Query 017252
Match_columns 375
No_of_seqs 371 out of 1889
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 06:56:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017252.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017252hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14369 zf-RING_3: zinc-finge 99.5 3.7E-15 7.9E-20 100.8 2.9 33 8-40 1-35 (35)
2 KOG4628 Predicted E3 ubiquitin 99.3 1.9E-12 4.1E-17 128.1 8.2 75 220-294 202-283 (348)
3 PF13639 zf-RING_2: Ring finge 99.3 5.9E-13 1.3E-17 94.0 1.7 43 243-285 2-44 (44)
4 COG5243 HRD1 HRD ubiquitin lig 99.1 2.5E-10 5.4E-15 112.5 9.1 55 240-294 286-350 (491)
5 PLN03208 E3 ubiquitin-protein 99.0 3.6E-10 7.7E-15 103.7 6.7 63 236-301 13-91 (193)
6 KOG0823 Predicted E3 ubiquitin 99.0 2.5E-10 5.4E-15 106.6 3.0 59 240-301 46-107 (230)
7 PHA02929 N1R/p28-like protein; 99.0 5E-10 1.1E-14 106.3 4.7 64 226-289 151-227 (238)
8 PF12678 zf-rbx1: RING-H2 zinc 99.0 3.9E-10 8.4E-15 88.5 3.2 45 241-285 19-73 (73)
9 COG5540 RING-finger-containing 98.9 6.1E-10 1.3E-14 107.3 3.0 50 241-290 323-373 (374)
10 PF13920 zf-C3HC4_3: Zinc fing 98.8 2.6E-09 5.6E-14 77.4 3.1 46 241-289 2-48 (50)
11 KOG0317 Predicted E3 ubiquitin 98.8 1.7E-09 3.8E-14 103.8 2.4 49 241-292 239-287 (293)
12 PF15227 zf-C3HC4_4: zinc fing 98.8 3.1E-09 6.6E-14 74.8 2.8 38 244-284 1-42 (42)
13 PF13923 zf-C3HC4_2: Zinc fing 98.8 3.5E-09 7.6E-14 72.9 2.6 38 244-284 1-39 (39)
14 smart00504 Ubox Modified RING 98.8 4.9E-09 1.1E-13 78.8 3.4 52 242-296 2-53 (63)
15 KOG0320 Predicted E3 ubiquitin 98.7 4.1E-09 8.9E-14 94.9 2.1 54 240-294 130-183 (187)
16 cd00162 RING RING-finger (Real 98.7 1.4E-08 3.1E-13 69.8 3.0 43 243-288 1-45 (45)
17 PF00097 zf-C3HC4: Zinc finger 98.6 3.3E-08 7.3E-13 68.3 2.8 38 244-284 1-41 (41)
18 TIGR00599 rad18 DNA repair pro 98.6 3E-08 6.4E-13 100.5 3.4 52 237-291 22-73 (397)
19 KOG0802 E3 ubiquitin ligase [P 98.5 2.5E-08 5.3E-13 105.4 1.6 48 241-288 291-340 (543)
20 smart00184 RING Ring finger. E 98.5 7E-08 1.5E-12 64.0 3.0 38 244-284 1-39 (39)
21 PF14634 zf-RING_5: zinc-RING 98.5 7.9E-08 1.7E-12 68.0 2.9 44 243-286 1-44 (44)
22 PHA02926 zinc finger-like prot 98.5 8.1E-08 1.7E-12 89.6 2.9 50 240-289 169-230 (242)
23 PF12861 zf-Apc11: Anaphase-pr 98.4 1.8E-07 4E-12 75.2 3.3 51 240-290 20-83 (85)
24 KOG2164 Predicted E3 ubiquitin 98.4 9.9E-08 2.1E-12 97.9 2.2 55 241-298 186-245 (513)
25 PF04564 U-box: U-box domain; 98.3 2.4E-07 5.3E-12 72.5 1.8 55 240-297 3-58 (73)
26 KOG0287 Postreplication repair 98.3 1.7E-07 3.7E-12 91.8 -0.0 50 239-291 21-70 (442)
27 COG5574 PEX10 RING-finger-cont 98.2 4.5E-07 9.8E-12 86.4 2.4 50 239-291 213-264 (271)
28 PF13445 zf-RING_UBOX: RING-ty 98.2 7.3E-07 1.6E-11 63.1 2.1 34 244-278 1-35 (43)
29 COG5432 RAD18 RING-finger-cont 98.1 9.2E-07 2E-11 85.2 1.7 47 240-289 24-70 (391)
30 KOG2177 Predicted E3 ubiquitin 98.0 1.7E-06 3.7E-11 80.8 1.0 46 238-286 10-55 (386)
31 COG5194 APC11 Component of SCF 98.0 4.7E-06 1E-10 65.9 2.8 29 261-289 53-81 (88)
32 TIGR00570 cdk7 CDK-activating 97.9 6.2E-06 1.4E-10 81.0 3.6 54 241-294 3-59 (309)
33 smart00744 RINGv The RING-vari 97.9 8.5E-06 1.8E-10 59.2 2.9 42 243-285 1-49 (49)
34 KOG1734 Predicted RING-contain 97.9 2.9E-06 6.3E-11 81.1 0.4 51 241-291 224-283 (328)
35 KOG0828 Predicted E3 ubiquitin 97.9 5.2E-06 1.1E-10 84.9 1.5 51 240-290 570-635 (636)
36 KOG0824 Predicted E3 ubiquitin 97.8 9.4E-06 2E-10 78.8 2.4 51 241-294 7-58 (324)
37 PF11793 FANCL_C: FANCL C-term 97.7 9.9E-06 2.2E-10 63.1 0.7 49 241-289 2-66 (70)
38 PF14835 zf-RING_6: zf-RING of 97.7 1.3E-05 2.9E-10 61.1 1.3 49 239-292 5-54 (65)
39 COG5219 Uncharacterized conser 97.7 9.4E-06 2E-10 88.2 0.6 61 229-289 1457-1523(1525)
40 KOG2930 SCF ubiquitin ligase, 97.6 1.8E-05 3.9E-10 65.6 1.1 28 261-288 80-107 (114)
41 KOG1493 Anaphase-promoting com 97.6 9.8E-06 2.1E-10 63.6 -0.5 49 241-289 20-81 (84)
42 KOG0804 Cytoplasmic Zn-finger 97.5 3.6E-05 7.8E-10 78.2 1.8 54 234-289 168-222 (493)
43 KOG0311 Predicted E3 ubiquitin 97.5 1.1E-05 2.4E-10 79.8 -2.5 49 238-289 40-90 (381)
44 KOG0978 E3 ubiquitin ligase in 97.4 4.7E-05 1E-09 81.8 0.4 55 237-294 639-694 (698)
45 KOG1039 Predicted E3 ubiquitin 97.3 0.00014 3.1E-09 72.7 2.9 62 228-289 148-221 (344)
46 KOG0827 Predicted E3 ubiquitin 97.3 0.00011 2.5E-09 73.5 1.6 51 242-292 5-59 (465)
47 KOG4265 Predicted E3 ubiquitin 97.2 0.00016 3.4E-09 71.9 2.4 46 241-289 290-336 (349)
48 KOG4445 Uncharacterized conser 97.2 0.00017 3.8E-09 70.1 2.3 89 203-292 75-189 (368)
49 KOG0297 TNF receptor-associate 97.1 0.00024 5.3E-09 72.5 2.4 55 238-295 18-73 (391)
50 KOG0825 PHD Zn-finger protein 97.1 9.3E-05 2E-09 79.4 -0.9 50 241-290 123-172 (1134)
51 KOG4159 Predicted E3 ubiquitin 97.0 0.00026 5.6E-09 72.2 1.6 49 239-290 82-130 (398)
52 KOG1785 Tyrosine kinase negati 97.0 0.00024 5.1E-09 71.5 1.2 49 242-293 370-420 (563)
53 KOG4172 Predicted E3 ubiquitin 96.9 0.00016 3.5E-09 53.4 -0.5 46 241-289 7-54 (62)
54 KOG2660 Locus-specific chromos 96.7 0.00035 7.6E-09 68.8 -0.1 50 238-290 12-62 (331)
55 KOG1645 RING-finger-containing 96.6 0.00065 1.4E-08 68.6 0.4 51 241-291 4-58 (463)
56 PF11789 zf-Nse: Zinc-finger o 96.5 0.0013 2.8E-08 49.3 1.6 40 241-283 11-53 (57)
57 KOG1002 Nucleotide excision re 96.5 0.002 4.3E-08 67.0 3.2 53 240-295 535-592 (791)
58 COG5152 Uncharacterized conser 96.2 0.0018 3.9E-08 59.8 0.9 45 241-288 196-240 (259)
59 KOG1941 Acetylcholine receptor 96.1 0.0015 3.3E-08 65.7 0.2 48 241-288 365-415 (518)
60 KOG4692 Predicted E3 ubiquitin 95.9 0.0055 1.2E-07 61.1 3.1 50 239-291 420-469 (489)
61 COG5222 Uncharacterized conser 95.9 0.0035 7.7E-08 61.1 1.6 56 241-299 274-332 (427)
62 KOG1813 Predicted E3 ubiquitin 95.8 0.0035 7.6E-08 61.1 0.9 46 241-289 241-286 (313)
63 KOG2879 Predicted E3 ubiquitin 95.7 0.0078 1.7E-07 58.2 3.0 47 240-289 238-287 (298)
64 PF10367 Vps39_2: Vacuolar sor 95.2 0.0097 2.1E-07 48.8 1.7 37 235-272 72-108 (109)
65 KOG1814 Predicted E3 ubiquitin 95.1 0.012 2.5E-07 59.8 2.2 36 241-276 184-219 (445)
66 PF12906 RINGv: RING-variant d 95.0 0.017 3.6E-07 41.6 2.0 40 244-284 1-47 (47)
67 PF14570 zf-RING_4: RING/Ubox 94.9 0.013 2.8E-07 42.5 1.4 44 244-288 1-47 (48)
68 PF05883 Baculo_RING: Baculovi 94.9 0.0096 2.1E-07 52.0 0.7 38 241-278 26-69 (134)
69 KOG1428 Inhibitor of type V ad 94.8 0.017 3.7E-07 66.0 2.5 51 240-290 3485-3545(3738)
70 KOG1952 Transcription factor N 94.6 0.036 7.8E-07 60.8 4.4 49 239-287 189-245 (950)
71 KOG1571 Predicted E3 ubiquitin 94.5 0.024 5.1E-07 56.8 2.4 44 240-289 304-347 (355)
72 KOG4275 Predicted E3 ubiquitin 94.2 0.01 2.3E-07 57.8 -0.6 41 241-288 300-341 (350)
73 KOG3268 Predicted E3 ubiquitin 94.2 0.024 5.2E-07 51.8 1.7 51 241-291 165-230 (234)
74 KOG4739 Uncharacterized protei 94.1 0.022 4.7E-07 54.2 1.3 46 243-291 5-50 (233)
75 PHA02862 5L protein; Provision 94.0 0.03 6.5E-07 49.5 1.9 44 242-289 3-53 (156)
76 PF14447 Prok-RING_4: Prokaryo 93.9 0.042 9.2E-07 40.8 2.2 46 242-292 8-53 (55)
77 COG5236 Uncharacterized conser 93.8 0.043 9.2E-07 54.8 2.7 47 239-288 59-107 (493)
78 KOG0801 Predicted E3 ubiquitin 93.7 0.017 3.7E-07 51.9 -0.3 29 240-268 176-204 (205)
79 KOG3039 Uncharacterized conser 93.6 0.055 1.2E-06 51.8 2.9 54 241-294 221-275 (303)
80 KOG3970 Predicted E3 ubiquitin 93.6 0.055 1.2E-06 51.1 2.8 48 241-289 50-105 (299)
81 KOG0826 Predicted E3 ubiquitin 93.4 0.036 7.8E-07 54.9 1.4 48 240-290 299-347 (357)
82 PF04641 Rtf2: Rtf2 RING-finge 93.3 0.094 2E-06 50.7 4.2 52 240-292 112-164 (260)
83 KOG4367 Predicted Zn-finger pr 92.8 0.22 4.7E-06 51.2 6.0 35 239-276 2-36 (699)
84 KOG0298 DEAD box-containing he 92.7 0.043 9.3E-07 62.6 0.9 84 199-286 1113-1196(1394)
85 COG0375 HybF Zn finger protein 92.6 0.076 1.7E-06 45.4 2.1 35 8-43 69-103 (115)
86 PF08746 zf-RING-like: RING-li 92.5 0.041 8.9E-07 38.8 0.3 41 244-284 1-43 (43)
87 KOG4185 Predicted E3 ubiquitin 92.3 0.087 1.9E-06 51.4 2.4 47 242-288 4-54 (296)
88 PHA02825 LAP/PHD finger-like p 92.3 0.089 1.9E-06 47.3 2.2 47 240-290 7-60 (162)
89 PF07800 DUF1644: Protein of u 92.1 0.13 2.9E-06 46.1 3.1 51 241-294 2-96 (162)
90 PHA03096 p28-like protein; Pro 91.8 0.082 1.8E-06 51.9 1.6 36 242-277 179-219 (284)
91 KOG1001 Helicase-like transcri 91.1 0.081 1.8E-06 57.8 0.8 47 242-292 455-503 (674)
92 KOG2114 Vacuolar assembly/sort 90.8 0.11 2.4E-06 57.1 1.5 42 241-287 840-881 (933)
93 KOG2932 E3 ubiquitin ligase in 90.6 0.12 2.5E-06 51.1 1.3 44 241-288 90-133 (389)
94 KOG1940 Zn-finger protein [Gen 90.4 0.13 2.7E-06 50.3 1.3 46 241-286 158-204 (276)
95 PF05290 Baculo_IE-1: Baculovi 89.1 0.27 5.9E-06 43.0 2.2 49 241-292 80-135 (140)
96 TIGR00100 hypA hydrogenase nic 88.7 0.32 7E-06 41.4 2.4 34 7-41 68-101 (115)
97 PF10272 Tmpp129: Putative tra 88.7 0.99 2.1E-05 45.8 6.2 29 262-290 311-352 (358)
98 KOG0827 Predicted E3 ubiquitin 88.3 0.029 6.3E-07 56.7 -4.8 51 241-291 196-247 (465)
99 KOG2817 Predicted E3 ubiquitin 88.0 0.34 7.4E-06 49.3 2.4 46 241-286 334-382 (394)
100 COG5175 MOT2 Transcriptional r 87.9 0.31 6.7E-06 48.7 2.0 53 240-292 13-67 (480)
101 PRK00564 hypA hydrogenase nick 87.4 0.42 9E-06 40.9 2.3 35 7-41 69-103 (117)
102 PRK03681 hypA hydrogenase nick 87.4 0.43 9.3E-06 40.6 2.4 35 7-41 68-102 (114)
103 PRK12380 hydrogenase nickel in 86.7 0.5 1.1E-05 40.1 2.4 34 7-41 68-101 (113)
104 PF03854 zf-P11: P-11 zinc fin 86.2 0.24 5.2E-06 35.8 0.2 44 243-291 4-48 (50)
105 PRK00398 rpoP DNA-directed RNA 85.8 0.63 1.4E-05 32.9 2.2 31 9-39 3-34 (46)
106 KOG3800 Predicted E3 ubiquitin 85.1 0.62 1.3E-05 45.7 2.4 51 243-293 2-55 (300)
107 PF01155 HypA: Hydrogenase exp 84.9 0.41 8.8E-06 40.6 1.0 33 7-40 68-100 (113)
108 PRK03824 hypA hydrogenase nick 84.9 0.67 1.5E-05 40.6 2.4 34 7-40 68-121 (135)
109 COG1996 RPC10 DNA-directed RNA 84.8 0.56 1.2E-05 34.2 1.5 31 7-37 4-35 (49)
110 PF07754 DUF1610: Domain of un 84.6 0.55 1.2E-05 29.2 1.2 22 12-33 1-23 (24)
111 smart00659 RPOLCX RNA polymera 84.4 0.74 1.6E-05 32.7 2.0 29 9-37 2-30 (44)
112 PF03604 DNA_RNApol_7kD: DNA d 83.8 0.97 2.1E-05 30.0 2.2 26 10-35 1-26 (32)
113 PF14446 Prok-RING_1: Prokaryo 81.2 1.3 2.8E-05 32.9 2.3 39 241-283 5-44 (54)
114 KOG3002 Zn finger protein [Gen 81.0 1.2 2.6E-05 44.2 2.7 43 240-289 47-91 (299)
115 KOG4362 Transcriptional regula 80.6 0.41 8.9E-06 52.0 -0.7 52 240-294 20-74 (684)
116 KOG2034 Vacuolar sorting prote 79.8 0.78 1.7E-05 51.0 1.0 37 238-275 814-850 (911)
117 PRK00762 hypA hydrogenase nick 78.6 1.3 2.7E-05 38.3 1.8 34 7-41 68-107 (124)
118 COG2093 DNA-directed RNA polym 77.8 1.1 2.5E-05 34.1 1.1 29 12-43 7-36 (64)
119 COG5183 SSM4 Protein involved 77.7 1.2 2.7E-05 49.0 1.7 53 239-292 10-69 (1175)
120 PF02891 zf-MIZ: MIZ/SP-RING z 76.3 2.5 5.3E-05 30.7 2.5 41 242-286 3-49 (50)
121 PF10571 UPF0547: Uncharacteri 75.9 1.7 3.7E-05 27.5 1.3 23 12-37 3-25 (26)
122 KOG1812 Predicted E3 ubiquitin 75.8 1.7 3.7E-05 44.5 2.1 37 241-277 146-183 (384)
123 KOG0309 Conserved WD40 repeat- 74.8 1.4 3E-05 48.3 1.2 25 259-283 1045-1069(1081)
124 COG5220 TFB3 Cdk activating ki 74.3 1.1 2.3E-05 43.1 0.1 49 241-289 10-64 (314)
125 KOG1609 Protein involved in mR 74.0 1.3 2.9E-05 42.9 0.8 51 241-291 78-136 (323)
126 KOG3161 Predicted E3 ubiquitin 71.8 1.2 2.5E-05 48.1 -0.2 43 241-286 11-54 (861)
127 KOG3899 Uncharacterized conser 71.1 1.9 4.1E-05 42.5 1.0 31 262-292 325-368 (381)
128 smart00834 CxxC_CXXC_SSSS Puta 70.5 3.7 7.9E-05 27.7 2.1 28 7-34 3-34 (41)
129 KOG0269 WD40 repeat-containing 69.7 3.2 7E-05 45.6 2.5 40 241-283 779-820 (839)
130 KOG3053 Uncharacterized conser 69.6 1.9 4.1E-05 41.7 0.7 50 240-289 19-82 (293)
131 KOG3579 Predicted E3 ubiquitin 68.9 3 6.4E-05 41.0 1.8 36 241-279 268-307 (352)
132 KOG1100 Predicted E3 ubiquitin 68.3 3.1 6.7E-05 39.1 1.8 39 244-289 161-200 (207)
133 PF06906 DUF1272: Protein of u 66.8 2 4.4E-05 32.1 0.2 30 7-38 24-53 (57)
134 PF03811 Zn_Tnp_IS1: InsA N-te 65.4 2.9 6.3E-05 28.4 0.7 12 24-35 3-14 (36)
135 COG5270 PUA domain (predicted 64.2 3.9 8.5E-05 37.8 1.6 30 8-42 13-42 (202)
136 PF13240 zinc_ribbon_2: zinc-r 63.9 3.5 7.6E-05 25.2 0.8 22 11-35 1-22 (23)
137 COG5109 Uncharacterized conser 62.5 4.3 9.3E-05 40.5 1.6 45 241-285 336-383 (396)
138 KOG1815 Predicted E3 ubiquitin 62.1 3.8 8.1E-05 42.7 1.2 37 239-277 68-104 (444)
139 KOG0825 PHD Zn-finger protein 61.8 3.4 7.4E-05 45.7 0.8 50 241-290 96-155 (1134)
140 PF09538 FYDLN_acid: Protein o 61.1 7.2 0.00016 33.0 2.5 33 7-39 7-39 (108)
141 PF10122 Mu-like_Com: Mu-like 60.7 3.4 7.4E-05 30.3 0.4 29 8-36 3-34 (51)
142 KOG1812 Predicted E3 ubiquitin 60.5 4.6 9.9E-05 41.4 1.5 44 241-284 306-351 (384)
143 KOG3039 Uncharacterized conser 58.7 6.5 0.00014 38.0 2.0 36 238-276 40-75 (303)
144 KOG2807 RNA polymerase II tran 58.0 9.4 0.0002 38.3 3.1 47 239-285 328-374 (378)
145 KOG0802 E3 ubiquitin ligase [P 57.8 5.1 0.00011 42.8 1.3 46 241-293 479-524 (543)
146 PRK06266 transcription initiat 57.3 6.7 0.00015 35.9 1.9 32 7-38 115-148 (178)
147 PF08772 NOB1_Zn_bind: Nin one 56.2 6.8 0.00015 30.9 1.4 32 9-42 9-40 (73)
148 PF13248 zf-ribbon_3: zinc-rib 54.6 6.3 0.00014 24.6 0.9 23 10-35 3-25 (26)
149 COG4391 Uncharacterized protei 53.8 6 0.00013 30.2 0.7 14 24-37 46-59 (62)
150 TIGR02300 FYDLN_acid conserved 52.8 11 0.00024 32.8 2.4 33 7-39 7-39 (129)
151 KOG2066 Vacuolar assembly/sort 52.2 8.3 0.00018 42.7 1.8 48 237-285 780-831 (846)
152 KOG1829 Uncharacterized conser 52.0 5.1 0.00011 43.1 0.2 32 4-35 335-375 (580)
153 KOG3993 Transcription factor ( 51.5 7.1 0.00015 40.4 1.1 24 13-40 286-309 (500)
154 KOG2068 MOT2 transcription fac 50.9 13 0.00028 37.3 2.8 48 241-288 249-297 (327)
155 KOG4718 Non-SMC (structural ma 50.2 7.7 0.00017 36.7 1.0 43 241-286 181-224 (235)
156 PF13901 DUF4206: Domain of un 48.8 13 0.00029 34.6 2.4 39 241-285 152-196 (202)
157 smart00531 TFIIE Transcription 47.9 7.5 0.00016 34.3 0.6 33 7-39 97-136 (147)
158 COG4416 Com Mu-like prophage p 47.8 4.9 0.00011 29.9 -0.5 25 10-34 5-32 (60)
159 smart00647 IBR In Between Ring 47.7 12 0.00026 27.3 1.6 33 8-40 17-54 (64)
160 TIGR00373 conserved hypothetic 47.4 8.9 0.00019 34.4 1.0 35 7-42 107-143 (158)
161 PF13913 zf-C2HC_2: zinc-finge 47.4 6.8 0.00015 24.3 0.2 13 27-39 3-15 (25)
162 PRK08351 DNA-directed RNA poly 45.3 13 0.00029 28.3 1.5 18 12-34 6-23 (61)
163 TIGR02098 MJ0042_CXXC MJ0042 f 44.8 17 0.00036 24.3 1.8 29 9-37 2-36 (38)
164 smart00661 RPOL9 RNA polymeras 44.1 14 0.00031 26.1 1.5 29 11-41 2-33 (52)
165 PF04216 FdhE: Protein involve 44.1 4.2 9.2E-05 39.7 -1.7 47 240-286 171-219 (290)
166 PF09723 Zn-ribbon_8: Zinc rib 44.0 23 0.00051 24.5 2.5 29 7-35 3-35 (42)
167 PRK14890 putative Zn-ribbon RN 43.3 18 0.00039 27.4 1.9 27 8-34 6-33 (59)
168 PF01363 FYVE: FYVE zinc finge 43.1 18 0.00039 27.2 2.0 36 240-275 8-44 (69)
169 PF05605 zf-Di19: Drought indu 43.0 13 0.00029 26.9 1.2 10 27-36 3-12 (54)
170 PF07975 C1_4: TFIIH C1-like d 42.6 15 0.00032 27.1 1.3 42 244-285 2-50 (51)
171 TIGR00155 pqiA_fam integral me 42.4 14 0.00031 38.1 1.7 25 10-36 216-240 (403)
172 KOG2487 RNA polymerase II tran 41.9 18 0.0004 35.5 2.2 53 195-251 218-283 (314)
173 COG3813 Uncharacterized protei 41.8 8.6 0.00019 30.3 0.0 33 3-38 21-53 (84)
174 KOG3113 Uncharacterized conser 41.6 19 0.00041 35.0 2.2 50 241-292 111-161 (293)
175 KOG4317 Predicted Zn-finger pr 40.7 16 0.00036 36.5 1.7 24 7-35 5-28 (383)
176 KOG3005 GIY-YIG type nuclease 40.5 13 0.00028 36.4 0.9 48 242-289 183-243 (276)
177 KOG2169 Zn-finger transcriptio 39.9 21 0.00046 39.0 2.7 44 241-291 306-358 (636)
178 PRK06393 rpoE DNA-directed RNA 39.2 17 0.00037 28.0 1.2 20 11-35 7-26 (64)
179 smart00132 LIM Zinc-binding do 39.0 33 0.00071 22.0 2.5 37 243-288 1-37 (39)
180 TIGR00622 ssl1 transcription f 38.1 39 0.00085 28.8 3.4 45 241-285 55-110 (112)
181 PF14353 CpXC: CpXC protein 38.0 17 0.00038 30.9 1.3 19 26-44 1-19 (128)
182 PF08792 A2L_zn_ribbon: A2L zi 37.5 18 0.0004 24.0 1.1 27 10-36 4-31 (33)
183 smart00154 ZnF_AN1 AN1-like Zi 37.5 19 0.00042 24.7 1.2 25 12-39 1-25 (39)
184 KOG3842 Adaptor protein Pellin 37.5 26 0.00056 35.2 2.5 51 241-291 341-416 (429)
