Query 009095
Match_columns 544
No_of_seqs 440 out of 2007
Neff 5.1
Searched_HMMs 46136
Date Thu Mar 28 20:21:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009095.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009095hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.5 1.7E-14 3.8E-19 150.3 4.8 78 340-417 203-281 (348)
2 PF13639 zf-RING_2: Ring finge 99.3 4E-13 8.7E-18 100.4 0.7 43 368-410 2-44 (44)
3 COG5243 HRD1 HRD ubiquitin lig 99.1 2E-11 4.3E-16 126.9 3.0 60 359-418 280-349 (491)
4 COG5540 RING-finger-containing 99.0 7.2E-11 1.6E-15 120.2 2.5 52 364-415 321-373 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.0 9.8E-11 2.1E-15 97.3 2.6 45 366-410 19-73 (73)
6 PHA02929 N1R/p28-like protein; 99.0 1.3E-10 2.7E-15 116.6 3.5 70 345-414 151-227 (238)
7 KOG0317 Predicted E3 ubiquitin 98.8 1.8E-09 4E-14 109.7 2.5 51 364-417 237-287 (293)
8 PLN03208 E3 ubiquitin-protein 98.7 4.7E-09 1E-13 102.1 3.2 51 364-417 16-82 (193)
9 KOG0823 Predicted E3 ubiquitin 98.7 5.4E-09 1.2E-13 103.5 3.1 52 363-417 44-98 (230)
10 PF13920 zf-C3HC4_3: Zinc fing 98.7 5.9E-09 1.3E-13 80.0 2.4 46 366-414 2-48 (50)
11 cd00162 RING RING-finger (Real 98.7 1.1E-08 2.5E-13 74.0 2.4 44 368-413 1-45 (45)
12 KOG0802 E3 ubiquitin ligase [P 98.7 4.7E-09 1E-13 116.5 0.3 52 364-415 289-342 (543)
13 PF13923 zf-C3HC4_2: Zinc fing 98.6 1.2E-08 2.6E-13 74.5 2.2 39 369-409 1-39 (39)
14 smart00504 Ubox Modified RING 98.6 1.9E-08 4E-13 79.8 3.4 47 367-416 2-48 (63)
15 PF15227 zf-C3HC4_4: zinc fing 98.6 2.1E-08 4.5E-13 75.0 2.6 38 369-409 1-42 (42)
16 KOG0320 Predicted E3 ubiquitin 98.6 2.1E-08 4.6E-13 95.9 1.6 52 364-416 129-180 (187)
17 PF12861 zf-Apc11: Anaphase-pr 98.5 3.4E-08 7.3E-13 84.5 2.5 51 366-416 21-84 (85)
18 PHA02926 zinc finger-like prot 98.5 5.2E-08 1.1E-12 96.3 2.2 51 364-414 168-230 (242)
19 PF14634 zf-RING_5: zinc-RING 98.5 1E-07 2.2E-12 71.6 2.7 44 368-411 1-44 (44)
20 PF00097 zf-C3HC4: Zinc finger 98.5 9.7E-08 2.1E-12 69.9 2.4 39 369-409 1-41 (41)
21 smart00184 RING Ring finger. E 98.4 9.6E-08 2.1E-12 66.8 2.1 38 369-409 1-39 (39)
22 TIGR00599 rad18 DNA repair pro 98.4 8.1E-08 1.8E-12 102.8 2.3 50 364-416 24-73 (397)
23 KOG0287 Postreplication repair 98.2 2.6E-07 5.6E-12 95.9 -0.2 53 364-419 21-73 (442)
24 COG5194 APC11 Component of SCF 98.2 6.9E-07 1.5E-11 75.4 1.8 30 387-416 54-83 (88)
25 COG5574 PEX10 RING-finger-cont 98.2 5.6E-07 1.2E-11 90.9 1.4 50 365-417 214-265 (271)
26 PF04564 U-box: U-box domain; 98.1 1.1E-06 2.4E-11 72.9 1.5 49 366-417 4-53 (73)
27 KOG2164 Predicted E3 ubiquitin 98.1 1.4E-06 2.9E-11 94.8 2.1 50 366-418 186-240 (513)
28 KOG1493 Anaphase-promoting com 98.0 1.2E-06 2.5E-11 73.5 0.1 50 366-415 20-82 (84)
29 PF13445 zf-RING_UBOX: RING-ty 98.0 2.7E-06 5.9E-11 64.2 2.1 38 369-407 1-43 (43)
30 KOG1734 Predicted RING-contain 98.0 1.7E-06 3.7E-11 87.6 0.5 52 365-416 223-283 (328)
31 COG5432 RAD18 RING-finger-cont 98.0 2.5E-06 5.3E-11 87.2 1.2 49 364-415 23-71 (391)
32 KOG2177 Predicted E3 ubiquitin 97.9 2.3E-06 5E-11 83.0 0.8 45 364-411 11-55 (386)
33 KOG0828 Predicted E3 ubiquitin 97.8 4.4E-06 9.6E-11 90.3 0.7 50 366-415 571-635 (636)
34 TIGR00570 cdk7 CDK-activating 97.8 1E-05 2.3E-10 84.0 3.3 52 366-417 3-57 (309)
35 smart00744 RINGv The RING-vari 97.8 9.4E-06 2E-10 62.8 2.0 42 368-410 1-49 (49)
36 COG5219 Uncharacterized conser 97.7 4.2E-06 9.1E-11 95.7 -1.9 51 364-414 1467-1523(1525)
37 KOG2930 SCF ubiquitin ligase, 97.7 1.3E-05 2.8E-10 70.9 1.4 29 387-415 81-109 (114)
38 PF11793 FANCL_C: FANCL C-term 97.7 8.3E-06 1.8E-10 67.5 -0.5 50 366-415 2-67 (70)
39 KOG0311 Predicted E3 ubiquitin 97.7 3.8E-06 8.2E-11 87.9 -3.1 50 364-416 41-92 (381)
40 PF14835 zf-RING_6: zf-RING of 97.6 3.8E-05 8.2E-10 62.7 1.9 50 366-420 7-57 (65)
41 KOG0824 Predicted E3 ubiquitin 97.5 4E-05 8.7E-10 78.9 1.7 49 366-417 7-56 (324)
42 KOG0804 Cytoplasmic Zn-finger 97.5 4.1E-05 8.9E-10 82.3 1.3 48 365-414 174-222 (493)
43 KOG0825 PHD Zn-finger protein 97.4 2.4E-05 5.3E-10 88.3 -1.5 50 366-415 123-172 (1134)
44 KOG4265 Predicted E3 ubiquitin 97.4 8.1E-05 1.8E-09 78.3 2.1 49 364-415 288-337 (349)
45 KOG0827 Predicted E3 ubiquitin 97.3 9.3E-05 2E-09 78.4 1.1 47 367-413 5-55 (465)
46 KOG4445 Uncharacterized conser 97.2 9.6E-05 2.1E-09 76.1 0.3 95 319-417 72-189 (368)
47 KOG0978 E3 ubiquitin ligase in 97.2 8.3E-05 1.8E-09 84.4 -0.5 50 365-417 642-692 (698)
48 KOG1039 Predicted E3 ubiquitin 97.1 0.0002 4.3E-09 75.8 1.8 51 364-414 159-221 (344)
49 KOG4159 Predicted E3 ubiquitin 97.1 0.0002 4.3E-09 77.2 1.4 49 364-415 82-130 (398)
50 KOG1785 Tyrosine kinase negati 97.0 0.0027 5.8E-08 67.9 8.9 48 367-417 370-419 (563)
51 KOG0297 TNF receptor-associate 96.6 0.00096 2.1E-08 71.9 2.3 52 364-418 19-71 (391)
52 KOG1645 RING-finger-containing 96.6 0.00081 1.8E-08 71.9 1.7 49 366-414 4-56 (463)
53 KOG4172 Predicted E3 ubiquitin 96.5 0.00042 9E-09 55.0 -1.3 46 367-415 8-55 (62)
54 KOG0801 Predicted E3 ubiquitin 96.3 0.0016 3.5E-08 62.1 1.1 41 353-393 164-204 (205)
55 KOG2660 Locus-specific chromos 96.2 0.00077 1.7E-08 70.4 -1.4 50 364-416 13-63 (331)
56 PF11789 zf-Nse: Zinc-finger o 96.2 0.0028 6E-08 50.7 1.9 41 366-408 11-53 (57)
57 KOG1941 Acetylcholine receptor 96.1 0.0012 2.6E-08 70.2 -0.5 46 366-411 365-413 (518)
58 KOG1428 Inhibitor of type V ad 96.1 0.0026 5.7E-08 76.0 2.0 66 350-415 3469-3545(3738)
59 COG5152 Uncharacterized conser 95.9 0.0022 4.8E-08 63.0 0.4 48 366-416 196-243 (259)
60 KOG2879 Predicted E3 ubiquitin 95.8 0.0072 1.6E-07 62.0 3.5 50 364-415 237-288 (298)
61 COG5222 Uncharacterized conser 95.7 0.0086 1.9E-07 62.1 3.7 47 366-415 274-323 (427)
62 KOG1002 Nucleotide excision re 95.7 0.0042 9E-08 68.4 1.5 54 364-420 534-592 (791)
63 PF04641 Rtf2: Rtf2 RING-finge 95.4 0.028 6E-07 57.5 5.8 94 322-417 57-164 (260)
64 PF10367 Vps39_2: Vacuolar sor 95.2 0.013 2.9E-07 50.6 2.5 33 365-398 77-109 (109)
65 KOG1813 Predicted E3 ubiquitin 95.1 0.0092 2E-07 61.8 1.5 48 367-417 242-289 (313)
66 KOG3970 Predicted E3 ubiquitin 95.0 0.013 2.7E-07 58.8 2.1 51 366-417 50-108 (299)
67 PF12906 RINGv: RING-variant d 95.0 0.015 3.2E-07 44.7 2.0 40 369-409 1-47 (47)
68 KOG4692 Predicted E3 ubiquitin 94.8 0.012 2.6E-07 62.3 1.4 49 364-415 420-468 (489)
69 PF05883 Baculo_RING: Baculovi 94.6 0.0092 2E-07 55.5 -0.0 43 366-408 26-74 (134)
70 KOG4185 Predicted E3 ubiquitin 94.6 0.024 5.2E-07 58.3 2.9 65 367-431 4-72 (296)
71 KOG3039 Uncharacterized conser 94.4 0.039 8.4E-07 56.1 3.8 69 349-417 195-273 (303)
72 KOG1571 Predicted E3 ubiquitin 94.4 0.022 4.7E-07 60.5 2.0 46 365-416 304-349 (355)
73 PF14570 zf-RING_4: RING/Ubox 94.3 0.02 4.4E-07 44.4 1.2 44 369-413 1-47 (48)
74 KOG4275 Predicted E3 ubiquitin 94.3 0.013 2.7E-07 60.8 0.1 42 366-414 300-342 (350)
75 KOG1814 Predicted E3 ubiquitin 94.2 0.016 3.6E-07 62.3 0.7 48 364-411 182-237 (445)
76 COG5236 Uncharacterized conser 93.7 0.036 7.9E-07 58.6 2.2 52 359-413 54-107 (493)
77 PHA03096 p28-like protein; Pro 93.6 0.024 5.1E-07 59.0 0.6 45 367-411 179-231 (284)
78 PHA02825 LAP/PHD finger-like p 93.5 0.047 1E-06 52.2 2.4 49 364-416 6-61 (162)
79 KOG0826 Predicted E3 ubiquitin 93.3 0.067 1.4E-06 56.3 3.3 48 364-414 298-346 (357)
80 KOG3268 Predicted E3 ubiquitin 93.2 0.034 7.3E-07 54.1 0.9 50 367-416 166-230 (234)
81 PHA02862 5L protein; Provision 93.0 0.054 1.2E-06 51.1 1.9 46 367-416 3-55 (156)
82 KOG4739 Uncharacterized protei 92.6 0.055 1.2E-06 54.7 1.5 46 367-415 4-49 (233)
83 KOG0827 Predicted E3 ubiquitin 92.3 0.0061 1.3E-07 65.1 -5.9 53 367-419 197-250 (465)
84 KOG1952 Transcription factor N 92.2 0.05 1.1E-06 63.1 0.7 49 365-413 190-246 (950)
85 PF14447 Prok-RING_4: Prokaryo 92.1 0.11 2.4E-06 41.4 2.3 46 367-417 8-53 (55)
86 PF08746 zf-RING-like: RING-li 92.0 0.056 1.2E-06 40.9 0.5 41 369-409 1-43 (43)
87 KOG1940 Zn-finger protein [Gen 91.6 0.074 1.6E-06 55.1 1.0 45 367-411 159-204 (276)
88 PF10272 Tmpp129: Putative tra 91.5 0.26 5.6E-06 53.0 5.0 31 387-417 311-354 (358)
89 PF03854 zf-P11: P-11 zinc fin 91.0 0.13 2.7E-06 40.0 1.5 44 368-416 4-48 (50)
90 KOG2114 Vacuolar assembly/sort 89.8 0.13 2.9E-06 59.8 1.1 43 367-414 841-883 (933)
91 KOG1001 Helicase-like transcri 89.3 0.14 3E-06 59.2 0.7 46 367-416 455-502 (674)
92 KOG2932 E3 ubiquitin ligase in 89.3 0.18 3.8E-06 53.0 1.4 44 367-414 91-134 (389)
93 KOG2817 Predicted E3 ubiquitin 88.5 0.27 5.9E-06 53.0 2.2 48 364-411 332-382 (394)
94 PF07800 DUF1644: Protein of u 88.1 0.32 7E-06 46.6 2.2 51 366-419 2-96 (162)
95 KOG1100 Predicted E3 ubiquitin 85.7 0.54 1.2E-05 46.9 2.4 39 369-414 161-200 (207)
96 COG5175 MOT2 Transcriptional r 85.1 0.38 8.2E-06 51.1 1.0 53 365-417 13-67 (480)
97 KOG0298 DEAD box-containing he 85.0 0.17 3.7E-06 61.2 -1.7 44 366-411 1153-1196(1394)
98 KOG4367 Predicted Zn-finger pr 84.0 0.45 9.8E-06 51.9 1.1 34 365-401 3-36 (699)
99 KOG2034 Vacuolar sorting prote 83.2 0.43 9.3E-06 56.0 0.6 35 365-400 816-850 (911)
100 KOG3800 Predicted E3 ubiquitin 81.1 0.86 1.9E-05 47.5 1.8 49 368-416 2-53 (300)
101 PF14446 Prok-RING_1: Prokaryo 80.5 1.4 3E-05 35.2 2.4 32 366-397 5-37 (54)
102 KOG3002 Zn finger protein [Gen 79.1 1.4 3E-05 46.4 2.6 44 364-414 46-91 (299)
103 COG5183 SSM4 Protein involved 78.6 0.83 1.8E-05 53.3 0.8 52 365-417 11-69 (1175)
104 KOG4362 Transcriptional regula 77.4 0.6 1.3E-05 53.8 -0.8 48 366-416 21-71 (684)
105 KOG1609 Protein involved in mR 76.8 0.89 1.9E-05 46.5 0.4 51 366-416 78-136 (323)
106 PF05290 Baculo_IE-1: Baculovi 76.0 1.4 3E-05 41.3 1.3 50 365-417 79-135 (140)
107 KOG0309 Conserved WD40 repeat- 75.8 1.1 2.3E-05 52.0 0.7 40 368-408 1030-1069(1081)
108 KOG1829 Uncharacterized conser 74.3 0.98 2.1E-05 51.3 -0.1 44 364-410 509-557 (580)
109 KOG0825 PHD Zn-finger protein 74.0 1.3 2.8E-05 51.6 0.7 50 366-415 96-155 (1134)
110 KOG1812 Predicted E3 ubiquitin 73.9 1 2.3E-05 48.8 -0.0 37 366-402 146-183 (384)
111 KOG3899 Uncharacterized conser 72.0 1.1 2.4E-05 46.8 -0.3 31 387-417 325-368 (381)
112 KOG0802 E3 ubiquitin ligase [P 71.8 1.3 2.7E-05 50.0 0.0 47 364-417 477-523 (543)
113 KOG3053 Uncharacterized conser 71.7 1.2 2.6E-05 45.8 -0.1 51 364-414 18-82 (293)
114 PF09963 DUF2197: Uncharacteri 68.0 1.8 4E-05 34.8 0.2 28 14-44 3-39 (56)
115 KOG0269 WD40 repeat-containing 67.2 3.2 6.9E-05 48.4 1.9 39 367-408 780-820 (839)
116 KOG3161 Predicted E3 ubiquitin 65.8 1.4 3.1E-05 50.2 -1.1 42 367-411 12-54 (861)
117 PF02891 zf-MIZ: MIZ/SP-RING z 65.5 2.1 4.6E-05 33.2 0.1 43 367-412 3-50 (50)
118 COG5220 TFB3 Cdk activating ki 64.5 2.5 5.5E-05 43.2 0.5 49 365-413 9-63 (314)
119 KOG1812 Predicted E3 ubiquitin 64.2 3.4 7.4E-05 44.9 1.4 44 366-409 306-351 (384)
120 smart00249 PHD PHD zinc finger 62.8 6.3 0.00014 28.2 2.2 31 368-398 1-31 (47)
121 KOG2068 MOT2 transcription fac 60.5 6.6 0.00014 41.8 2.7 50 366-415 249-299 (327)
122 KOG4718 Non-SMC (structural ma 57.7 3.9 8.5E-05 41.1 0.4 88 319-413 134-226 (235)
123 KOG1815 Predicted E3 ubiquitin 57.6 4.5 9.7E-05 44.6 0.9 37 364-402 68-104 (444)
124 COG5109 Uncharacterized conser 56.8 8.2 0.00018 41.0 2.6 47 364-410 334-383 (396)
125 KOG2807 RNA polymerase II tran 55.7 11 0.00024 40.2 3.3 45 366-410 330-374 (378)
126 KOG3579 Predicted E3 ubiquitin 55.2 7.3 0.00016 40.8 1.9 39 365-404 267-307 (352)
127 KOG2169 Zn-finger transcriptio 54.9 11 0.00024 43.6 3.6 45 367-418 307-360 (636)
128 KOG2066 Vacuolar assembly/sort 53.8 6.8 0.00015 45.9 1.6 46 366-412 784-833 (846)
129 PF13901 DUF4206: Domain of un 53.2 11 0.00023 37.4 2.7 41 365-411 151-197 (202)
130 COG4338 Uncharacterized protei 53.1 4.6 0.0001 31.7 0.1 21 9-29 8-28 (54)
131 smart00132 LIM Zinc-binding do 53.0 14 0.0003 25.5 2.5 38 368-414 1-38 (39)
132 KOG4364 Chromatin assembly fac 50.2 9.5 0.00021 44.0 1.9 44 194-238 514-558 (811)
133 PF06689 zf-C4_ClpX: ClpX C4-t 48.9 6.3 0.00014 29.5 0.2 31 14-44 2-32 (41)
134 PF02318 FYVE_2: FYVE-type zin 48.5 13 0.00029 33.6 2.3 33 12-50 53-85 (118)
135 KOG3005 GIY-YIG type nuclease 45.9 8 0.00017 40.2 0.5 47 367-413 183-242 (276)
136 PRK08222 hydrogenase 4 subunit 45.1 4.8 0.0001 39.1 -1.2 36 9-44 110-162 (181)
137 PF14446 Prok-RING_1: Prokaryo 44.8 11 0.00025 30.1 1.1 26 13-45 5-30 (54)
138 PF13913 zf-C2HC_2: zinc-finge 44.1 7.2 0.00016 26.1 -0.1 16 12-27 1-16 (25)
139 PF10013 DUF2256: Uncharacteri 44.0 9.7 0.00021 29.0 0.6 17 11-27 6-22 (42)
140 PF04216 FdhE: Protein involve 43.4 4.8 0.00011 41.7 -1.5 45 367-412 173-220 (290)
141 PF13719 zinc_ribbon_5: zinc-r 43.4 11 0.00023 27.6 0.7 33 14-46 3-35 (37)
142 PF07191 zinc-ribbons_6: zinc- 43.2 4.5 9.7E-05 34.0 -1.4 40 367-414 2-41 (70)
143 KOG3113 Uncharacterized conser 43.2 33 0.00071 35.6 4.3 51 365-417 110-161 (293)
144 KOG1473 Nucleosome remodeling 43.1 1.8E+02 0.0038 36.3 10.8 44 364-410 342-389 (1414)
145 PF00628 PHD: PHD-finger; Int 42.8 18 0.00039 27.2 2.0 44 368-411 1-50 (51)
146 COG5242 TFB4 RNA polymerase II 42.3 15 0.00033 37.5 1.8 18 316-333 207-224 (296)
147 PF11238 DUF3039: Protein of u 42.2 12 0.00026 30.4 0.9 25 17-45 29-53 (58)
148 COG4896 Uncharacterized protei 40.6 9.5 0.00021 31.4 0.1 31 13-46 2-41 (68)
149 TIGR00270 conserved hypothetic 40.0 38 0.00082 32.4 4.0 110 15-131 2-116 (154)
150 PF04423 Rad50_zn_hook: Rad50 39.7 8.2 0.00018 30.1 -0.4 16 13-28 20-35 (54)
151 KOG2487 RNA polymerase II tran 39.6 12 0.00025 39.2 0.5 57 316-376 220-283 (314)
152 KOG0824 Predicted E3 ubiquitin 38.6 13 0.00027 39.4 0.6 48 364-414 103-151 (324)
153 PRK12387 formate hydrogenlyase 38.4 5.1 0.00011 38.7 -2.2 37 8-44 109-160 (180)
154 KOG3039 Uncharacterized conser 37.8 16 0.00036 37.7 1.3 33 366-401 43-75 (303)
155 TIGR00627 tfb4 transcription f 36.7 53 0.0012 34.4 4.9 11 403-413 269-279 (279)
156 PF00412 LIM: LIM domain; Int 34.7 31 0.00068 26.3 2.2 40 369-417 1-40 (58)
157 KOG3799 Rab3 effector RIM1 and 33.7 17 0.00037 34.4 0.6 50 364-413 63-117 (169)
158 PF01363 FYVE: FYVE zinc finge 33.7 23 0.00051 28.4 1.3 36 366-401 9-45 (69)
159 TIGR02098 MJ0042_CXXC MJ0042 f 33.6 16 0.00035 26.2 0.4 33 14-46 3-35 (38)
160 PF06906 DUF1272: Protein of u 33.4 44 0.00096 27.1 2.8 47 368-416 7-54 (57)
161 KOG4185 Predicted E3 ubiquitin 31.6 7.2 0.00016 40.1 -2.4 47 366-412 207-265 (296)
162 PF10446 DUF2457: Protein of u 31.5 21 0.00045 39.6 0.9 6 393-398 211-216 (458)
163 PF07975 C1_4: TFIIH C1-like d 30.5 31 0.00067 27.3 1.5 42 369-410 2-50 (51)
164 KOG3842 Adaptor protein Pellin 30.4 41 0.00089 36.0 2.8 54 364-417 339-417 (429)
165 KOG0956 PHD finger protein AF1 30.2 23 0.0005 41.3 1.0 49 365-413 116-181 (900)
166 TIGR01206 lysW lysine biosynth 29.8 32 0.0007 27.5 1.5 30 14-46 3-32 (54)
167 PF13717 zinc_ribbon_4: zinc-r 29.2 26 0.00056 25.5 0.8 33 14-46 3-35 (36)
168 PLN02189 cellulose synthase 28.9 47 0.001 40.6 3.2 49 366-414 34-87 (1040)
169 KOG2041 WD40 repeat protein [G 28.7 43 0.00094 39.5 2.8 23 387-413 1162-1184(1189)
