.18 E-value=68 Score=26.82 Aligned_cols=30 Identities=27% Similarity=0.623 Sum_probs=21.4
Q ss_pred cccchHhHHHHHHHhCC-----CCCCCccccCcCC
Q 013134 354 NHLFHLACLRSWLDQGL-----NEMYSCPTCRKPL 383 (449)
Q Consensus 354 gH~Fh~~Cl~~Wl~~~~-----~~~~~CP~CR~~l 383 (449)
.=.||..||..+..... ...-.||.||.--
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 66799999998876531 1235799999743
No 159
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.61 E-value=48 Score=36.71 Aligned_cols=49 Identities=22% Similarity=0.392 Sum_probs=36.6
Q ss_pred CCccCcccccCCccccccc-cchHhHHHHHHHhC--CCCCCCccccCcCCcC
Q 013134 337 ECAICREPMAKAKKLLCNH-LFHLACLRSWLDQG--LNEMYSCPTCRKPLFV 385 (449)
Q Consensus 337 ~C~IC~~~~~~~~~LpCgH-~Fh~~Cl~~Wl~~~--~~~~~~CP~CR~~l~~ 385 (449)
.|+||-....-...-.||| .-|..|...-.... ......||.||..+..
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 6999999887777779999 78999976654322 1234678999997644
No 161
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.27 E-value=28 Score=37.69 Aligned_cols=30 Identities=33% Similarity=0.657 Sum_probs=23.7
Q ss_pred CCCccCccccc-------------CCccccccccchHhHHHHH
Q 013134 336 DECAICREPMA-------------KAKKLLCNHLFHLACLRSW 365 (449)
Q Consensus 336 ~~C~IC~~~~~-------------~~~~LpCgH~Fh~~Cl~~W 365 (449)
..|+||.|.|+ +++.+.=|-+||..|+..-
T Consensus 514 ~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 514 ASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred cCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 46999999985 3566667999999998653
No 162
>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=26.24 E-value=40 Score=33.79 Aligned_cols=44 Identities=18% Similarity=0.396 Sum_probs=27.6
Q ss_pred CCCCccCcccccCCcc-c---ccc--ccchHhHHHHHHHhCCCCCCCccccCcC
Q 013134 335 DDECAICREPMAKAKK-L---LCN--HLFHLACLRSWLDQGLNEMYSCPTCRKP 382 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~-L---pCg--H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~ 382 (449)
...|++|-..-..... . .=| |..|.-|-..|-.. +..||.|-.+
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 4589999987432211 0 112 44556687888766 5899999753
No 163
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=26.02 E-value=2.3e+02 Score=23.02 Aligned_cols=39 Identities=21% Similarity=0.398 Sum_probs=30.7
Q ss_pred CCCCccCcccccCCccccccccchHhHHHHHHHhCCCCCCCccccCcCCcCC
Q 013134 335 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 335 ~~~C~IC~~~~~~~~~LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~~~ 386 (449)
...|.-|...+.--..+| +-+|+-. +..|..|+++++..
T Consensus 33 rS~C~~C~~~L~~~~lIP---------i~S~l~l----rGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLIP---------ILSYLLL----RGRCRYCGAPIPPR 71 (92)
T ss_pred CCcCcCCCCcCcccccch---------HHHHHHh----CCCCcccCCCCChH
Confidence 457999998887655555 6689887 58999999998653
No 164
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=25.68 E-value=47 Score=40.20 Aligned_cols=50 Identities=38% Similarity=0.715 Sum_probs=38.8
Q ss_pred CCCCCccCcccccCCcccc---ccccchHhHHHHHHHhCCCCCCCccccCcCC
Q 013134 334 YDDECAICREPMAKAKKLL---CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 383 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~~Lp---CgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l 383 (449)
....|-+|+.....-..++ |.-.||..|++.-+...+...=.||.||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3567999999877655554 5677999999998887655556899999765
No 165
>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=25.16 E-value=3.9e+02 Score=29.47 Aligned_cols=31 Identities=23% Similarity=0.366 Sum_probs=25.0
Q ss_pred HHhcccCcHHHHHHHHHHHHHHHHHHHhhccc
Q 013134 81 TIFFGELYPAETRKFVERLINYVIYKGTFLPL 112 (449)
Q Consensus 81 ~lfFG~LR~~E~e~l~er~~~~~~~k~~fl~~ 112 (449)
.-||--|-.+|.||+-+- |||++|...|+.+
T Consensus 168 ~gff~l~~~i~~~~~~~i-~nyil~~~a~i~g 198 (952)
T TIGR02921 168 AGFFELLEEIEFEHLGDI-FNYILFHTAFICG 198 (952)
T ss_pred hHHHHHHHHHHHHhHHHH-HHHHHHHHHHHHH
Confidence 346878888999999885 6999998877765
No 166
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=24.91 E-value=34 Score=37.90 Aligned_cols=44 Identities=23% Similarity=0.480 Sum_probs=26.6
Q ss_pred cCCCCCccCcccccCCc----------c---ccccccchHhHHHHHHHhCCCCCCCccccCcCCc
Q 013134 333 AYDDECAICREPMAKAK----------K---LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 384 (449)
Q Consensus 333 ~~~~~C~IC~~~~~~~~----------~---LpCgH~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~l~ 384 (449)
+.+.+|+-|...+..++ . ..|.|.-|..=| +....||.|..+..