185 TIGR00155 pqiA_fam integral me 36.9 26 0.00056 36.2 2.6 26 11-36 15-43 (403)
186 PF07191 zinc-ribbons_6: zinc- 35.1 11 0.00023 29.6 -0.4 40 242-289 2-41 (70)
187 PF03107 C1_2: C1 domain; Int 34.7 18 0.0004 23.2 0.7 22 10-33 1-22 (30)
188 COG1867 TRM1 N2,N2-dimethylgua 33.5 20 0.00044 36.6 1.1 30 7-36 238-267 (380)
189 cd07973 Spt4 Transcription elo 33.4 24 0.00051 29.4 1.3 27 11-38 5-31 (98)
190 PF13717 zinc_ribbon_4: zinc-r 33.1 26 0.00055 23.6 1.2 26 11-36 4-35 (36)
191 TIGR01053 LSD1 zinc finger dom 32.5 33 0.00072 22.5 1.7 24 11-34 3-27 (31)
192 PF13719 zinc_ribbon_5: zinc-r 32.5 27 0.00058 23.6 1.3 26 11-36 4-35 (37)
193 smart00249 PHD PHD zinc finger 32.2 30 0.00065 23.0 1.5 31 243-273 1-31 (47)
194 PF01485 IBR: IBR domain; Int 31.7 29 0.00063 25.1 1.5 26 11-36 20-50 (64)
195 PF06844 DUF1244: Protein of u 31.5 22 0.00047 27.6 0.7 12 265-276 11-22 (68)
196 PF11261 IRF-2BP1_2: Interfero 31.4 19 0.00041 26.5 0.4 25 8-32 2-30 (54)
197 PF00628 PHD: PHD-finger; Int 31.3 32 0.0007 24.1 1.6 43 243-285 1-49 (51)
198 KOG0824 Predicted E3 ubiquitin 30.8 66 0.0014 32.1 4.1 46 241-289 105-151 (324)
199 KOG0956 PHD finger protein AF1 30.6 1.1E+02 0.0024 33.9 6.0 132 243-374 119-316 (900)
200 PF06906 DUF1272: Protein of u 30.6 77 0.0017 23.8 3.5 47 242-290 6-53 (57)
201 PF04710 Pellino: Pellino; In 30.1 17 0.00037 37.4 0.0 50 241-290 328-402 (416)
202 TIGR02605 CxxC_CxxC_SSSS putat 29.1 51 0.0011 23.4 2.4 35 7-41 3-41 (52)
203 PF00412 LIM: LIM domain; Int 28.9 50 0.0011 23.5 2.3 40 244-292 1-40 (58)
204 KOG2113 Predicted RNA binding 28.8 1.2E+02 0.0025 30.7 5.4 47 236-287 338-385 (394)
205 PF08271 TF_Zn_Ribbon: TFIIB z 28.7 37 0.00081 23.4 1.5 28 10-39 1-30 (43)
206 PF14255 Cys_rich_CPXG: Cystei 28.5 40 0.00087 24.8 1.7 20 27-46 1-20 (52)
207 PRK15103 paraquat-inducible me 28.5 34 0.00073 35.6 1.8 23 11-36 223-245 (419)
208 KOG2463 Predicted RNA-binding 28.0 24 0.00053 35.5 0.6 28 11-40 244-271 (376)
209 PF14803 Nudix_N_2: Nudix N-te 27.8 25 0.00054 23.6 0.5 23 11-33 2-29 (34)
210 KOG4185 Predicted E3 ubiquitin 27.8 12 0.00026 36.4 -1.6 46 242-287 208-265 (296)
211 TIGR01206 lysW lysine biosynth 26.6 36 0.00079 25.2 1.2 28 10-37 3-33 (54)
212 cd00350 rubredoxin_like Rubred 26.6 62 0.0013 21.2 2.2 26 9-35 1-26 (33)
213 KOG3799 Rab3 effector RIM1 and 26.5 30 0.00064 30.6 0.8 52 236-287 60-116 (169)
214 TIGR01384 TFS_arch transcripti 26.0 33 0.00072 28.1 1.0 24 11-35 2-25 (104)
215 KOG2231 Predicted E3 ubiquitin 25.9 41 0.00089 37.0 1.9 46 243-291 2-54 (669)
216 TIGR01562 FdhE formate dehydro 25.5 24 0.00051 35.2 0.1 46 241-286 184-232 (305)
217 PHA03308 transcriptional regul 25.5 50 0.0011 36.7 2.4 7 364-370 1268-1274(1463)
218 COG1198 PriA Primosomal protei 25.1 43 0.00093 37.4 1.9 32 6-41 459-490 (730)
219 PRK03564 formate dehydrogenase 24.5 32 0.0007 34.3 0.8 44 241-286 187-234 (309)
220 PF14968 CCDC84: Coiled coil p 24.5 18 0.00039 36.6 -1.0 36 7-47 56-91 (336)
221 PF04502 DUF572: Family of unk 24.1 40 0.00086 33.7 1.4 28 10-37 41-88 (324)
222 PF13465 zf-H2C2_2: Zinc-finge 23.5 17 0.00037 22.4 -0.9 11 27-37 15-25 (26)
223 PF04810 zf-Sec23_Sec24: Sec23 23.5 23 0.0005 24.3 -0.3 24 11-34 4-32 (40)
224 smart00064 FYVE Protein presen 23.2 41 0.00088 25.2 1.0 35 241-275 10-45 (68)
225 PF04710 Pellino: Pellino; In 23.2 27 0.00059 36.0 0.0 30 258-290 305-340 (416)
226 cd00065 FYVE FYVE domain; Zinc 23.0 52 0.0011 23.5 1.5 34 242-275 3-37 (57)
227 COG5242 TFB4 RNA polymerase II 22.3 65 0.0014 31.0 2.3 22 194-215 204-225 (296)
228 PF10276 zf-CHCC: Zinc-finger 22.3 22 0.00047 24.8 -0.6 11 27-37 30-40 (40)
229 PF04423 Rad50_zn_hook: Rad50 22.1 22 0.00048 25.8 -0.7 15 25-39 19-33 (54)
230 smart00451 ZnF_U1 U1-like zinc 22.1 45 0.00099 21.3 0.9 13 8-20 2-14 (35)
231 PF12773 DZR: Double zinc ribb 22.1 50 0.0011 23.2 1.2 27 8-34 11-37 (50)
232 PF09654 DUF2396: Protein of u 22.0 38 0.00082 30.1 0.6 14 21-34 1-14 (161)
233 PRK04338 N(2),N(2)-dimethylgua 21.9 68 0.0015 32.8 2.6 30 7-37 242-272 (382)
234 TIGR02652 conserved hypothetic 21.6 38 0.00082 30.1 0.5 14 21-34 4-17 (163)
235 PRK15103 paraquat-inducible me 21.3 51 0.0011 34.3 1.5 26 11-36 12-40 (419)
236 PRK00464 nrdR transcriptional 21.3 49 0.0011 29.7 1.2 17 27-43 1-17 (154)
237 PF03966 Trm112p: Trm112p-like 21.3 35 0.00077 26.0 0.3 15 22-36 49-63 (68)
238 PRK14873 primosome assembly pr 21.1 53 0.0012 36.2 1.7 29 8-41 409-437 (665)
239 PRK11088 rrmA 23S rRNA methylt 20.9 63 0.0014 30.9 2.0 25 242-266 3-27 (272)
240 PRK12495 hypothetical protein; 20.7 52 0.0011 31.4 1.3 31 7-38 40-70 (226)
241 KOG1815 Predicted E3 ubiquitin 20.7 39 0.00084 35.2 0.5 36 242-277 227-267 (444)
242 PLN02189 cellulose synthase 20.6 77 0.0017 36.6 2.8 49 241-289 34-87 (1040)
243 PF06220 zf-U1: U1 zinc finger 20.5 42 0.00091 22.9 0.5 12 8-19 2-13 (38)
244 PF14787 zf-CCHC_5: GAG-polypr 20.4 51 0.0011 22.5 0.9 11 27-37 3-13 (36)
245 PF06677 Auto_anti-p27: Sjogre 20.1 70 0.0015 22.4 1.5 23 11-33 19-41 (41)
246 smart00109 C1 Protein kinase C 20.0 65 0.0014 21.8 1.4 25 8-33 10-34 (49)
No 1
>PF14369 zf-RING_3: zinc-finger
Probab=99.53 E-value=3.7e-15 Score=100.76 Aligned_cols=33 Identities=45% Similarity=1.194 Sum_probs=28.1
Q ss_pred CceeccccCcceeccC--CCCccCCCCCCCceeec
Q 017252 8 SRYWCHMCSQIVDPIM--EVEIKCPFCQSGFVEEM 40 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~--~~e~~CP~C~~gFvEEm 40 (375)
.+||||+|+++|++.. ..+++||+|++||||||
T Consensus 1 ~~ywCh~C~~~V~~~~~~~~~~~CP~C~~gFvEei 35 (35)
T PF14369_consen 1 QRYWCHQCNRFVRIAPSPDSDVACPRCHGGFVEEI 35 (35)
T ss_pred CCEeCccCCCEeEeCcCCCCCcCCcCCCCcEeEeC
Confidence 4899999999998753 34466999999999998
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=1.9e-12 Score=128.06 Aligned_cols=75 Identities=32% Similarity=0.775 Sum_probs=63.0
Q ss_pred CCCCcccHHHHHcCCcccccc---C---cccccccCCccCCCceEEcCCCCccchhchHHHHhcCCC-CCCcCcccCCCC
Q 017252 220 YGTPPAQKEAVEAMPSVKIEE---T---LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS-CPVCRCQLPADE 292 (375)
Q Consensus 220 ~~~~~~~~~~v~~lp~~~~~~---~---~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~s-CP~CR~~l~~~~ 292 (375)
.......+..+.++|...+.. + ..|+||+|+|..|+..+.|||+|.||..||++||..+.+ ||+||..+....
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 355667788999999877664 1 289999999999999999999999999999999988754 999999876554
Q ss_pred CC
Q 017252 293 FK 294 (375)
Q Consensus 293 ~~ 294 (375)
..
T Consensus 282 ~~ 283 (348)
T KOG4628|consen 282 GS 283 (348)
T ss_pred CC
Confidence 43
No 3
>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=5.9e-13 Score=94.03 Aligned_cols=43 Identities=49% Similarity=1.261 Sum_probs=40.3
Q ss_pred ccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcC
Q 017252 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR 285 (375)
.|+||++.|..+..++.++|+|.||..||..|++.+.+||+||
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 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=2.5e-10 Score=112.52 Aligned_cols=55 Identities=33% Similarity=0.885 Sum_probs=46.3
Q ss_pred cCcccccccCC-ccCC---------CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252 240 ETLQCSVCLDD-FEIG---------TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK 294 (375)
Q Consensus 240 ~~~~C~ICle~-~~~~---------~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~ 294 (375)
++..|.||+++ |..+ ..+++|||||++|..|++.|++++.+||+||.++--+...
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS 350 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence 47899999999 4333 3679999999999999999999999999999986555444
No 5
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.04 E-value=3.6e-10 Score=103.68 Aligned_cols=63 Identities=27% Similarity=0.651 Sum_probs=51.4
Q ss_pred cccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc----------------CCCCCCcCcccCCCCCCCchhc
Q 017252 236 VKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL----------------HSSCPVCRCQLPADEFKPESER 299 (375)
Q Consensus 236 ~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~----------------~~sCP~CR~~l~~~~~~~~~~~ 299 (375)
+...+++.|+||++.+ ..++.++|+|.||..||..|+.. ...||+||..+....+.+...+
T Consensus 13 ~~~~~~~~CpICld~~---~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygr 89 (193)
T PLN03208 13 VDSGGDFDCNICLDQV---RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGR 89 (193)
T ss_pred ccCCCccCCccCCCcC---CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeecc
Confidence 3445578999999999 78889999999999999999852 2469999999988777766654
Q ss_pred cc
Q 017252 300 SR 301 (375)
Q Consensus 300 ~~ 301 (375)
..
T Consensus 90 g~ 91 (193)
T PLN03208 90 GQ 91 (193)
T ss_pred CC
Confidence 43
No 6
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=2.5e-10 Score=106.59 Aligned_cols=59 Identities=29% Similarity=0.709 Sum_probs=50.2
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHhc---CCCCCCcCcccCCCCCCCchhccc
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL---HSSCPVCRCQLPADEFKPESERSR 301 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~---~~sCP~CR~~l~~~~~~~~~~~~~ 301 (375)
..+.|.|||+.- ++++++.|||.||..||.+||.. .+.||+||..+..+++.|.+++..
T Consensus 46 ~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~ 107 (230)
T KOG0823|consen 46 GFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGS 107 (230)
T ss_pred Cceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCC
Confidence 478999999998 89999999999999999999974 446999999998877766665544
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.96 E-value=5e-10 Score=106.31 Aligned_cols=64 Identities=27% Similarity=0.593 Sum_probs=48.1
Q ss_pred cHHHHHcCCcccc--------ccCcccccccCCccCCC-----ceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 226 QKEAVEAMPSVKI--------EETLQCSVCLDDFEIGT-----EAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 226 ~~~~v~~lp~~~~--------~~~~~C~ICle~~~~~~-----~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
.+..+..+|.+.. ..+.+|+||++.+.... .++.++|+|.||..||.+|++.+.+||+||..+.
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 4455556665431 23689999999875332 1345579999999999999999999999998775
No 8
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.96 E-value=3.9e-10 Score=88.50 Aligned_cols=45 Identities=36% Similarity=0.877 Sum_probs=35.9
Q ss_pred CcccccccCCccC----------CCceEEcCCCCccchhchHHHHhcCCCCCCcC
Q 017252 241 TLQCSVCLDDFEI----------GTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285 (375)
Q Consensus 241 ~~~C~ICle~~~~----------~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR 285 (375)
+..|+||++.|.. ...+...+|+|.||..||.+||+.+.+||+||
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 4459999999922 23445567999999999999999999999997
No 9
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=6.1e-10 Score=107.31 Aligned_cols=50 Identities=34% Similarity=1.030 Sum_probs=45.7
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPA 290 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~ 290 (375)
..+|+|||+.|-.++..+.|||.|.||..|+..|+. -+..||+||..+++
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 678999999998888999999999999999999998 56679999999874
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=98.82 E-value=2.6e-09 Score=77.43 Aligned_cols=46 Identities=26% Similarity=0.776 Sum_probs=40.8
Q ss_pred CcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
+..|.||++.. ..+..+||+|. ||..|+..|++....||+||+++.
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 46899999998 78999999999 999999999999999999999874
No 11
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=1.7e-09 Score=103.79 Aligned_cols=49 Identities=35% Similarity=0.895 Sum_probs=45.3
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~ 292 (375)
..+|.|||+.. ..+..+||||+||..||..|...+..||+||..+.+.+
T Consensus 239 ~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 239 TRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 68999999998 89999999999999999999999999999999887654
No 12
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.80 E-value=3.1e-09 Score=74.75 Aligned_cols=38 Identities=37% Similarity=0.938 Sum_probs=30.6
Q ss_pred cccccCCccCCCceEEcCCCCccchhchHHHHhcC----CCCCCc
Q 017252 244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH----SSCPVC 284 (375)
Q Consensus 244 C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~----~sCP~C 284 (375)
|+||++.| .+++.|+|||.||..||..|++.. ..||+|
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 999999999999999999999753 359987
No 13
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.78 E-value=3.5e-09 Score=72.90 Aligned_cols=38 Identities=42% Similarity=1.117 Sum_probs=32.9
Q ss_pred cccccCCccCCCce-EEcCCCCccchhchHHHHhcCCCCCCc
Q 017252 244 CSVCLDDFEIGTEA-KEMPCKHKFHSQCILPWLELHSSCPVC 284 (375)
Q Consensus 244 C~ICle~~~~~~~~-~~lpCgH~Fh~~Ci~~WL~~~~sCP~C 284 (375)
|+||++.+ ..+ +.++|||.||..||..|++....||+|
T Consensus 1 C~iC~~~~---~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL---RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB----SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcc---cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999 667 688999999999999999998899998
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=98.77 E-value=4.9e-09 Score=78.75 Aligned_cols=52 Identities=21% Similarity=0.515 Sum_probs=45.9
Q ss_pred cccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCCCc
Q 017252 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPE 296 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~~ 296 (375)
+.|+||++.+ ..++.++|||+|+..||..|++.+..||+|+..+....+.+.
T Consensus 2 ~~Cpi~~~~~---~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 2 FLCPISLEVM---KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred cCCcCCCCcC---CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeC
Confidence 6799999999 778999999999999999999988899999998876655543
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=4.1e-09 Score=94.94 Aligned_cols=54 Identities=33% Similarity=0.706 Sum_probs=44.5
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK 294 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~ 294 (375)
..+.|+|||+.+... .++.+.|||+||..||+..++....||+|++.|..+.+.
T Consensus 130 ~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFH 183 (187)
T ss_pred cccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccchhhhe
Confidence 358999999999422 234577999999999999999999999999988766554
No 16
>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=98.67 E-value=1.4e-08 Score=69.81 Aligned_cols=43 Identities=40% Similarity=1.130 Sum_probs=35.7
Q ss_pred ccccccCCccCCCceEEc-CCCCccchhchHHHHhc-CCCCCCcCccc
Q 017252 243 QCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLEL-HSSCPVCRCQL 288 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l 288 (375)
.|+||++.+ ..+..+ +|+|.||..|+..|++. ...||+|+..+
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 599999998 444444 49999999999999987 77899998754
No 17
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.58 E-value=3.3e-08 Score=68.32 Aligned_cols=38 Identities=39% Similarity=1.151 Sum_probs=33.4
Q ss_pred cccccCCccCCCceE-EcCCCCccchhchHHHHh--cCCCCCCc
Q 017252 244 CSVCLDDFEIGTEAK-EMPCKHKFHSQCILPWLE--LHSSCPVC 284 (375)
Q Consensus 244 C~ICle~~~~~~~~~-~lpCgH~Fh~~Ci~~WL~--~~~sCP~C 284 (375)
|+||++.+ ..+. .++|+|.||..||..|++ ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF---EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC---SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc---cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999 6666 889999999999999998 45569988
No 18
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.58 E-value=3e-08 Score=100.54 Aligned_cols=52 Identities=31% Similarity=0.708 Sum_probs=45.4
Q ss_pred ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291 (375)
Q Consensus 237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~ 291 (375)
.++..+.|+||++.| ..++.++|+|.||..||..|+.....||+|+..+...