170 smart00834 CxxC_CXXC_SSSS Puta 26.9 25 0.00055 25.2 0.4 30 13-44 5-34 (41)
171 KOG1815 Predicted E3 ubiquitin 26.4 30 0.00065 38.2 1.0 37 367-403 227-268 (444)
172 PF05605 zf-Di19: Drought indu 26.3 25 0.00054 27.3 0.3 37 366-412 2-40 (54)
173 TIGR01562 FdhE formate dehydro 26.2 29 0.00064 36.8 0.9 44 367-411 185-232 (305)
174 PLN02638 cellulose synthase A 26.0 58 0.0012 40.0 3.3 49 366-414 17-70 (1079)
175 PF04710 Pellino: Pellino; In 25.9 23 0.00049 38.9 0.0 33 377-412 299-337 (416)
176 KOG1189 Global transcriptional 25.6 44 0.00094 39.6 2.1 16 78-93 720-735 (960)
177 PF06524 NOA36: NOA36 protein; 25.5 40 0.00088 35.2 1.7 11 39-49 185-195 (314)
178 PRK03564 formate dehydrogenase 25.4 40 0.00086 35.9 1.7 44 366-411 187-234 (309)
179 KOG2231 Predicted E3 ubiquitin 25.3 40 0.00088 39.3 1.8 46 368-416 2-54 (669)
180 PF13832 zf-HC5HC2H_2: PHD-zin 25.3 54 0.0012 28.7 2.3 31 366-398 55-87 (110)
181 KOG1245 Chromatin remodeling c 25.2 28 0.0006 44.0 0.6 49 366-414 1108-1160(1404)
182 smart00647 IBR In Between Ring 25.0 42 0.00091 26.0 1.4 20 380-399 38-58 (64)
183 PRK11827 hypothetical protein; 24.0 44 0.00095 27.3 1.3 29 13-46 8-36 (60)
184 TIGR00622 ssl1 transcription f 23.8 1E+02 0.0022 28.3 3.8 44 367-410 56-110 (112)
185 PLN02436 cellulose synthase A 23.5 69 0.0015 39.4 3.3 49 366-414 36-89 (1094)
186 smart00064 FYVE Protein presen 22.8 52 0.0011 26.3 1.6 36 366-401 10-46 (68)
187 PF06844 DUF1244: Protein of u 22.6 30 0.00064 29.0 0.1 12 390-401 11-22 (68)
188 PF13240 zinc_ribbon_2: zinc-r 22.5 33 0.00071 22.7 0.3 11 402-412 12-22 (23)
189 PRK11088 rrmA 23S rRNA methylt 22.5 52 0.0011 33.4 1.8 26 367-392 3-28 (272)
190 PF12253 CAF1A: Chromatin asse 21.9 1.2E+02 0.0025 26.0 3.5 26 185-213 30-55 (77)
191 KOG1729 FYVE finger containing 21.3 31 0.00066 36.4 -0.1 37 367-403 215-251 (288)
192 PLN02400 cellulose synthase 21.0 78 0.0017 39.0 3.1 49 366-414 36-89 (1085)
193 PF04270 Strep_his_triad: Stre 20.5 38 0.00083 27.0 0.3 23 137-164 2-28 (53)
194 KOG2113 Predicted RNA binding 20.5 73 0.0016 34.2 2.4 44 365-413 342-386 (394)
195 PF03066 Nucleoplasmin: Nucleo 20.5 34 0.00073 32.6 0.0 14 153-166 32-45 (149)
196 KOG4218 Nuclear hormone recept 20.3 42 0.00091 36.3 0.7 47 366-413 15-77 (475)
197 cd00350 rubredoxin_like Rubred 20.0 77 0.0017 22.4 1.8 8 404-411 18-25 (33)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=1.7e-14 Score=150.29 Aligned_cols=78 Identities=29% Similarity=0.636 Sum_probs=67.0
Q ss_pred CCChhhHHHhhcCCcEeeccccccCCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCC-CCCCCcccccCCC
Q 009095 340 GAPPAAVSSVNSLPRVIVNKEHQKQEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARN-SCPLCRYELPTDD 417 (544)
Q Consensus 340 G~ppas~~~I~~LP~~~~~~~~~~~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~~~ 417 (544)
......+..++++|..+|+..........|+||+|.|+.|++++.|||+|.||..||++||..+. .||+||..+....
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 44556788899999999998765554469999999999999999999999999999999997765 4999999886654
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.31 E-value=4e-13 Score=100.45 Aligned_cols=43 Identities=49% Similarity=1.201 Sum_probs=40.2
Q ss_pred ccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCc
Q 009095 368 VCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCR 410 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR 410 (544)
.|+||++.|..++.++.|+|+|.||..||.+|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999998889999999999999999999999999999997
No 3
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=2e-11 Score=126.93 Aligned_cols=60 Identities=32% Similarity=0.758 Sum_probs=49.8
Q ss_pred cccccCCCCcccccccc-CCCC---------CceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCCh
Q 009095 359 KEHQKQEDLVCAICKDL-LPSG---------TEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDDK 418 (544)
Q Consensus 359 ~~~~~~~~~~C~ICle~-~~~g---------~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 418 (544)
.++...++..|.||+++ |..+ .++++|||||+||.+|++.|++++.+||+||.++.-+..
T Consensus 280 ~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~ 349 (491)
T COG5243 280 EEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQS 349 (491)
T ss_pred hhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence 34446778899999998 5443 367999999999999999999999999999999765543
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.04 E-value=7.2e-11 Score=120.24 Aligned_cols=52 Identities=35% Similarity=0.828 Sum_probs=47.3
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhc-cCCCCCCCcccccC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS-ARNSCPLCRYELPT 415 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~-~~~tCPlCR~~l~~ 415 (544)
..+.+|+|||+.|..+++++.|||.|.||..||.+|+. -+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 44589999999999889999999999999999999997 56789999999976
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.03 E-value=9.8e-11 Score=97.31 Aligned_cols=45 Identities=44% Similarity=1.021 Sum_probs=36.1
Q ss_pred CCccccccccCCC----------CCceEEcCCCCeeccchhhhhhccCCCCCCCc
Q 009095 366 DLVCAICKDLLPS----------GTEVIKLPCFHLYHQTCIFPWLSARNSCPLCR 410 (544)
Q Consensus 366 ~~~C~ICle~~~~----------g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR 410 (544)
+..|+||++.|.. ...+...+|+|.||..||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3469999999933 12445667999999999999999999999997
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.03 E-value=1.3e-10 Score=116.59 Aligned_cols=70 Identities=27% Similarity=0.580 Sum_probs=53.3
Q ss_pred hHHHhhcCCcEeecccc--ccCCCCccccccccCCCCCc-----eEEcCCCCeeccchhhhhhccCCCCCCCccccc
Q 009095 345 AVSSVNSLPRVIVNKEH--QKQEDLVCAICKDLLPSGTE-----VIKLPCFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 345 s~~~I~~LP~~~~~~~~--~~~~~~~C~ICle~~~~g~~-----v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
.+..+..+|.+...-+. ....+.+|+||++.+..... .+.++|+|.||..||.+|+..+.+||+||..+.
T Consensus 151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 56678889987654332 22346899999998764331 234469999999999999999999999999875
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=1.8e-09 Score=109.67 Aligned_cols=51 Identities=27% Similarity=0.769 Sum_probs=45.2
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
.....|.|||+.. ..+..+||||+||+.||..|+..+..||+||.++.+.+
T Consensus 237 ~a~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 3457999999987 67779999999999999999999999999999987654
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.75 E-value=4.7e-09 Score=102.06 Aligned_cols=51 Identities=29% Similarity=0.730 Sum_probs=41.8
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhcc----------------CCCCCCCcccccCCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA----------------RNSCPLCRYELPTDD 417 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~----------------~~tCPlCR~~l~~~~ 417 (544)
.+...|+||++.+ ..++.++|||.||+.||.+|+.. ...||+||..+....
T Consensus 16 ~~~~~CpICld~~---~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 16 GGDFDCNICLDQV---RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CCccCCccCCCcC---CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 3458999999998 55678899999999999999842 247999999986543
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=5.4e-09 Score=103.51 Aligned_cols=52 Identities=31% Similarity=0.791 Sum_probs=43.0
Q ss_pred cCCCCccccccccCCCCCceEEcCCCCeeccchhhhhhcc---CCCCCCCcccccCCC
Q 009095 363 KQEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA---RNSCPLCRYELPTDD 417 (544)
Q Consensus 363 ~~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~---~~tCPlCR~~l~~~~ 417 (544)
......|.|||+.- +.+++..|||.||+.||.+||.. ++.||+||..|..+.
T Consensus 44 ~~~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 45668999999987 66777779999999999999964 346999999887654
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.72 E-value=5.9e-09 Score=80.05 Aligned_cols=46 Identities=35% Similarity=0.812 Sum_probs=40.0
Q ss_pred CCccccccccCCCCCceEEcCCCCe-eccchhhhhhccCCCCCCCccccc
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHL-YHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
+..|.||++.. ..+..+||||. ||..|+..|+.....||+||+++.
T Consensus 2 ~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENP---RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSB---SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccC---CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 36899999987 56889999999 999999999999999999999874
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.66 E-value=1.1e-08 Score=74.01 Aligned_cols=44 Identities=41% Similarity=1.044 Sum_probs=36.1
Q ss_pred ccccccccCCCCCceEEcCCCCeeccchhhhhhcc-CCCCCCCcccc
Q 009095 368 VCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA-RNSCPLCRYEL 413 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l 413 (544)
.|+||++.+ ......++|+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 234445559999999999999987 77899999754
No 12
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=4.7e-09 Score=116.50 Aligned_cols=52 Identities=37% Similarity=0.895 Sum_probs=45.2
Q ss_pred CCCCccccccccCCCCCc--eEEcCCCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 364 QEDLVCAICKDLLPSGTE--VIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~--v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
..+..|+||++.+..+.+ +++|||+|+||..|+..|+++.++||+||..+..
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 446899999999976544 8899999999999999999999999999995533
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=98.65 E-value=1.2e-08 Score=74.54 Aligned_cols=39 Identities=38% Similarity=0.918 Sum_probs=32.6
Q ss_pred cccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCC
Q 009095 369 CAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLC 409 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlC 409 (544)
|+||++.+.. .++.++|||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999842 34788999999999999999888899998
No 14
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.65 E-value=1.9e-08 Score=79.75 Aligned_cols=47 Identities=21% Similarity=0.508 Sum_probs=41.6
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
..|+||++.+ ..++.++|||.|++.||.+|++.+.+||+|+..+...
T Consensus 2 ~~Cpi~~~~~---~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVM---KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcC---CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 5799999999 4467899999999999999998888999999888543
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.61 E-value=2.1e-08 Score=75.03 Aligned_cols=38 Identities=37% Similarity=0.902 Sum_probs=30.1
Q ss_pred cccccccCCCCCceEEcCCCCeeccchhhhhhccC----CCCCCC
Q 009095 369 CAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSAR----NSCPLC 409 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~----~tCPlC 409 (544)
|+||++.| .+++.|+|||.||..||..|++.. ..||+|
T Consensus 1 CpiC~~~~---~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF---KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB----SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh---CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 889999999999999999999643 359988
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=2.1e-08 Score=95.91 Aligned_cols=52 Identities=27% Similarity=0.621 Sum_probs=42.8
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
.+...|+|||+.+.. +.+....|||+||..||..-|+....||+|++.|..+
T Consensus 129 ~~~~~CPiCl~~~se-k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSE-KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccCCCceecchhh-ccccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 344789999999953 2234567999999999999999999999999977654
No 17
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.55 E-value=3.4e-08 Score=84.53 Aligned_cols=51 Identities=35% Similarity=0.841 Sum_probs=39.1
Q ss_pred CCccccccccCCC--------CC--ceEEcCCCCeeccchhhhhhcc---CCCCCCCcccccCC
Q 009095 366 DLVCAICKDLLPS--------GT--EVIKLPCFHLYHQTCIFPWLSA---RNSCPLCRYELPTD 416 (544)
Q Consensus 366 ~~~C~ICle~~~~--------g~--~v~~LPCgH~FH~~CI~~WL~~---~~tCPlCR~~l~~~ 416 (544)
+..|.||...|.. |+ .++.-.|+|.||.+||.+||.. +..||+||+.+..+
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 5799999998863 11 2333349999999999999964 46899999987543
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=98.48 E-value=5.2e-08 Score=96.31 Aligned_cols=51 Identities=31% Similarity=0.748 Sum_probs=38.3
Q ss_pred CCCCccccccccCCCC-----CceEEc-CCCCeeccchhhhhhccC------CCCCCCccccc
Q 009095 364 QEDLVCAICKDLLPSG-----TEVIKL-PCFHLYHQTCIFPWLSAR------NSCPLCRYELP 414 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g-----~~v~~L-PCgH~FH~~CI~~WL~~~------~tCPlCR~~l~ 414 (544)
..+.+|+||++..... .....| +|+|.||..||..|...+ .+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4468999999976322 123345 599999999999999643 35999998764
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.46 E-value=1e-07 Score=71.59 Aligned_cols=44 Identities=23% Similarity=0.582 Sum_probs=38.7
Q ss_pred ccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcc
Q 009095 368 VCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
.|+||++.|.....+..++|||+||..||..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999965667889999999999999999866778999985
No 20
>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=98.45 E-value=9.7e-08 Score=69.93 Aligned_cols=39 Identities=41% Similarity=1.031 Sum_probs=32.7
Q ss_pred cccccccCCCCCceEEcCCCCeeccchhhhhhc--cCCCCCCC
Q 009095 369 CAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS--ARNSCPLC 409 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~--~~~tCPlC 409 (544)
|+||++.+. .....++|+|.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~--~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFE--DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCS--SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCcccc--CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999983 2234889999999999999998 55579998
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.44 E-value=9.6e-08 Score=66.75 Aligned_cols=38 Identities=42% Similarity=1.142 Sum_probs=33.8
Q ss_pred cccccccCCCCCceEEcCCCCeeccchhhhhhc-cCCCCCCC
Q 009095 369 CAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS-ARNSCPLC 409 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~-~~~tCPlC 409 (544)
|+||++.. ..+..++|+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 88999984 6788899999999999999997 66779998
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.43 E-value=8.1e-08 Score=102.80 Aligned_cols=50 Identities=36% Similarity=0.719 Sum_probs=43.4
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
.....|+||++.| ..++.++|+|.||..||..|+.....||+|+..+...