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EI--------s~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEI--------SKYNCCPLCHSMES 1185 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEccccccccccccc--------cccccCccccChhh
Confidence 34567777777764321 1 157776655433 22679999987654
No 167
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=24.64 E-value=24 Score=25.55 Aligned_cols=12 Identities=42% Similarity=0.896 Sum_probs=6.1
Q ss_pred CCccccCcCCcC
Q 013134 374 YSCPTCRKPLFV 385 (449)
Q Consensus 374 ~~CP~CR~~l~~ 385 (449)
..||+|.+++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999888754
No 168
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=23.88 E-value=42 Score=27.59 Aligned_cols=14 Identities=43% Similarity=0.925 Sum_probs=11.1
Q ss_pred CCCccccCcCCcCC
Q 013134 373 MYSCPTCRKPLFVG 386 (449)
Q Consensus 373 ~~~CP~CR~~l~~~ 386 (449)
..+||.|+.++.++
T Consensus 80 ~~~Cp~C~spFNp~ 93 (105)
T COG4357 80 CGSCPYCQSPFNPG 93 (105)
T ss_pred cCCCCCcCCCCCcc
Confidence 36899999988654
No 169
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=23.06 E-value=48 Score=24.81 Aligned_cols=23 Identities=30% Similarity=0.970 Sum_probs=14.8
Q ss_pred HHHHhC--CCCCCCccccCcCCcCC
Q 013134 364 SWLDQG--LNEMYSCPTCRKPLFVG 386 (449)
Q Consensus 364 ~Wl~~~--~~~~~~CP~CR~~l~~~ 386 (449)
.|.+.+ ..+.+.||+|..+...+
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMVSG 52 (59)
T ss_pred cccccccccCCCccCCCcCCccccc
Confidence 355543 22358999999877543
No 170
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=22.61 E-value=38 Score=21.89 Aligned_cols=10 Identities=40% Similarity=1.248 Sum_probs=7.7
Q ss_pred CCCccccCcC
Q 013134 373 MYSCPTCRKP 382 (449)
Q Consensus 373 ~~~CP~CR~~ 382 (449)
...||.|..+
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 4799999763
No 171
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=21.32 E-value=1.6e+02 Score=27.53 Aligned_cols=16 Identities=25% Similarity=0.603 Sum_probs=12.0
Q ss_pred CCCCCccCcccccCCc
Q 013134 334 YDDECAICREPMAKAK 349 (449)
Q Consensus 334 ~~~~C~IC~~~~~~~~ 349 (449)
.++.|.||.++-++..
T Consensus 65 e~d~C~ICsd~~Rd~~ 80 (198)
T COG0353 65 ESDPCDICSDESRDKS 80 (198)
T ss_pred CCCcCcCcCCcccCCc
Confidence 4668999998876644
No 172
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=21.03 E-value=34 Score=30.03 Aligned_cols=13 Identities=31% Similarity=0.815 Sum_probs=10.6
Q ss_pred CCCccccCcCCcC
Q 013134 373 MYSCPTCRKPLFV 385 (449)
Q Consensus 373 ~~~CP~CR~~l~~ 385 (449)
.-.||.||+.++.
T Consensus 9 ei~CPhCRQ~ipA 21 (163)
T TIGR02652 9 EIRCPHCRQNIPA 21 (163)
T ss_pred cCcCchhhcccch
Confidence 3689999998854
No 173
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=20.90 E-value=35 Score=29.92 Aligned_cols=13 Identities=31% Similarity=0.851 Sum_probs=10.6
Q ss_pred CCCccccCcCCcC
Q 013134 373 MYSCPTCRKPLFV 385 (449)
Q Consensus 373 ~~~CP~CR~~l~~ 385 (449)
.-.||.||+.++.
T Consensus 6 ei~CPhCRq~ipA 18 (161)
T PF09654_consen 6 EIQCPHCRQTIPA 18 (161)
T ss_pred cCcCchhhcccch
Confidence 3689999998854
No 174
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=20.10 E-value=54 Score=35.97 Aligned_cols=32 Identities=31% Similarity=0.814 Sum_probs=24.0
Q ss_pred cccccchHhHHHHHHHhC-CCCCCCccccCcCC
Q 013134 352 LCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPL 383 (449)
Q Consensus 352 pCgH~Fh~~Cl~~Wl~~~-~~~~~~CP~CR~~l 383 (449)
.||-.+|..|+..|++.. ....-.||-||.-.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 799999999999999764 11135799888543
Done!