T Consensus 22 ~Le~~l~C~IC~d~~---~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 22 PLDTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccccCCCcCchhh---hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 345578999999999 7788899999999999999999888999999877644
No 19
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=2.5e-08 Score=105.41 Aligned_cols=48 Identities=38% Similarity=1.039 Sum_probs=42.9
Q ss_pred CcccccccCCccCCCc--eEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252 241 TLQCSVCLDDFEIGTE--AKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~--~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l 288 (375)
+..|+||++.+..+.. +++|+|+|+||..|++.|+++..+||+||..+
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 7899999999954433 89999999999999999999999999999844
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.52 E-value=7e-08 Score=64.05 Aligned_cols=38 Identities=37% Similarity=1.183 Sum_probs=34.1
Q ss_pred cccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCc
Q 017252 244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVC 284 (375)
Q Consensus 244 C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~C 284 (375)
|+||++.. ..+..++|+|.||..|+..|+. ....||+|
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 78999996 7888999999999999999998 56679987
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.50 E-value=7.9e-08 Score=67.98 Aligned_cols=44 Identities=23% Similarity=0.739 Sum_probs=38.6
Q ss_pred ccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCc
Q 017252 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
.|.||++.|.....+..++|+|+||..|+..+......||+|++
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 49999999966677899999999999999999866678999984
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=98.46 E-value=8.1e-08 Score=89.60 Aligned_cols=50 Identities=24% Similarity=0.629 Sum_probs=38.1
Q ss_pred cCcccccccCCccCCC------ceEEcCCCCccchhchHHHHhcC------CCCCCcCcccC
Q 017252 240 ETLQCSVCLDDFEIGT------EAKEMPCKHKFHSQCILPWLELH------SSCPVCRCQLP 289 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~------~~~~lpCgH~Fh~~Ci~~WL~~~------~sCP~CR~~l~ 289 (375)
++.+|+||++...... .....+|+|.||..||..|...+ .+||+||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4789999999863221 23344699999999999999753 35999998764
No 23
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.41 E-value=1.8e-07 Score=75.19 Aligned_cols=51 Identities=31% Similarity=0.693 Sum_probs=38.4
Q ss_pred cCcccccccCCccCCC----------ceEEcCCCCccchhchHHHHhc---CCCCCCcCcccCC
Q 017252 240 ETLQCSVCLDDFEIGT----------EAKEMPCKHKFHSQCILPWLEL---HSSCPVCRCQLPA 290 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~----------~~~~lpCgH~Fh~~Ci~~WL~~---~~sCP~CR~~l~~ 290 (375)
.+..|.||...|...- .++.-.|+|.||..||.+||.. +..||+||+.+..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 4778999998884111 2233359999999999999975 4579999987643
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=9.9e-08 Score=97.94 Aligned_cols=55 Identities=29% Similarity=0.726 Sum_probs=46.4
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhc-----CCCCCCcCcccCCCCCCCchh
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-----HSSCPVCRCQLPADEFKPESE 298 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-----~~sCP~CR~~l~~~~~~~~~~ 298 (375)
+..|+|||+.. ..+..+.|||+||..||.++|.. ...||+|+..+....+.+...
T Consensus 186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI 245 (513)
T ss_pred CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence 78999999998 78888889999999999998864 346999999988877665543
No 25
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.31 E-value=2.4e-07 Score=72.51 Aligned_cols=55 Identities=20% Similarity=0.463 Sum_probs=43.4
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCCCch
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFKPES 297 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~~~~ 297 (375)
+.+.|+||.+.| .++++++|||.|.+.||..|+.. ..+||+|+..+....+.+..
T Consensus 3 ~~f~CpIt~~lM---~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~ 58 (73)
T PF04564_consen 3 DEFLCPITGELM---RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNR 58 (73)
T ss_dssp GGGB-TTTSSB----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-H
T ss_pred cccCCcCcCcHh---hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECH
Confidence 468899999999 99999999999999999999988 88999999988876665543
No 26
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.27 E-value=1.7e-07 Score=91.85 Aligned_cols=50 Identities=30% Similarity=0.816 Sum_probs=45.1
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~ 291 (375)
..-+.|.||.++| ..+.++||+|.||..||..+|..+..||.|++.+...
T Consensus 21 D~lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 21 DDLLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred HHHHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceecccchh
Confidence 3457899999999 8899999999999999999999999999999877643
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=4.5e-07 Score=86.40 Aligned_cols=50 Identities=28% Similarity=0.747 Sum_probs=42.9
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHH-HHhcCCC-CCCcCcccCCC
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILP-WLELHSS-CPVCRCQLPAD 291 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~-WL~~~~s-CP~CR~~l~~~ 291 (375)
..+..|.||++.. ..+..++|||+||..||.. |-+.+.- ||+||+....+
T Consensus 213 ~~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 3488999999999 8899999999999999999 8766665 99999876544
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.20 E-value=7.3e-07 Score=63.06 Aligned_cols=34 Identities=24% Similarity=0.662 Sum_probs=22.2
Q ss_pred cccccCCc-cCCCceEEcCCCCccchhchHHHHhcC
Q 017252 244 CSVCLDDF-EIGTEAKEMPCKHKFHSQCILPWLELH 278 (375)
Q Consensus 244 C~ICle~~-~~~~~~~~lpCgH~Fh~~Ci~~WL~~~ 278 (375)
|+||++ | .....++.|+|||+||.+||..|++..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 7 334458999999999999999999743
No 29
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.12 E-value=9.2e-07 Score=85.23 Aligned_cols=47 Identities=34% Similarity=0.640 Sum_probs=42.9
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
..+.|-||-+.| ..+..++|||.||..||+..|..+..||+||++..
T Consensus 24 s~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 24 SMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 357899999999 88889999999999999999999999999997654
No 30
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=1.7e-06 Score=80.81 Aligned_cols=46 Identities=41% Similarity=0.894 Sum_probs=39.8
Q ss_pred cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCc
Q 017252 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
+.+.+.|+||++.| ..++.++|+|.||..||..++.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~---~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYF---REPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHh---hcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 34578999999999 66689999999999999999885557999993
No 31
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.97 E-value=4.7e-06 Score=65.91 Aligned_cols=29 Identities=38% Similarity=0.948 Sum_probs=26.7
Q ss_pred CCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 261 PCKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 261 pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
-|.|.||..||.+||..+..||++|+...
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 39999999999999999999999998764
No 32
>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=97.94 E-value=6.2e-06 Score=80.98 Aligned_cols=54 Identities=20% Similarity=0.429 Sum_probs=40.0
Q ss_pred CcccccccCCccCCCce--EEcCCCCccchhchHHHH-hcCCCCCCcCcccCCCCCC
Q 017252 241 TLQCSVCLDDFEIGTEA--KEMPCKHKFHSQCILPWL-ELHSSCPVCRCQLPADEFK 294 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~--~~lpCgH~Fh~~Ci~~WL-~~~~sCP~CR~~l~~~~~~ 294 (375)
+..|+||+..-...... .+.+|||.||..|+...+ .....||.|+..+....+.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 46899999964333332 233799999999999966 4456799999988776643
No 33
>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=97.90 E-value=8.5e-06 Score=59.17 Aligned_cols=42 Identities=24% Similarity=0.775 Sum_probs=33.7
Q ss_pred ccccccCCccCCCceEEcCCC-----CccchhchHHHHhcC--CCCCCcC
Q 017252 243 QCSVCLDDFEIGTEAKEMPCK-----HKFHSQCILPWLELH--SSCPVCR 285 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCg-----H~Fh~~Ci~~WL~~~--~sCP~CR 285 (375)
.|.||++ ...+..+.++||. |.+|..|+.+|+..+ .+||+|+
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 4899998 4445677789985 889999999999644 4799995
No 34
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=2.9e-06 Score=81.11 Aligned_cols=51 Identities=25% Similarity=0.748 Sum_probs=42.1
Q ss_pred CcccccccCCccCCC-------ceEEcCCCCccchhchHHHH--hcCCCCCCcCcccCCC
Q 017252 241 TLQCSVCLDDFEIGT-------EAKEMPCKHKFHSQCILPWL--ELHSSCPVCRCQLPAD 291 (375)
Q Consensus 241 ~~~C~ICle~~~~~~-------~~~~lpCgH~Fh~~Ci~~WL--~~~~sCP~CR~~l~~~ 291 (375)
+..|+||-..+.... ...+|.|+|+||..||+.|- ..+.+||.|+..+..+
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 678999999885554 67789999999999999995 4677999998876543
No 35
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=5.2e-06 Score=84.91 Aligned_cols=51 Identities=39% Similarity=1.065 Sum_probs=39.6
Q ss_pred cCcccccccCCccCCC--------------ceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCC
Q 017252 240 ETLQCSVCLDDFEIGT--------------EAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPA 290 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~--------------~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~ 290 (375)
....|+|||..+..-. .-..+||.|+||..|+.+|+.. +--||+||.+|+.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3678999999873211 1224589999999999999985 4489999999874
No 36
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=9.4e-06 Score=78.80 Aligned_cols=51 Identities=24% Similarity=0.450 Sum_probs=43.4
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFK 294 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~ 294 (375)
+.+|+||+... ..++.|+|+|.||..||+.-..+ +.+|++||++++...+.
T Consensus 7 ~~eC~IC~nt~---n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 7 KKECLICYNTG---NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred CCcceeeeccC---CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 46899999998 88899999999999999987765 45699999999866443
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.71 E-value=9.9e-06 Score=63.09 Aligned_cols=49 Identities=27% Similarity=0.713 Sum_probs=22.8
Q ss_pred CcccccccCCcc-CCCceEEc----CCCCccchhchHHHHhc----C-------CCCCCcCcccC
Q 017252 241 TLQCSVCLDDFE-IGTEAKEM----PCKHKFHSQCILPWLEL----H-------SSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~-~~~~~~~l----pCgH~Fh~~Ci~~WL~~----~-------~sCP~CR~~l~ 289 (375)
+..|.||+..+. .+..+.++ .|++.||..||..||.. + ..||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999875 33333222 48999999999999962 1 13999998875
No 38
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.70 E-value=1.3e-05 Score=61.08 Aligned_cols=49 Identities=39% Similarity=0.791 Sum_probs=25.7
Q ss_pred ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252 239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~ 292 (375)
+.-+.|++|.+.+ ..++.| .|.|+||..||..-+. .-||+|+.+.-..+
T Consensus 5 e~lLrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 5 EELLRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp HHTTS-SSS-S-----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred HHhcCCcHHHHHh---cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 3457899999999 777654 5999999999988654 34999987654443
No 39
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.70 E-value=9.4e-06 Score=88.24 Aligned_cols=61 Identities=26% Similarity=0.751 Sum_probs=43.2
Q ss_pred HHHcCCccccccCcccccccCCcc-CCC--ceEEcC-CCCccchhchHHHHhc--CCCCCCcCcccC
Q 017252 229 AVEAMPSVKIEETLQCSVCLDDFE-IGT--EAKEMP-CKHKFHSQCILPWLEL--HSSCPVCRCQLP 289 (375)
Q Consensus 229 ~v~~lp~~~~~~~~~C~ICle~~~-~~~--~~~~lp-CgH~Fh~~Ci~~WL~~--~~sCP~CR~~l~ 289 (375)
...+--..++.+..+|+||+..+. .+. .-+..+ |+|.||..|+..|+.. .++||+||..++
T Consensus 1457 l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1457 LWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred HHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 333434456677899999999884 111 112222 9999999999999974 557999998775
No 40
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=1.8e-05 Score=65.56 Aligned_cols=28 Identities=36% Similarity=0.890 Sum_probs=25.8
Q ss_pred CCCCccchhchHHHHhcCCCCCCcCccc
Q 017252 261 PCKHKFHSQCILPWLELHSSCPVCRCQL 288 (375)
Q Consensus 261 pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l 288 (375)
-|.|.||..||.+||+.+..||+|.++.
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 4999999999999999999999998754
No 41
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=9.8e-06 Score=63.64 Aligned_cols=49 Identities=33% Similarity=0.776 Sum_probs=35.6
Q ss_pred CcccccccCCccCC---------CceEEcC-CCCccchhchHHHHhc---CCCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEIG---------TEAKEMP-CKHKFHSQCILPWLEL---HSSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~---------~~~~~lp-CgH~Fh~~Ci~~WL~~---~~sCP~CR~~l~ 289 (375)
+..|-||.-.|... .-+.++- |.|.||..||.+|+.. +..||+||+.+.
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 45888888887321 2233333 9999999999999964 345999998764
No 42
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.52 E-value=3.6e-05 Score=78.25 Aligned_cols=54 Identities=37% Similarity=0.903 Sum_probs=41.1
Q ss_pred CccccccCcccccccCCccCCCc-eEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 234 PSVKIEETLQCSVCLDDFEIGTE-AKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 234 p~~~~~~~~~C~ICle~~~~~~~-~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
+...+.+--+|+|||+.+..... .+.+.|.|.||..|+..|. -.+||+||.-..
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 44445556799999999965443 3445599999999999996 468999997655
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=1.1e-05 Score=79.82 Aligned_cols=49 Identities=29% Similarity=0.681 Sum_probs=39.6
Q ss_pred cccCcccccccCCccCCCceEEcC-CCCccchhchHHHHh-cCCCCCCcCcccC
Q 017252 238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLE-LHSSCPVCRCQLP 289 (375)
Q Consensus 238 ~~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~ 289 (375)
+..++.|+|||+.+ .....++ |.|.||..||..-+. ..+.||.||+.+.
T Consensus 40 ~~~~v~c~icl~ll---k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 40 FDIQVICPICLSLL---KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhhhccHHHHHHH---HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 34478999999999 5555555 999999999988876 4668999998764
No 44
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=4.7e-05 Score=81.79 Aligned_cols=55 Identities=29% Similarity=0.680 Sum_probs=45.5
Q ss_pred ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccCCCCCC
Q 017252 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPADEFK 294 (375)
Q Consensus 237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~~~~ 294 (375)
.+.+-+.|++|-.-+ ..++++.|+|+||..|+..-+. ++..||.|.+.+-..+..
T Consensus 639 ~yK~~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 639 EYKELLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred HHHhceeCCCccCch---hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 344578999999888 7777888999999999999985 677899999888665543
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=0.00014 Score=72.72 Aligned_cols=62 Identities=24% Similarity=0.563 Sum_probs=42.2
Q ss_pred HHHHcCCccccccCcccccccCCccCCC-----ceEEcCCCCccchhchHHHH--hc-----CCCCCCcCcccC
Q 017252 228 EAVEAMPSVKIEETLQCSVCLDDFEIGT-----EAKEMPCKHKFHSQCILPWL--EL-----HSSCPVCRCQLP 289 (375)
Q Consensus 228 ~~v~~lp~~~~~~~~~C~ICle~~~~~~-----~~~~lpCgH~Fh~~Ci~~WL--~~-----~~sCP~CR~~l~ 289 (375)
..++..-......+..|.||++...... ..+..+|.|.||..||..|- .+ .+.||.||....
T Consensus 148 ~~~e~~~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 148 SAMERSFALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred HhhhhccCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 3344333333356789999999884322 22224499999999999998 34 467999997543
No 46
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00011 Score=73.50 Aligned_cols=51 Identities=29% Similarity=0.824 Sum_probs=37.9
Q ss_pred cccccccCCccCCCceEEcC-CCCccchhchHHHHhcC---CCCCCcCcccCCCC
Q 017252 242 LQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELH---SSCPVCRCQLPADE 292 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~---~sCP~CR~~l~~~~ 292 (375)
..|.||.+.+........+. |||+||..|+.+|+..- ..||+|+-.++...
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~ 59 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERH 59 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccccee
Confidence 57999977765455555555 99999999999999852 47999994444333
No 47
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.24 E-value=0.00016 Score=71.95 Aligned_cols=46 Identities=26% Similarity=0.720 Sum_probs=40.7
Q ss_pred CcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
..+|.|||.+. ....+|||.|. .|..|.+....+++.||+||.++.
T Consensus 290 gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 57899999999 89999999996 688998887778999999999874
No 48
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.21 E-value=0.00017 Score=70.08 Aligned_cols=89 Identities=24% Similarity=0.501 Sum_probs=58.5
Q ss_pred ccHHHHHHHHHhcCCCCCCCCcccHHHHHcCC---ccccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh---
Q 017252 203 PGLDLLLQHLAENDPNRYGTPPAQKEAVEAMP---SVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE--- 276 (375)
Q Consensus 203 ~~l~~li~~L~~~~~~~~~~~~~~~~~v~~lp---~~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~--- 276 (375)
+.|..|.+++.+......+. |.-.+.++... +..--..-.|.|||--|..+....+++|-|.||..|+-++|.
T Consensus 75 ~~~~~i~~~~~~iikq~~g~-pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~ 153 (368)
T KOG4445|consen 75 PEFREIQRQIQEIIKQNSGM-PIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECL 153 (368)
T ss_pred HHHHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHH
Confidence 45666666665555444553 33333333211 111112678999999998888888999999999999998775
Q ss_pred --------------------cCCCCCCcCcccCCCC
Q 017252 277 --------------------LHSSCPVCRCQLPADE 292 (375)
Q Consensus 277 --------------------~~~sCP~CR~~l~~~~ 292 (375)
....||+||..|..+.
T Consensus 154 ~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 154 TGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred HHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 1225999998886543
No 49
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.11 E-value=0.00024 Score=72.48 Aligned_cols=55 Identities=35% Similarity=0.829 Sum_probs=47.0
Q ss_pred cccCcccccccCCccCCCceEE-cCCCCccchhchHHHHhcCCCCCCcCcccCCCCCCC
Q 017252 238 IEETLQCSVCLDDFEIGTEAKE-MPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP 295 (375)
Q Consensus 238 ~~~~~~C~ICle~~~~~~~~~~-lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~ 295 (375)
+++++.|+||...+ ..+.. +.|+|.||..|+..|+..+..||.|+..+...+..+
T Consensus 18 ~~~~l~C~~C~~vl---~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 18 LDENLLCPICMSVL---RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred CcccccCccccccc---cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence 45679999999999 66766 589999999999999999999999988877665544
No 50
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.09 E-value=9.3e-05 Score=79.43 Aligned_cols=50 Identities=28% Similarity=0.546 Sum_probs=43.7
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA 290 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~ 290 (375)
...|++|+..+..+......+|+|.||..||..|-+...+||+||..+..
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 56899999999766666677799999999999999999999999987753
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.02 E-value=0.00026 Score=72.21 Aligned_cols=49 Identities=29% Similarity=0.709 Sum_probs=43.9
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA 290 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~ 290 (375)
..++.|.||+..+ ..++.+||||.||..||.+-+....-||+||..+..
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 4578999999999 888999999999999999988877789999998864
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.01 E-value=0.00024 Score=71.50 Aligned_cols=49 Identities=29% Similarity=0.848 Sum_probs=41.3
Q ss_pred cccccccCCccCCCceEEcCCCCccchhchHHHHhc--CCCCCCcCcccCCCCC
Q 017252 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL--HSSCPVCRCQLPADEF 293 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~--~~sCP~CR~~l~~~~~ 293 (375)
..|.||-+.- ..+++-||||..|..|+..|-.. ..+||.||.+|...+.
T Consensus 370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 4599999886 77888899999999999999743 5689999999976543
No 53
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.94 E-value=0.00016 Score=53.43 Aligned_cols=46 Identities=26% Similarity=0.713 Sum_probs=35.8
Q ss_pred CcccccccCCccCCCceEEcCCCCc-cchhchHHHHh-cCCCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLE-LHSSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~-~~~sCP~CR~~l~ 289 (375)
..+|.||++.. ...+...|||. .|..|-.+.++ .+..||+||+++.
T Consensus 7 ~dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 36899999987 55566679995 67888666555 7889999998774
No 54
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.74 E-value=0.00035 Score=68.81 Aligned_cols=50 Identities=26% Similarity=0.709 Sum_probs=42.1
Q ss_pred cccCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252 238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLPA 290 (375)
Q Consensus 238 ~~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~ 290 (375)
+.....|.+|-.+| .++..+. |-|.||..||...|...++||.|...+-.
T Consensus 12 ~n~~itC~LC~GYl---iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 12 LNPHITCRLCGGYL---IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred cccceehhhcccee---ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 34467899999999 6666665 99999999999999999999999876643
No 55
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.56 E-value=0.00065 Score=68.61 Aligned_cols=51 Identities=31% Similarity=0.780 Sum_probs=37.6
Q ss_pred CcccccccCCccCCC--ceEEcCCCCccchhchHHHHhc--CCCCCCcCcccCCC
Q 017252 241 TLQCSVCLDDFEIGT--EAKEMPCKHKFHSQCILPWLEL--HSSCPVCRCQLPAD 291 (375)
Q Consensus 241 ~~~C~ICle~~~~~~--~~~~lpCgH~Fh~~Ci~~WL~~--~~sCP~CR~~l~~~ 291 (375)
...|+||++.+.... ....+.|+|.|...||..||.+ ...||.|...-...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr 58 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKR 58 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHH
Confidence 468999999985432 3445669999999999999952 23599997554433
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.51 E-value=0.0013 Score=49.27 Aligned_cols=40 Identities=30% Similarity=0.797 Sum_probs=27.7
Q ss_pred CcccccccCCccCCCceEEc-CCCCccchhchHHHHhc--CCCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLEL--HSSCPV 283 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~--~~sCP~ 283 (375)
.+.|+|.+..| ..|+.- .|+|+|-+..|..||.. ...||+
T Consensus 11 ~~~CPiT~~~~---~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPF---EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB----SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChh---hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 68999999999 677664 69999999999999944 335998
No 57
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.47 E-value=0.002 Score=67.02 Aligned_cols=53 Identities=34% Similarity=0.747 Sum_probs=43.4
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHh-----cCCCCCCcCcccCCCCCCC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-----LHSSCPVCRCQLPADEFKP 295 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-----~~~sCP~CR~~l~~~~~~~ 295 (375)
+...|.+|-+.- ++.....|.|.||..||..++. ...+||+|...|..+...+
T Consensus 535 ~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ 592 (791)
T KOG1002|consen 535 GEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEP 592 (791)
T ss_pred CceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccch
Confidence 367899999998 7888889999999999999886 2457999998887664433
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.18 E-value=0.0018 Score=59.82 Aligned_cols=45 Identities=24% Similarity=0.602 Sum_probs=40.3
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l 288 (375)
.+.|.||..+| ..++++.|||.||..|...-++....|-+|-+..
T Consensus 196 PF~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 57899999999 8899999999999999988888888999997654
No 59
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.13 E-value=0.0015 Score=65.67 Aligned_cols=48 Identities=33% Similarity=0.790 Sum_probs=39.2
Q ss_pred CcccccccCCccC-CCceEEcCCCCccchhchHHHHhcCC--CCCCcCccc
Q 017252 241 TLQCSVCLDDFEI-GTEAKEMPCKHKFHSQCILPWLELHS--SCPVCRCQL 288 (375)
Q Consensus 241 ~~~C~ICle~~~~-~~~~~~lpCgH~Fh~~Ci~~WL~~~~--sCP~CR~~l 288 (375)
.+.|..|-+.+.. .+....|||.|+||..|+..+|.+.. +||.||+-.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 6889999998854 34567789999999999999997644 799999533
No 60
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.93 E-value=0.0055 Score=61.09 Aligned_cols=50 Identities=24% Similarity=0.450 Sum_probs=44.0
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~ 291 (375)
.++..|+||...- ..++..||+|.-|..||.+-|.+.+.|=+|+..+...