T Consensus 24 e~~l~C~IC~d~~---~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhh---hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 3458999999999 4566889999999999999998888999999988654
No 23
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.21 E-value=2.6e-07 Score=95.86 Aligned_cols=53 Identities=28% Similarity=0.640 Sum_probs=46.8
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCChh
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDDKE 419 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~ 419 (544)
...+.|.||.+.| ..++++||+|.||.-||+.+|..+..||.|+..+......
T Consensus 21 D~lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 21 DDLLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 4458999999999 6778999999999999999999999999999988766533
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.18 E-value=6.9e-07 Score=75.38 Aligned_cols=30 Identities=37% Similarity=0.940 Sum_probs=27.9
Q ss_pred CCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 387 CFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 387 CgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
|+|.||.+||.+||..++.||+||+.+...
T Consensus 54 CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 54 CNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred cchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 999999999999999999999999987654
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=5.6e-07 Score=90.86 Aligned_cols=50 Identities=28% Similarity=0.705 Sum_probs=42.5
Q ss_pred CCCccccccccCCCCCceEEcCCCCeeccchhhh-hhccCCC-CCCCcccccCCC
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFP-WLSARNS-CPLCRYELPTDD 417 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~-WL~~~~t-CPlCR~~l~~~~ 417 (544)
.+..|+||++.. ..+..+||||+||..||.. |-..+.- ||+||+.+.+++
T Consensus 214 ~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 214 ADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 357899999988 7788999999999999999 8765554 999999887653
No 26
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.10 E-value=1.1e-06 Score=72.89 Aligned_cols=49 Identities=29% Similarity=0.619 Sum_probs=39.4
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhcc-CCCCCCCcccccCCC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA-RNSCPLCRYELPTDD 417 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~ 417 (544)
...|+||.+.| ..++.+||||.|.+.||..||+. +.+||+|+..+...+
T Consensus 4 ~f~CpIt~~lM---~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 4 EFLCPITGELM---RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGB-TTTSSB----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred ccCCcCcCcHh---hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 47899999999 77889999999999999999988 889999998887654
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=1.4e-06 Score=94.80 Aligned_cols=50 Identities=28% Similarity=0.723 Sum_probs=40.0
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhcc-----CCCCCCCcccccCCCh
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA-----RNSCPLCRYELPTDDK 418 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~-----~~tCPlCR~~l~~~~~ 418 (544)
+..||||++.. ..+..+.|||+||..||..+|.. ...||+|+..|..++.
T Consensus 186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl 240 (513)
T KOG2164|consen 186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL 240 (513)
T ss_pred CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence 57999999987 44446669999999999998753 3469999998877653
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=1.2e-06 Score=73.50 Aligned_cols=50 Identities=30% Similarity=0.822 Sum_probs=37.3
Q ss_pred CCccccccccCCCCCc---------eEEcC-CCCeeccchhhhhhcc---CCCCCCCcccccC
Q 009095 366 DLVCAICKDLLPSGTE---------VIKLP-CFHLYHQTCIFPWLSA---RNSCPLCRYELPT 415 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~---------v~~LP-CgH~FH~~CI~~WL~~---~~tCPlCR~~l~~ 415 (544)
+..|.||.-.|..--. +..+- |.|.||.+||.+||.. +..||+||+.+..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 4599999998854222 22333 8999999999999954 4469999987754
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.01 E-value=2.7e-06 Score=64.20 Aligned_cols=38 Identities=29% Similarity=0.791 Sum_probs=22.8
Q ss_pred cccccccCCC-CCceEEcCCCCeeccchhhhhhccC----CCCC
Q 009095 369 CAICKDLLPS-GTEVIKLPCFHLYHQTCIFPWLSAR----NSCP 407 (544)
Q Consensus 369 C~ICle~~~~-g~~v~~LPCgH~FH~~CI~~WL~~~----~tCP 407 (544)
|+||++ |.. ...++.|+|||.|+..||.+++... ..||
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 744 4467899999999999999999743 2576
No 30
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=1.7e-06 Score=87.58 Aligned_cols=52 Identities=31% Similarity=0.829 Sum_probs=42.1
Q ss_pred CCCccccccccCCCCC-------ceEEcCCCCeeccchhhhhh--ccCCCCCCCcccccCC
Q 009095 365 EDLVCAICKDLLPSGT-------EVIKLPCFHLYHQTCIFPWL--SARNSCPLCRYELPTD 416 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~-------~v~~LPCgH~FH~~CI~~WL--~~~~tCPlCR~~l~~~ 416 (544)
++..|+||-..+.... +.-+|.|+|.||..||+.|. -.+.+||.|+..+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 3579999988775433 56789999999999999997 4567999999888544
No 31
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.96 E-value=2.5e-06 Score=87.21 Aligned_cols=49 Identities=27% Similarity=0.538 Sum_probs=42.9
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
..-+.|-||.+.| ..+...+|||.||.-||...|..+..||+||.+...
T Consensus 23 Ds~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 23 DSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hhHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence 3457999999999 566788999999999999999999999999987643
No 32
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=2.3e-06 Score=82.97 Aligned_cols=45 Identities=36% Similarity=0.804 Sum_probs=38.6
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
.+...|+||++.|... +.|||+|.||..||..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 4568999999999543 89999999999999999885567999993
No 33
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=4.4e-06 Score=90.28 Aligned_cols=50 Identities=32% Similarity=0.946 Sum_probs=39.5
Q ss_pred CCccccccccCCC---CC-----------ceEEcCCCCeeccchhhhhhc-cCCCCCCCcccccC
Q 009095 366 DLVCAICKDLLPS---GT-----------EVIKLPCFHLYHQTCIFPWLS-ARNSCPLCRYELPT 415 (544)
Q Consensus 366 ~~~C~ICle~~~~---g~-----------~v~~LPCgH~FH~~CI~~WL~-~~~tCPlCR~~l~~ 415 (544)
...|+||+..+.- +. .....||.|+||..|+.+|.. .+-.||+||.++++
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4689999987743 11 134569999999999999998 45589999999874
No 34
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.83 E-value=1e-05 Score=84.03 Aligned_cols=52 Identities=23% Similarity=0.485 Sum_probs=37.6
Q ss_pred CCccccccccC--CCCCceEEcCCCCeeccchhhhhh-ccCCCCCCCcccccCCC
Q 009095 366 DLVCAICKDLL--PSGTEVIKLPCFHLYHQTCIFPWL-SARNSCPLCRYELPTDD 417 (544)
Q Consensus 366 ~~~C~ICle~~--~~g~~v~~LPCgH~FH~~CI~~WL-~~~~tCPlCR~~l~~~~ 417 (544)
+..||||+..- .+..++.+.+|||.||..||...+ .....||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 36899999852 222233333799999999999966 55568999998776544
No 35
>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=97.81 E-value=9.4e-06 Score=62.78 Aligned_cols=42 Identities=29% Similarity=0.880 Sum_probs=33.4
Q ss_pred ccccccccCCCCCceEEcCCC-----Ceeccchhhhhhcc--CCCCCCCc
Q 009095 368 VCAICKDLLPSGTEVIKLPCF-----HLYHQTCIFPWLSA--RNSCPLCR 410 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCg-----H~FH~~CI~~WL~~--~~tCPlCR 410 (544)
.|-||++ ...++.+..+||. |.+|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 4444566788975 89999999999954 45899995
No 36
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.71 E-value=4.2e-06 Score=95.68 Aligned_cols=51 Identities=31% Similarity=0.830 Sum_probs=37.3
Q ss_pred CCCCccccccccCCCCC---ceEEcC-CCCeeccchhhhhhcc--CCCCCCCccccc
Q 009095 364 QEDLVCAICKDLLPSGT---EVIKLP-CFHLYHQTCIFPWLSA--RNSCPLCRYELP 414 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~---~v~~LP-CgH~FH~~CI~~WL~~--~~tCPlCR~~l~ 414 (544)
.+-.+|+||+..+..-+ .-+..| |+|.||..|+.+|++. +++||+||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 44579999998764111 112233 9999999999999965 557999998764
No 37
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=1.3e-05 Score=70.86 Aligned_cols=29 Identities=45% Similarity=0.880 Sum_probs=26.7
Q ss_pred CCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 387 CFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 387 CgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
|.|.||.+||.+||+.++.||+|.++...
T Consensus 81 CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 81 CNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred cchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 99999999999999999999999887643
No 38
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.66 E-value=8.3e-06 Score=67.47 Aligned_cols=50 Identities=26% Similarity=0.629 Sum_probs=23.1
Q ss_pred CCccccccccCC-CCCceE-Ec---CCCCeeccchhhhhhcc----C-------CCCCCCcccccC
Q 009095 366 DLVCAICKDLLP-SGTEVI-KL---PCFHLYHQTCIFPWLSA----R-------NSCPLCRYELPT 415 (544)
Q Consensus 366 ~~~C~ICle~~~-~g~~v~-~L---PCgH~FH~~CI~~WL~~----~-------~tCPlCR~~l~~ 415 (544)
+..|.||+..+. .+..+. .- .|++.||..||.+||.. + ..||.|+++|..
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 368999999875 333322 22 39999999999999952 1 149999998753
No 39
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=3.8e-06 Score=87.87 Aligned_cols=50 Identities=32% Similarity=0.793 Sum_probs=40.6
Q ss_pred CCCCccccccccCCCCCceEEcC-CCCeeccchhhhhhc-cCCCCCCCcccccCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLP-CFHLYHQTCIFPWLS-ARNSCPLCRYELPTD 416 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LP-CgH~FH~~CI~~WL~-~~~tCPlCR~~l~~~ 416 (544)
..+..|+|||+.+ +..+..+ |.|.||..||.+-++ ..+.||.||+.+..+
T Consensus 41 ~~~v~c~icl~ll---k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 41 DIQVICPICLSLL---KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhhccHHHHHHH---HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 3458999999998 4445555 999999999998885 567899999988654
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.55 E-value=3.8e-05 Score=62.72 Aligned_cols=50 Identities=32% Similarity=0.695 Sum_probs=25.2
Q ss_pred CCccccccccCCCCCceEEc-CCCCeeccchhhhhhccCCCCCCCcccccCCChhh
Q 009095 366 DLVCAICKDLLPSGTEVIKL-PCFHLYHQTCIFPWLSARNSCPLCRYELPTDDKEY 420 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~L-PCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~ 420 (544)
...|++|.+.+ +.++.| .|.|.||..||..-+.. .||+|+.+.-..+...
T Consensus 7 lLrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~~ 57 (65)
T PF14835_consen 7 LLRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQI 57 (65)
T ss_dssp TTS-SSS-S-----SS-B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS---
T ss_pred hcCCcHHHHHh---cCCceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHHh
Confidence 47899999998 555544 59999999999987653 4999998876665433
No 41
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=4e-05 Score=78.94 Aligned_cols=49 Identities=24% Similarity=0.600 Sum_probs=40.5
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhh-ccCCCCCCCcccccCCC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWL-SARNSCPLCRYELPTDD 417 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL-~~~~tCPlCR~~l~~~~ 417 (544)
..+|+||+... ..++.|+|+|.||..||..-. ..+.+|++||.+|...-
T Consensus 7 ~~eC~IC~nt~---n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTG---NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccC---CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 36899999987 666899999999999998765 44567999999987643
No 42
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.46 E-value=4.1e-05 Score=82.33 Aligned_cols=48 Identities=33% Similarity=0.906 Sum_probs=38.3
Q ss_pred CCCccccccccCCCCC-ceEEcCCCCeeccchhhhhhccCCCCCCCccccc
Q 009095 365 EDLVCAICKDLLPSGT-EVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~-~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
+..+|+|||+.+.... .++.+.|.|.||-.|+.+|.. .+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 3468999999996533 345666999999999999964 48999998665
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.39 E-value=2.4e-05 Score=88.31 Aligned_cols=50 Identities=20% Similarity=0.424 Sum_probs=43.3
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
...|++|+..+..+......+|+|+||..||..|-+..++||+||..+..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 46899999988766666677899999999999999999999999987743
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=8.1e-05 Score=78.26 Aligned_cols=49 Identities=29% Similarity=0.651 Sum_probs=41.4
Q ss_pred CCCCccccccccCCCCCceEEcCCCCe-eccchhhhhhccCCCCCCCcccccC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHL-YHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
....+|.||+.+- .....|||.|. .|..|.+..--+++.||+||.++..
T Consensus 288 ~~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 3368999999987 67889999995 8999988876678899999998843
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=9.3e-05 Score=78.44 Aligned_cols=47 Identities=34% Similarity=0.899 Sum_probs=35.7
Q ss_pred CccccccccCCCCCceEEcC-CCCeeccchhhhhhcc---CCCCCCCcccc
Q 009095 367 LVCAICKDLLPSGTEVIKLP-CFHLYHQTCIFPWLSA---RNSCPLCRYEL 413 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LP-CgH~FH~~CI~~WL~~---~~tCPlCR~~l 413 (544)
..|.||.+.+.....+..+. |||+||..|+..|+.. ...||+|+-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 57999966554444555555 9999999999999964 24799999444
No 46
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.19 E-value=9.6e-05 Score=76.15 Aligned_cols=95 Identities=20% Similarity=0.464 Sum_probs=63.6
Q ss_pred CChhhHHHHHHHHHhhCCCCCCCChhhHHHhhcCCcEeeccccccCCCCccccccccCCCCCceEEcCCCCeeccchhhh
Q 009095 319 LDARGFEELLSHLAETDNSRRGAPPAAVSSVNSLPRVIVNKEHQKQEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFP 398 (544)
Q Consensus 319 ld~~~~e~Ll~ql~e~~~~~rG~ppas~~~I~~LP~~~~~~~~~~~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~ 398 (544)
|+...|.+|..++.+.-....|.| -.-..|...... ++... ...-.|.|||--|..+....+.+|-|.||..|+.+
T Consensus 72 l~d~~~~~i~~~~~~iikq~~g~p-ii~~lie~~~e~-LT~nn--~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaR 147 (368)
T KOG4445|consen 72 LGDPEFREIQRQIQEIIKQNSGMP-IICQLIEHCSEF-LTENN--HPNGQCVICLYGFASSPAFTVTACDHYMHFACLAR 147 (368)
T ss_pred CCcHHHHHHHHHHHHHHHhcCCCc-hhHHHHHHHHHH-cccCC--CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHH
Confidence 566678898888887655556632 222222221111 11111 22368999999999888889999999999999988
Q ss_pred hhcc-----------------------CCCCCCCcccccCCC
Q 009095 399 WLSA-----------------------RNSCPLCRYELPTDD 417 (544)
Q Consensus 399 WL~~-----------------------~~tCPlCR~~l~~~~ 417 (544)
+|.. ...||+||..|....
T Consensus 148 yl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 148 YLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 7731 125999998886543
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=8.3e-05 Score=84.40 Aligned_cols=50 Identities=22% Similarity=0.642 Sum_probs=40.6
Q ss_pred CCCccccccccCCCCCceEEcCCCCeeccchhhhhh-ccCCCCCCCcccccCCC
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWL-SARNSCPLCRYELPTDD 417 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL-~~~~tCPlCR~~l~~~~ 417 (544)
+-+.|++|-.-+ ..+++..|+|.||..||.+-+ .+...||.|.+.|...+
T Consensus 642 ~~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 642 ELLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred hceeCCCccCch---hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 347999999766 455566699999999999999 46678999999887654
No 48
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.11 E-value=0.0002 Score=75.83 Aligned_cols=51 Identities=29% Similarity=0.722 Sum_probs=38.1
Q ss_pred CCCCccccccccCCCCC----ceEEcC-CCCeeccchhhhhh--cc-----CCCCCCCccccc
Q 009095 364 QEDLVCAICKDLLPSGT----EVIKLP-CFHLYHQTCIFPWL--SA-----RNSCPLCRYELP 414 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~----~v~~LP-CgH~FH~~CI~~WL--~~-----~~tCPlCR~~l~ 414 (544)
..+..|.||++...... ...+|| |.|.||..||+.|- .+ ...||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 34579999999874322 123556 99999999999998 34 467999997653
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.0002 Score=77.20 Aligned_cols=49 Identities=31% Similarity=0.699 Sum_probs=43.3
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
..+..|.||+..+ ..++.+||||.||..||.+-+.....||+||..+..
T Consensus 82 ~sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 4468999999988 667788999999999999988888889999999875
No 50
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.00 E-value=0.0027 Score=67.85 Aligned_cols=48 Identities=31% Similarity=0.806 Sum_probs=40.2
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhcc--CCCCCCCcccccCCC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA--RNSCPLCRYELPTDD 417 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~--~~tCPlCR~~l~~~~ 417 (544)
..|.||-+.- +.+++-||||..|..|+..|-.. .++||.||.++...+
T Consensus 370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 5799999864 66778899999999999999843 578999999986654
No 51
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.64 E-value=0.00096 Score=71.94 Aligned_cols=52 Identities=33% Similarity=0.801 Sum_probs=42.8
Q ss_pred CCCCccccccccCCCCCceEE-cCCCCeeccchhhhhhccCCCCCCCcccccCCCh
Q 009095 364 QEDLVCAICKDLLPSGTEVIK-LPCFHLYHQTCIFPWLSARNSCPLCRYELPTDDK 418 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~-LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 418 (544)
..++.|+||...+.. +.. ..|||.||..||..|+..+..||.|+..+.....