T Consensus 420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~ 469 (489)
T KOG4692|consen 420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDV 469 (489)
T ss_pred cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence 4577899999877 7888899999999999999999999999999877643
No 61
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.90 E-value=0.0035 Score=61.14 Aligned_cols=56 Identities=27% Similarity=0.665 Sum_probs=43.9
Q ss_pred CcccccccCCccCCCceEEcC-CCCccchhchHHHH-hcCCCCCCcC-cccCCCCCCCchhc
Q 017252 241 TLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWL-ELHSSCPVCR-CQLPADEFKPESER 299 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL-~~~~sCP~CR-~~l~~~~~~~~~~~ 299 (375)
.+.|+.|...+ ..+..++ |+|.||.+||...| ..-..||.|. +.+..+.+.++..+
T Consensus 274 ~LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk 332 (427)
T COG5222 274 SLKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDK 332 (427)
T ss_pred cccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHH
Confidence 48999999999 7888887 89999999999776 4567899994 45666666655443
No 62
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.76 E-value=0.0035 Score=61.11 Aligned_cols=46 Identities=26% Similarity=0.513 Sum_probs=40.9
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
.+.|-||...| ..++++.|+|.||..|-..-++....|.+|.+.+-
T Consensus 241 Pf~c~icr~~f---~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYF---YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred Ccccccccccc---ccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 46799999999 88999999999999999888888889999977653
No 63
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.0078 Score=58.21 Aligned_cols=47 Identities=23% Similarity=0.492 Sum_probs=37.7
Q ss_pred cCcccccccCCccCCCceEEcC-CCCccchhchHHHHh--cCCCCCCcCcccC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLE--LHSSCPVCRCQLP 289 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~--~~~sCP~CR~~l~ 289 (375)
.+.+|++|-+.. ..|.++. |+|+||..||..-+. ...+||.|-....
T Consensus 238 ~~~~C~~Cg~~P---tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 238 SDTECPVCGEPP---TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred CCceeeccCCCC---CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 478999999988 6666655 999999999988765 3568999976554
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=95.22 E-value=0.0097 Score=48.79 Aligned_cols=37 Identities=38% Similarity=0.639 Sum_probs=30.1
Q ss_pred ccccccCcccccccCCccCCCceEEcCCCCccchhchH
Q 017252 235 SVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCIL 272 (375)
Q Consensus 235 ~~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~ 272 (375)
.+.+.+...|+||-..+.. ......||+|+||..|+.
T Consensus 72 ~v~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 72 SVVITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred eEEECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 3455668889999999955 556788999999999985
No 65
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.11 E-value=0.012 Score=59.84 Aligned_cols=36 Identities=22% Similarity=0.635 Sum_probs=32.2
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHh
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE 276 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~ 276 (375)
.+.|.||++........+.+||+|+||+.|++.++.
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 578999999986657888999999999999999986
No 66
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.96 E-value=0.017 Score=41.55 Aligned_cols=40 Identities=28% Similarity=0.834 Sum_probs=26.7
Q ss_pred cccccCCccCCCceEEcCCC--C---ccchhchHHHHhc--CCCCCCc
Q 017252 244 CSVCLDDFEIGTEAKEMPCK--H---KFHSQCILPWLEL--HSSCPVC 284 (375)
Q Consensus 244 C~ICle~~~~~~~~~~lpCg--H---~Fh~~Ci~~WL~~--~~sCP~C 284 (375)
|-||++.-.... +.+.||. - ..|..|+.+|+.. ...|++|
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 679998875434 6678864 3 7899999999974 4569887
No 67
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.93 E-value=0.013 Score=42.49 Aligned_cols=44 Identities=27% Similarity=0.658 Sum_probs=22.2
Q ss_pred cccccCCccCCCceEEcC--CCCccchhchHHHHh-cCCCCCCcCccc
Q 017252 244 CSVCLDDFEIGTEAKEMP--CKHKFHSQCILPWLE-LHSSCPVCRCQL 288 (375)
Q Consensus 244 C~ICle~~~~~~~~~~lp--CgH~Fh~~Ci~~WL~-~~~sCP~CR~~l 288 (375)
|++|.+.+. ......+| |++.+|..|....++ ....||-||.+.
T Consensus 1 cp~C~e~~d-~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELD-ETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B---CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccc-cCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999983 23334455 899999999888886 477899999764
No 68
>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=94.87 E-value=0.0096 Score=52.02 Aligned_cols=38 Identities=18% Similarity=0.475 Sum_probs=31.3
Q ss_pred CcccccccCCccCCCceEEcCCC------CccchhchHHHHhcC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCK------HKFHSQCILPWLELH 278 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCg------H~Fh~~Ci~~WL~~~ 278 (375)
..+|.||++.+.....++.++|+ |.||..|+.+|-..+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 57899999999775667778886 999999999995433
No 69
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=94.78 E-value=0.017 Score=66.03 Aligned_cols=51 Identities=29% Similarity=0.646 Sum_probs=41.4
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC----------CCCCCcCcccCC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH----------SSCPVCRCQLPA 290 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~----------~sCP~CR~~l~~ 290 (375)
.+..|-||+.+-......++|.|+|+||..|....|++. -+||+|+.++..
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 378899999987666778899999999999998766532 259999987753
No 70
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.61 E-value=0.036 Score=60.77 Aligned_cols=49 Identities=24% Similarity=0.708 Sum_probs=34.9
Q ss_pred ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCC-------CCCCcCcc
Q 017252 239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHS-------SCPVCRCQ 287 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~-------sCP~CR~~ 287 (375)
...++|.||.+.+.....+-.- .|-|+||..||..|-.... .||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 4578999999999533322211 2789999999999986421 39999843
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.47 E-value=0.024 Score=56.80 Aligned_cols=44 Identities=36% Similarity=0.689 Sum_probs=33.5
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
....|.||++.. ...+.+||||.-| |+.-.. ....||+||..+.
T Consensus 304 ~p~lcVVcl~e~---~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEP---KSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCc---cceeeecCCcEEE--chHHHh-hCCCCchhHHHHH
Confidence 367899999999 6689999999866 765433 3334999997653
No 72
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.23 E-value=0.01 Score=57.81 Aligned_cols=41 Identities=24% Similarity=0.667 Sum_probs=32.8
Q ss_pred CcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCccc
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQL 288 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l 288 (375)
...|+||++.. .+.+.|+|||. -|.+|-+.. +.||+||+.+
T Consensus 300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence 56799999998 88999999995 466775443 4799999765
No 73
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.22 E-value=0.024 Score=51.76 Aligned_cols=51 Identities=25% Similarity=0.617 Sum_probs=37.9
Q ss_pred CcccccccCCccCCCceEE----cCCCCccchhchHHHHhcC-----------CCCCCcCcccCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKE----MPCKHKFHSQCILPWLELH-----------SSCPVCRCQLPAD 291 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~----lpCgH~Fh~~Ci~~WL~~~-----------~sCP~CR~~l~~~ 291 (375)
.-.|.||+.+-..|..+-+ ..|+..||.-|+..||..- ..||+|-.++..+
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 4569999988766654443 3599999999999999731 1499998877543
No 74
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.15 E-value=0.022 Score=54.23 Aligned_cols=46 Identities=20% Similarity=0.481 Sum_probs=33.9
Q ss_pred ccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~ 291 (375)
.|..|.---. +....++.|.|+||..|...-. ...||+|++.+...
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRII 50 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceeeee
Confidence 5777776554 5666778899999999976532 22899999887644
No 75
>PHA02862 5L protein; Provisional
Probab=94.02 E-value=0.03 Score=49.50 Aligned_cols=44 Identities=20% Similarity=0.603 Sum_probs=33.3
Q ss_pred cccccccCCccCCCceEEcCCC-----CccchhchHHHHhc--CCCCCCcCcccC
Q 017252 242 LQCSVCLDDFEIGTEAKEMPCK-----HKFHSQCILPWLEL--HSSCPVCRCQLP 289 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lpCg-----H~Fh~~Ci~~WL~~--~~sCP~CR~~l~ 289 (375)
..|=||++.-... .-||. ...|..|+.+|+.. +..|++|+.++.
T Consensus 3 diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 5799999985322 35765 57899999999964 457999998764
No 76
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.92 E-value=0.042 Score=40.84 Aligned_cols=46 Identities=26% Similarity=0.551 Sum_probs=33.5
Q ss_pred cccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~ 292 (375)
..|-.|...- .....+||+|..|..|..- ++-+.||+|.+.+...+
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 3455555544 6677899999999999654 45678999988776443
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.80 E-value=0.043 Score=54.79 Aligned_cols=47 Identities=30% Similarity=0.787 Sum_probs=39.7
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHH--HHhcCCCCCCcCccc
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILP--WLELHSSCPVCRCQL 288 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~--WL~~~~sCP~CR~~l 288 (375)
++...|.||.+.+ .-..++||+|..|..|-.+ .|...+.||+||...
T Consensus 59 Een~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 59 EENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 4467899999998 7888999999999999765 467888999999754
No 78
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.69 E-value=0.017 Score=51.94 Aligned_cols=29 Identities=31% Similarity=0.858 Sum_probs=26.9
Q ss_pred cCcccccccCCccCCCceEEcCCCCccch
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHS 268 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~ 268 (375)
+.-+|.||||++..+.....|||-.+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 36789999999999999999999999996
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.56 E-value=0.055 Score=51.78 Aligned_cols=54 Identities=19% Similarity=0.290 Sum_probs=44.5
Q ss_pred CcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK 294 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~ 294 (375)
.+.|+||.+.+........| ||||+|+.+|+...+..-..||+|-.++...+..
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII 275 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence 67899999999655544444 6999999999999999899999998888766543
No 80
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.55 E-value=0.055 Score=51.13 Aligned_cols=48 Identities=23% Similarity=0.574 Sum_probs=37.5
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcC--------CCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH--------SSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~--------~sCP~CR~~l~ 289 (375)
..-|.+|-..+..++. +.|-|-|+||.+|+..|-.+- -.||.|..+|.
T Consensus 50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 4579999988866654 467799999999999997531 24999988774
No 81
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.40 E-value=0.036 Score=54.93 Aligned_cols=48 Identities=21% Similarity=0.443 Sum_probs=39.3
Q ss_pred cCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLPA 290 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~ 290 (375)
+...|+||+... ..+..+. -|-+||..||..++..++.||+-..++..
T Consensus 299 ~~~~CpvClk~r---~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v 347 (357)
T KOG0826|consen 299 DREVCPVCLKKR---QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASV 347 (357)
T ss_pred ccccChhHHhcc---CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchH
Confidence 467899999987 5555555 69999999999999999999997665543
No 82
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.31 E-value=0.094 Score=50.68 Aligned_cols=52 Identities=19% Similarity=0.410 Sum_probs=39.5
Q ss_pred cCcccccccCCccCCCce-EEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252 240 ETLQCSVCLDDFEIGTEA-KEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~-~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~ 292 (375)
..+.|||+...|...... ...+|||+|...+|...- ....||+|-.++...+
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED 164 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence 368899999999443334 444799999999998873 3557999998887543
No 83
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=92.81 E-value=0.22 Score=51.23 Aligned_cols=35 Identities=34% Similarity=0.690 Sum_probs=30.7
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHHHHh
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE 276 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~ 276 (375)
++++.|+||...| .++++|||+|..|..|....+.
T Consensus 2 eeelkc~vc~~f~---~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFY---REPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhc---cCceEeecccHHHHHHHHhhcc
Confidence 4678999999999 9999999999999999876553
No 84
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.70 E-value=0.043 Score=62.58 Aligned_cols=84 Identities=24% Similarity=0.520 Sum_probs=55.3
Q ss_pred cccCccHHHHHHHHHhcCCCCCCCCcccHHHHHcCCccccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC
Q 017252 199 YFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH 278 (375)
Q Consensus 199 ~~~g~~l~~li~~L~~~~~~~~~~~~~~~~~v~~lp~~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~ 278 (375)
+...+|+-.++..|++............+..+..+ ..+.+...|.||++.+. ....+..|+|.+|..|+..|+..+
T Consensus 1113 ~ls~~G~~r~lk~l~e~~~~~~~~i~~~es~~~y~--~~~~~~~~c~ic~dil~--~~~~I~~cgh~~c~~c~~~~l~~~ 1188 (1394)
T KOG0298|consen 1113 FLSIPGLLRYLKGLKESKADTPCKIAQTESDVRYL--MNLSGHFVCEICLDILR--NQGGIAGCGHEPCCRCDELWLYAS 1188 (1394)
T ss_pred hhccchHHHHHHHHHHHhccCccccCCccchHHHH--HHhhcccchHHHHHHHH--hcCCeeeechhHhhhHHHHHHHHh
Confidence 33445666777777665443333322222222221 12334569999999993 244566799999999999999999
Q ss_pred CCCCCcCc
Q 017252 279 SSCPVCRC 286 (375)
Q Consensus 279 ~sCP~CR~ 286 (375)
..||.|+.
T Consensus 1189 s~~~~~ks 1196 (1394)
T KOG0298|consen 1189 SRCPICKS 1196 (1394)
T ss_pred ccCcchhh
Confidence 99999974
No 85
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=92.58 E-value=0.076 Score=45.36 Aligned_cols=35 Identities=31% Similarity=0.713 Sum_probs=28.4
Q ss_pred CceeccccCcceeccCCCCccCCCCCCCceeeccCC
Q 017252 8 SRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSG 43 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~~~ 43 (375)
...||..|.+.|.+. .-+.+||.|+|..+.=+.+.
T Consensus 69 ~~~~C~~C~~~~~~e-~~~~~CP~C~s~~~~i~~G~ 103 (115)
T COG0375 69 AECWCLDCGQEVELE-ELDYRCPKCGSINLRIIGGD 103 (115)
T ss_pred cEEEeccCCCeecch-hheeECCCCCCCceEEecCC
Confidence 468999999999887 35677999999998766543
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=92.51 E-value=0.041 Score=38.83 Aligned_cols=41 Identities=24% Similarity=0.751 Sum_probs=22.9
Q ss_pred cccccCCccCCCceEEcCCCCccchhchHHHHhcCC--CCCCc
Q 017252 244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS--SCPVC 284 (375)
Q Consensus 244 C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~--sCP~C 284 (375)
|.+|.+....|..-....|.-.+|..|+..++.... .||.|
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 778998884443332223999999999999997655 69987
No 87
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.32 E-value=0.087 Score=51.37 Aligned_cols=47 Identities=23% Similarity=0.601 Sum_probs=38.1
Q ss_pred cccccccCCccCC---CceEEcCCCCccchhchHHHHhcC-CCCCCcCccc
Q 017252 242 LQCSVCLDDFEIG---TEAKEMPCKHKFHSQCILPWLELH-SSCPVCRCQL 288 (375)
Q Consensus 242 ~~C~ICle~~~~~---~~~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l 288 (375)
..|-||-++|... ..|+.|.|||.||..|+...+... ..||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 5799999999554 367888899999999998777543 3699999874
No 88
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=92.31 E-value=0.089 Score=47.27 Aligned_cols=47 Identities=21% Similarity=0.672 Sum_probs=34.2
Q ss_pred cCcccccccCCccCCCceEEcCCC--C---ccchhchHHHHhc--CCCCCCcCcccCC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCK--H---KFHSQCILPWLEL--HSSCPVCRCQLPA 290 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCg--H---~Fh~~Ci~~WL~~--~~sCP~CR~~l~~ 290 (375)
.+..|-||.+.-. ....||. . ..|.+|+.+|+.. ...|++|++++..
T Consensus 7 ~~~~CRIC~~~~~----~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 7 MDKCCWICKDEYD----VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCeeEecCCCCC----CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 3568999998852 2235755 3 5699999999964 4469999877643
No 89
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=92.12 E-value=0.13 Score=46.15 Aligned_cols=51 Identities=22% Similarity=0.569 Sum_probs=36.9
Q ss_pred CcccccccCCccCCCceEEcCCC------------C-ccchhchHHHHhc------------------------------
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCK------------H-KFHSQCILPWLEL------------------------------ 277 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCg------------H-~Fh~~Ci~~WL~~------------------------------ 277 (375)
+..|+|||+.. ..++.|-|. . .-|..||+++.+.
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 57899999998 777777653 1 2367899987651
Q ss_pred -CCCCCCcCcccCCCCCC
Q 017252 278 -HSSCPVCRCQLPADEFK 294 (375)
Q Consensus 278 -~~sCP~CR~~l~~~~~~ 294 (375)
.-.||+||..+..+...
T Consensus 79 ~~L~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 79 PELACPLCRGEVKGWTVV 96 (162)
T ss_pred ccccCccccCceeceEEc
Confidence 12499999999877654
No 90
>PHA03096 p28-like protein; Provisional
Probab=91.81 E-value=0.082 Score=51.95 Aligned_cols=36 Identities=25% Similarity=0.577 Sum_probs=27.4
Q ss_pred cccccccCCccCCC----ceEEcC-CCCccchhchHHHHhc
Q 017252 242 LQCSVCLDDFEIGT----EAKEMP-CKHKFHSQCILPWLEL 277 (375)
Q Consensus 242 ~~C~ICle~~~~~~----~~~~lp-CgH~Fh~~Ci~~WL~~ 277 (375)
..|.||++...... .-..|+ |.|.||..|+..|...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence 67999999875321 223455 9999999999999863
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.08 E-value=0.081 Score=57.77 Aligned_cols=47 Identities=26% Similarity=0.644 Sum_probs=39.2
Q ss_pred cccccccCCccCCCceEEcCCCCccchhchHHHHhcCC--CCCCcCcccCCCC
Q 017252 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS--SCPVCRCQLPADE 292 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~--sCP~CR~~l~~~~ 292 (375)
..|.||++ . ..+...+|+|.||..|+...+.... .||+||..+....
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 79999999 4 7888999999999999999886433 5999998775443
No 92
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.81 E-value=0.11 Score=57.09 Aligned_cols=42 Identities=24% Similarity=0.698 Sum_probs=33.1
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcc
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQ 287 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~ 287 (375)
...|.+|--.++ ...+...|+|.||..|+. .....||.|+..
T Consensus 840 ~skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 568999998883 344666799999999987 445679999763
No 93
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.61 E-value=0.12 Score=51.11 Aligned_cols=44 Identities=25% Similarity=0.618 Sum_probs=30.0
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l 288 (375)
...|.-|--.+. ..-+.+||+|+||.+|-.. ..-+.||.|--.+
T Consensus 90 VHfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 90 VHFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eEeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 345666755442 4456789999999999642 3456899996444
No 94
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.37 E-value=0.13 Score=50.34 Aligned_cols=46 Identities=24% Similarity=0.668 Sum_probs=38.1
Q ss_pred CcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCc
Q 017252 241 TLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 241 ~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
...|+||.+.+... ..+..++|+|..|..|+.......-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 45599999987544 45678889999999999988877788999987
No 95
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=89.09 E-value=0.27 Score=42.98 Aligned_cols=49 Identities=20% Similarity=0.602 Sum_probs=37.6
Q ss_pred CcccccccCCccCCCceEEcC----CCCccchhchHHHHh---cCCCCCCcCcccCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMP----CKHKFHSQCILPWLE---LHSSCPVCRCQLPADE 292 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lp----CgH~Fh~~Ci~~WL~---~~~sCP~CR~~l~~~~ 292 (375)
-.+|.||.|.- .+.+-|. ||-..|..|....|+ .+..||+|+..+....
T Consensus 80 lYeCnIC~etS---~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 80 LYECNICKETS---AEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred ceeccCccccc---chhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 57899999998 3333342 999999999888776 4567999998886543
No 96
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=88.68 E-value=0.32 Score=41.37 Aligned_cols=34 Identities=24% Similarity=0.445 Sum_probs=26.4
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~ 41 (375)
..+.||+.|...+.+. .....||.|++..++=+.
T Consensus 68 p~~~~C~~Cg~~~~~~-~~~~~CP~Cgs~~~~i~~ 101 (115)
T TIGR00100 68 PVECECEDCSEEVSPE-IDLYRCPKCHGIMLQVRA 101 (115)
T ss_pred CcEEEcccCCCEEecC-CcCccCcCCcCCCcEEec
Confidence 4689999999888776 346789999998765443
No 97
>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=88.65 E-value=0.99 Score=45.79 Aligned_cols=29 Identities=24% Similarity=0.815 Sum_probs=22.0
Q ss_pred CCCccchhchHHHHh-------------cCCCCCCcCcccCC
Q 017252 262 CKHKFHSQCILPWLE-------------LHSSCPVCRCQLPA 290 (375)
Q Consensus 262 CgH~Fh~~Ci~~WL~-------------~~~sCP~CR~~l~~ 290 (375)
|....|.+|+-+|+. .+..||+||+.+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 556678899999875 23469999998764
No 98
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.29 E-value=0.029 Score=56.67 Aligned_cols=51 Identities=24% Similarity=0.604 Sum_probs=42.1
Q ss_pred CcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252 241 TLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291 (375)
Q Consensus 241 ~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~ 291 (375)
...|+||.+.++.. .....+-|+|.+|..||..||.....||.|+..|+..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 45799999988544 4556677999999999999999888999999888643
No 99
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.01 E-value=0.34 Score=49.29 Aligned_cols=46 Identities=15% Similarity=0.304 Sum_probs=38.7
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcC---CCCCCcCc
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH---SSCPVCRC 286 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~---~sCP~CR~ 286 (375)
.+.|||=.+.-.....|..|.|||+.+.+-|.+..+.. ..||+|-.
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 67899988887777899999999999999998877643 36999943
No 100
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=87.88 E-value=0.31 Score=48.72 Aligned_cols=53 Identities=23% Similarity=0.573 Sum_probs=37.3
Q ss_pred cCcccccccCCccCCCc-eEEcCCCCccchhchHHHHh-cCCCCCCcCcccCCCC
Q 017252 240 ETLQCSVCLDDFEIGTE-AKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPADE 292 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~-~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~~ 292 (375)
++..|++|++.+...+. ..-.|||-..|.-|....-+ ....||-||.......
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 34559999999965442 33456998889988766544 3557999998765443
No 101
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=87.42 E-value=0.42 Score=40.86 Aligned_cols=35 Identities=23% Similarity=0.256 Sum_probs=25.5
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~ 41 (375)
..++||..|...+.+......+||.|++-.++=+.
T Consensus 69 p~~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~~~i~~ 103 (117)
T PRK00564 69 KVELECKDCSHVFKPNALDYGVCEKCHSKNVIITQ 103 (117)
T ss_pred CCEEEhhhCCCccccCCccCCcCcCCCCCceEEec
Confidence 46899999998876652233569999988766443
No 102
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=87.40 E-value=0.43 Score=40.58 Aligned_cols=35 Identities=23% Similarity=0.710 Sum_probs=25.2
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~ 41 (375)
-.++||..|...+......-..||.|++..++=+.
T Consensus 68 p~~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~~~i~~ 102 (114)
T PRK03681 68 EAECWCETCQQYVTLLTQRVRRCPQCHGDMLRIVA 102 (114)
T ss_pred CcEEEcccCCCeeecCCccCCcCcCcCCCCcEEcc
Confidence 46899999998876652222669999987765443
No 103
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=86.69 E-value=0.5 Score=40.09 Aligned_cols=34 Identities=26% Similarity=0.694 Sum_probs=25.8
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~ 41 (375)
..++||..|...+.+. .....||.|++.-++=+.
T Consensus 68 p~~~~C~~Cg~~~~~~-~~~~~CP~Cgs~~~~i~~ 101 (113)
T PRK12380 68 PAQAWCWDCSQVVEIH-QHDAQCPHCHGERLRVDT 101 (113)
T ss_pred CcEEEcccCCCEEecC-CcCccCcCCCCCCcEEcc
Confidence 4689999999887775 345679999987665443
No 104
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=86.21 E-value=0.24 Score=35.82 Aligned_cols=44 Identities=25% Similarity=0.613 Sum_probs=25.7
Q ss_pred ccccccCCccCCCceEEcCCC-CccchhchHHHHhcCCCCCCcCcccCCC
Q 017252 243 QCSVCLDDFEIGTEAKEMPCK-HKFHSQCILPWLELHSSCPVCRCQLPAD 291 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCg-H~Fh~~Ci~~WL~~~~sCP~CR~~l~~~ 291 (375)
.|.-|+-.. ...+.|. |..|..|+...|.....||+|..+|+..
T Consensus 4 nCKsCWf~~-----k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFAN-----KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S-------SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcC-----CCeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 466666544 2344586 9999999999999999999999998754
No 105
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=85.77 E-value=0.63 Score=32.93 Aligned_cols=31 Identities=23% Similarity=0.574 Sum_probs=24.2
Q ss_pred ceeccccCcceeccCCC-CccCCCCCCCceee
Q 017252 9 RYWCHMCSQIVDPIMEV-EIKCPFCQSGFVEE 39 (375)
Q Consensus 9 ~ywCh~C~~~V~~~~~~-e~~CP~C~~gFvEE 39 (375)
.|-|-.|...+...... .++||+|++-|+-.
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~~ 34 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRILFK 34 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEEEc
Confidence 58899999988554333 69999999988743
No 106
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=85.07 E-value=0.62 Score=45.66 Aligned_cols=51 Identities=25% Similarity=0.609 Sum_probs=36.8
Q ss_pred ccccccCCccCCCceEE--cCCCCccchhchHHHHhc-CCCCCCcCcccCCCCC
Q 017252 243 QCSVCLDDFEIGTEAKE--MPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEF 293 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~--lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~ 293 (375)
.|++|..........+. -+|+|..|..|+...+.. ...||.|-..|.....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence 58999876543333333 369999999999998754 5579999877765544
No 107
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=84.88 E-value=0.41 Score=40.57 Aligned_cols=33 Identities=30% Similarity=0.603 Sum_probs=22.8
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceeec
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEM 40 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm 40 (375)
..++||..|.....+.. ....||.|++..++=+
T Consensus 68 p~~~~C~~Cg~~~~~~~-~~~~CP~Cgs~~~~i~ 100 (113)
T PF01155_consen 68 PARARCRDCGHEFEPDE-FDFSCPRCGSPDVEII 100 (113)
T ss_dssp --EEEETTTS-EEECHH-CCHH-SSSSSS-EEEE
T ss_pred CCcEECCCCCCEEecCC-CCCCCcCCcCCCcEEc
Confidence 36899999999998873 4488999999877543
No 108
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=84.88 E-value=0.67 Score=40.56 Aligned_cols=34 Identities=24% Similarity=0.345 Sum_probs=24.7
Q ss_pred CCceeccccCcceeccC--------------------CCCccCCCCCCCceeec
Q 017252 7 ASRYWCHMCSQIVDPIM--------------------EVEIKCPFCQSGFVEEM 40 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~--------------------~~e~~CP~C~~gFvEEm 40 (375)
-.+|||..|...+.+.. ....+||.|++.-++=.
T Consensus 68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~ 121 (135)
T PRK03824 68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIV 121 (135)
T ss_pred ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEe
Confidence 36899999998876541 23477999998766533
No 109
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=84.80 E-value=0.56 Score=34.18 Aligned_cols=31 Identities=29% Similarity=0.713 Sum_probs=24.6
Q ss_pred CCceeccccCccee-ccCCCCccCCCCCCCce
Q 017252 7 ASRYWCHMCSQIVD-PIMEVEIKCPFCQSGFV 37 (375)
Q Consensus 7 ~~~ywCh~C~~~V~-~~~~~e~~CP~C~~gFv 37 (375)
...|-|-.|.+.|. +.....|.||+|++--+
T Consensus 4 ~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl 35 (49)
T COG1996 4 MMEYKCARCGREVELDQETRGIRCPYCGSRIL 35 (49)
T ss_pred eEEEEhhhcCCeeehhhccCceeCCCCCcEEE
Confidence 35799999999996 44466799999987543
No 110
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=84.56 E-value=0.55 Score=29.19 Aligned_cols=22 Identities=32% Similarity=0.854 Sum_probs=18.8
Q ss_pred ccccCcceeccC-CCCccCCCCC
Q 017252 12 CHMCSQIVDPIM-EVEIKCPFCQ 33 (375)
Q Consensus 12 Ch~C~~~V~~~~-~~e~~CP~C~ 33 (375)
|..|.+.|.|.- ....+||.|+
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCcccCceEeCCCCC
Confidence 789999998875 6779999996
No 111
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=84.42 E-value=0.74 Score=32.69 Aligned_cols=29 Identities=17% Similarity=0.416 Sum_probs=24.8
Q ss_pred ceeccccCcceeccCCCCccCCCCCCCce
Q 017252 9 RYWCHMCSQIVDPIMEVEIKCPFCQSGFV 37 (375)
Q Consensus 9 ~ywCh~C~~~V~~~~~~e~~CP~C~~gFv 37 (375)
.|-|-.|...|.......|+||.|+.--+
T Consensus 2 ~Y~C~~Cg~~~~~~~~~~irC~~CG~rIl 30 (44)
T smart00659 2 IYICGECGRENEIKSKDVVRCRECGYRIL 30 (44)
T ss_pred EEECCCCCCEeecCCCCceECCCCCceEE
Confidence 48999999999888777899999987544
No 112
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=83.83 E-value=0.97 Score=29.98 Aligned_cols=26 Identities=31% Similarity=0.634 Sum_probs=20.9
Q ss_pred eeccccCcceeccCCCCccCCCCCCC
Q 017252 10 YWCHMCSQIVDPIMEVEIKCPFCQSG 35 (375)
Q Consensus 10 ywCh~C~~~V~~~~~~e~~CP~C~~g 35 (375)
|-|-.|...|.......|+||.|+.-
T Consensus 1 Y~C~~Cg~~~~~~~~~~irC~~CG~R 26 (32)
T PF03604_consen 1 YICGECGAEVELKPGDPIRCPECGHR 26 (32)
T ss_dssp EBESSSSSSE-BSTSSTSSBSSSS-S
T ss_pred CCCCcCCCeeEcCCCCcEECCcCCCe
Confidence 78999999998777777999999753
No 113
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=81.22 E-value=1.3 Score=32.93 Aligned_cols=39 Identities=26% Similarity=0.617 Sum_probs=31.4
Q ss_pred CcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPV 283 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~ 283 (375)
...|.+|-+.|+.+.++++-| |+-.+|+.|... ...|-+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 457999999998888888888 999999999543 345544
No 114
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=81.00 E-value=1.2 Score=44.19 Aligned_cols=43 Identities=28% Similarity=0.760 Sum_probs=33.2
Q ss_pred cCcccccccCCccCCCceEEcCC--CCccchhchHHHHhcCCCCCCcCcccC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPC--KHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpC--gH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
+-+.|+||.+.+ ..+ .+.| ||.-|..|-. +..+.||.||.++.
T Consensus 47 ~lleCPvC~~~l---~~P-i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPL---SPP-IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccC---ccc-ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 457899999998 333 4556 6999999864 45678999998886
No 115
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=80.61 E-value=0.41 Score=51.99 Aligned_cols=52 Identities=23% Similarity=0.716 Sum_probs=40.0
Q ss_pred cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC---CCCCCcCcccCCCCCC
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH---SSCPVCRCQLPADEFK 294 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~---~sCP~CR~~l~~~~~~ 294 (375)
..++|+||+..+ ..+..+.|-|.||..|+..-+... .-||+|+..+......
T Consensus 20 k~lEc~ic~~~~---~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~ 74 (684)
T KOG4362|consen 20 KILECPICLEHV---KEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR 74 (684)
T ss_pred hhccCCceeEEe---eccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence 368999999999 556788899999999987765443 3599999776654433
No 116
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.83 E-value=0.78 Score=50.98 Aligned_cols=37 Identities=27% Similarity=0.617 Sum_probs=28.8
Q ss_pred cccCcccccccCCccCCCceEEcCCCCccchhchHHHH
Q 017252 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWL 275 (375)
Q Consensus 238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL 275 (375)
++-...|.+|.-.+.. ..-.+.||||.||..||..-.
T Consensus 814 ~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 3447889999988743 345677899999999998754
No 117
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=78.65 E-value=1.3 Score=38.28 Aligned_cols=34 Identities=24% Similarity=0.366 Sum_probs=23.6
Q ss_pred CCceeccccCcceeccC-C---C--CccCCCCCCCceeecc
Q 017252 7 ASRYWCHMCSQIVDPIM-E---V--EIKCPFCQSGFVEEMG 41 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~-~---~--e~~CP~C~~gFvEEm~ 41 (375)
..++|| .|.....+.. . . -..||.|++..++=+.
T Consensus 68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~ 107 (124)
T PRK00762 68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILG 107 (124)
T ss_pred CeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEec
Confidence 468999 9998865531 1 1 1569999988766443
No 118
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=77.80 E-value=1.1 Score=34.12 Aligned_cols=29 Identities=28% Similarity=0.526 Sum_probs=22.5
Q ss_pred ccccCcceeccCCCCccCCCCCCC-ceeeccCC
Q 017252 12 CHMCSQIVDPIMEVEIKCPFCQSG-FVEEMGSG 43 (375)
Q Consensus 12 Ch~C~~~V~~~~~~e~~CP~C~~g-FvEEm~~~ 43 (375)
|+.|.+.+..- .-.||.|++- |.||-...
T Consensus 7 C~~Ck~l~~~d---~e~CP~Cgs~~~te~W~G~ 36 (64)
T COG2093 7 CKNCKRLTPED---TEICPVCGSTDLTEEWFGL 36 (64)
T ss_pred HhhccccCCCC---CccCCCCCCcccchhhccE
Confidence 99998877543 4579999998 88886554
No 119
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=77.67 E-value=1.2 Score=49.05 Aligned_cols=53 Identities=23% Similarity=0.696 Sum_probs=38.4
Q ss_pred ccCcccccccCCccCCCceEEcCCC-----CccchhchHHHHhc--CCCCCCcCcccCCCC
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCK-----HKFHSQCILPWLEL--HSSCPVCRCQLPADE 292 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCg-----H~Fh~~Ci~~WL~~--~~sCP~CR~~l~~~~ 292 (375)
+++..|-||..+-. ...+.--||+ ...|.+|+..|+.- ...|-+|+.++.-+.
T Consensus 10 ~d~~~CRICr~e~~-~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDI-RDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCC-CCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 34678999998753 3445555776 35899999999974 445999998776443
No 120
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=76.28 E-value=2.5 Score=30.69 Aligned_cols=41 Identities=24% Similarity=0.556 Sum_probs=20.4
Q ss_pred cccccccCCccCCCceEEc-CCCCccchhchHHHHhc---CC--CCCCcCc
Q 017252 242 LQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLEL---HS--SCPVCRC 286 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~---~~--sCP~CR~ 286 (375)
+.|+|....+ ..+++. .|.|.-|.+ +..||.. .. .||+|.+
T Consensus 3 L~CPls~~~i---~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRI---RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB----SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEE---EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 5799999888 555544 599986654 4556642 22 4999975
No 121
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=75.91 E-value=1.7 Score=27.45 Aligned_cols=23 Identities=30% Similarity=0.655 Sum_probs=18.3
Q ss_pred ccccCcceeccCCCCccCCCCCCCce
Q 017252 12 CHMCSQIVDPIMEVEIKCPFCQSGFV 37 (375)
Q Consensus 12 Ch~C~~~V~~~~~~e~~CP~C~~gFv 37 (375)
|-.|.+.|... ..+||+|+--|.
T Consensus 3 CP~C~~~V~~~---~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 3 CPECGAEVPES---AKFCPHCGYDFE 25 (26)
T ss_pred CCCCcCCchhh---cCcCCCCCCCCc
Confidence 78899988443 688999998774
No 122
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.83 E-value=1.7 Score=44.54 Aligned_cols=37 Identities=24% Similarity=0.673 Sum_probs=27.7
Q ss_pred Cccccccc-CCccCCCceEEcCCCCccchhchHHHHhc
Q 017252 241 TLQCSVCL-DDFEIGTEAKEMPCKHKFHSQCILPWLEL 277 (375)
Q Consensus 241 ~~~C~ICl-e~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~ 277 (375)
...|.||+ +..........+.|+|.||..|+++.++.
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 67899999 55433333345669999999999998863
No 123
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=74.77 E-value=1.4 Score=48.33 Aligned_cols=25 Identities=28% Similarity=0.781 Sum_probs=22.0
Q ss_pred EcCCCCccchhchHHHHhcCCCCCC
Q 017252 259 EMPCKHKFHSQCILPWLELHSSCPV 283 (375)
Q Consensus 259 ~lpCgH~Fh~~Ci~~WL~~~~sCP~ 283 (375)
-..|+|+.|..|...|+.....||.
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hccccccccHHHHHHHHhcCCcCCC
Confidence 4459999999999999999888885
No 124
>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=74.28 E-value=1.1 Score=43.09 Aligned_cols=49 Identities=27% Similarity=0.617 Sum_probs=36.8
Q ss_pred CcccccccCCccCCCceEEc--C-CCCccchhchHHHHhcC-CCCC--CcCcccC
Q 017252 241 TLQCSVCLDDFEIGTEAKEM--P-CKHKFHSQCILPWLELH-SSCP--VCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~l--p-CgH~Fh~~Ci~~WL~~~-~sCP--~CR~~l~ 289 (375)
+..|+||..+-......+.| | |-|.+|..|+.+.+... .-|| -|.+-|.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 56899999877555554444 5 99999999999998654 4699 7865443
No 125
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=73.96 E-value=1.3 Score=42.89 Aligned_cols=51 Identities=20% Similarity=0.533 Sum_probs=37.1
Q ss_pred CcccccccCCccCCCc-eEEcCCC-----CccchhchHHHHh--cCCCCCCcCcccCCC
Q 017252 241 TLQCSVCLDDFEIGTE-AKEMPCK-----HKFHSQCILPWLE--LHSSCPVCRCQLPAD 291 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~-~~~lpCg-----H~Fh~~Ci~~WL~--~~~sCP~CR~~l~~~ 291 (375)
...|-||......... ....||. +..|..|+..|+. ....|.+|.......
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 4689999997733221 5677764 6679999999997 455799998765443
No 126
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.83 E-value=1.2 Score=48.11 Aligned_cols=43 Identities=28% Similarity=0.715 Sum_probs=31.9
Q ss_pred CcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCc
Q 017252 241 TLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 241 ~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
-+.|.||+..|... ..++.+-|||..|..|+.... ..+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence 46799998887443 367777899999999987654 45677 544
No 127
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.11 E-value=1.9 Score=42.50 Aligned_cols=31 Identities=19% Similarity=0.582 Sum_probs=24.2
Q ss_pred CCCccchhchHHHHh-------------cCCCCCCcCcccCCCC
Q 017252 262 CKHKFHSQCILPWLE-------------LHSSCPVCRCQLPADE 292 (375)
Q Consensus 262 CgH~Fh~~Ci~~WL~-------------~~~sCP~CR~~l~~~~ 292 (375)
|....|.+|+-+|+. ++..||.||+.+...+
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 667788899998875 3457999999887544
No 128
>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=70.47 E-value=3.7 Score=27.73 Aligned_cols=28 Identities=21% Similarity=0.615 Sum_probs=20.7
Q ss_pred CCceeccccCcceeccC----CCCccCCCCCC
Q 017252 7 ASRYWCHMCSQIVDPIM----EVEIKCPFCQS 34 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~----~~e~~CP~C~~ 34 (375)
.-.|-|..|...+.... ...+.||.|++
T Consensus 3 ~Y~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 3 IYEYRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred CEEEEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 45699999999764322 34588999998
No 129
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=69.71 E-value=3.2 Score=45.59 Aligned_cols=40 Identities=23% Similarity=0.460 Sum_probs=30.7
Q ss_pred CcccccccCCccCCCceEE-cC-CCCccchhchHHHHhcCCCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKE-MP-CKHKFHSQCILPWLELHSSCPV 283 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~-lp-CgH~Fh~~Ci~~WL~~~~sCP~ 283 (375)
...|.+|-..+ ..... -+ |+|.-|..|+..|+..+.-||.
T Consensus 779 ~~~CtVC~~vi---~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVI---RGVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeeccee---eeeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 44788888776 22222 22 9999999999999999888887
No 130
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.58 E-value=1.9 Score=41.73 Aligned_cols=50 Identities=26% Similarity=0.601 Sum_probs=34.8
Q ss_pred cCcccccccCCccCCCce-EEcCCC-----CccchhchHHHHhcC--------CCCCCcCcccC
Q 017252 240 ETLQCSVCLDDFEIGTEA-KEMPCK-----HKFHSQCILPWLELH--------SSCPVCRCQLP 289 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~-~~lpCg-----H~Fh~~Ci~~WL~~~--------~sCP~CR~~l~ 289 (375)
.+..|-||+..-++.... -+-||. |..|..|+..|+..+ .+||.|+.+..
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 366799999876443322 233653 889999999999422 25999997654
No 131
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.92 E-value=3 Score=41.02 Aligned_cols=36 Identities=25% Similarity=0.618 Sum_probs=27.7
Q ss_pred CcccccccCCccCCCceEEcCC----CCccchhchHHHHhcCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPC----KHKFHSQCILPWLELHS 279 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpC----gH~Fh~~Ci~~WL~~~~ 279 (375)
.+.|.+|.|.++ +..-..| .|.||..|-...++.+.
T Consensus 268 pLcCTLC~ERLE---DTHFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 268 PLCCTLCHERLE---DTHFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred ceeehhhhhhhc---cCceeecCCCcccceecccCHHHHHhhc
Confidence 588999999994 3333345 69999999999987543
No 132
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.29 E-value=3.1 Score=39.12 Aligned_cols=39 Identities=26% Similarity=0.646 Sum_probs=29.0
Q ss_pred cccccCCccCCCceEEcCCCC-ccchhchHHHHhcCCCCCCcCcccC
Q 017252 244 CSVCLDDFEIGTEAKEMPCKH-KFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 244 C~ICle~~~~~~~~~~lpCgH-~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
|-+|-+.- ..+..+||.| .+|..|-.. ...||+|+....
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 88888876 7789999986 567777533 456999986543
No 133
>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=66.85 E-value=2 Score=32.12 Aligned_cols=30 Identities=20% Similarity=0.666 Sum_probs=23.1
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCcee
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVE 38 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvE 38 (375)
...|-|-.|..-+...+ .-+||.|+++||.
T Consensus 24 ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 24 ICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred EEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 56788888877766553 6789999999984
No 134
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=65.36 E-value=2.9 Score=28.44 Aligned_cols=12 Identities=42% Similarity=1.162 Sum_probs=9.7
Q ss_pred CCCccCCCCCCC
Q 017252 24 EVEIKCPFCQSG 35 (375)
Q Consensus 24 ~~e~~CP~C~~g 35 (375)
..+|+||+|++-
T Consensus 3 ~i~v~CP~C~s~ 14 (36)
T PF03811_consen 3 KIDVHCPRCQST 14 (36)
T ss_pred cEeeeCCCCCCC
Confidence 467999999874
No 135
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]
Probab=64.19 E-value=3.9 Score=37.84 Aligned_cols=30 Identities=27% Similarity=0.600 Sum_probs=21.9
Q ss_pred CceeccccCcceeccCCCCccCCCCCCCceeeccC
Q 017252 8 SRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGS 42 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~~ 42 (375)
.-|||-.|+..+. .-.|+-|.++|-+---+
T Consensus 13 ~iyWCe~cNlPl~-----~~~c~~cg~~~~~l~LT 42 (202)
T COG5270 13 PIYWCEKCNLPLL-----GRRCSVCGSKVEELRLT 42 (202)
T ss_pred ceeehhhCCCccc-----cccccccCCcceEEEeC
Confidence 5699999997653 45799999877554333
No 136
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=63.87 E-value=3.5 Score=25.19 Aligned_cols=22 Identities=23% Similarity=0.661 Sum_probs=17.0
Q ss_pred eccccCcceeccCCCCccCCCCCCC
Q 017252 11 WCHMCSQIVDPIMEVEIKCPFCQSG 35 (375)
Q Consensus 11 wCh~C~~~V~~~~~~e~~CP~C~~g 35 (375)
+|..|-..|... ...||.|+.-
T Consensus 1 ~Cp~CG~~~~~~---~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIEDD---AKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCCc---CcchhhhCCc
Confidence 588898888644 6789999864
No 137
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=62.50 E-value=4.3 Score=40.48 Aligned_cols=45 Identities=16% Similarity=0.304 Sum_probs=35.6
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhc---CCCCCCcC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL---HSSCPVCR 285 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~---~~sCP~CR 285 (375)
-+.|+|-.+.-.....|..|.|||+.-.+-+...-+. ...||+|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 5789997777777788999999999999888775543 33599994
No 138
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.09 E-value=3.8 Score=42.67 Aligned_cols=37 Identities=24% Similarity=0.679 Sum_probs=30.6
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL 277 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~ 277 (375)
.....|-||.+.+.. ....+.|+|.||..|+..++..
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 346799999999843 5777789999999999998863
No 139
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=61.82 E-value=3.4 Score=45.68 Aligned_cols=50 Identities=12% Similarity=0.230 Sum_probs=33.0
Q ss_pred CcccccccCCccCCC-ceEEcC---CCCccchhchHHHHhc------CCCCCCcCcccCC
Q 017252 241 TLQCSVCLDDFEIGT-EAKEMP---CKHKFHSQCILPWLEL------HSSCPVCRCQLPA 290 (375)
Q Consensus 241 ~~~C~ICle~~~~~~-~~~~lp---CgH~Fh~~Ci~~WL~~------~~sCP~CR~~l~~ 290 (375)
...|.||.-.+.... ..-.+| |+|.||..||..|+.+ +-.|++|..-|..