T Consensus 19 ~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred cccccCccccccccC---CCCCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence 345899999999943 334 5799999999999999999999999888765543
No 52
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.00081 Score=71.92 Aligned_cols=49 Identities=35% Similarity=0.859 Sum_probs=37.5
Q ss_pred CCccccccccCCC-CC-ceEEcCCCCeeccchhhhhhcc--CCCCCCCccccc
Q 009095 366 DLVCAICKDLLPS-GT-EVIKLPCFHLYHQTCIFPWLSA--RNSCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~~-g~-~v~~LPCgH~FH~~CI~~WL~~--~~tCPlCR~~l~ 414 (544)
...|+||++.+.. ++ ....+.|||.|...||.+||.. ...||.|..+-.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 4789999998864 33 3455669999999999999942 235999976543
No 53
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.46 E-value=0.00042 Score=55.01 Aligned_cols=46 Identities=22% Similarity=0.553 Sum_probs=34.3
Q ss_pred CccccccccCCCCCceEEcCCCCe-eccchhhhhhc-cCCCCCCCcccccC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHL-YHQTCIFPWLS-ARNSCPLCRYELPT 415 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~-FH~~CI~~WL~-~~~tCPlCR~~l~~ 415 (544)
.+|.||++.- -..+...|||. .|..|-.+.++ .+..||+||+++..
T Consensus 8 dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 6899999964 22223459995 78899776554 78899999998753
No 54
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.26 E-value=0.0016 Score=62.09 Aligned_cols=41 Identities=34% Similarity=0.791 Sum_probs=35.8
Q ss_pred CcEeeccccccCCCCccccccccCCCCCceEEcCCCCeecc
Q 009095 353 PRVIVNKEHQKQEDLVCAICKDLLPSGTEVIKLPCFHLYHQ 393 (544)
Q Consensus 353 P~~~~~~~~~~~~~~~C~ICle~~~~g~~v~~LPCgH~FH~ 393 (544)
|+..|.....+...-+|.||||++..|+.+..|||-.+||+
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 55667777777777899999999999999999999999997
No 55
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.21 E-value=0.00077 Score=70.43 Aligned_cols=50 Identities=22% Similarity=0.715 Sum_probs=40.3
Q ss_pred CCCCccccccccCCCCCceEEcC-CCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLP-CFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LP-CgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
.....|.+|...|-. ...+. |-|.||+.||.+.|...++||+|...+...
T Consensus 13 n~~itC~LC~GYliD---ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLID---ATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeec---chhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 345799999998843 33444 999999999999999999999998776443
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.17 E-value=0.0028 Score=50.69 Aligned_cols=41 Identities=22% Similarity=0.540 Sum_probs=27.5
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhcc--CCCCCC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA--RNSCPL 408 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~--~~tCPl 408 (544)
...|||.+..|+ +.++...|+|.|-+..|..||.. ...||+
T Consensus 11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 479999999994 44555679999999999999943 346998
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.13 E-value=0.0012 Score=70.25 Aligned_cols=46 Identities=33% Similarity=0.836 Sum_probs=38.0
Q ss_pred CCccccccccCCC-CCceEEcCCCCeeccchhhhhhccC--CCCCCCcc
Q 009095 366 DLVCAICKDLLPS-GTEVIKLPCFHLYHQTCIFPWLSAR--NSCPLCRY 411 (544)
Q Consensus 366 ~~~C~ICle~~~~-g~~v~~LPCgH~FH~~CI~~WL~~~--~tCPlCR~ 411 (544)
++-|..|-+.+-. .+.+..|||.|+||..|+...|..+ .+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 5789999998754 3467789999999999999999654 47999994
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.11 E-value=0.0026 Score=75.95 Aligned_cols=66 Identities=32% Similarity=0.637 Sum_probs=46.6
Q ss_pred hcCCcEeecccccc-CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccC----------CCCCCCcccccC
Q 009095 350 NSLPRVIVNKEHQK-QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSAR----------NSCPLCRYELPT 415 (544)
Q Consensus 350 ~~LP~~~~~~~~~~-~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~----------~tCPlCR~~l~~ 415 (544)
.-||-..-.+...+ ..+..|.||+.+--.......|.|+|+||..|.+.-|+++ -.||+|+.++..
T Consensus 3469 ~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3469 HCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hcccccccChhhhhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 34555544333322 4468999999876666778899999999999997655322 269999988754
No 59
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.94 E-value=0.0022 Score=62.98 Aligned_cols=48 Identities=19% Similarity=0.445 Sum_probs=41.2
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
...|.||.+.| ..++...|||.||..|...-++....|-+|.+.....
T Consensus 196 PF~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~ 243 (259)
T COG5152 196 PFLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGR 243 (259)
T ss_pred ceeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchhhccc
Confidence 37899999999 6677888999999999999888889999998766443
No 60
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.83 E-value=0.0072 Score=62.03 Aligned_cols=50 Identities=26% Similarity=0.505 Sum_probs=37.6
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhc--cCCCCCCCcccccC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS--ARNSCPLCRYELPT 415 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~--~~~tCPlCR~~l~~ 415 (544)
..+.+|++|-+.-. -.....+|+|+||.-||..=+. ...+||.|..++.+
T Consensus 237 t~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 237 TSDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred cCCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 44689999999752 2233456999999999988654 34689999887763
No 61
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.75 E-value=0.0086 Score=62.06 Aligned_cols=47 Identities=32% Similarity=0.684 Sum_probs=36.1
Q ss_pred CCccccccccCCCCCceEEcC-CCCeeccchhhhhh-ccCCCCCCCcc-cccC
Q 009095 366 DLVCAICKDLLPSGTEVIKLP-CFHLYHQTCIFPWL-SARNSCPLCRY-ELPT 415 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LP-CgH~FH~~CI~~WL-~~~~tCPlCR~-~l~~ 415 (544)
.+.|+.|...+ ..+++.| |+|.||.+||..-| ..-..||.|.. .+..
T Consensus 274 ~LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll 323 (427)
T COG5222 274 SLKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL 323 (427)
T ss_pred cccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence 38999999887 4455666 99999999998766 56678999954 4433
No 62
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.74 E-value=0.0042 Score=68.41 Aligned_cols=54 Identities=26% Similarity=0.675 Sum_probs=42.1
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhc-----cCCCCCCCcccccCCChhh
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS-----ARNSCPLCRYELPTDDKEY 420 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~-----~~~tCPlCR~~l~~~~~~~ 420 (544)
.+..+|.+|-+.- +......|.|.||+-||..++. .+-+||+|...+..+...+
T Consensus 534 k~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ 592 (791)
T KOG1002|consen 534 KGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEP 592 (791)
T ss_pred cCceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccch
Confidence 4457999999976 5666778999999999988874 2458999998887654333
No 63
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.37 E-value=0.028 Score=57.46 Aligned_cols=94 Identities=16% Similarity=0.415 Sum_probs=59.4
Q ss_pred hhHHHHHHHHHhhCCCCCCCChh--hHHHhhcCCcEeecccc-----------ccCCCCccccccccCCCCCceEEc-CC
Q 009095 322 RGFEELLSHLAETDNSRRGAPPA--AVSSVNSLPRVIVNKEH-----------QKQEDLVCAICKDLLPSGTEVIKL-PC 387 (544)
Q Consensus 322 ~~~e~Ll~ql~e~~~~~rG~ppa--s~~~I~~LP~~~~~~~~-----------~~~~~~~C~ICle~~~~g~~v~~L-PC 387 (544)
-+.+.||+.|...... ...++. -+..++.|-.+.+.... .......|||+...|......+.| ||
T Consensus 57 ynKeaile~Ll~~~~~-~~~~~~~~hI~~LKDl~~l~~~~n~~~~~~~~~~~~~~~~~~~CPvt~~~~~~~~~fv~l~~c 135 (260)
T PF04641_consen 57 YNKEAILEFLLDKKKN-KDLPKTFSHIKSLKDLVELKFTKNPSYKEEDKSSGDNSEGRFICPVTGKEFNGKHKFVYLRPC 135 (260)
T ss_pred EcHHHHHHHHHhcCcC-CCCccccccccCccceeeEEeEecCccccccccccccCCceeECCCCCcccCCceeEEEEcCC
Confidence 3578888888765322 111211 11123444444444321 234568999999999655555555 79
Q ss_pred CCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 388 FHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 388 gH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
||+|...||...- ....||+|-.++...+
T Consensus 136 G~V~s~~alke~k-~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 136 GCVFSEKALKELK-KSKKCPVCGKPFTEED 164 (260)
T ss_pred CCEeeHHHHHhhc-ccccccccCCccccCC
Confidence 9999999999873 3557999999876543
No 64
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=95.18 E-value=0.013 Score=50.64 Aligned_cols=33 Identities=30% Similarity=0.702 Sum_probs=27.3
Q ss_pred CCCccccccccCCCCCceEEcCCCCeeccchhhh
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFP 398 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~ 398 (544)
....|+||...+.. ......||||+||..|+.+
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeCCCeEEecccccC
Confidence 34789999999865 5677889999999999853
No 65
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.13 E-value=0.0092 Score=61.79 Aligned_cols=48 Identities=17% Similarity=0.453 Sum_probs=42.0
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
..|-||...| ..+++..|+|.||..|...-++....|++|.+.+....
T Consensus 242 f~c~icr~~f---~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~ 289 (313)
T KOG1813|consen 242 FKCFICRKYF---YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSF 289 (313)
T ss_pred cccccccccc---ccchhhcCCceeehhhhccccccCCcceeccccccccc
Confidence 5799999999 66778889999999999999998899999988776544
No 66
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.03 E-value=0.013 Score=58.81 Aligned_cols=51 Identities=29% Similarity=0.695 Sum_probs=40.9
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhcc--------CCCCCCCcccccCCC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA--------RNSCPLCRYELPTDD 417 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~--------~~tCPlCR~~l~~~~ 417 (544)
...|..|--.+..|+.+ .|-|-|.||+.|+..|-.. .-.||.|..+|.+..
T Consensus 50 ~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 46799999999887755 5669999999999999743 225999999887654
No 67
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.00 E-value=0.015 Score=44.67 Aligned_cols=40 Identities=25% Similarity=0.779 Sum_probs=27.1
Q ss_pred cccccccCCCCCceEEcCCC-----Ceeccchhhhhhc--cCCCCCCC
Q 009095 369 CAICKDLLPSGTEVIKLPCF-----HLYHQTCIFPWLS--ARNSCPLC 409 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCg-----H~FH~~CI~~WL~--~~~tCPlC 409 (544)
|-||++.-.... ..+.||+ ...|..|+.+|+. ...+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999875544 5677864 3789999999996 45679988
No 68
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.84 E-value=0.012 Score=62.27 Aligned_cols=49 Identities=27% Similarity=0.495 Sum_probs=41.9
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
.++..|+||+..- -..+..||+|.-|+.||.+.|...+.|=.|+..+..
T Consensus 420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 4568999999754 456678999999999999999999999999988764
No 69
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=94.62 E-value=0.0092 Score=55.51 Aligned_cols=43 Identities=23% Similarity=0.492 Sum_probs=33.6
Q ss_pred CCccccccccCCCCCceEEcCCC------CeeccchhhhhhccCCCCCC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCF------HLYHQTCIFPWLSARNSCPL 408 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCg------H~FH~~CI~~WL~~~~tCPl 408 (544)
..+|.||++.+.....++.++|+ |.||..|+.+|-+.++.=|.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPf 74 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPF 74 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCc
Confidence 47899999999876678888887 88999999999543333343
No 70
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.58 E-value=0.024 Score=58.31 Aligned_cols=65 Identities=26% Similarity=0.401 Sum_probs=49.7
Q ss_pred CccccccccCCCCC---ceEEcCCCCeeccchhhhhhcc-CCCCCCCcccccCCChhhhhhhcccchhh
Q 009095 367 LVCAICKDLLPSGT---EVIKLPCFHLYHQTCIFPWLSA-RNSCPLCRYELPTDDKEYEEGKQNISSRI 431 (544)
Q Consensus 367 ~~C~ICle~~~~g~---~v~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~~~~~~~~~~~~~ 431 (544)
..|-||-++|..+. .++.|.|||.||..|+.+.+.. ...||.||...............|...-.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~ 72 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQ 72 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHH
Confidence 57999999998753 4677889999999999988854 45699999997666666666666654333
No 71
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.39 E-value=0.039 Score=56.08 Aligned_cols=69 Identities=19% Similarity=0.307 Sum_probs=52.3
Q ss_pred hhcCCcEeeccccc---------cCCCCccccccccCCCCCceEEc-CCCCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 349 VNSLPRVIVNKEHQ---------KQEDLVCAICKDLLPSGTEVIKL-PCFHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 349 I~~LP~~~~~~~~~---------~~~~~~C~ICle~~~~g~~v~~L-PCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
++.|-.+.++.... ...-..|+||.+.+........| ||||+|+..|+.+.+..-..||+|-.++...+
T Consensus 195 lkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 195 LKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred hhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 45555565553322 12347899999999876666666 59999999999999999999999998886553
No 72
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.35 E-value=0.022 Score=60.52 Aligned_cols=46 Identities=24% Similarity=0.586 Sum_probs=33.9
Q ss_pred CCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
....|.||++.. .....+||||.-| |+.-- +...+||+||..+...
T Consensus 304 ~p~lcVVcl~e~---~~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~~~ 349 (355)
T KOG1571|consen 304 QPDLCVVCLDEP---KSAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIRLV 349 (355)
T ss_pred CCCceEEecCCc---cceeeecCCcEEE--chHHH-hhCCCCchhHHHHHHH
Confidence 347899999987 4578999999976 65443 2233499999887543
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.30 E-value=0.02 Score=44.44 Aligned_cols=44 Identities=27% Similarity=0.570 Sum_probs=21.8
Q ss_pred cccccccCCCCCceEEcC--CCCeeccchhhhhhc-cCCCCCCCcccc
Q 009095 369 CAICKDLLPSGTEVIKLP--CFHLYHQTCIFPWLS-ARNSCPLCRYEL 413 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LP--CgH~FH~~CI~~WL~-~~~tCPlCR~~l 413 (544)
|++|.+.+.. .....+| |++..|..|...-++ ....||-||++.
T Consensus 1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999833 2333455 899999999888775 577899999864
No 74
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.28 E-value=0.013 Score=60.77 Aligned_cols=42 Identities=33% Similarity=0.689 Sum_probs=33.4
Q ss_pred CCccccccccCCCCCceEEcCCCCe-eccchhhhhhccCCCCCCCccccc
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHL-YHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
...|.||++.. -....|+|||. -|..|-... +.||+||+.+.
T Consensus 300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 46899999976 66789999995 577887553 37999998774
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.17 E-value=0.016 Score=62.32 Aligned_cols=48 Identities=21% Similarity=0.499 Sum_probs=37.5
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccC--------CCCCCCcc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSAR--------NSCPLCRY 411 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~--------~tCPlCR~ 411 (544)
.....|.||+++.........+||+|+||+.|+..++... -.||-|.-
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 3457899999998655678899999999999999998422 25877654
No 76
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.73 E-value=0.036 Score=58.60 Aligned_cols=52 Identities=31% Similarity=0.681 Sum_probs=41.2
Q ss_pred cccccCCCCccccccccCCCCCceEEcCCCCeeccchhhhh--hccCCCCCCCcccc
Q 009095 359 KEHQKQEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPW--LSARNSCPLCRYEL 413 (544)
Q Consensus 359 ~~~~~~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~W--L~~~~tCPlCR~~l 413 (544)
+++...+...|.||-+.+ .-...+||+|..|..|..+. |-..+.||+||.+.
T Consensus 54 addtDEen~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 54 ADDTDEENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 444455668999999987 56778999999999998653 45677899999864
No 77
>PHA03096 p28-like protein; Provisional
Probab=93.62 E-value=0.024 Score=59.01 Aligned_cols=45 Identities=22% Similarity=0.442 Sum_probs=32.2
Q ss_pred CccccccccCCCC----CceEEcC-CCCeeccchhhhhhcc---CCCCCCCcc
Q 009095 367 LVCAICKDLLPSG----TEVIKLP-CFHLYHQTCIFPWLSA---RNSCPLCRY 411 (544)
Q Consensus 367 ~~C~ICle~~~~g----~~v~~LP-CgH~FH~~CI~~WL~~---~~tCPlCR~ 411 (544)
..|.||++..... ..-..|+ |.|.||..||..|-.. ..+||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 6899999976542 2345677 9999999999999843 234555543
No 78
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.55 E-value=0.047 Score=52.22 Aligned_cols=49 Identities=27% Similarity=0.618 Sum_probs=35.8
Q ss_pred CCCCccccccccCCCCCceEEcCCCC-----eeccchhhhhhcc--CCCCCCCcccccCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFH-----LYHQTCIFPWLSA--RNSCPLCRYELPTD 416 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH-----~FH~~CI~~WL~~--~~tCPlCR~~l~~~ 416 (544)
..+..|-||.+.... ..-||.. ..|..|+.+|+.. ...|++|++++...
T Consensus 6 ~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 445799999988532 2357554 5599999999954 44699999887654
No 79
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.30 E-value=0.067 Score=56.33 Aligned_cols=48 Identities=21% Similarity=0.501 Sum_probs=38.0
Q ss_pred CCCCccccccccCCCCCceEEcC-CCCeeccchhhhhhccCCCCCCCccccc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLP-CFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LP-CgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
.....|+||+... ..+..+. -|-+||..||..++..++.||+=..+..
T Consensus 298 ~~~~~CpvClk~r---~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKR---QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhcc---CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 3457999999987 3344444 6999999999999999999998766553
No 80
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.22 E-value=0.034 Score=54.09 Aligned_cols=50 Identities=28% Similarity=0.646 Sum_probs=35.1
Q ss_pred CccccccccCCCCCce----EEcCCCCeeccchhhhhhccC-----------CCCCCCcccccCC
Q 009095 367 LVCAICKDLLPSGTEV----IKLPCFHLYHQTCIFPWLSAR-----------NSCPLCRYELPTD 416 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v----~~LPCgH~FH~~CI~~WL~~~-----------~tCPlCR~~l~~~ 416 (544)
..|.||+..-..|..+ -...||..||.-|+..||+.- ..||.|..++..+
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 4677777644344322 234599999999999999632 1599999888654
No 81
>PHA02862 5L protein; Provisional
Probab=93.03 E-value=0.054 Score=51.12 Aligned_cols=46 Identities=24% Similarity=0.652 Sum_probs=34.8
Q ss_pred CccccccccCCCCCceEEcCCC-----Ceeccchhhhhhc--cCCCCCCCcccccCC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCF-----HLYHQTCIFPWLS--ARNSCPLCRYELPTD 416 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCg-----H~FH~~CI~~WL~--~~~tCPlCR~~l~~~ 416 (544)
..|=||++.-... .-||. ...|..|+.+|+. ++..||+|+.+...+
T Consensus 3 diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 5799999985332 35654 5789999999995 445799999988654
No 82
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.63 E-value=0.055 Score=54.72 Aligned_cols=46 Identities=20% Similarity=0.575 Sum_probs=33.7
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
..|-.|.---. +.....+.|.|+||..|...-.. ..||+|++.+..