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 456677766663311 123344 9999999999999863 3358888765543
No 140
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=61.07 E-value=7.2 Score=32.99 Aligned_cols=33 Identities=24% Similarity=0.512 Sum_probs=26.6
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceee
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEE 39 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEE 39 (375)
+.-.-|..|..-+-=..-..|+||+|+.-|.-+
T Consensus 7 GtKR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCcccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 556679999998865555668899999999877
No 141
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=60.73 E-value=3.4 Score=30.33 Aligned_cols=29 Identities=31% Similarity=0.795 Sum_probs=21.2
Q ss_pred CceeccccCcceec---cCCCCccCCCCCCCc
Q 017252 8 SRYWCHMCSQIVDP---IMEVEIKCPFCQSGF 36 (375)
Q Consensus 8 ~~ywCh~C~~~V~~---~~~~e~~CP~C~~gF 36 (375)
.-+-|-.|.+.+-- ....|||||.|..=+
T Consensus 3 ~eiRC~~CnklLa~~g~~~~leIKCpRC~tiN 34 (51)
T PF10122_consen 3 KEIRCGHCNKLLAKAGEVIELEIKCPRCKTIN 34 (51)
T ss_pred cceeccchhHHHhhhcCccEEEEECCCCCccc
Confidence 34679999998743 334689999998643
No 142
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.46 E-value=4.6 Score=41.41 Aligned_cols=44 Identities=25% Similarity=0.502 Sum_probs=31.7
Q ss_pred CcccccccCCccCCC--ceEEcCCCCccchhchHHHHhcCCCCCCc
Q 017252 241 TLQCSVCLDDFEIGT--EAKEMPCKHKFHSQCILPWLELHSSCPVC 284 (375)
Q Consensus 241 ~~~C~ICle~~~~~~--~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~C 284 (375)
-..|++|.-.+.... ....-.|+|.||..|...|......|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 457888887764433 33333489999999999998877766555
No 143
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.74 E-value=6.5 Score=38.02 Aligned_cols=36 Identities=22% Similarity=0.301 Sum_probs=31.1
Q ss_pred cccCcccccccCCccCCCceEEcCCCCccchhchHHHHh
Q 017252 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE 276 (375)
Q Consensus 238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~ 276 (375)
++.-..|.+||..+ ..++..|=||+|+.+||..++.
T Consensus 40 iK~FdcCsLtLqPc---~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPC---RDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccc---cCCccCCCCeeeeHHHHHHHHH
Confidence 34456789999999 9999999999999999999864
No 144
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=57.96 E-value=9.4 Score=38.29 Aligned_cols=47 Identities=21% Similarity=0.427 Sum_probs=32.9
Q ss_pred ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcC
Q 017252 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285 (375)
Q Consensus 239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR 285 (375)
.....|-.|.+........+--.|++.||.+|-.-.-+.-..||-|.
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 34566999977775444444445999999999654444556799996
No 145
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.81 E-value=5.1 Score=42.82 Aligned_cols=46 Identities=30% Similarity=0.946 Sum_probs=38.0
Q ss_pred CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF 293 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~ 293 (375)
...|.||+... ..+..+|. |..|+..|+..+..||+|...+..+..
T Consensus 479 ~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 479 NDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred cCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 57899999987 45666788 889999999999999999887765543
No 146
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=57.32 E-value=6.7 Score=35.93 Aligned_cols=32 Identities=28% Similarity=0.621 Sum_probs=26.1
Q ss_pred CCceeccccCcce--eccCCCCccCCCCCCCcee
Q 017252 7 ASRYWCHMCSQIV--DPIMEVEIKCPFCQSGFVE 38 (375)
Q Consensus 7 ~~~ywCh~C~~~V--~~~~~~e~~CP~C~~gFvE 38 (375)
..-|.|-.|...+ .-+++.+.+||.|++-.++
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHHHHhhcCCcCCCCCCCCee
Confidence 4679999999887 4466778999999988776
No 147
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=56.17 E-value=6.8 Score=30.91 Aligned_cols=32 Identities=22% Similarity=0.580 Sum_probs=15.1
Q ss_pred ceeccccCcceeccCCCCccCCCCCCCceeeccC
Q 017252 9 RYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGS 42 (375)
Q Consensus 9 ~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~~ 42 (375)
-++||.|-.+..-+ .-..||.|+..=+.-+.-
T Consensus 9 vlrC~aCf~~t~~~--~k~FCp~CGn~TL~rvsv 40 (73)
T PF08772_consen 9 VLRCHACFKITKDM--TKQFCPKCGNATLKRVSV 40 (73)
T ss_dssp EEE-SSS--EES-S--S--S-SSS--S--EEEE-
T ss_pred eEEccccccCcCCC--CceeCcccCCCcceEEEE
Confidence 36899999887654 468999999886666543
No 148
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=54.58 E-value=6.3 Score=24.55 Aligned_cols=23 Identities=30% Similarity=0.785 Sum_probs=16.2
Q ss_pred eeccccCcceeccCCCCccCCCCCCC
Q 017252 10 YWCHMCSQIVDPIMEVEIKCPFCQSG 35 (375)
Q Consensus 10 ywCh~C~~~V~~~~~~e~~CP~C~~g 35 (375)
..|..|...|.+ ....||+|+.-
T Consensus 3 ~~Cp~Cg~~~~~---~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCPNCGAEIDP---DAKFCPNCGAK 25 (26)
T ss_pred CCCcccCCcCCc---ccccChhhCCC
Confidence 368889885433 36889999754
No 149
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.78 E-value=6 Score=30.17 Aligned_cols=14 Identities=36% Similarity=1.065 Sum_probs=11.6
Q ss_pred CCCccCCCCCCCce
Q 017252 24 EVEIKCPFCQSGFV 37 (375)
Q Consensus 24 ~~e~~CP~C~~gFv 37 (375)
..|++||+|+.-|.
T Consensus 46 ~gev~CPYC~t~y~ 59 (62)
T COG4391 46 EGEVVCPYCSTRYR 59 (62)
T ss_pred CCcEecCccccEEE
Confidence 46799999998774
No 150
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=52.82 E-value=11 Score=32.81 Aligned_cols=33 Identities=12% Similarity=0.191 Sum_probs=27.2
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceee
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEE 39 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEE 39 (375)
+.-+-|..|..-+--..-..|+||+|+.-|..+
T Consensus 7 GtKr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 7 GTKRICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred CccccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 566789999999866656779999999998777
No 151
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.23 E-value=8.3 Score=42.73 Aligned_cols=48 Identities=17% Similarity=0.412 Sum_probs=34.0
Q ss_pred ccccCcccccccCCccCC----CceEEcCCCCccchhchHHHHhcCCCCCCcC
Q 017252 237 KIEETLQCSVCLDDFEIG----TEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285 (375)
Q Consensus 237 ~~~~~~~C~ICle~~~~~----~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR 285 (375)
.+..+..|.-|.+..... ...+.+.|+|.||..|+.--..+.. |-.|-
T Consensus 780 ~v~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 780 LVSVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred eEeehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 334466899999887422 3567888999999999987665444 65553
No 152
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=52.05 E-value=5.1 Score=43.12 Aligned_cols=32 Identities=25% Similarity=0.694 Sum_probs=24.0
Q ss_pred cCCCCceeccccCcceeccCCC---------CccCCCCCCC
Q 017252 4 GVAASRYWCHMCSQIVDPIMEV---------EIKCPFCQSG 35 (375)
Q Consensus 4 ~~~~~~ywCh~C~~~V~~~~~~---------e~~CP~C~~g 35 (375)
..+++-|.|-+|.++|.+.... -+.|+.|+.+
T Consensus 335 gL~aQ~~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~ 375 (580)
T KOG1829|consen 335 GLDAQNFRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQN 375 (580)
T ss_pred hhhccCceecccCCCcccccccchhHhhhhhhhhCchhccc
Confidence 4456889999999999875432 2678888765
No 153
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=51.50 E-value=7.1 Score=40.41 Aligned_cols=24 Identities=38% Similarity=0.771 Sum_probs=19.5
Q ss_pred cccCcceeccCCCCccCCCCCCCceeec
Q 017252 13 HMCSQIVDPIMEVEIKCPFCQSGFVEEM 40 (375)
Q Consensus 13 h~C~~~V~~~~~~e~~CP~C~~gFvEEm 40 (375)
|.|.++|.. |++||.|+.-|-.=-
T Consensus 286 HrC~RIV~v----EYrCPEC~KVFsCPA 309 (500)
T KOG3993|consen 286 HRCPRIVHV----EYRCPECDKVFSCPA 309 (500)
T ss_pred ccCCeeEEe----eecCCcccccccCch
Confidence 788888864 799999999997643
No 154
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=50.86 E-value=13 Score=37.28 Aligned_cols=48 Identities=21% Similarity=0.576 Sum_probs=35.9
Q ss_pred CcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252 241 TLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288 (375)
Q Consensus 241 ~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l 288 (375)
...|+||.+..... ....-.||++..|..|+..-...+..||.||+..
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcc
Confidence 46899999987322 2333345888888889888888889999999544
No 155
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=50.18 E-value=7.7 Score=36.66 Aligned_cols=43 Identities=23% Similarity=0.622 Sum_probs=34.1
Q ss_pred CcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCc
Q 017252 241 TLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
-..|.+|.... ...+.- .|+-.+|..|+..+++...-||.|.-
T Consensus 181 lk~Cn~Ch~Lv---Iqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLV---IQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHh---heeeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 35799999987 433333 48888999999999999889999954
No 156
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=48.76 E-value=13 Score=34.56 Aligned_cols=39 Identities=38% Similarity=0.971 Sum_probs=26.5
Q ss_pred CcccccccCC-----ccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcC
Q 017252 241 TLQCSVCLDD-----FEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCR 285 (375)
Q Consensus 241 ~~~C~ICle~-----~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR 285 (375)
.+.|-||-.. |.. ..+..-+ |+-+||..|.. ...||.|.
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 6789999852 121 1333334 99999999975 26799994
No 157
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=47.94 E-value=7.5 Score=34.28 Aligned_cols=33 Identities=21% Similarity=0.466 Sum_probs=23.6
Q ss_pred CCceeccccCcceec--cC-----CCCccCCCCCCCceee
Q 017252 7 ASRYWCHMCSQIVDP--IM-----EVEIKCPFCQSGFVEE 39 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~--~~-----~~e~~CP~C~~gFvEE 39 (375)
..-|.|-.|.+.+.. ++ .....||.|+.-.++.
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEED 136 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEEc
Confidence 467999999988743 11 2238999999876653
No 158
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=47.78 E-value=4.9 Score=29.89 Aligned_cols=25 Identities=28% Similarity=0.731 Sum_probs=17.7
Q ss_pred eeccccCcceeccC---CCCccCCCCCC
Q 017252 10 YWCHMCSQIVDPIM---EVEIKCPFCQS 34 (375)
Q Consensus 10 ywCh~C~~~V~~~~---~~e~~CP~C~~ 34 (375)
--|-.|.+..--+- --|+|||.|..
T Consensus 5 iRC~~CnKlLa~a~~~~yle~KCPrCK~ 32 (60)
T COG4416 5 IRCAKCNKLLAEAEGQAYLEKKCPRCKE 32 (60)
T ss_pred eehHHHhHHHHhcccceeeeecCCccce
Confidence 45888888764432 24799999974
No 159
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=47.74 E-value=12 Score=27.30 Aligned_cols=33 Identities=24% Similarity=0.494 Sum_probs=24.3
Q ss_pred Cceecc--ccCcceecc---CCCCccCCCCCCCceeec
Q 017252 8 SRYWCH--MCSQIVDPI---MEVEIKCPFCQSGFVEEM 40 (375)
Q Consensus 8 ~~ywCh--~C~~~V~~~---~~~e~~CP~C~~gFvEEm 40 (375)
..-||. .|...|... ....++||.|+-.|--.-
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C 54 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRC 54 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCC
Confidence 345999 999988654 244599999998886443
No 160
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=47.39 E-value=8.9 Score=34.37 Aligned_cols=35 Identities=17% Similarity=0.422 Sum_probs=26.5
Q ss_pred CCceeccccCcce--eccCCCCccCCCCCCCceeeccC
Q 017252 7 ASRYWCHMCSQIV--DPIMEVEIKCPFCQSGFVEEMGS 42 (375)
Q Consensus 7 ~~~ywCh~C~~~V--~~~~~~e~~CP~C~~gFvEEm~~ 42 (375)
..-|.|-.|...+ .-+++.+.+||.|++- ++++++
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~-L~~~dn 143 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAMELNFTCPRCGAM-LDYLDN 143 (158)
T ss_pred CCeEECCCCCcEeeHHHHHHcCCcCCCCCCE-eeeccC
Confidence 5679999999887 4466778999999987 444444
No 161
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=47.37 E-value=6.8 Score=24.26 Aligned_cols=13 Identities=31% Similarity=0.994 Sum_probs=10.5
Q ss_pred ccCCCCCCCceee
Q 017252 27 IKCPFCQSGFVEE 39 (375)
Q Consensus 27 ~~CP~C~~gFvEE 39 (375)
+.||.|+..|..+
T Consensus 3 ~~C~~CgR~F~~~ 15 (25)
T PF13913_consen 3 VPCPICGRKFNPD 15 (25)
T ss_pred CcCCCCCCEECHH
Confidence 5799999999653
No 162
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=45.28 E-value=13 Score=28.27 Aligned_cols=18 Identities=44% Similarity=1.088 Sum_probs=14.7
Q ss_pred ccccCcceeccCCCCccCCCCCC
Q 017252 12 CHMCSQIVDPIMEVEIKCPFCQS 34 (375)
Q Consensus 12 Ch~C~~~V~~~~~~e~~CP~C~~ 34 (375)
|..|...+. +-.||.|++
T Consensus 6 C~~C~~i~~-----~~~CP~Cgs 23 (61)
T PRK08351 6 CRHCHYITT-----EDRCPVCGS 23 (61)
T ss_pred hhhCCcccC-----CCcCCCCcC
Confidence 999999883 237999998
No 163
>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=44.79 E-value=17 Score=24.32 Aligned_cols=29 Identities=17% Similarity=0.429 Sum_probs=20.2
Q ss_pred ceeccccCcceecc------CCCCccCCCCCCCce
Q 017252 9 RYWCHMCSQIVDPI------MEVEIKCPFCQSGFV 37 (375)
Q Consensus 9 ~ywCh~C~~~V~~~------~~~e~~CP~C~~gFv 37 (375)
.+-|-.|...+... .+..+.||.|+.-|.
T Consensus 2 ~~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 2 RIQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EEECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 35688999876332 133589999998774
No 164
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=44.12 E-value=14 Score=26.12 Aligned_cols=29 Identities=21% Similarity=0.597 Sum_probs=21.0
Q ss_pred eccccCcceeccCC---CCccCCCCCCCceeecc
Q 017252 11 WCHMCSQIVDPIME---VEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 11 wCh~C~~~V~~~~~---~e~~CP~C~~gFvEEm~ 41 (375)
||-.|..++.+... ....||.|+ |++.+.
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg--~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCG--YEEPIE 33 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCC--CeEECC
Confidence 79999999866532 247899998 555554
No 165
>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=44.11 E-value=4.2 Score=39.75 Aligned_cols=47 Identities=19% Similarity=0.297 Sum_probs=21.7
Q ss_pred cCcccccccCCccCCCceEEc--CCCCccchhchHHHHhcCCCCCCcCc
Q 017252 240 ETLQCSVCLDDFEIGTEAKEM--PCKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~l--pCgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
....|+||-...........- --.|.+|..|-..|-.....||.|-.
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 357899998875211111110 12577888899999888889999953
No 166
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry 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=44.05 E-value=23 Score=24.50 Aligned_cols=29 Identities=31% Similarity=0.663 Sum_probs=20.2
Q ss_pred CCceeccccCcce---eccCC-CCccCCCCCCC
Q 017252 7 ASRYWCHMCSQIV---DPIME-VEIKCPFCQSG 35 (375)
Q Consensus 7 ~~~ywCh~C~~~V---~~~~~-~e~~CP~C~~g 35 (375)
.=.|-|-.|...+ .+..+ ..+.||.|++.
T Consensus 3 ~Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 3 IYEYRCEECGHEFEVLQSISEDDPVPCPECGST 35 (42)
T ss_pred CEEEEeCCCCCEEEEEEEcCCCCCCcCCCCCCC
Confidence 3468999999664 22323 45899999984
No 167
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=43.25 E-value=18 Score=27.41 Aligned_cols=27 Identities=26% Similarity=0.569 Sum_probs=18.3
Q ss_pred CceeccccCcceeccC-CCCccCCCCCC
Q 017252 8 SRYWCHMCSQIVDPIM-EVEIKCPFCQS 34 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~-~~e~~CP~C~~ 34 (375)
..+.|-.|.+.+.|.- .....||.|+.
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~F~CPnCG~ 33 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVKFLCPNCGE 33 (59)
T ss_pred cCccccCCCCcccCCCccCEeeCCCCCC
Confidence 4557778887776654 45577887754
No 168
>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=43.10 E-value=18 Score=27.21 Aligned_cols=36 Identities=19% Similarity=0.434 Sum_probs=18.2
Q ss_pred cCcccccccCCccCCCceEEcC-CCCccchhchHHHH
Q 017252 240 ETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWL 275 (375)
Q Consensus 240 ~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL 275 (375)
+...|.+|...|..-.....-. ||++||..|....+
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4678999999995433333333 99999999987654
No 169
>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=42.96 E-value=13 Score=26.93 Aligned_cols=10 Identities=50% Similarity=1.647 Sum_probs=5.2
Q ss_pred ccCCCCCCCc
Q 017252 27 IKCPFCQSGF 36 (375)
Q Consensus 27 ~~CP~C~~gF 36 (375)
..||+|+.+|
T Consensus 3 f~CP~C~~~~ 12 (54)
T PF05605_consen 3 FTCPYCGKGF 12 (54)
T ss_pred cCCCCCCCcc
Confidence 4455555543
No 170
>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=42.63 E-value=15 Score=27.05 Aligned_cols=42 Identities=31% Similarity=0.645 Sum_probs=19.8
Q ss_pred cccccCCccCCC------ceEEcC-CCCccchhchHHHHhcCCCCCCcC
Q 017252 244 CSVCLDDFEIGT------EAKEMP-CKHKFHSQCILPWLELHSSCPVCR 285 (375)
Q Consensus 244 C~ICle~~~~~~------~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR 285 (375)
|.-|+..|.... ....-| |++.||.+|=.-.=+.-..||-|.
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 555666664321 223334 999999999533334455799883
No 171
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=42.44 E-value=14 Score=38.10 Aligned_cols=25 Identities=28% Similarity=0.669 Sum_probs=19.5
Q ss_pred eeccccCcceeccCCCCccCCCCCCCc
Q 017252 10 YWCHMCSQIVDPIMEVEIKCPFCQSGF 36 (375)
Q Consensus 10 ywCh~C~~~V~~~~~~e~~CP~C~~gF 36 (375)
.=||.|...+.+ +....||+|+.--
T Consensus 216 ~~C~~Cd~~~~~--~~~a~CpRC~~~L 240 (403)
T TIGR00155 216 RSCSACHTTILP--AQEPVCPRCSTPL 240 (403)
T ss_pred CcCCCCCCccCC--CCCcCCcCCCCcc
Confidence 349999997754 4578899999764
No 172
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=41.89 E-value=18 Score=35.48 Aligned_cols=53 Identities=30% Similarity=0.342 Sum_probs=29.3
Q ss_pred CCcccccCccHHHHHHHHHhcCCCCCCCCcccHHHHHcCCcccccc-------------CcccccccCCc
Q 017252 195 SLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEE-------------TLQCSVCLDDF 251 (375)
Q Consensus 195 ~~gD~~~g~~l~~li~~L~~~~~~~~~~~~~~~~~v~~lp~~~~~~-------------~~~C~ICle~~ 251 (375)
+-|+|+-....+-|+|+|+... .+.+..+..+.+.+...+.- .+.|+|||..|
T Consensus 218 TGG~YL~v~~~~gLLqyLlt~~----~~D~~~R~~l~kpnh~~VDfRAtC~CH~~lv~iG~VCSVCLSVf 283 (314)
T KOG2487|consen 218 TGGDYLHVEKPDGLLQYLLTLL----LTDPELRAVLSKPNHNSVDFRATCYCHNRLVLIGFVCSVCLSVF 283 (314)
T ss_pred cCCeeEecCCcchHHHHHHHHh----cCCcchhhhccCCCCCCcCcceeeeeecceeeeeeehHHHHHHh
Confidence 4477877777777888776532 23333333343333332221 55677777666
No 173
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.82 E-value=8.6 Score=30.33 Aligned_cols=33 Identities=21% Similarity=0.565 Sum_probs=24.1
Q ss_pred ccCCCCceeccccCcceeccCCCCccCCCCCCCcee
Q 017252 3 DGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVE 38 (375)
Q Consensus 3 ~~~~~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvE 38 (375)
+++ ...|-|-.|..-+...+ +-.||.|+++||-
T Consensus 21 dA~-ICtfEcTFCadCae~~l--~g~CPnCGGelv~ 53 (84)
T COG3813 21 DAR-ICTFECTFCADCAENRL--HGLCPNCGGELVA 53 (84)
T ss_pred cee-EEEEeeehhHhHHHHhh--cCcCCCCCchhhc
Confidence 344 56788888877665553 5689999999984
No 174
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.62 E-value=19 Score=35.03 Aligned_cols=50 Identities=18% Similarity=0.263 Sum_probs=34.6
Q ss_pred CcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252 241 TLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292 (375)
Q Consensus 241 ~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~ 292 (375)
.+.|+|---+|... .....-+|||+|-..-+.+. ...+|++|.+.+....