T Consensus 4 VhCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSP--DVCPLCKKSIRI 49 (233)
T ss_pred EEeccccccCC-CCceeeeechhhhhhhhcccCCc--cccccccceeee
Confidence 45777776544 56666777999999999865332 289999998644
No 83
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.33 E-value=0.0061 Score=65.07 Aligned_cols=53 Identities=30% Similarity=0.623 Sum_probs=44.6
Q ss_pred CccccccccCCCC-CceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCChh
Q 009095 367 LVCAICKDLLPSG-TEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDDKE 419 (544)
Q Consensus 367 ~~C~ICle~~~~g-~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~ 419 (544)
..|+||.+.|+.. +++..+-|||.+|..||.+||.....||.|+..++.....
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e 250 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGFE 250 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhHH
Confidence 5799999988654 5667778999999999999999888999999998765433
No 84
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=92.21 E-value=0.05 Score=63.11 Aligned_cols=49 Identities=27% Similarity=0.744 Sum_probs=35.5
Q ss_pred CCCccccccccCCCCCce-EEcCCCCeeccchhhhhhccCC-------CCCCCcccc
Q 009095 365 EDLVCAICKDLLPSGTEV-IKLPCFHLYHQTCIFPWLSARN-------SCPLCRYEL 413 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v-~~LPCgH~FH~~CI~~WL~~~~-------tCPlCR~~l 413 (544)
...+|.||++.+.....+ ..-.|-|+||..||.+|-+... .||.|....
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 347999999998654332 2223889999999999985421 499998443
No 85
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.10 E-value=0.11 Score=41.43 Aligned_cols=46 Identities=33% Similarity=0.616 Sum_probs=33.8
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
..|..|...- .+-..+||+|..+..|-.- .+-+-||+|.+++...+
T Consensus 8 ~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 4566665543 5566899999999999554 46678999999886653
No 86
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=91.95 E-value=0.056 Score=40.85 Aligned_cols=41 Identities=27% Similarity=0.766 Sum_probs=23.3
Q ss_pred cccccccCCCCCceEEcCCCCeeccchhhhhhccCC--CCCCC
Q 009095 369 CAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARN--SCPLC 409 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~--tCPlC 409 (544)
|.+|.+....|..-..-.|+=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 778888876554322224999999999999997655 79988
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=91.58 E-value=0.074 Score=55.09 Aligned_cols=45 Identities=29% Similarity=0.649 Sum_probs=37.8
Q ss_pred CccccccccCCCCC-ceEEcCCCCeeccchhhhhhccCCCCCCCcc
Q 009095 367 LVCAICKDLLPSGT-EVIKLPCFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 367 ~~C~ICle~~~~g~-~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
..||||.+.+.... .+..++|||.-|..|.......+-+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 45999999776544 5678899999999999998877789999988
No 88
>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=91.49 E-value=0.26 Score=52.95 Aligned_cols=31 Identities=26% Similarity=0.763 Sum_probs=22.5
Q ss_pred CCCeeccchhhhhhcc-------------CCCCCCCcccccCCC
Q 009095 387 CFHLYHQTCIFPWLSA-------------RNSCPLCRYELPTDD 417 (544)
Q Consensus 387 CgH~FH~~CI~~WL~~-------------~~tCPlCR~~l~~~~ 417 (544)
|.-..|..|+-+|+.. +.+||+||+.+..-+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 4455678999999843 236999999986543
No 89
>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=91.00 E-value=0.13 Score=40.04 Aligned_cols=44 Identities=30% Similarity=0.597 Sum_probs=25.6
Q ss_pred ccccccccCCCCCceEEcCCC-CeeccchhhhhhccCCCCCCCcccccCC
Q 009095 368 VCAICKDLLPSGTEVIKLPCF-HLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCg-H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
-|.-|+-.. +. .+.|. |..|..|+...|.....||+|.++++.+
T Consensus 4 nCKsCWf~~---k~--Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFAN---KG--LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S-----SS--EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcC---CC--eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 456666543 22 33475 9999999999999999999999998764
No 90
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.82 E-value=0.13 Score=59.80 Aligned_cols=43 Identities=33% Similarity=0.729 Sum_probs=32.7
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCccccc
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
..|..|--.+. -..+..-|||.||.+|+. .....||.|+.++.
T Consensus 841 skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 58999988873 233455599999999998 45567999987543
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=89.26 E-value=0.14 Score=59.22 Aligned_cols=46 Identities=30% Similarity=0.614 Sum_probs=37.6
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccC--CCCCCCcccccCC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSAR--NSCPLCRYELPTD 416 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~--~tCPlCR~~l~~~ 416 (544)
..|.||++ . +.+...+|+|.||..|+..-+... ..||+||..+...
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 79999999 3 677788899999999999888542 2599999877544
No 92
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.25 E-value=0.18 Score=52.95 Aligned_cols=44 Identities=23% Similarity=0.569 Sum_probs=30.0
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCccccc
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
..|--|--.+. ---+.+||+|+||.+|... ..-+.||.|--.|.
T Consensus 91 HfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 45656655442 2235789999999999754 34568999976553
No 93
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.52 E-value=0.27 Score=53.01 Aligned_cols=48 Identities=17% Similarity=0.420 Sum_probs=40.4
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCC---CCCCCcc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARN---SCPLCRY 411 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~---tCPlCR~ 411 (544)
..-..|||=.+.-.....+..|.|||+.++.-|.+..+... .||.|=.
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 45589999999888888999999999999999999875543 6999943
No 94
>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=88.07 E-value=0.32 Score=46.61 Aligned_cols=51 Identities=29% Similarity=0.577 Sum_probs=33.3
Q ss_pred CCccccccccCCCCCceEEcC------------CCC-eeccchhhhhhcc------------------------------
Q 009095 366 DLVCAICKDLLPSGTEVIKLP------------CFH-LYHQTCIFPWLSA------------------------------ 402 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LP------------CgH-~FH~~CI~~WL~~------------------------------ 402 (544)
+..|+|||+.- ...+.|- |+- .-|..|++++-+.
T Consensus 2 d~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 2 DVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 47899999976 3344443 332 3477899877531
Q ss_pred -CCCCCCCcccccCCChh
Q 009095 403 -RNSCPLCRYELPTDDKE 419 (544)
Q Consensus 403 -~~tCPlCR~~l~~~~~~ 419 (544)
+-.||+||..|......
T Consensus 79 ~~L~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 79 PELACPLCRGEVKGWTVV 96 (162)
T ss_pred ccccCccccCceeceEEc
Confidence 11599999998765433
No 95
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.69 E-value=0.54 Score=46.90 Aligned_cols=39 Identities=31% Similarity=0.660 Sum_probs=29.6
Q ss_pred cccccccCCCCCceEEcCCCC-eeccchhhhhhccCCCCCCCccccc
Q 009095 369 CAICKDLLPSGTEVIKLPCFH-LYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCgH-~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
|-+|.+.- ..+..+||.| .+|..|-.. ..+||+|+....
T Consensus 161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 88888763 5688999997 588888654 346999987654
No 96
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=85.07 E-value=0.38 Score=51.07 Aligned_cols=53 Identities=21% Similarity=0.466 Sum_probs=35.2
Q ss_pred CCCccccccccCCCCC-ceEEcCCCCeeccchhhhhh-ccCCCCCCCcccccCCC
Q 009095 365 EDLVCAICKDLLPSGT-EVIKLPCFHLYHQTCIFPWL-SARNSCPLCRYELPTDD 417 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~-~v~~LPCgH~FH~~CI~~WL-~~~~tCPlCR~~l~~~~ 417 (544)
++.-|+.|++.+...+ ...-.|||...|.-|-...- .-+..||-||.......
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 3456999999986543 34456799877777743322 23457999998765544
No 97
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=85.02 E-value=0.17 Score=61.19 Aligned_cols=44 Identities=34% Similarity=0.671 Sum_probs=36.6
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcc
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
...|.||++.+.. .-.+..|||.+|..|+..|+..+..||+|+.
T Consensus 1153 ~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 3589999998852 2234559999999999999999999999974
No 98
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=84.03 E-value=0.45 Score=51.93 Aligned_cols=34 Identities=38% Similarity=0.716 Sum_probs=29.4
Q ss_pred CCCccccccccCCCCCceEEcCCCCeeccchhhhhhc
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS 401 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~ 401 (544)
+++.|+||...| ..+.+|||+|..|..|...-+.
T Consensus 3 eelkc~vc~~f~---~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFY---REPIILPCSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhc---cCceEeecccHHHHHHHHhhcc
Confidence 458999999999 7788999999999999876553
No 99
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.21 E-value=0.43 Score=55.99 Aligned_cols=35 Identities=23% Similarity=0.551 Sum_probs=28.0
Q ss_pred CCCccccccccCCCCCceEEcCCCCeeccchhhhhh
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWL 400 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL 400 (544)
....|.+|...+.. +.-.+.||||.||+.||.+-.
T Consensus 816 p~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 35799999988754 456678999999999998654
No 100
>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=81.13 E-value=0.86 Score=47.54 Aligned_cols=49 Identities=22% Similarity=0.465 Sum_probs=34.8
Q ss_pred cccccccc-CCCCC-ceEEcCCCCeeccchhhhhhc-cCCCCCCCcccccCC
Q 009095 368 VCAICKDL-LPSGT-EVIKLPCFHLYHQTCIFPWLS-ARNSCPLCRYELPTD 416 (544)
Q Consensus 368 ~C~ICle~-~~~g~-~v~~LPCgH~FH~~CI~~WL~-~~~tCPlCR~~l~~~ 416 (544)
.|++|... |.... ...+-+|+|..|..|++..+. ....||.|-..+...
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 59999864 33322 233337999999999999884 556799998766443
No 101
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=80.52 E-value=1.4 Score=35.20 Aligned_cols=32 Identities=25% Similarity=0.695 Sum_probs=28.2
Q ss_pred CCccccccccCCCCCceEEcC-CCCeeccchhh
Q 009095 366 DLVCAICKDLLPSGTEVIKLP-CFHLYHQTCIF 397 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LP-CgH~FH~~CI~ 397 (544)
...|++|-+.|+.++.+++-| |+-.||+.|-.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 468999999999888888888 99999999943
No 102
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=79.13 E-value=1.4 Score=46.38 Aligned_cols=44 Identities=30% Similarity=0.637 Sum_probs=33.7
Q ss_pred CCCCccccccccCCCCCceEEcCC--CCeeccchhhhhhccCCCCCCCccccc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPC--FHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPC--gH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
..-+.||||.+.+... ++.| ||.-|..|-. +..+.||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 3458999999998532 4446 6999999865 34678999999887
No 103
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=78.62 E-value=0.83 Score=53.25 Aligned_cols=52 Identities=25% Similarity=0.722 Sum_probs=38.8
Q ss_pred CCCccccccccCCCCCceEEcCCCC-----eeccchhhhhhcc--CCCCCCCcccccCCC
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFH-----LYHQTCIFPWLSA--RNSCPLCRYELPTDD 417 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH-----~FH~~CI~~WL~~--~~tCPlCR~~l~~~~ 417 (544)
++..|-||..+=..+ .+..-||++ ..|.+|+..|+.- ...|-+|+.++.-++
T Consensus 11 d~~~CRICr~e~~~d-~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 11 DKRSCRICRTEDIRD-DPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred cchhceeecCCCCCC-CcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 347999999875543 445667764 5899999999964 446999999886554
No 104
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=77.37 E-value=0.6 Score=53.77 Aligned_cols=48 Identities=23% Similarity=0.636 Sum_probs=37.3
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhccCC---CCCCCcccccCC
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARN---SCPLCRYELPTD 416 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~---tCPlCR~~l~~~ 416 (544)
..+|+||+..+.. +..+.|.|.|+..|+..-|...+ .||+|+..+...
T Consensus 21 ~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 21 ILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred hccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 4799999999844 35777999999999987775444 699998766443
No 105
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=76.80 E-value=0.89 Score=46.49 Aligned_cols=51 Identities=22% Similarity=0.617 Sum_probs=37.4
Q ss_pred CCccccccccCCCCCc-eEEcCCC-----Ceeccchhhhhhc--cCCCCCCCcccccCC
Q 009095 366 DLVCAICKDLLPSGTE-VIKLPCF-----HLYHQTCIFPWLS--ARNSCPLCRYELPTD 416 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~-v~~LPCg-----H~FH~~CI~~WL~--~~~tCPlCR~~l~~~ 416 (544)
...|-||......... ....||. +..|..|+..|+. ....|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4689999997643221 5577765 5679999999996 556799998866543
No 106
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=76.00 E-value=1.4 Score=41.32 Aligned_cols=50 Identities=22% Similarity=0.468 Sum_probs=36.6
Q ss_pred CCCccccccccCCCCCceEEc-C---CCCeeccchhhhhhc---cCCCCCCCcccccCCC
Q 009095 365 EDLVCAICKDLLPSGTEVIKL-P---CFHLYHQTCIFPWLS---ARNSCPLCRYELPTDD 417 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~L-P---CgH~FH~~CI~~WL~---~~~tCPlCR~~l~~~~ 417 (544)
.-.+|-||.+.-.+. +-| | ||-..|..|-...++ .+..||+|+..+....
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 347999999986432 233 2 999999998776553 4668999999886543
No 107
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=75.83 E-value=1.1 Score=52.03 Aligned_cols=40 Identities=30% Similarity=0.756 Sum_probs=28.3
Q ss_pred ccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCC
Q 009095 368 VCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPL 408 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPl 408 (544)
.|.||.-.+. |.......|+|..|..|...|++....||.
T Consensus 1030 ~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 3444443332 233345569999999999999999999984
No 108
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=74.34 E-value=0.98 Score=51.33 Aligned_cols=44 Identities=18% Similarity=0.673 Sum_probs=28.2
Q ss_pred CCCCccccccc-----cCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCc
Q 009095 364 QEDLVCAICKD-----LLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCR 410 (544)
Q Consensus 364 ~~~~~C~ICle-----~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR 410 (544)
.....|.||.. .|......+...|+++||..|... .+..||.|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 34578888843 222222344556999999999644 334499994
No 109
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=73.96 E-value=1.3 Score=51.60 Aligned_cols=50 Identities=8% Similarity=0.127 Sum_probs=35.4
Q ss_pred CCccccccccCCCC-CceEEcC---CCCeeccchhhhhhcc------CCCCCCCcccccC
Q 009095 366 DLVCAICKDLLPSG-TEVIKLP---CFHLYHQTCIFPWLSA------RNSCPLCRYELPT 415 (544)
Q Consensus 366 ~~~C~ICle~~~~g-~~v~~LP---CgH~FH~~CI~~WL~~------~~tCPlCR~~l~~ 415 (544)
...|.||..++... +....+| |+|.||..||..|+.+ +..|++|...|..
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 35788888777552 1233455 9999999999999842 3458999877643
No 110
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.89 E-value=1 Score=48.79 Aligned_cols=37 Identities=19% Similarity=0.334 Sum_probs=27.2
Q ss_pred CCccccccccC-CCCCceEEcCCCCeeccchhhhhhcc
Q 009095 366 DLVCAICKDLL-PSGTEVIKLPCFHLYHQTCIFPWLSA 402 (544)
Q Consensus 366 ~~~C~ICle~~-~~g~~v~~LPCgH~FH~~CI~~WL~~ 402 (544)
...|.||+..+ ........+.|+|.||..|+.+.+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 57899999444 33233345569999999999988864
No 111
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.99 E-value=1.1 Score=46.78 Aligned_cols=31 Identities=26% Similarity=0.676 Sum_probs=23.9
Q ss_pred CCCeeccchhhhhhc-------------cCCCCCCCcccccCCC
Q 009095 387 CFHLYHQTCIFPWLS-------------ARNSCPLCRYELPTDD 417 (544)
Q Consensus 387 CgH~FH~~CI~~WL~-------------~~~tCPlCR~~l~~~~ 417 (544)
|.-..|..|+.+|+. ++.+||+||+.+...+
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 566788899998873 3447999999987654
No 112
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.84 E-value=1.3 Score=50.04 Aligned_cols=47 Identities=36% Similarity=0.827 Sum_probs=38.5
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
.....|.||+... ..+..+|. |..|+.+|+..+..||+|+..+...+
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccc
Confidence 3346899999987 45566788 89999999999999999998776554
No 113
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.72 E-value=1.2 Score=45.78 Aligned_cols=51 Identities=27% Similarity=0.623 Sum_probs=34.7
Q ss_pred CCCCccccccccCCCCCce-EEcCC-----CCeeccchhhhhhccCC--------CCCCCccccc
Q 009095 364 QEDLVCAICKDLLPSGTEV-IKLPC-----FHLYHQTCIFPWLSARN--------SCPLCRYELP 414 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v-~~LPC-----gH~FH~~CI~~WL~~~~--------tCPlCR~~l~ 414 (544)
..+..|-||+..=++.... =+-|| .|..|..|+..|+..++ +||-|+.+..
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 3457899999875432211 23465 38899999999994322 5999998753
No 114
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=67.96 E-value=1.8 Score=34.80 Aligned_cols=28 Identities=29% Similarity=0.684 Sum_probs=23.7
Q ss_pred ceeccccccccCCCCccccccc---------cccccccce
Q 009095 14 ASCTLCRRTLVPDNESVDDHEN---------MHLCGDCKF 44 (544)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~ 44 (544)
|.|.+|.+.+.+|.+ +++| .-||-+||-
T Consensus 3 vkC~lCdk~~~Id~~---~~~aKrLrnrPi~tYmC~eC~~ 39 (56)
T PF09963_consen 3 VKCILCDKKEEIDED---TPEAKRLRNRPIHTYMCDECKE 39 (56)
T ss_pred eEEEecCCEEEeccC---CHHHHHhhcCCCcceeChhHHH
Confidence 789999999999998 6665 468999984
No 115
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=67.17 E-value=3.2 Score=48.36 Aligned_cols=39 Identities=21% Similarity=0.467 Sum_probs=29.3
Q ss_pred CccccccccCCCCCceEEc-C-CCCeeccchhhhhhccCCCCCC
Q 009095 367 LVCAICKDLLPSGTEVIKL-P-CFHLYHQTCIFPWLSARNSCPL 408 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~L-P-CgH~FH~~CI~~WL~~~~tCPl 408 (544)
..|.+|-..+. .+... + |+|.-|..|+.+|+..+..||.