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 56799876666322 23445569999998777664 3678999998876543
No 175
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=40.73 E-value=16 Score=36.45 Aligned_cols=24 Identities=29% Similarity=0.545 Sum_probs=17.8
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCC
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSG 35 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~g 35 (375)
...-+||.|... +. +++||+|+=-
T Consensus 5 s~~~~C~ic~vq--~~---~YtCPRCn~~ 28 (383)
T KOG4317|consen 5 SSFLACGICGVQ--KR---EYTCPRCNLL 28 (383)
T ss_pred Cceeeccccccc--cc---cccCCCCCcc
Confidence 567899999743 33 6999999743
No 176
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=40.51 E-value=13 Score=36.37 Aligned_cols=48 Identities=25% Similarity=0.560 Sum_probs=32.0
Q ss_pred cccccccCCcc-CCCceEEcC---CCCccchhchHHHHh---------cCCCCCCcCcccC
Q 017252 242 LQCSVCLDDFE-IGTEAKEMP---CKHKFHSQCILPWLE---------LHSSCPVCRCQLP 289 (375)
Q Consensus 242 ~~C~ICle~~~-~~~~~~~lp---CgH~Fh~~Ci~~WL~---------~~~sCP~CR~~l~ 289 (375)
..|-+|...+. .+.....-+ |.-++|..|+-..+. ...-||.|++.+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 58999999883 222222222 888999999988443 1235999987543
No 177
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=39.87 E-value=21 Score=39.01 Aligned_cols=44 Identities=23% Similarity=0.562 Sum_probs=25.5
Q ss_pred CcccccccCCccCCCceEEcCCCCccch--hchHH-HHh-c---CC--CCCCcCcccCCC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHS--QCILP-WLE-L---HS--SCPVCRCQLPAD 291 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~--~Ci~~-WL~-~---~~--sCP~CR~~l~~~ 291 (375)
.+.|+|+.-.+ .+||++..|+ .|.+. |+. . .. .||+|.+....+
T Consensus 306 SL~CPl~~~Rm-------~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e 358 (636)
T KOG2169|consen 306 SLNCPLSKMRM-------SLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFE 358 (636)
T ss_pred EecCCccccee-------ecCCcccccccceecchhhhHHhccCCCeeeCccCCcccccc
Confidence 57788887766 4444444444 55554 332 1 22 399998776544
No 178
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=39.18 E-value=17 Score=28.01 Aligned_cols=20 Identities=25% Similarity=0.675 Sum_probs=15.7
Q ss_pred eccccCcceeccCCCCccCCCCCCC
Q 017252 11 WCHMCSQIVDPIMEVEIKCPFCQSG 35 (375)
Q Consensus 11 wCh~C~~~V~~~~~~e~~CP~C~~g 35 (375)
=|..|.+.|. +-+||.|++.
T Consensus 7 AC~~C~~i~~-----~~~Cp~Cgs~ 26 (64)
T PRK06393 7 ACKKCKRLTP-----EKTCPVHGDE 26 (64)
T ss_pred hHhhCCcccC-----CCcCCCCCCC
Confidence 3889999883 3499999983
No 179
>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=39.01 E-value=33 Score=21.97 Aligned_cols=37 Identities=22% Similarity=0.474 Sum_probs=23.5
Q ss_pred ccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l 288 (375)
.|..|...+.... .....=+..||..| ..|..|...|
T Consensus 1 ~C~~C~~~i~~~~-~~~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCc-EEEEeCCccccccC--------CCCcccCCcC
Confidence 3778888874331 22223467888877 4678887665
No 180
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=38.12 E-value=39 Score=28.85 Aligned_cols=45 Identities=24% Similarity=0.392 Sum_probs=32.2
Q ss_pred CcccccccCCccCCC----------ceEEc-CCCCccchhchHHHHhcCCCCCCcC
Q 017252 241 TLQCSVCLDDFEIGT----------EAKEM-PCKHKFHSQCILPWLELHSSCPVCR 285 (375)
Q Consensus 241 ~~~C~ICle~~~~~~----------~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR 285 (375)
...|--|+..|.... ....- .|++.||.+|=.-+-+.-..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 346999999884321 11222 3999999999877777777899995
No 181
>PF14353 CpXC: CpXC protein
Probab=37.96 E-value=17 Score=30.89 Aligned_cols=19 Identities=37% Similarity=0.679 Sum_probs=15.1
Q ss_pred CccCCCCCCCceeeccCCC
Q 017252 26 EIKCPFCQSGFVEEMGSGS 44 (375)
Q Consensus 26 e~~CP~C~~gFvEEm~~~~ 44 (375)
+|+||+|+.-|.-++...-
T Consensus 1 ~itCP~C~~~~~~~v~~~I 19 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWTSI 19 (128)
T ss_pred CcCCCCCCCeeEEEEEeEE
Confidence 5889999999988876543
No 182
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=37.51 E-value=18 Score=24.01 Aligned_cols=27 Identities=26% Similarity=0.348 Sum_probs=19.9
Q ss_pred eeccccCcceec-cCCCCccCCCCCCCc
Q 017252 10 YWCHMCSQIVDP-IMEVEIKCPFCQSGF 36 (375)
Q Consensus 10 ywCh~C~~~V~~-~~~~e~~CP~C~~gF 36 (375)
+-|..|...+.. .......|++|+.-|
T Consensus 4 ~~C~~C~~~~i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 4 KKCSKCGGNGIVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred eEcCCCCCCeEEEecCCeEEcccCCcEe
Confidence 458888888655 445668999998765
No 183
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=37.49 E-value=19 Score=24.71 Aligned_cols=25 Identities=36% Similarity=0.814 Sum_probs=18.8
Q ss_pred ccccCcceeccCCCCccCCCCCCCceee
Q 017252 12 CHMCSQIVDPIMEVEIKCPFCQSGFVEE 39 (375)
Q Consensus 12 Ch~C~~~V~~~~~~e~~CP~C~~gFvEE 39 (375)
|+.|.+.+..+ -++|.+|+.-|=.+
T Consensus 1 C~~C~~~~~l~---~f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVGLT---GFKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCccccc---CeECCccCCccccc
Confidence 78888876553 47899999988543
No 184
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=37.48 E-value=26 Score=35.16 Aligned_cols=51 Identities=25% Similarity=0.611 Sum_probs=32.6
Q ss_pred CcccccccCCcc---------------CCC-ceEEcCCCCccchhchHHHHh---------cCCCCCCcCcccCCC
Q 017252 241 TLQCSVCLDDFE---------------IGT-EAKEMPCKHKFHSQCILPWLE---------LHSSCPVCRCQLPAD 291 (375)
Q Consensus 241 ~~~C~ICle~~~---------------~~~-~~~~lpCgH~Fh~~Ci~~WL~---------~~~sCP~CR~~l~~~ 291 (375)
+.+|++|+..-. .|. .-.-.||||+--.+-.+-|-+ .+..||+|-..|...
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 678999987531 111 112347999876666667765 234699998777543
No 185
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=36.88 E-value=26 Score=36.21 Aligned_cols=26 Identities=23% Similarity=0.599 Sum_probs=19.1
Q ss_pred eccccCcceecc---CCCCccCCCCCCCc
Q 017252 11 WCHMCSQIVDPI---MEVEIKCPFCQSGF 36 (375)
Q Consensus 11 wCh~C~~~V~~~---~~~e~~CP~C~~gF 36 (375)
=||.|...+... .+....||+|+.--
T Consensus 15 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L 43 (403)
T TIGR00155 15 LCSQCDMLVALPRIESGQKAACPRCGTTL 43 (403)
T ss_pred eCCCCCCcccccCCCCCCeeECCCCCCCC
Confidence 399999987332 24557899999765
No 186
>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=35.10 E-value=11 Score=29.63 Aligned_cols=40 Identities=23% Similarity=0.463 Sum_probs=21.7
Q ss_pred cccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
..|+.|...+.. .. +|.+|..|-.. +.....||-|..+|.
T Consensus 2 ~~CP~C~~~L~~------~~-~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEW------QG-GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEE------ET-TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEE------eC-CEEECcccccc-ceecccCCCcccHHH
Confidence 579999988721 11 77777888765 345567999987763
No 187
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=34.68 E-value=18 Score=23.18 Aligned_cols=22 Identities=27% Similarity=0.963 Sum_probs=16.1
Q ss_pred eeccccCcceeccCCCCccCCCCC
Q 017252 10 YWCHMCSQIVDPIMEVEIKCPFCQ 33 (375)
Q Consensus 10 ywCh~C~~~V~~~~~~e~~CP~C~ 33 (375)
|||..|.+.+...- -..|-.|.
T Consensus 1 ~~C~~C~~~~~~~~--~Y~C~~c~ 22 (30)
T PF03107_consen 1 FWCDVCRRKIDGFY--FYHCSECC 22 (30)
T ss_pred CCCCCCCCCcCCCE--eEEeCCCC
Confidence 78999988887762 46676665
No 188
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=33.47 E-value=20 Score=36.65 Aligned_cols=30 Identities=37% Similarity=0.808 Sum_probs=22.4
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCc
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGF 36 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gF 36 (375)
+--|+|-.|-..+.-....+-+||+|++-|
T Consensus 238 g~~~~c~~cg~~~~~~~~~~~~c~~Cg~~~ 267 (380)
T COG1867 238 GYIYHCSRCGEIVGSFREVDEKCPHCGGKV 267 (380)
T ss_pred CcEEEcccccceecccccccccCCcccccc
Confidence 456999999855544445678999999855
No 189
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=33.38 E-value=24 Score=29.42 Aligned_cols=27 Identities=30% Similarity=0.655 Sum_probs=19.4
Q ss_pred eccccCcceeccCCCCccCCCCCCCcee
Q 017252 11 WCHMCSQIVDPIMEVEIKCPFCQSGFVE 38 (375)
Q Consensus 11 wCh~C~~~V~~~~~~e~~CP~C~~gFvE 38 (375)
=|..|...+...--..-.||.|+ +|++
T Consensus 5 AC~~C~~I~~~~qf~~~gCpnC~-~~l~ 31 (98)
T cd07973 5 ACLLCSLIKTEDQFERDGCPNCE-GYLD 31 (98)
T ss_pred hhccCCcccccccccCCCCCCCc-chhc
Confidence 38899988854422457899998 6664
No 190
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=33.05 E-value=26 Score=23.62 Aligned_cols=26 Identities=19% Similarity=0.461 Sum_probs=16.3
Q ss_pred eccccCcceec------cCCCCccCCCCCCCc
Q 017252 11 WCHMCSQIVDP------IMEVEIKCPFCQSGF 36 (375)
Q Consensus 11 wCh~C~~~V~~------~~~~e~~CP~C~~gF 36 (375)
-|..|...... ..+..++||.|+--|
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 47777776422 223458888887655
No 191
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=32.54 E-value=33 Score=22.53 Aligned_cols=24 Identities=21% Similarity=0.600 Sum_probs=17.8
Q ss_pred eccccCcceeccCC-CCccCCCCCC
Q 017252 11 WCHMCSQIVDPIME-VEIKCPFCQS 34 (375)
Q Consensus 11 wCh~C~~~V~~~~~-~e~~CP~C~~ 34 (375)
+|+.|.....-..+ ..++|..|+.
T Consensus 3 ~C~~C~t~L~yP~gA~~vrCs~C~~ 27 (31)
T TIGR01053 3 VCGGCRTLLMYPRGASSVRCALCQT 27 (31)
T ss_pred CcCCCCcEeecCCCCCeEECCCCCe
Confidence 79999998744434 4499999963
No 192
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=32.54 E-value=27 Score=23.59 Aligned_cols=26 Identities=23% Similarity=0.512 Sum_probs=15.8
Q ss_pred eccccCcceecc------CCCCccCCCCCCCc
Q 017252 11 WCHMCSQIVDPI------MEVEIKCPFCQSGF 36 (375)
Q Consensus 11 wCh~C~~~V~~~------~~~e~~CP~C~~gF 36 (375)
-|-.|....... .+..++||.|+--|
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 367777665322 13457788887666
No 193
>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 PF01485 IBR: IBR domain; InterPro: IPR002867 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 a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=31.65 E-value=29 Score=25.12 Aligned_cols=26 Identities=31% Similarity=0.893 Sum_probs=14.9
Q ss_pred eccc--cCcceeccCC-CC--ccCCCCCCCc
Q 017252 11 WCHM--CSQIVDPIME-VE--IKCPFCQSGF 36 (375)
Q Consensus 11 wCh~--C~~~V~~~~~-~e--~~CP~C~~gF 36 (375)
||-. |...|..... .. ++|+.|+..|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~f 50 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEF 50 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEE
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcC
Confidence 9988 9999866543 33 8899998776
No 195
>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=31.53 E-value=22 Score=27.60 Aligned_cols=12 Identities=25% Similarity=0.869 Sum_probs=8.9
Q ss_pred ccchhchHHHHh
Q 017252 265 KFHSQCILPWLE 276 (375)
Q Consensus 265 ~Fh~~Ci~~WL~ 276 (375)
.||+.||..|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 196
>PF11261 IRF-2BP1_2: Interferon regulatory factor 2-binding protein zinc finger; InterPro: IPR022750 IRF-2BP1 and IRF-2BP2 are nuclear transcriptional repressor proteins and can inhibit both enhancer-activated and basal transcription. They both contain N-terminal zinc finger and C-terminal RING finger domains []. This entry represents the N-terminal zinc finger domain of IRF-2BP1 and IRF-2BP2.
Probab=31.37 E-value=19 Score=26.55 Aligned_cols=25 Identities=28% Similarity=0.420 Sum_probs=19.3
Q ss_pred CceeccccCcceeccC----CCCccCCCC
Q 017252 8 SRYWCHMCSQIVDPIM----EVEIKCPFC 32 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~----~~e~~CP~C 32 (375)
.|.|||-|...--|+. -.|.+|--|
T Consensus 2 ~Rq~CyLCdlPr~PWami~df~EpVCRgC 30 (54)
T PF11261_consen 2 RRQQCYLCDLPRMPWAMIWDFSEPVCRGC 30 (54)
T ss_pred CceeEEeccCCCCchHHHhhccchhhhhh
Confidence 5889999999887753 256778777
No 197
>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=31.28 E-value=32 Score=24.11 Aligned_cols=43 Identities=28% Similarity=0.572 Sum_probs=26.6
Q ss_pred ccccccCCccCCCceEEcCCCCccchhchHHHHh------cCCCCCCcC
Q 017252 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE------LHSSCPVCR 285 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~------~~~sCP~CR 285 (375)
.|.||......+..+.=-.|...||..|+..-.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 3888988442222222224899999999876543 123577774
No 198
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.77 E-value=66 Score=32.13 Aligned_cols=46 Identities=24% Similarity=0.621 Sum_probs=36.6
Q ss_pred CcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~ 289 (375)
...|.||.-.+ ..+.... |.|.|+..|...|....+.||.|+....
T Consensus 105 ~~~~~~~~g~l---~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 105 HDICYICYGKL---TVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred ccceeeeeeeE---EecccccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 56789999888 3333333 9999999999999999999999986543
No 199
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=30.63 E-value=1.1e+02 Score=33.92 Aligned_cols=132 Identities=19% Similarity=0.266 Sum_probs=0.0
Q ss_pred ccccccCCccCCC-------ceEEcCCCCccchhchHH----------HHhcCCCCCCcCcccC----------------
Q 017252 243 QCSVCLDDFEIGT-------EAKEMPCKHKFHSQCILP----------WLELHSSCPVCRCQLP---------------- 289 (375)
Q Consensus 243 ~C~ICle~~~~~~-------~~~~lpCgH~Fh~~Ci~~----------WL~~~~sCP~CR~~l~---------------- 289 (375)
.|.||.|+=.... ..-+-.|+..||..|-.. .+.+-+.|-+|+..+.
T Consensus 119 tCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlkk~~~~k~ipsy~~ 198 (900)
T KOG0956|consen 119 TCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLKKSPAIKVIPSYKP 198 (900)
T ss_pred eeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHHhhcCCCcccCCCCcc
Q ss_pred ----------------------------CCCCCCchhc---ccCCCCcccccccCCCCCCCCCCCCCCCCCCccCCCCce
Q 017252 290 ----------------------------ADEFKPESER---SRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRF 338 (375)
Q Consensus 290 ----------------------------~~~~~~~~~~---~~~~~~~~~~~~~~~s~~~~~~s~~~~~g~~~~~~~~~f 338 (375)
.-...+.... ...............+....+.+...+..+.+...+...
T Consensus 199 s~s~s~s~q~~shEke~ks~k~k~~~kq~~~k~pe~s~~~l~~~l~~t~nkvn~s~s~~Sagsasg~~vsesr~~kgkks 278 (900)
T KOG0956|consen 199 SQSASPSVQQLSHEKEKKSKKKKVLLKQKHKKPPEPSPHMLAPPLPITSNKVNNSLSAGSAGSASGAVVSESREAKGKKS 278 (900)
T ss_pred ccccCCchhhhhhhhhhhhhhhhhhhhccccCCCCCCccccCCCCCcccchhccccccccccccccccccccccccCccc
Q ss_pred --eeecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 017252 339 --SIPWPFNGLFSSSSSHSGGNNSTSTSQSGSTSQMNE 374 (375)
Q Consensus 339 --s~p~Pf~~~fsssss~ss~s~sss~sss~s~s~~~~ 374 (375)
...-|=...|++..+.++-....+.++++++...+.
T Consensus 279 sS~s~~~k~~k~ss~~~~sSt~saasssss~~s~s~s~ 316 (900)
T KOG0956|consen 279 SSHSFVPKGTKFSSGLTTSSTSSAASSSSSPSSISGSS 316 (900)
T ss_pred ccccccCCCcCCCCCCCCCccccccCCCCCCccCCCCc
No 200
>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=30.55 E-value=77 Score=23.84 Aligned_cols=47 Identities=26% Similarity=0.506 Sum_probs=32.3
Q ss_pred cccccccCCccCCC-ceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252 242 LQCSVCLDDFEIGT-EAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA 290 (375)
Q Consensus 242 ~~C~ICle~~~~~~-~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~ 290 (375)
..|-.|-.++..+. .+.+-.=...||..|....| +..||-|-..|..
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 35777777775444 34433323689999998876 6889999877643
No 201
>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=30.10 E-value=17 Score=37.38 Aligned_cols=50 Identities=22% Similarity=0.571 Sum_probs=0.0
Q ss_pred CcccccccCCcc-------------CCC---ceEEcCCCCccchhchHHHHh---------cCCCCCCcCcccCC
Q 017252 241 TLQCSVCLDDFE-------------IGT---EAKEMPCKHKFHSQCILPWLE---------LHSSCPVCRCQLPA 290 (375)
Q Consensus 241 ~~~C~ICle~~~-------------~~~---~~~~lpCgH~Fh~~Ci~~WL~---------~~~sCP~CR~~l~~ 290 (375)
...|++|+..-. .+. ...-.||||+--.+..+-|-+ .+..||+|-..|..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 568999996531 111 122447999988888888865 13469999887753
No 202
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=29.10 E-value=51 Score=23.38 Aligned_cols=35 Identities=17% Similarity=0.437 Sum_probs=23.1
Q ss_pred CCceeccccCcceeccC--C--CCccCCCCCCCceeecc
Q 017252 7 ASRYWCHMCSQIVDPIM--E--VEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~--~--~e~~CP~C~~gFvEEm~ 41 (375)
.=.|-|-.|...+..+. . ..+.||.|++.=++.+-
T Consensus 3 ~Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~ 41 (52)
T TIGR02605 3 IYEYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLL 41 (52)
T ss_pred CEEEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEe
Confidence 34699999999654332 2 34789999985444443
No 203
>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=28.93 E-value=50 Score=23.49 Aligned_cols=40 Identities=18% Similarity=0.359 Sum_probs=26.7
Q ss_pred cccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252 244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292 (375)
Q Consensus 244 C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~ 292 (375)
|..|...+.... .....-+..||..| ..|-.|...|....
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEccc--------cccCCCCCccCCCe
Confidence 667777775322 22234778899888 46889988876544
No 204
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=28.79 E-value=1.2e+02 Score=30.69 Aligned_cols=47 Identities=4% Similarity=-0.101 Sum_probs=34.1
Q ss_pred cccccCcccccccCCccCCCceEEcCCCC-ccchhchHHHHhcCCCCCCcCcc
Q 017252 236 VKIEETLQCSVCLDDFEIGTEAKEMPCKH-KFHSQCILPWLELHSSCPVCRCQ 287 (375)
Q Consensus 236 ~~~~~~~~C~ICle~~~~~~~~~~lpCgH-~Fh~~Ci~~WL~~~~sCP~CR~~ 287 (375)
..+-..++|.+|-+-+ ......+|+| .||..|-. +....+||+|...
T Consensus 338 ~~~~s~~~~~~~~~~~---~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 338 NGLMSSLKGTSAGFGL---LSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred ccchhhcccccccCce---eeeEeecCCcccChhhhhh--cccCCcccccccc
Confidence 3344478899998887 5666778997 57777765 5567789999653
No 205
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=28.72 E-value=37 Score=23.43 Aligned_cols=28 Identities=32% Similarity=0.535 Sum_probs=17.8
Q ss_pred eeccccCcce--eccCCCCccCCCCCCCceee
Q 017252 10 YWCHMCSQIV--DPIMEVEIKCPFCQSGFVEE 39 (375)
Q Consensus 10 ywCh~C~~~V--~~~~~~e~~CP~C~~gFvEE 39 (375)
|-|-.|.... .-....+++|+.| |.|-|
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~C--G~Vl~ 30 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNC--GLVLE 30 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT---BBEE
T ss_pred CCCcCCcCCceEEcCCCCeEECCCC--CCEee
Confidence 5688887753 3333567899999 55544
No 206
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=28.54 E-value=40 Score=24.82 Aligned_cols=20 Identities=20% Similarity=0.659 Sum_probs=15.6
Q ss_pred ccCCCCCCCceeeccCCCCC
Q 017252 27 IKCPFCQSGFVEEMGSGSNN 46 (375)
Q Consensus 27 ~~CP~C~~gFvEEm~~~~~~ 46 (375)
|.||+|+..|.=.++.....
T Consensus 1 i~CPyCge~~~~~iD~s~~~ 20 (52)
T PF14255_consen 1 IQCPYCGEPIEILIDPSAGD 20 (52)
T ss_pred CCCCCCCCeeEEEEecCCCC
Confidence 57999999988777766553
No 207
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=28.47 E-value=34 Score=35.55 Aligned_cols=23 Identities=30% Similarity=0.748 Sum_probs=17.4
Q ss_pred eccccCcceeccCCCCccCCCCCCCc
Q 017252 11 WCHMCSQIVDPIMEVEIKCPFCQSGF 36 (375)
Q Consensus 11 wCh~C~~~V~~~~~~e~~CP~C~~gF 36 (375)
-||.|...+ + +....||+|+.--
T Consensus 223 ~C~~Cd~l~-~--~~~a~CpRC~~~L 245 (419)
T PRK15103 223 SCSCCTAIL-P--ADQPVCPRCHTKG 245 (419)
T ss_pred cCCCCCCCC-C--CCCCCCCCCCCcC
Confidence 499999975 2 3456899999763
No 208
>KOG2463 consensus Predicted RNA-binding protein Nob1p involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=27.96 E-value=24 Score=35.50 Aligned_cols=28 Identities=25% Similarity=0.541 Sum_probs=21.3
Q ss_pred eccccCcceeccCCCCccCCCCCCCceeec
Q 017252 11 WCHMCSQIVDPIMEVEIKCPFCQSGFVEEM 40 (375)
Q Consensus 11 wCh~C~~~V~~~~~~e~~CP~C~~gFvEEm 40 (375)
-||.|-.++.-+ .-++||.|+.+=+--.