T Consensus 780 ~~CtVC~~vi~---G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIR---GVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceee---eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 46888876652 22222 3 9999999999999998888876
No 116
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.80 E-value=1.4 Score=50.22 Aligned_cols=42 Identities=31% Similarity=0.654 Sum_probs=31.5
Q ss_pred CccccccccCCCCC-ceEEcCCCCeeccchhhhhhccCCCCCCCcc
Q 009095 367 LVCAICKDLLPSGT-EVIKLPCFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 367 ~~C~ICle~~~~g~-~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
+.|.||+..|.... .++.|-|||..|.+|+....+ .+|| |+.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC-CCc
Confidence 67999988775432 566777999999999987654 4677 544
No 117
>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=65.55 E-value=2.1 Score=33.25 Aligned_cols=43 Identities=23% Similarity=0.471 Sum_probs=20.4
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhcc---CC--CCCCCccc
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA---RN--SCPLCRYE 412 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~---~~--tCPlCR~~ 412 (544)
+.|+|....+. -.++...|.|.-|.+ +..||.. .. .||+|.++
T Consensus 3 L~CPls~~~i~--~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIR--IPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-S--SEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEE--eCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 57999888873 345556699986543 4456632 22 59999763
No 118
>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=64.49 E-value=2.5 Score=43.20 Aligned_cols=49 Identities=29% Similarity=0.615 Sum_probs=34.7
Q ss_pred CCCccccccccCC-CCC-ceEEcC-CCCeeccchhhhhhcc-CCCCC--CCcccc
Q 009095 365 EDLVCAICKDLLP-SGT-EVIKLP-CFHLYHQTCIFPWLSA-RNSCP--LCRYEL 413 (544)
Q Consensus 365 ~~~~C~ICle~~~-~g~-~v~~LP-CgH~FH~~CI~~WL~~-~~tCP--lCR~~l 413 (544)
.+..||||..+-- ..+ +..+-| |-|..|..|+++-+.. ...|| -|-+-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 4568999997433 222 334446 9999999999999854 55799 786533
No 119
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.15 E-value=3.4 Score=44.86 Aligned_cols=44 Identities=23% Similarity=0.480 Sum_probs=33.2
Q ss_pred CCccccccccCCC--CCceEEcCCCCeeccchhhhhhccCCCCCCC
Q 009095 366 DLVCAICKDLLPS--GTEVIKLPCFHLYHQTCIFPWLSARNSCPLC 409 (544)
Q Consensus 366 ~~~C~ICle~~~~--g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlC 409 (544)
-..|++|.-.+.- |-...+-.|||.||..|...|......|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 4789999876543 4444555599999999999998877777555
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 KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=60.53 E-value=6.6 Score=41.81 Aligned_cols=50 Identities=22% Similarity=0.394 Sum_probs=37.3
Q ss_pred CCccccccccCCCCC-ceEEcCCCCeeccchhhhhhccCCCCCCCcccccC
Q 009095 366 DLVCAICKDLLPSGT-EVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPT 415 (544)
Q Consensus 366 ~~~C~ICle~~~~g~-~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~ 415 (544)
...|+||.+.....+ ...-.||++..|..|+..-...+..||.||++...
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 368999999874322 23334588888899998888889999999965543
No 122
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=57.73 E-value=3.9 Score=41.11 Aligned_cols=88 Identities=24% Similarity=0.379 Sum_probs=54.2
Q ss_pred CChhhHHHHHHHHHhhCC--C---CCCCChhhHHHhhcCCcEeeccccccCCCCccccccccCCCCCceEEcCCCCeecc
Q 009095 319 LDARGFEELLSHLAETDN--S---RRGAPPAAVSSVNSLPRVIVNKEHQKQEDLVCAICKDLLPSGTEVIKLPCFHLYHQ 393 (544)
Q Consensus 319 ld~~~~e~Ll~ql~e~~~--~---~rG~ppas~~~I~~LP~~~~~~~~~~~~~~~C~ICle~~~~g~~v~~LPCgH~FH~ 393 (544)
+-...+++||+.+.+++- . .-++.+.+...++.--...| ...-..|.+|....- ..++.-.|+-.||.
T Consensus 134 L~ks~iE~lLqkf~q~gwf~e~eg~ftl~~ralaELe~YL~s~y-----~dnlk~Cn~Ch~LvI--qg~rCg~c~i~~h~ 206 (235)
T KOG4718|consen 134 LKKSRIEELLQKFIQMGWFMEVEGRFTLGPRALAELEFYLSSNY-----ADNLKNCNLCHCLVI--QGIRCGSCNIQYHR 206 (235)
T ss_pred CCHHHHHHHHHHHHHhchhheecceEEEchHHHHHHHHHHHhhh-----HHHHHHHhHhHHHhh--eeeccCcccchhhh
Confidence 455667788777766532 1 22334444322222111111 123468999998764 33444558889999
Q ss_pred chhhhhhccCCCCCCCcccc
Q 009095 394 TCIFPWLSARNSCPLCRYEL 413 (544)
Q Consensus 394 ~CI~~WL~~~~tCPlCR~~l 413 (544)
.|+...+.+...||.|.--+
T Consensus 207 ~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 207 GCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHHHhcccCcCCchhccc
Confidence 99999999999999995433
No 123
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.64 E-value=4.5 Score=44.57 Aligned_cols=37 Identities=30% Similarity=0.653 Sum_probs=30.4
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhcc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSA 402 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~ 402 (544)
.....|-||.+.+.. ....+.|+|.||..|....|..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 445899999999854 5667789999999999998853
No 124
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=56.81 E-value=8.2 Score=41.05 Aligned_cols=47 Identities=19% Similarity=0.452 Sum_probs=36.9
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccC---CCCCCCc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSAR---NSCPLCR 410 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~---~tCPlCR 410 (544)
..-..|||-.+.-.....+..|.|||+.-..-+...-+.. ..||.|=
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 4457899988888777889999999999888887754332 3599993
No 125
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=55.75 E-value=11 Score=40.25 Aligned_cols=45 Identities=20% Similarity=0.397 Sum_probs=34.3
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCc
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCR 410 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR 410 (544)
...|-.|..+.......+.-.|+|.||..|=.---+.-..||-|.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 456999988887766666667999999999554335555799996
No 126
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.22 E-value=7.3 Score=40.83 Aligned_cols=39 Identities=21% Similarity=0.472 Sum_probs=29.4
Q ss_pred CCCccccccccCCCCCceEEcC--CCCeeccchhhhhhccCC
Q 009095 365 EDLVCAICKDLLPSGTEVIKLP--CFHLYHQTCIFPWLSARN 404 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LP--CgH~FH~~CI~~WL~~~~ 404 (544)
..+.|.+|.|.++. ...++.| =.|.||..|-+.-++.+.
T Consensus 267 apLcCTLC~ERLED-THFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLED-THFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred Cceeehhhhhhhcc-CceeecCCCcccceecccCHHHHHhhc
Confidence 34899999999964 3444555 479999999998886543
No 127
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=54.89 E-value=11 Score=43.56 Aligned_cols=45 Identities=22% Similarity=0.476 Sum_probs=29.4
Q ss_pred CccccccccCCCCCceEEcCCCCeecc--chhhh-hh-cc---CC--CCCCCcccccCCCh
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQ--TCIFP-WL-SA---RN--SCPLCRYELPTDDK 418 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~--~CI~~-WL-~~---~~--tCPlCR~~l~~~~~ 418 (544)
+.|+|+...+ .+||.+..|+ .|.+. |+ .. +. .||+|.+.......
T Consensus 307 L~CPl~~~Rm-------~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l 360 (636)
T KOG2169|consen 307 LNCPLSKMRM-------SLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGL 360 (636)
T ss_pred ecCCccccee-------ecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccch
Confidence 6788887766 6666666665 57654 43 22 12 49999888766553
No 128
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.80 E-value=6.8 Score=45.94 Aligned_cols=46 Identities=22% Similarity=0.486 Sum_probs=33.1
Q ss_pred CCccccccccCCC-C---CceEEcCCCCeeccchhhhhhccCCCCCCCccc
Q 009095 366 DLVCAICKDLLPS-G---TEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYE 412 (544)
Q Consensus 366 ~~~C~ICle~~~~-g---~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~ 412 (544)
+..|.-|.+.... + ..++.+-|+|.||..|+..-..+++ |-.|-..
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~~ 833 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESGK 833 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhce
Confidence 3589999987643 2 3567888999999999987664444 7666443
No 129
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=53.21 E-value=11 Score=37.39 Aligned_cols=41 Identities=27% Similarity=0.860 Sum_probs=28.1
Q ss_pred CCCccccccc-----cCCCCCceEEcC-CCCeeccchhhhhhccCCCCCCCcc
Q 009095 365 EDLVCAICKD-----LLPSGTEVIKLP-CFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 365 ~~~~C~ICle-----~~~~g~~v~~LP-CgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
.+..|-||-. .|.. +.+..-+ |+-.||..|..+ ..||.|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 4578999975 2222 2344444 999999999762 67999943
No 130
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.12 E-value=4.6 Score=31.70 Aligned_cols=21 Identities=14% Similarity=0.284 Sum_probs=16.0
Q ss_pred CCCCcceeccccccccCCCCc
Q 009095 9 HSSQLASCTLCRRTLVPDNES 29 (544)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~ 29 (544)
..-|+-.|.+|+|||+--..-
T Consensus 8 a~lp~KICpvCqRPFsWRkKW 28 (54)
T COG4338 8 ATLPDKICPVCQRPFSWRKKW 28 (54)
T ss_pred cccchhhhhhhcCchHHHHHH
Confidence 456788999999999854433
No 131
>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=53.01 E-value=14 Score=25.54 Aligned_cols=38 Identities=26% Similarity=0.526 Sum_probs=24.8
Q ss_pred ccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCccccc
Q 009095 368 VCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
.|..|.+.+...... ...=+..||..|. .|..|...|.
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccCC--------CCcccCCcCc
Confidence 378888887654222 2224678888874 6888877653
No 132
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=50.17 E-value=9.5 Score=44.05 Aligned_cols=44 Identities=30% Similarity=0.459 Sum_probs=30.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhhhhh-hhhcchh
Q 009095 194 PPEYGSIFDSDSDIDPMHAGGHQQWNSDDPEEEEEEEE-EEEDGEW 238 (544)
Q Consensus 194 ~~~~~~~~~sD~d~dp~~~~~~~~~~sdDeE~~e~~~~-~e~d~e~ 238 (544)
-....|++|||.+-+.-.+| .+-..+||+|+++.+++ +++|++|
T Consensus 514 ~~llDYEVdSDeEWEEEepG-ESlS~sEddedd~~eEd~edEdDgf 558 (811)
T KOG4364|consen 514 DPLLDYEVDSDEEWEEEEPG-ESLSDSEDDEDDSLEEDCEDEDDGF 558 (811)
T ss_pred cccccccccCcccccccCCC-ccccccccccccccccccccccCCe
Confidence 34568999999887777777 77777777766654443 3444455
No 133
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 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 ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=48.94 E-value=6.3 Score=29.46 Aligned_cols=31 Identities=16% Similarity=0.487 Sum_probs=21.6
Q ss_pred ceeccccccccCCCCccccccccccccccce
Q 009095 14 ASCTLCRRTLVPDNESVDDHENMHLCGDCKF 44 (544)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 44 (544)
..|+.|+|+-....-+...-....||.+|-.
T Consensus 2 ~~CSFCgr~~~~v~~li~g~~~~~IC~~Cv~ 32 (41)
T PF06689_consen 2 KRCSFCGRPESEVGRLISGPNGAYICDECVE 32 (41)
T ss_dssp -B-TTT--BTTTSSSEEEES-SEEEEHHHHH
T ss_pred CCccCCCCCHHHHhceecCCCCcEECHHHHH
Confidence 3699999999988887766656899999964
No 134
>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=48.46 E-value=13 Score=33.58 Aligned_cols=33 Identities=18% Similarity=0.326 Sum_probs=23.5
Q ss_pred CcceeccccccccCCCCccccccccccccccceeEeecC
Q 009095 12 QLASCTLCRRTLVPDNESVDDHENMHLCGDCKFLFLEDV 50 (544)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 50 (544)
....|.+|+++|.+-.. ..++|.+||.-|-..=
T Consensus 53 ~~~~C~~C~~~fg~l~~------~~~~C~~C~~~VC~~C 85 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFN------RGRVCVDCKHRVCKKC 85 (118)
T ss_dssp CCSB-TTTS-BCSCTST------TCEEETTTTEEEETTS
T ss_pred CCcchhhhCCcccccCC------CCCcCCcCCccccCcc
Confidence 56789999999976544 2489999999886543
No 135
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=45.94 E-value=8 Score=40.19 Aligned_cols=47 Identities=28% Similarity=0.565 Sum_probs=32.4
Q ss_pred CccccccccCC-CCCceEEcC---CCCeeccchhhhhh-c--------cCCCCCCCcccc
Q 009095 367 LVCAICKDLLP-SGTEVIKLP---CFHLYHQTCIFPWL-S--------ARNSCPLCRYEL 413 (544)
Q Consensus 367 ~~C~ICle~~~-~g~~v~~LP---CgH~FH~~CI~~WL-~--------~~~tCPlCR~~l 413 (544)
.+|-+|.+++. .+.....-| |.-.+|..|+..-+ . ....||.|++.+
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 58999999984 333222222 88899999998844 2 123699998854
No 136
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=45.14 E-value=4.8 Score=39.15 Aligned_cols=36 Identities=25% Similarity=0.687 Sum_probs=24.6
Q ss_pred CCCCcceeccccccccCCCCcc-------------cccc----ccccccccce
Q 009095 9 HSSQLASCTLCRRTLVPDNESV-------------DDHE----NMHLCGDCKF 44 (544)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~-------------~~~~----~~~~~~~~~~ 44 (544)
.....+.|..|+++|.+-.++. +++| -+.+|.|||-
T Consensus 110 ~~~~~~~C~~Cg~~f~~~k~i~~~~~~l~~~~~~~~~~~~~~~~~~~Cp~Cr~ 162 (181)
T PRK08222 110 ATFHLQRCSRCERPFAPQKTVALAAELLAQQQNAPQNREMLRAQASVCPECKQ 162 (181)
T ss_pred cccccCcCcccCCccCcHhHHHHHHHHhhhccCcHhhHHHHHHHhccCHHHHh
Confidence 3456888999999998543321 1233 2679999984
No 137
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=44.81 E-value=11 Score=30.14 Aligned_cols=26 Identities=15% Similarity=0.618 Sum_probs=21.2
Q ss_pred cceeccccccccCCCCcccccccccccccccee
Q 009095 13 LASCTLCRRTLVPDNESVDDHENMHLCGDCKFL 45 (544)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (544)
-..|.+|+++|.+..+ +-+|.+|+..
T Consensus 5 ~~~C~~Cg~~~~~~dD-------iVvCp~Cgap 30 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDD-------IVVCPECGAP 30 (54)
T ss_pred CccChhhCCcccCCCC-------EEECCCCCCc
Confidence 4679999999997766 4689999864
No 138
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=44.09 E-value=7.2 Score=26.12 Aligned_cols=16 Identities=38% Similarity=1.005 Sum_probs=12.9
Q ss_pred CcceeccccccccCCC
Q 009095 12 QLASCTLCRRTLVPDN 27 (544)
Q Consensus 12 ~~~~~~~~~~~~~~~~ 27 (544)
+.+.|..|+|.|.+|.
T Consensus 1 ~l~~C~~CgR~F~~~~ 16 (25)
T PF13913_consen 1 ELVPCPICGRKFNPDR 16 (25)
T ss_pred CCCcCCCCCCEECHHH
Confidence 3578999999998764
No 139
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=43.97 E-value=9.7 Score=29.02 Aligned_cols=17 Identities=18% Similarity=0.385 Sum_probs=13.4
Q ss_pred CCcceeccccccccCCC
Q 009095 11 SQLASCTLCRRTLVPDN 27 (544)
Q Consensus 11 ~~~~~~~~~~~~~~~~~ 27 (544)
-|.-.|.+|+|||+--.
T Consensus 6 lp~K~C~~C~rpf~WRK 22 (42)
T PF10013_consen 6 LPSKICPVCGRPFTWRK 22 (42)
T ss_pred CCCCcCcccCCcchHHH
Confidence 46678999999998543
No 140
>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=43.43 E-value=4.8 Score=41.68 Aligned_cols=45 Identities=20% Similarity=0.293 Sum_probs=20.3
Q ss_pred CccccccccCCCCCceEEc---CCCCeeccchhhhhhccCCCCCCCccc
Q 009095 367 LVCAICKDLLPSGTEVIKL---PCFHLYHQTCIFPWLSARNSCPLCRYE 412 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~L---PCgH~FH~~CI~~WL~~~~tCPlCR~~ 412 (544)
..||||-..-..+. ++.- --.|.+|.-|-..|--....||.|-..
T Consensus 173 g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 173 GYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 68999987532110 0000 024678888999998888899999653
No 141
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=43.39 E-value=11 Score=27.55 Aligned_cols=33 Identities=15% Similarity=0.478 Sum_probs=27.9
Q ss_pred ceeccccccccCCCCccccccccccccccceeE
Q 009095 14 ASCTLCRRTLVPDNESVDDHENMHLCGDCKFLF 46 (544)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (544)
.+|.-|+..|.++++-...--...-|..|+..+
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 579999999999998666667788999999776
No 142
>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=43.20 E-value=4.5 Score=34.00 Aligned_cols=40 Identities=23% Similarity=0.403 Sum_probs=22.5
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCccccc
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
..||+|..++... =+|.+|..|-... .....||-|..+|.
T Consensus 2 ~~CP~C~~~L~~~-------~~~~~C~~C~~~~-~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ-------GGHYHCEACQKDY-KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE-------TTEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe-------CCEEECccccccc-eecccCCCcccHHH
Confidence 5799999887322 1778888887653 44567999988774
No 143
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.17 E-value=33 Score=35.64 Aligned_cols=51 Identities=12% Similarity=0.278 Sum_probs=35.4
Q ss_pred CCCccccccccCCCCCce-EEcCCCCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 365 EDLVCAICKDLLPSGTEV-IKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v-~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
....|+|---+|...... ...+|||+|-..-+.+. ...+|++|.+.+...+
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 457899977776433333 34469999988776653 2567999998876655
No 144
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=43.09 E-value=1.8e+02 Score=36.29 Aligned_cols=44 Identities=27% Similarity=0.505 Sum_probs=27.3
Q ss_pred CCCCccccccccCCCCCceEEcCCCCeeccchhhhhhccCC----CCCCCc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARN----SCPLCR 410 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~----tCPlCR 410 (544)
.-+..|-+|-+.- ..+..-.|.-++|.+|+..=...+. .|-+|+
T Consensus 342 ~~ddhcrf~~d~~---~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~ 389 (1414)
T KOG1473|consen 342 EYDDHCRFCHDLG---DLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCN 389 (1414)
T ss_pred eecccccccCccc---ceeecccCCceEEeeecCCccccCCCccchhhhhh
Confidence 3356788887764 3333334888888888876543332 477776
No 145
>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=42.84 E-value=18 Score=27.23 Aligned_cols=44 Identities=30% Similarity=0.577 Sum_probs=28.5
Q ss_pred ccccccccCCCCCceEEcCCCCeeccchhhhhhc------cCCCCCCCcc
Q 009095 368 VCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS------ARNSCPLCRY 411 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~------~~~tCPlCR~ 411 (544)
.|.||......+..+.--.|+..||..|+..=.. ..-.||.|+.
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 4889998443333333335999999999976543 1235887753
No 146
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=42.33 E-value=15 Score=37.49 Aligned_cols=18 Identities=44% Similarity=0.617 Sum_probs=12.3
Q ss_pred CCCCChhhHHHHHHHHHh
Q 009095 316 GDYLDARGFEELLSHLAE 333 (544)
Q Consensus 316 gDyld~~~~e~Ll~ql~e 333 (544)
|+|+--.+-+.|++.|..
T Consensus 207 G~Yl~ve~~eGllqyL~~ 224 (296)
T COG5242 207 GDYLTVEDTEGLLQYLLS 224 (296)
T ss_pred CeeEeecCchhHHHHHHH
Confidence 889866666666666654
No 147
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=42.16 E-value=12 Score=30.36 Aligned_cols=25 Identities=28% Similarity=0.784 Sum_probs=19.9
Q ss_pred ccccccccCCCCcccccccccccccccee
Q 009095 17 TLCRRTLVPDNESVDDHENMHLCGDCKFL 45 (544)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (544)
.||++.|.|--. -..+-+|.+||-+
T Consensus 29 ALCGk~wvp~rd----p~~~PVCP~Ck~i 53 (58)
T PF11238_consen 29 ALCGKVWVPTRD----PKPFPVCPECKEI 53 (58)
T ss_pred eeeCceeCCCCC----CCCCCCCcCHHHH
Confidence 699999998554 4459999999954
No 148
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.59 E-value=9.5 Score=31.40 Aligned_cols=31 Identities=23% Similarity=0.559 Sum_probs=24.9
Q ss_pred cceeccccccccCCCCccccccc---------cccccccceeE
Q 009095 13 LASCTLCRRTLVPDNESVDDHEN---------MHLCGDCKFLF 46 (544)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~ 46 (544)
-++|.+|.|.-.+|+. +|++ .-+|.+|+--|
T Consensus 2 ~vkCiiCd~v~~iD~r---t~~tKrLrN~PIrtymC~eC~~Rv 41 (68)
T COG4896 2 NVKCIICDRVDEIDNR---TFKTKRLRNKPIRTYMCPECEHRV 41 (68)
T ss_pred CceEEEecceeeecch---hHHHHHhhCCCceeEechhhHhhh
Confidence 3789999999999998 6665 35799998543
No 149
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=39.96 E-value=38 Score=32.39 Aligned_cols=110 Identities=12% Similarity=0.265 Sum_probs=52.8
Q ss_pred eeccccccccCC-CCccccccccccccccceeEeecCCCCCcC-c---CCCCCCCCCccccCCchhhhhhhhhhhHHHHH
Q 009095 15 SCTLCRRTLVPD-NESVDDHENMHLCGDCKFLFLEDVGTPTHD-S---HRRLPPRGRRTRYSSSESVENIFSHQFSHMIN 89 (544)
Q Consensus 15 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (544)
+|-+|++++.-- --|.=+=.-|-+|.+|. .+|..... + ..+..+..++.|..-++ ...-+-+.|...|.
T Consensus 2 ~CEiCG~~i~~~~~~v~iega~l~vC~~C~-----k~G~~~~~~~~~~~~~~~~~~~~~~~~~~d-~~~~l~~~~g~~Ir 75 (154)
T TIGR00270 2 NCEICGRKIKGKGFKIVIEGSEMTVCGECR-----KFGKEIIKKPTVASQKGARKPVKRKRRKID-TTEELVEDYGIIIR 75 (154)
T ss_pred ccccCCCccCCCCeEEEEcCeEEehhhhHH-----hcCCccccCCCCCCcccCCCCCCCCCCccc-hHHHHHHHHHHHHH
Confidence 599999988643 11222223488999998 33552111 1 00111111111112233 34456667899999
Q ss_pred HhhhcCCccCCccccccCCCCCccccccCCCCCCCCCccccc
Q 009095 90 FALENQPIISGHEDQSIDGDASARLFQPSGSRTSPSDSRRWR 131 (544)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 (544)
-+|...-.-|..=-+.+.+. .+.+-+.-+-...|+-...++
T Consensus 76 ~~Re~~glSqeeLA~~lgvs-~s~IsriE~G~~~Ps~~~l~k 116 (154)
T TIGR00270 76 REREKRGWSQEQLAKKIQEK-ESLIKKIENAEIEPEPKVVEK 116 (154)
T ss_pred HHHHHcCCCHHHHHHHhCCC-HHHHHHHHCCCCCCCHHHHHH
Confidence 99885444332222223332 222233334445566555554
No 150
>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=39.70 E-value=8.2 Score=30.12 Aligned_cols=16 Identities=31% Similarity=0.715 Sum_probs=8.8
Q ss_pred cceeccccccccCCCC
Q 009095 13 LASCTLCRRTLVPDNE 28 (544)
Q Consensus 13 ~~~~~~~~~~~~~~~~ 28 (544)
...|.||+|+|+.+..
T Consensus 20 ~~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 20 KGCCPLCGRPLDEEHR 35 (54)
T ss_dssp SEE-TTT--EE-HHHH
T ss_pred CCcCCCCCCCCCHHHH
Confidence 3489999999987643
No 151
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=39.62 E-value=12 Score=39.22 Aligned_cols=57 Identities=21% Similarity=0.314 Sum_probs=30.7
Q ss_pred CCCCChhhHHHHHHHHHhhCCCCCCCChhhHHHhhcCCcEee-------ccccccCCCCccccccccC
Q 009095 316 GDYLDARGFEELLSHLAETDNSRRGAPPAAVSSVNSLPRVIV-------NKEHQKQEDLVCAICKDLL 376 (544)
Q Consensus 316 gDyld~~~~e~Ll~ql~e~~~~~rG~ppas~~~I~~LP~~~~-------~~~~~~~~~~~C~ICle~~ 376 (544)
|+|+-....+-||+.|.-. -.+.|..+..+.+.+...+ -......-+..|+||+..|
T Consensus 220 G~YL~v~~~~gLLqyLlt~----~~~D~~~R~~l~kpnh~~VDfRAtC~CH~~lv~iG~VCSVCLSVf 283 (314)
T KOG2487|consen 220 GDYLHVEKPDGLLQYLLTL----LLTDPELRAVLSKPNHNSVDFRATCYCHNRLVLIGFVCSVCLSVF 283 (314)
T ss_pred CeeEecCCcchHHHHHHHH----hcCCcchhhhccCCCCCCcCcceeeeeecceeeeeeehHHHHHHh
Confidence 8898777777777777643 1122222222333332222 1222333458899998887
No 152
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.58 E-value=13 Score=39.40 Aligned_cols=48 Identities=27% Similarity=0.648 Sum_probs=37.3
Q ss_pred CCCCccccccccCCCCCceEEcC-CCCeeccchhhhhhccCCCCCCCccccc
Q 009095 364 QEDLVCAICKDLLPSGTEVIKLP-CFHLYHQTCIFPWLSARNSCPLCRYELP 414 (544)
Q Consensus 364 ~~~~~C~ICle~~~~g~~v~~LP-CgH~FH~~CI~~WL~~~~tCPlCR~~l~ 414 (544)
.....|-||...+... .... |.|.|+..|...|.+..+.||.|+....
T Consensus 103 ~~~~~~~~~~g~l~vp---t~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVP---TRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEec---ccccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 4456899998877332 2222 9999999999999999999999986553
No 153
>PRK12387 formate hydrogenlyase complex iron-sulfur subunit; Provisional
Probab=38.35 E-value=5.1 Score=38.67 Aligned_cols=37 Identities=24% Similarity=0.587 Sum_probs=25.2
Q ss_pred cCCCCcceeccccccccCCCCcc---------------ccccccccccccce
Q 009095 8 DHSSQLASCTLCRRTLVPDNESV---------------DDHENMHLCGDCKF 44 (544)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~ 44 (544)
........|..|+++|.+-..+. .-.+-+.+|.+||-
T Consensus 109 ~~~~~~~~C~~CG~~f~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~C~~Cr~ 160 (180)
T PRK12387 109 QSEFALCNCRVCGRPFAVQKEIDYAIALLKHNGDSRAENHRESFETCPECKR 160 (180)
T ss_pred hceeCcccchhhCCccccHHHHHHHHHHHhhccchhHHHHHHHHhhCHHHhc
Confidence 34567789999999997544221 01235678999997
No 154
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.76 E-value=16 Score=37.66 Aligned_cols=33 Identities=12% Similarity=0.209 Sum_probs=28.3
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhc
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS 401 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~ 401 (544)
-..|+.||..+ ..+++.|=||+|+++||..++.
T Consensus 43 FdcCsLtLqPc---~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 43 FDCCSLTLQPC---RDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred cceeeeecccc---cCCccCCCCeeeeHHHHHHHHH
Confidence 35799999998 6677889999999999999864
No 155
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=36.72 E-value=53 Score=34.40 Aligned_cols=11 Identities=18% Similarity=0.637 Sum_probs=7.7
Q ss_pred CCCCCCCcccc
Q 009095 403 RNSCPLCRYEL 413 (544)
Q Consensus 403 ~~tCPlCR~~l 413 (544)
...||+|+..+
T Consensus 269 p~~C~~Cgt~f 279 (279)
T TIGR00627 269 TPICKTCKTAF 279 (279)
T ss_pred CCCCCCCCCCC
Confidence 35799997653
No 156
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=34.67 E-value=31 Score=26.28 Aligned_cols=40 Identities=25% Similarity=0.503 Sum_probs=27.7
Q ss_pred cccccccCCCCCceEEcCCCCeeccchhhhhhccCCCCCCCcccccCCC
Q 009095 369 CAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTDD 417 (544)
Q Consensus 369 C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 417 (544)
|..|...+.....+ ...-+..||..|. +|-.|++.|....
T Consensus 1 C~~C~~~I~~~~~~-~~~~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIV-IKAMGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEE-EEETTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEE-EEeCCcEEEcccc--------ccCCCCCccCCCe
Confidence 67788877643322 2246888998885 6899988886654
No 157
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.71 E-value=17 Score=34.36 Aligned_cols=50 Identities=22% Similarity=0.396 Sum_probs=29.5
Q ss_pred CCCCccccccc-cCCCCCceEEcCCCCeeccchhhhhhcc-CC---CCCCCcccc
Q 009095 364 QEDLVCAICKD-LLPSGTEVIKLPCFHLYHQTCIFPWLSA-RN---SCPLCRYEL 413 (544)
Q Consensus 364 ~~~~~C~ICle-~~~~g~~v~~LPCgH~FH~~CI~~WL~~-~~---tCPlCR~~l 413 (544)
..+..|.||+. .|..|-.-...-|.-.||..|--+--.+ ++ .|-+|++..
T Consensus 63 ~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred CcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 44689999987 4444433333335555677776554322 33 488887643
No 158
>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=33.68 E-value=23 Score=28.44 Aligned_cols=36 Identities=14% Similarity=0.230 Sum_probs=18.2
Q ss_pred CCccccccccCCCCCceEEc-CCCCeeccchhhhhhc
Q 009095 366 DLVCAICKDLLPSGTEVIKL-PCFHLYHQTCIFPWLS 401 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~L-PCgH~FH~~CI~~WL~ 401 (544)
...|.+|...|..-..-..- .||++||..|......
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 46899999999543322222 3999999999876653
No 159
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=33.60 E-value=16 Score=26.19 Aligned_cols=33 Identities=15% Similarity=0.531 Sum_probs=24.5
Q ss_pred ceeccccccccCCCCccccccccccccccceeE
Q 009095 14 ASCTLCRRTLVPDNESVDDHENMHLCGDCKFLF 46 (544)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (544)
+.|.-|+..|..+.+....-.....|+.|+..|
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEE
Confidence 579999999999987433333346899998766
No 160
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=33.44 E-value=44 Score=27.10 Aligned_cols=47 Identities=26% Similarity=0.454 Sum_probs=32.2
Q ss_pred ccccccccCCCCC-ceEEcCCCCeeccchhhhhhccCCCCCCCcccccCC
Q 009095 368 VCAICKDLLPSGT-EVIKLPCFHLYHQTCIFPWLSARNSCPLCRYELPTD 416 (544)
Q Consensus 368 ~C~ICle~~~~g~-~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~ 416 (544)
.|-.|-..+.... ...+-.=...||..|....| +..||.|...+...
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 5667777776544 33332223579999999877 67899998877543
No 161
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.65 E-value=7.2 Score=40.12 Aligned_cols=47 Identities=23% Similarity=0.540 Sum_probs=37.1
Q ss_pred CCccccccccCCC---CCceEEcC--------CCCeeccchhhhhhccC-CCCCCCccc
Q 009095 366 DLVCAICKDLLPS---GTEVIKLP--------CFHLYHQTCIFPWLSAR-NSCPLCRYE 412 (544)
Q Consensus 366 ~~~C~ICle~~~~---g~~v~~LP--------CgH~FH~~CI~~WL~~~-~tCPlCR~~ 412 (544)
...|.||...|.. ...++.+. |+|..|..|+..-+... ..||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 3679999998873 23456677 99999999999988544 579999874
No 162
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=31.46 E-value=21 Score=39.63 Aligned_cols=6 Identities=17% Similarity=0.573 Sum_probs=2.7
Q ss_pred cchhhh
Q 009095 393 QTCIFP 398 (544)
Q Consensus 393 ~~CI~~ 398 (544)
..||..
T Consensus 211 ~Scle~ 216 (458)
T PF10446_consen 211 ISCLEA 216 (458)
T ss_pred HHHHHH
Confidence 345543
No 163
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=30.53 E-value=31 Score=27.31 Aligned_cols=42 Identities=24% Similarity=0.604 Sum_probs=19.8
Q ss_pred cccccccCCCCC------ceEEcC-CCCeeccchhhhhhccCCCCCCCc
Q 009095 369 CAICKDLLPSGT------EVIKLP-CFHLYHQTCIFPWLSARNSCPLCR 410 (544)
Q Consensus 369 C~ICle~~~~g~------~v~~LP-CgH~FH~~CI~~WL~~~~tCPlCR 410 (544)
|--|+..|..+. ..-.-| |++.||.+|=.--=+.-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 445666664431 122334 999999999443334455799984
No 164
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=30.43 E-value=41 Score=36.00 Aligned_cols=54 Identities=26% Similarity=0.626 Sum_probs=34.4
Q ss_pred CCCCccccccccCC-----CCCc-----------eEEcCCCCeeccchhhhhhcc---------CCCCCCCcccccCCC
Q 009095 364 QEDLVCAICKDLLP-----SGTE-----------VIKLPCFHLYHQTCIFPWLSA---------RNSCPLCRYELPTDD 417 (544)
Q Consensus 364 ~~~~~C~ICle~~~-----~g~~-----------v~~LPCgH~FH~~CI~~WL~~---------~~tCPlCR~~l~~~~ 417 (544)
..+.+|++|+..-. -|.+ ...-||||.--..-..-|-+. +..||.|-..+....
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~ 417 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQ 417 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCC
Confidence 34679999987421 1111 134579998777777777642 336999988776543
No 165
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=30.24 E-value=23 Score=41.30 Aligned_cols=49 Identities=24% Similarity=0.477 Sum_probs=31.5
Q ss_pred CCCccccccccCCCCCc--e-----EEcCCCCeeccchhhhh--h--------ccCCCCCCCcccc
Q 009095 365 EDLVCAICKDLLPSGTE--V-----IKLPCFHLYHQTCIFPW--L--------SARNSCPLCRYEL 413 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~--v-----~~LPCgH~FH~~CI~~W--L--------~~~~tCPlCR~~l 413 (544)
-...|.||-|+=.+.+. - -+-.|+..||..|...- | ..-+.|-+|+..+
T Consensus 116 fnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 116 FNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred hcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHH
Confidence 34689999998443221 1 12238889999998642 2 2234699998765
No 166
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=29.83 E-value=32 Score=27.49 Aligned_cols=30 Identities=17% Similarity=0.525 Sum_probs=23.8
Q ss_pred ceeccccccccCCCCccccccccccccccceeE
Q 009095 14 ASCTLCRRTLVPDNESVDDHENMHLCGDCKFLF 46 (544)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (544)
+.|.+|+..+.+.+.+. -.+-.|.+|.+.|
T Consensus 3 ~~CP~CG~~iev~~~~~---GeiV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPEL---GELVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCcc---CCEEeCCCCCCEE
Confidence 57999999999977643 4466999998764
No 167
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=29.18 E-value=26 Score=25.49 Aligned_cols=33 Identities=21% Similarity=0.562 Sum_probs=27.1
Q ss_pred ceeccccccccCCCCccccccccccccccceeE
Q 009095 14 ASCTLCRRTLVPDNESVDDHENMHLCGDCKFLF 46 (544)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (544)
..|.-|...|..|++....--...-|.-|+-++
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 579999999999999777667778899998664
No 168
>PLN02189 cellulose synthase
Probab=28.93 E-value=47 Score=40.65 Aligned_cols=49 Identities=22% Similarity=0.444 Sum_probs=34.7
Q ss_pred CCccccccccCCC---CCceEEcC-CCCeeccchhhhh-hccCCCCCCCccccc
Q 009095 366 DLVCAICKDLLPS---GTEVIKLP-CFHLYHQTCIFPW-LSARNSCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~~---g~~v~~LP-CgH~FH~~CI~~W-L~~~~tCPlCR~~l~ 414 (544)
...|.||-+++.. |+.-+... |+--.|+.|..-= -..++.||-|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4689999998743 34334444 8888999998432 245678999998775
No 169
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=28.66 E-value=43 Score=39.48 Aligned_cols=23 Identities=43% Similarity=0.673 Sum_probs=17.4
Q ss_pred CCCeeccchhhhhhccCCCCCCCcccc
Q 009095 387 CFHLYHQTCIFPWLSARNSCPLCRYEL 413 (544)
Q Consensus 387 CgH~FH~~CI~~WL~~~~tCPlCR~~l 413 (544)
|+|.-|.+=|.+ .++||+|...+
T Consensus 1162 CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1162 CKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cccccccccccc----cccCccccChh
Confidence 888888776644 57899997654
No 170
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=26.85 E-value=25 Score=25.22 Aligned_cols=30 Identities=20% Similarity=0.381 Sum_probs=23.5
Q ss_pred cceeccccccccCCCCccccccccccccccce
Q 009095 13 LASCTLCRRTLVPDNESVDDHENMHLCGDCKF 44 (544)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 44 (544)
..+|..|++.|.....+.+ .....|..|..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~--~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISD--DPLATCPECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEecCC--CCCCCCCCCCC
Confidence 3589999999987766544 67788999976
No 171
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.45 E-value=30 Score=38.20 Aligned_cols=37 Identities=16% Similarity=0.306 Sum_probs=26.4
Q ss_pred CccccccccCCCCCc-----eEEcCCCCeeccchhhhhhccC
Q 009095 367 LVCAICKDLLPSGTE-----VIKLPCFHLYHQTCIFPWLSAR 403 (544)
Q Consensus 367 ~~C~ICle~~~~g~~-----v~~LPCgH~FH~~CI~~WL~~~ 403 (544)
..||.|......... ....+|+|.||..|+..|-...
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred ccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 459999988765331 1222599999999998887543
No 172
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=26.31 E-value=25 Score=27.33 Aligned_cols=37 Identities=24% Similarity=0.547 Sum_probs=20.4
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhc--cCCCCCCCccc
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLS--ARNSCPLCRYE 412 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~--~~~tCPlCR~~ 412 (544)
...||.|.+.|... .| +.| |...-.. ....||+|...
T Consensus 2 ~f~CP~C~~~~~~~----~L-~~H-----~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----SL-VEH-----CEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCHH----HH-HHH-----HHhHCcCCCCCccCCCchhh
Confidence 36899999965321 12 333 3333322 23469999763
No 173
>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=26.16 E-value=29 Score=36.76 Aligned_cols=44 Identities=20% Similarity=0.362 Sum_probs=28.3
Q ss_pred CccccccccCCCCCceEEc--C--CCCeeccchhhhhhccCCCCCCCcc
Q 009095 367 LVCAICKDLLPSGTEVIKL--P--CFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~L--P--CgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
..||||-..-..+. ++.. . =.|.+|.-|-..|--.+..||.|-.
T Consensus 185 ~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 185 TLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 48999987532110 0000 0 1255677788999888889999975
No 174
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=25.97 E-value=58 Score=40.04 Aligned_cols=49 Identities=24% Similarity=0.534 Sum_probs=33.9
Q ss_pred CCccccccccCCC---CCceEEc-CCCCeeccchhh-hhhccCCCCCCCccccc
Q 009095 366 DLVCAICKDLLPS---GTEVIKL-PCFHLYHQTCIF-PWLSARNSCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~~---g~~v~~L-PCgH~FH~~CI~-~WL~~~~tCPlCR~~l~ 414 (544)
...|.||-+++.. |+.-+.. -|+--.|+.|.. +.-+.++.||-|+....
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4699999998743 3322332 377789999984 23355678999998765
No 175
>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=25.87 E-value=23 Score=38.86 Aligned_cols=33 Identities=27% Similarity=0.544 Sum_probs=0.0
Q ss_pred CCCCceEEcCCCCeeccchhhhhhc------cCCCCCCCccc
Q 009095 377 PSGTEVIKLPCFHLYHQTCIFPWLS------ARNSCPLCRYE 412 (544)
Q Consensus 377 ~~g~~v~~LPCgH~FH~~CI~~WL~------~~~tCPlCR~~ 412 (544)
...+..+.|.|||++..+ .|-. ...+||+||..
T Consensus 299 ~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 299 DERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ------------------------------------------
T ss_pred cccCceeeccccceeeec---ccccccccccccccCCCcccc
No 176
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=25.61 E-value=44 Score=39.59 Aligned_cols=16 Identities=13% Similarity=0.144 Sum_probs=12.1
Q ss_pred hhhhhhhHHHHHHhhh
Q 009095 78 NIFSHQFSHMINFALE 93 (544)
Q Consensus 78 ~~~~~~~~~~~~~~~~ 93 (544)
+..-++|-|.++-+-|
T Consensus 720 ~~ln~~FksF~~kv~~ 735 (960)
T KOG1189|consen 720 AKLNMAFKSFAEKVAE 735 (960)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4677888888887755
No 177
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=25.51 E-value=40 Score=35.17 Aligned_cols=11 Identities=45% Similarity=1.026 Sum_probs=6.1
Q ss_pred ccccceeEeec
Q 009095 39 CGDCKFLFLED 49 (544)
Q Consensus 39 ~~~~~~~~~~~ 49 (544)
|.-||..+-+|
T Consensus 185 CLRCK~cfCdd 195 (314)
T PF06524_consen 185 CLRCKICFCDD 195 (314)
T ss_pred hhheeeeehhh
Confidence 45566665554
No 178
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=25.39 E-value=40 Score=35.89 Aligned_cols=44 Identities=23% Similarity=0.514 Sum_probs=29.5
Q ss_pred CCccccccccCCCCCceEEc--C--CCCeeccchhhhhhccCCCCCCCcc
Q 009095 366 DLVCAICKDLLPSGTEVIKL--P--CFHLYHQTCIFPWLSARNSCPLCRY 411 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~L--P--CgH~FH~~CI~~WL~~~~tCPlCR~ 411 (544)
...||||-..-... ++.+ . =.|.+|.-|-..|--.+..||.|-.
T Consensus 187 ~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 47899998753211 1111 1 1356777899999888889999974
No 179
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.29 E-value=40 Score=39.34 Aligned_cols=46 Identities=35% Similarity=0.564 Sum_probs=33.5
Q ss_pred ccccccccCCCCCceEEcCCCC-eeccchhhhhh--cc----CCCCCCCcccccCC
Q 009095 368 VCAICKDLLPSGTEVIKLPCFH-LYHQTCIFPWL--SA----RNSCPLCRYELPTD 416 (544)
Q Consensus 368 ~C~ICle~~~~g~~v~~LPCgH-~FH~~CI~~WL--~~----~~tCPlCR~~l~~~ 416 (544)
.|+||-..+ +.+..-.|+| ..|..|..+.. .. .+.||+||..+...
T Consensus 2 ~c~ic~~s~---~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSP---DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCc---cccccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 599998876 4444555999 89999988765 23 44689999876543
No 180
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=25.26 E-value=54 Score=28.70 Aligned_cols=31 Identities=29% Similarity=0.544 Sum_probs=22.2
Q ss_pred CCccccccccCCCCCceEEcC--CCCeeccchhhh
Q 009095 366 DLVCAICKDLLPSGTEVIKLP--CFHLYHQTCIFP 398 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LP--CgH~FH~~CI~~ 398 (544)
...|.||.... |-.+.--. |...||..|...
T Consensus 55 ~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKSG--GACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHH
Confidence 47999999973 33333333 888999999865
No 181
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=25.18 E-value=28 Score=43.99 Aligned_cols=49 Identities=27% Similarity=0.598 Sum_probs=37.0
Q ss_pred CCccccccccCCCCCceEEcCCCCeeccchhhhhhccCC----CCCCCccccc
Q 009095 366 DLVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSARN----SCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~~l~ 414 (544)
...|.||.........+...-|.-.||..|+++-+.... .||-|+..-.
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 478999999875544444455889999999998875433 6999987663
No 182
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=24.97 E-value=42 Score=25.99 Aligned_cols=20 Identities=20% Similarity=0.599 Sum_probs=15.4
Q ss_pred CceEEc-CCCCeeccchhhhh
Q 009095 380 TEVIKL-PCFHLYHQTCIFPW 399 (544)
Q Consensus 380 ~~v~~L-PCgH~FH~~CI~~W 399 (544)
...+.- .|+|.||..|...|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 334455 49999999999998
No 183
>PRK11827 hypothetical protein; Provisional
Probab=23.98 E-value=44 Score=27.34 Aligned_cols=29 Identities=21% Similarity=0.503 Sum_probs=22.4
Q ss_pred cceeccccccccCCCCccccccccccccccceeE
Q 009095 13 LASCTLCRRTLVPDNESVDDHENMHLCGDCKFLF 46 (544)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (544)
-.+|.+|..+|..|.+- ..-+|..|+..+
T Consensus 8 ILaCP~ckg~L~~~~~~-----~~Lic~~~~laY 36 (60)
T PRK11827 8 IIACPVCNGKLWYNQEK-----QELICKLDNLAF 36 (60)
T ss_pred heECCCCCCcCeEcCCC-----CeEECCccCeec
Confidence 35899999999998652 346799998754
No 184
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.78 E-value=1e+02 Score=28.27 Aligned_cols=44 Identities=18% Similarity=0.421 Sum_probs=32.3
Q ss_pred CccccccccCCCCC-----------ceEEcCCCCeeccchhhhhhccCCCCCCCc
Q 009095 367 LVCAICKDLLPSGT-----------EVIKLPCFHLYHQTCIFPWLSARNSCPLCR 410 (544)
Q Consensus 367 ~~C~ICle~~~~g~-----------~v~~LPCgH~FH~~CI~~WL~~~~tCPlCR 410 (544)
..|--|+..|.... ...--.|++.||.+|=.-+-+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 46999999885421 112234999999999877777777899995
No 185
>PLN02436 cellulose synthase A
Probab=23.50 E-value=69 Score=39.40 Aligned_cols=49 Identities=20% Similarity=0.484 Sum_probs=34.3
Q ss_pred CCccccccccCC---CCCceEEcC-CCCeeccchhhhhh-ccCCCCCCCccccc
Q 009095 366 DLVCAICKDLLP---SGTEVIKLP-CFHLYHQTCIFPWL-SARNSCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~---~g~~v~~LP-CgH~FH~~CI~~WL-~~~~tCPlCR~~l~ 414 (544)
...|.||-+++. .|+.-+... |+--.|+.|..-=- ..++.||-|++...
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 369999999863 344333333 88889999984322 45678999998775
No 186
>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 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=22.64 E-value=30 Score=28.95 Aligned_cols=12 Identities=17% Similarity=0.731 Sum_probs=8.7
Q ss_pred eeccchhhhhhc
Q 009095 390 LYHQTCIFPWLS 401 (544)
Q Consensus 390 ~FH~~CI~~WL~ 401 (544)
-||+.|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 188
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=22.54 E-value=33 Score=22.65 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=5.4
Q ss_pred cCCCCCCCccc
Q 009095 402 ARNSCPLCRYE 412 (544)
Q Consensus 402 ~~~tCPlCR~~ 412 (544)
..+.||.|-++
T Consensus 12 ~~~fC~~CG~~ 22 (23)
T PF13240_consen 12 DAKFCPNCGTP 22 (23)
T ss_pred cCcchhhhCCc
Confidence 33446655443
No 189
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=22.48 E-value=52 Score=33.41 Aligned_cols=26 Identities=19% Similarity=0.404 Sum_probs=19.3
Q ss_pred CccccccccCCCCCceEEcCCCCeec
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYH 392 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH 392 (544)
..||||...+.........+++|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCc
Confidence 57999999997655545556788883
No 190
>PF12253 CAF1A: Chromatin assembly factor 1 subunit A; InterPro: IPR022043 The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A []. The A domain is uniquely required for the progression of S phase in mouse cells [], independent of its ability to promote histone deposition [] but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints [].
Probab=21.91 E-value=1.2e+02 Score=26.04 Aligned_cols=26 Identities=19% Similarity=0.285 Sum_probs=14.0
Q ss_pred cccccccccCCCCCCCCCCCCCCCCCCCC
Q 009095 185 SFLDRDMFIPPEYGSIFDSDSDIDPMHAG 213 (544)
Q Consensus 185 s~~~~~m~~~~~~~~~~~sD~d~dp~~~~ 213 (544)
..+.+.+.. ..|..+||.+=+....|
T Consensus 30 ~P~~~d~~~---lDYdyDSd~EWeE~e~G 55 (77)
T PF12253_consen 30 NPFAKDLPN---LDYDYDSDDEWEEEEEG 55 (77)
T ss_pred Ccccccccc---cceecCCccccccCCCC
Confidence 445554443 47788888544333333
No 191
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=21.34 E-value=31 Score=36.38 Aligned_cols=37 Identities=27% Similarity=0.597 Sum_probs=26.7
Q ss_pred CccccccccCCCCCceEEcCCCCeeccchhhhhhccC
Q 009095 367 LVCAICKDLLPSGTEVIKLPCFHLYHQTCIFPWLSAR 403 (544)
Q Consensus 367 ~~C~ICle~~~~g~~v~~LPCgH~FH~~CI~~WL~~~ 403 (544)
.+|.+|++.|..+......-|--.||..|+..|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 4888888888765555555566688888888887543
No 192
>PLN02400 cellulose synthase
Probab=20.95 E-value=78 Score=38.98 Aligned_cols=49 Identities=20% Similarity=0.440 Sum_probs=33.6
Q ss_pred CCccccccccCCC---CCce-EEcCCCCeeccchhh-hhhccCCCCCCCccccc
Q 009095 366 DLVCAICKDLLPS---GTEV-IKLPCFHLYHQTCIF-PWLSARNSCPLCRYELP 414 (544)
Q Consensus 366 ~~~C~ICle~~~~---g~~v-~~LPCgH~FH~~CI~-~WL~~~~tCPlCR~~l~ 414 (544)
...|.||-+++.. |+.- ..--|+--.|+.|.. +.-..++.||-|+....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 4699999998743 3322 233488889999984 22245668999998775
No 193
>PF04270 Strep_his_triad: Streptococcal histidine triad protein ; InterPro: IPR006270 This entry represents a repeated sequence region that includes a His-X-X-His-X-His (histidine triad) motif, which is found in family of Streptococcal proteins. Members of the family are suggested to cleave human complement component 3, and family member PhpA has been shown in vaccine studies to be a protective antigen in mice []. ; PDB: 2CS7_C.
Probab=20.54 E-value=38 Score=27.05 Aligned_cols=23 Identities=39% Similarity=0.692 Sum_probs=11.7
Q ss_pred cccCCC--C--CCCCCccccccccccccccCC
Q 009095 137 AESDGL--D--SLYPESESNLSFSRYRVLHGE 164 (544)
Q Consensus 137 ~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~ 164 (544)
+.+||+ | .+-.+.+ ..|.||||+
T Consensus 2 ~t~DGyvFdp~dI~~~~~-----~gy~vpHgd 28 (53)
T PF04270_consen 2 TTSDGYVFDPADIISETG-----DGYVVPHGD 28 (53)
T ss_dssp B-TTS-B--GGG--EE-S-----SEEEEEETT
T ss_pred cCCCCceeCHHHccccCC-----CeEEeeCCC
Confidence 457884 3 3344432 479999984
No 194
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=20.46 E-value=73 Score=34.19 Aligned_cols=44 Identities=16% Similarity=-0.081 Sum_probs=31.3
Q ss_pred CCCccccccccCCCCCceEEcCCCC-eeccchhhhhhccCCCCCCCcccc
Q 009095 365 EDLVCAICKDLLPSGTEVIKLPCFH-LYHQTCIFPWLSARNSCPLCRYEL 413 (544)
Q Consensus 365 ~~~~C~ICle~~~~g~~v~~LPCgH-~FH~~CI~~WL~~~~tCPlCR~~l 413 (544)
...+|-+|-+.+ -.....+|+| .||..|.. +....+||+|...+
T Consensus 342 s~~~~~~~~~~~---~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGL---LSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCce---eeeEeecCCcccChhhhhh--cccCCccccccccc
Confidence 347888887765 2334557998 58888877 66778999997543
No 195
>PF03066 Nucleoplasmin: Nucleoplasmin; InterPro: IPR004301 The nucleophosmin/nucleoplasmin family of chaperones includes nucleophosmin, nucleoplasmin and nucleoplasmin-like proteins. They function as nuclear chaperones which are needed for the proper assembly of nucleosomes and the attainment of proper higher order chromatin structures [].; GO: 0003676 nucleic acid binding; PDB: 2P1B_E 1XB9_I 1XE0_C 1NLQ_A 2VTX_E 1K5J_D 1EJY_N 1EE5_B 3T30_J.
Probab=20.45 E-value=34 Score=32.56 Aligned_cols=14 Identities=29% Similarity=0.339 Sum_probs=4.4
Q ss_pred ccccccccccCCCC
Q 009095 153 LSFSRYRVLHGESD 166 (544)
Q Consensus 153 ~~~~~~~~~~~~~~ 166 (544)
++.+.--|..+-.|
T Consensus 32 L~L~~v~Lga~AKd 45 (149)
T PF03066_consen 32 LSLRQVCLGAGAKD 45 (149)
T ss_dssp EEEEEEEE-TTS-S
T ss_pred EEEEEeecCCCccC
Confidence 33333333333333
No 196
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=20.29 E-value=42 Score=36.33 Aligned_cols=47 Identities=28% Similarity=0.643 Sum_probs=27.5
Q ss_pred CCccccccccCCCCCceEEcC---CCCee--------ccchhhhhh-----ccCCCCCCCcccc
Q 009095 366 DLVCAICKDLLPSGTEVIKLP---CFHLY--------HQTCIFPWL-----SARNSCPLCRYEL 413 (544)
Q Consensus 366 ~~~C~ICle~~~~g~~v~~LP---CgH~F--------H~~CI~~WL-----~~~~tCPlCR~~l 413 (544)
+..|+||-+... |-....|. |+-.| |..|+..-- ..++.||.||..-
T Consensus 15 ~ElCPVCGDkVS-GYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQK 77 (475)
T KOG4218|consen 15 GELCPVCGDKVS-GYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQK 77 (475)
T ss_pred ccccccccCccc-cceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHHH
Confidence 468999998763 33444554 54443 445554321 2345699999753
No 197
>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=20.04 E-value=77 Score=22.39 Aligned_cols=8 Identities=38% Similarity=1.024 Sum_probs=6.3
Q ss_pred CCCCCCcc
Q 009095 404 NSCPLCRY 411 (544)
Q Consensus 404 ~tCPlCR~ 411 (544)
..||+|..
T Consensus 18 ~~CP~Cg~ 25 (33)
T cd00350 18 WVCPVCGA 25 (33)
T ss_pred CcCcCCCC
Confidence 37999965
Done!