T Consensus 244 RCh~Cfsit~~m--~k~FCp~CG~~TL~K~ 271 (376)
T KOG2463|consen 244 RCHGCFSITSEM--PKDFCPSCGHKTLTKC 271 (376)
T ss_pred EeeeeeEecCcc--chhcccccCCCeeeEE
Confidence 599998887444 3589999999965544
No 209
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=27.84 E-value=25 Score=23.58 Aligned_cols=23 Identities=22% Similarity=0.759 Sum_probs=11.7
Q ss_pred eccccCcceeccC--CCC---ccCCCCC
Q 017252 11 WCHMCSQIVDPIM--EVE---IKCPFCQ 33 (375)
Q Consensus 11 wCh~C~~~V~~~~--~~e---~~CP~C~ 33 (375)
||-+|...+...+ +++ .+||.|+
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg 29 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACG 29 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTT
T ss_pred ccccccChhhhhcCCCCCccceECCCCC
Confidence 7888988874432 222 7899885
No 210
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.82 E-value=12 Score=36.42 Aligned_cols=46 Identities=20% Similarity=0.426 Sum_probs=36.7
Q ss_pred cccccccCCccC---CCceEEcC--------CCCccchhchHHHHhcCC-CCCCcCcc
Q 017252 242 LQCSVCLDDFEI---GTEAKEMP--------CKHKFHSQCILPWLELHS-SCPVCRCQ 287 (375)
Q Consensus 242 ~~C~ICle~~~~---~~~~~~lp--------CgH~Fh~~Ci~~WL~~~~-sCP~CR~~ 287 (375)
..|.||...+.. ...++.+. |+|..|..|+..-+.+.. .||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 569999998862 33566777 999999999999886554 79999864
No 211
>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=26.65 E-value=36 Score=25.23 Aligned_cols=28 Identities=14% Similarity=0.407 Sum_probs=20.7
Q ss_pred eeccccCcceec---cCCCCccCCCCCCCce
Q 017252 10 YWCHMCSQIVDP---IMEVEIKCPFCQSGFV 37 (375)
Q Consensus 10 ywCh~C~~~V~~---~~~~e~~CP~C~~gFv 37 (375)
|-|-.|.+.|.. ..+..+.||.|+.-|-
T Consensus 3 ~~CP~CG~~iev~~~~~GeiV~Cp~CGaele 33 (54)
T TIGR01206 3 FECPDCGAEIELENPELGELVICDECGAELE 33 (54)
T ss_pred cCCCCCCCEEecCCCccCCEEeCCCCCCEEE
Confidence 579999999844 3345588999987763
No 212
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=26.61 E-value=62 Score=21.16 Aligned_cols=26 Identities=35% Similarity=0.798 Sum_probs=19.8
Q ss_pred ceeccccCcceeccCCCCccCCCCCCC
Q 017252 9 RYWCHMCSQIVDPIMEVEIKCPFCQSG 35 (375)
Q Consensus 9 ~ywCh~C~~~V~~~~~~e~~CP~C~~g 35 (375)
+|-|-.|--+..+. ...-+||.|+.+
T Consensus 1 ~~~C~~CGy~y~~~-~~~~~CP~Cg~~ 26 (33)
T cd00350 1 KYVCPVCGYIYDGE-EAPWVCPVCGAP 26 (33)
T ss_pred CEECCCCCCEECCC-cCCCcCcCCCCc
Confidence 47788888887766 356799999863
No 213
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.50 E-value=30 Score=30.62 Aligned_cols=52 Identities=19% Similarity=0.406 Sum_probs=27.8
Q ss_pred cccccCcccccccCCc-cCCCceEEcCCCCccchhchHHHHhc-CC---CCCCcCcc
Q 017252 236 VKIEETLQCSVCLDDF-EIGTEAKEMPCKHKFHSQCILPWLEL-HS---SCPVCRCQ 287 (375)
Q Consensus 236 ~~~~~~~~C~ICle~~-~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~---sCP~CR~~ 287 (375)
+-+.++..|.||+..- .+|....-.-|.-.||..|--+.-.+ .+ .|-+|+..
T Consensus 60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 4456689999999753 22222222234445555554433222 22 48888753
No 214
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=25.98 E-value=33 Score=28.07 Aligned_cols=24 Identities=25% Similarity=0.722 Sum_probs=19.8
Q ss_pred eccccCcceeccCCCCccCCCCCCC
Q 017252 11 WCHMCSQIVDPIMEVEIKCPFCQSG 35 (375)
Q Consensus 11 wCh~C~~~V~~~~~~e~~CP~C~~g 35 (375)
||-.|..++.|. +..++||.|+.-
T Consensus 2 fC~~Cg~~l~~~-~~~~~C~~C~~~ 25 (104)
T TIGR01384 2 FCPKCGSLMTPK-NGVYVCPSCGYE 25 (104)
T ss_pred CCcccCcccccC-CCeEECcCCCCc
Confidence 799999999775 457999999853
No 215
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.89 E-value=41 Score=37.00 Aligned_cols=46 Identities=22% Similarity=0.548 Sum_probs=35.4
Q ss_pred ccccccCCccCCCceEEcCCCC-ccchhchHHHHh--c----CCCCCCcCcccCCC
Q 017252 243 QCSVCLDDFEIGTEAKEMPCKH-KFHSQCILPWLE--L----HSSCPVCRCQLPAD 291 (375)
Q Consensus 243 ~C~ICle~~~~~~~~~~lpCgH-~Fh~~Ci~~WL~--~----~~sCP~CR~~l~~~ 291 (375)
.|+||-..+ ..+..-.|+| ..|..|..+... . .+.||+|+..+...
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 599999887 6666777999 999999988753 2 44589999866543
No 216
>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=25.49 E-value=24 Score=35.22 Aligned_cols=46 Identities=15% Similarity=0.259 Sum_probs=29.9
Q ss_pred CcccccccCCccCCCceEEc-C--CCCccchhchHHHHhcCCCCCCcCc
Q 017252 241 TLQCSVCLDDFEIGTEAKEM-P--CKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~l-p--CgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
...|+||-..-......... . =.+.+|..|-..|-.....||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 45899998875211100000 1 2356777799999888889999964
No 217
>PHA03308 transcriptional regulator ICP4; Provisional
Probab=25.46 E-value=50 Score=36.73 Aligned_cols=7 Identities=43% Similarity=0.439 Sum_probs=2.7
Q ss_pred CCCCCCC
Q 017252 364 SQSGSTS 370 (375)
Q Consensus 364 sss~s~s 370 (375)
+|++|+|
T Consensus 1268 ss~ssss 1274 (1463)
T PHA03308 1268 SSDSSSS 1274 (1463)
T ss_pred CCCcccc
Confidence 3333333
No 218
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=25.11 E-value=43 Score=37.36 Aligned_cols=32 Identities=34% Similarity=0.815 Sum_probs=23.1
Q ss_pred CCCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252 6 AASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 6 ~~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~ 41 (375)
.+....||.|... .+. -..||.|++-=+..+.
T Consensus 459 ~~~~L~CH~Cg~~-~~~---p~~Cp~Cgs~~L~~~G 490 (730)
T COG1198 459 ATGQLRCHYCGYQ-EPI---PQSCPECGSEHLRAVG 490 (730)
T ss_pred CCCeeEeCCCCCC-CCC---CCCCCCCCCCeeEEec
Confidence 3567889999988 222 4689999998555544
No 219
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=24.51 E-value=32 Score=34.35 Aligned_cols=44 Identities=16% Similarity=0.328 Sum_probs=30.7
Q ss_pred CcccccccCCccCCCceEEc--C--CCCccchhchHHHHhcCCCCCCcCc
Q 017252 241 TLQCSVCLDDFEIGTEAKEM--P--CKHKFHSQCILPWLELHSSCPVCRC 286 (375)
Q Consensus 241 ~~~C~ICle~~~~~~~~~~l--p--CgH~Fh~~Ci~~WL~~~~sCP~CR~ 286 (375)
...|+||-..-.... +.+ . =.+.+|..|-..|-..+..||.|-.
T Consensus 187 ~~~CPvCGs~P~~s~--v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSSV--VQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhhe--eeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 678999988752211 111 1 2366778899999888899999964
No 220
>PF14968 CCDC84: Coiled coil protein 84
Probab=24.45 E-value=18 Score=36.55 Aligned_cols=36 Identities=22% Similarity=0.524 Sum_probs=27.0
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCceeeccCCCCCC
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNN 47 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~~~~~~~ 47 (375)
..+||||-|...|.-... -+. .+|.|+-|.++.+..
T Consensus 56 ~~~fWC~fC~~ev~~~~s-~~~----~~~ai~HLaS~eH~k 91 (336)
T PF14968_consen 56 RNRFWCVFCDCEVREHDS-SFA----CGGAIEHLASPEHRK 91 (336)
T ss_pred cceeEeeCccchhhhccc-hhh----hccHHhhcCCHHHHH
Confidence 478999999999976532 334 478899998877643
No 221
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=24.14 E-value=40 Score=33.72 Aligned_cols=28 Identities=29% Similarity=0.785 Sum_probs=19.4
Q ss_pred eeccccCcceec---------cCCC-----------CccCCCCCCCce
Q 017252 10 YWCHMCSQIVDP---------IMEV-----------EIKCPFCQSGFV 37 (375)
Q Consensus 10 ywCh~C~~~V~~---------~~~~-----------e~~CP~C~~gFv 37 (375)
-||..|...|-- .++. -++||.|.+-|+
T Consensus 41 i~C~~C~~~I~kG~rFNA~Ke~v~~E~Yls~~I~rF~~kC~~C~~~i~ 88 (324)
T PF04502_consen 41 IWCNTCGEYIYKGVRFNARKEKVGNEKYLSTPIYRFYIKCPRCSNEIE 88 (324)
T ss_pred CcCCCCccccccceeeeeeeEecCCCccccceEEEEEEEcCCCCCEEe
Confidence 499999988611 1122 289999999665
No 222
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=23.52 E-value=17 Score=22.41 Aligned_cols=11 Identities=45% Similarity=1.322 Sum_probs=7.9
Q ss_pred ccCCCCCCCce
Q 017252 27 IKCPFCQSGFV 37 (375)
Q Consensus 27 ~~CP~C~~gFv 37 (375)
.+||.|+..|.
T Consensus 15 ~~C~~C~k~F~ 25 (26)
T PF13465_consen 15 YKCPYCGKSFS 25 (26)
T ss_dssp EEESSSSEEES
T ss_pred CCCCCCcCeeC
Confidence 67888877764
No 223
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=23.49 E-value=23 Score=24.29 Aligned_cols=24 Identities=25% Similarity=0.809 Sum_probs=13.5
Q ss_pred eccccCcceeccCCC-----CccCCCCCC
Q 017252 11 WCHMCSQIVDPIMEV-----EIKCPFCQS 34 (375)
Q Consensus 11 wCh~C~~~V~~~~~~-----e~~CP~C~~ 34 (375)
-|..|...++|-+.. --+|++|+.
T Consensus 4 rC~~C~aylNp~~~~~~~~~~w~C~~C~~ 32 (40)
T PF04810_consen 4 RCRRCRAYLNPFCQFDDGGKTWICNFCGT 32 (40)
T ss_dssp B-TTT--BS-TTSEEETTTTEEEETTT--
T ss_pred ccCCCCCEECCcceEcCCCCEEECcCCCC
Confidence 489999999886532 368999975
No 224
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=23.19 E-value=27 Score=35.96 Aligned_cols=30 Identities=27% Similarity=0.563 Sum_probs=0.0
Q ss_pred EEcCCCCccchhchHHHHh------cCCCCCCcCcccCC
Q 017252 258 KEMPCKHKFHSQCILPWLE------LHSSCPVCRCQLPA 290 (375)
Q Consensus 258 ~~lpCgH~Fh~~Ci~~WL~------~~~sCP~CR~~l~~ 290 (375)
+.|.|||++.. ..|-. ....||+||..-+.
T Consensus 305 VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 305 VYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ---------------------------------------
T ss_pred eeccccceeee---cccccccccccccccCCCccccCCc
Confidence 45669998764 46753 24479999975443
No 226
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=23.04 E-value=52 Score=23.55 Aligned_cols=34 Identities=21% Similarity=0.446 Sum_probs=22.8
Q ss_pred cccccccCCccCCCceEEc-CCCCccchhchHHHH
Q 017252 242 LQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWL 275 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL 275 (375)
..|.+|...|..-.....- .||++||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 4688998888443322222 399999999976554
No 227
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=22.30 E-value=65 Score=31.01 Aligned_cols=22 Identities=32% Similarity=0.312 Sum_probs=14.7
Q ss_pred CCCcccccCccHHHHHHHHHhc
Q 017252 194 GSLGDYFVGPGLDLLLQHLAEN 215 (375)
Q Consensus 194 ~~~gD~~~g~~l~~li~~L~~~ 215 (375)
++-|+|+.-..-+-++|+|+..
T Consensus 204 aTgG~Yl~ve~~eGllqyL~~~ 225 (296)
T COG5242 204 ATGGDYLTVEDTEGLLQYLLSL 225 (296)
T ss_pred ccCCeeEeecCchhHHHHHHHH
Confidence 3458888777666677776653
No 228
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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 a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=22.28 E-value=22 Score=24.81 Aligned_cols=11 Identities=36% Similarity=1.364 Sum_probs=9.8
Q ss_pred ccCCCCCCCce
Q 017252 27 IKCPFCQSGFV 37 (375)
Q Consensus 27 ~~CP~C~~gFv 37 (375)
++||+|+.-||
T Consensus 30 ~~CpYCg~~yv 40 (40)
T PF10276_consen 30 VVCPYCGTRYV 40 (40)
T ss_dssp EEETTTTEEEE
T ss_pred EECCCCCCEEC
Confidence 89999998886
No 229
>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=22.10 E-value=22 Score=25.80 Aligned_cols=15 Identities=33% Similarity=0.669 Sum_probs=7.6
Q ss_pred CCccCCCCCCCceee
Q 017252 25 VEIKCPFCQSGFVEE 39 (375)
Q Consensus 25 ~e~~CP~C~~gFvEE 39 (375)
.+-+||-|+..|=+|
T Consensus 19 ~~~~CPlC~r~l~~e 33 (54)
T PF04423_consen 19 AKGCCPLCGRPLDEE 33 (54)
T ss_dssp -SEE-TTT--EE-HH
T ss_pred CCCcCCCCCCCCCHH
Confidence 344899999988654
No 230
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=22.08 E-value=45 Score=21.30 Aligned_cols=13 Identities=15% Similarity=0.869 Sum_probs=10.1
Q ss_pred CceeccccCccee
Q 017252 8 SRYWCHMCSQIVD 20 (375)
Q Consensus 8 ~~ywCh~C~~~V~ 20 (375)
++|||-.|...+.
T Consensus 2 ~~~~C~~C~~~~~ 14 (35)
T smart00451 2 GGFYCKLCNVTFT 14 (35)
T ss_pred cCeEccccCCccC
Confidence 5788888888765
No 231
>PF12773 DZR: Double zinc ribbon
Probab=22.06 E-value=50 Score=23.20 Aligned_cols=27 Identities=22% Similarity=0.595 Sum_probs=17.4
Q ss_pred CceeccccCcceeccCCCCccCCCCCC
Q 017252 8 SRYWCHMCSQIVDPIMEVEIKCPFCQS 34 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~~~e~~CP~C~~ 34 (375)
..-||..|-..+.......++||.|+.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~ 37 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGA 37 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcC
Confidence 345777777777633334577888876
No 232
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=22.00 E-value=38 Score=30.10 Aligned_cols=14 Identities=50% Similarity=1.234 Sum_probs=11.2
Q ss_pred ccCCCCccCCCCCC
Q 017252 21 PIMEVEIKCPFCQS 34 (375)
Q Consensus 21 ~~~~~e~~CP~C~~ 34 (375)
|+-+.||.||+|--
T Consensus 1 PiFGpei~CPhCRq 14 (161)
T PF09654_consen 1 PIFGPEIQCPHCRQ 14 (161)
T ss_pred CCcCCcCcCchhhc
Confidence 45688999999963
No 233
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=21.89 E-value=68 Score=32.83 Aligned_cols=30 Identities=23% Similarity=0.435 Sum_probs=20.4
Q ss_pred CCceeccccCcce-eccCCCCccCCCCCCCce
Q 017252 7 ASRYWCHMCSQIV-DPIMEVEIKCPFCQSGFV 37 (375)
Q Consensus 7 ~~~ywCh~C~~~V-~~~~~~e~~CP~C~~gFv 37 (375)
+--|.|+.|...- .+. ...-+||+|++-|+
T Consensus 242 g~~~~C~~c~~~~~~~~-~~~~~C~~c~~~~~ 272 (382)
T PRK04338 242 GYVYYCPKCLYREEVEG-LPPEECPVCGGKFG 272 (382)
T ss_pred eeEEECCCCCcEEEecC-CCCCCCCCCCCcce
Confidence 3468899999874 333 33467999977443
No 234
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=21.56 E-value=38 Score=30.14 Aligned_cols=14 Identities=50% Similarity=1.262 Sum_probs=11.7
Q ss_pred ccCCCCccCCCCCC
Q 017252 21 PIMEVEIKCPFCQS 34 (375)
Q Consensus 21 ~~~~~e~~CP~C~~ 34 (375)
|+-+.||.||+|--
T Consensus 4 PIFGpei~CPhCRQ 17 (163)
T TIGR02652 4 PIFGPEIRCPHCRQ 17 (163)
T ss_pred CccCCcCcCchhhc
Confidence 66689999999963
No 235
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=21.35 E-value=51 Score=34.26 Aligned_cols=26 Identities=27% Similarity=0.718 Sum_probs=18.6
Q ss_pred eccccCccee-cc--CCCCccCCCCCCCc
Q 017252 11 WCHMCSQIVD-PI--MEVEIKCPFCQSGF 36 (375)
Q Consensus 11 wCh~C~~~V~-~~--~~~e~~CP~C~~gF 36 (375)
=||.|...+. |. .+....||+|+.--
T Consensus 12 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L 40 (419)
T PRK15103 12 LCPQCDMLVALPRLEHGQKAACPRCGTTL 40 (419)
T ss_pred cCCCCCceeecCCCCCCCeeECCCCCCCC
Confidence 3999999874 22 23447799999754
No 236
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=21.32 E-value=49 Score=29.73 Aligned_cols=17 Identities=29% Similarity=0.741 Sum_probs=12.7
Q ss_pred ccCCCCCCCceeeccCC
Q 017252 27 IKCPFCQSGFVEEMGSG 43 (375)
Q Consensus 27 ~~CP~C~~gFvEEm~~~ 43 (375)
.+||+|++-++.-+.+.
T Consensus 1 m~cp~c~~~~~~~~~s~ 17 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSR 17 (154)
T ss_pred CcCCCCCCCCCEeEecc
Confidence 48999999886655543
No 237
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=21.27 E-value=35 Score=25.95 Aligned_cols=15 Identities=40% Similarity=0.888 Sum_probs=11.3
Q ss_pred cCCCCccCCCCCCCc
Q 017252 22 IMEVEIKCPFCQSGF 36 (375)
Q Consensus 22 ~~~~e~~CP~C~~gF 36 (375)
+++.+.+||.|+--|
T Consensus 49 i~eg~L~Cp~c~r~Y 63 (68)
T PF03966_consen 49 IVEGELICPECGREY 63 (68)
T ss_dssp TTTTEEEETTTTEEE
T ss_pred ccCCEEEcCCCCCEE
Confidence 445679999998655
No 238
>PRK14873 primosome assembly protein PriA; Provisional
Probab=21.09 E-value=53 Score=36.21 Aligned_cols=29 Identities=21% Similarity=0.555 Sum_probs=20.7
Q ss_pred CceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252 8 SRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG 41 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~ 41 (375)
...-||.|..... ...||.|++..+..+.
T Consensus 409 ~~l~Ch~CG~~~~-----p~~Cp~Cgs~~l~~~g 437 (665)
T PRK14873 409 GTPRCRWCGRAAP-----DWRCPRCGSDRLRAVV 437 (665)
T ss_pred CeeECCCCcCCCc-----CccCCCCcCCcceeee
Confidence 4567999987431 3589999998666554
No 239
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=20.87 E-value=63 Score=30.90 Aligned_cols=25 Identities=24% Similarity=0.606 Sum_probs=18.7
Q ss_pred cccccccCCccCCCceEEcCCCCcc
Q 017252 242 LQCSVCLDDFEIGTEAKEMPCKHKF 266 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~~~lpCgH~F 266 (375)
+.|+||...+.........+.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 6899999999655555555567888
No 240
>PRK12495 hypothetical protein; Provisional
Probab=20.66 E-value=52 Score=31.37 Aligned_cols=31 Identities=23% Similarity=0.448 Sum_probs=24.2
Q ss_pred CCceeccccCcceeccCCCCccCCCCCCCcee
Q 017252 7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVE 38 (375)
Q Consensus 7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvE 38 (375)
...|+|-.|...|- .+.-.++||.|+.-+-+
T Consensus 40 msa~hC~~CG~PIp-a~pG~~~Cp~CQ~~~~~ 70 (226)
T PRK12495 40 MTNAHCDECGDPIF-RHDGQEFCPTCQQPVTE 70 (226)
T ss_pred cchhhcccccCccc-CCCCeeECCCCCCcccc
Confidence 36799999999886 33568999999965543
No 241
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.65 E-value=39 Score=35.20 Aligned_cols=36 Identities=25% Similarity=0.503 Sum_probs=25.7
Q ss_pred cccccccCCccCCCce-----EEcCCCCccchhchHHHHhc
Q 017252 242 LQCSVCLDDFEIGTEA-----KEMPCKHKFHSQCILPWLEL 277 (375)
Q Consensus 242 ~~C~ICle~~~~~~~~-----~~lpCgH~Fh~~Ci~~WL~~ 277 (375)
..|+.|.-.++..... ...+|+|.||..|+..|...
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred ccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 3499999888544422 22249999999998888754
No 242
>PLN02189 cellulose synthase
Probab=20.64 E-value=77 Score=36.65 Aligned_cols=49 Identities=20% Similarity=0.442 Sum_probs=33.2
Q ss_pred CcccccccCCccC---CCceEEcC-CCCccchhchHHHH-hcCCCCCCcCcccC
Q 017252 241 TLQCSVCLDDFEI---GTEAKEMP-CKHKFHSQCILPWL-ELHSSCPVCRCQLP 289 (375)
Q Consensus 241 ~~~C~ICle~~~~---~~~~~~lp-CgH~Fh~~Ci~~WL-~~~~sCP~CR~~l~ 289 (375)
...|.||-+.+.. |+.-+... |+--.|..|..-=. +.+.+||.|++...
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 3589999999743 22222223 77779999984322 35678999998765
No 243
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=20.54 E-value=42 Score=22.93 Aligned_cols=12 Identities=33% Similarity=1.190 Sum_probs=5.5
Q ss_pred CceeccccCcce
Q 017252 8 SRYWCHMCSQIV 19 (375)
Q Consensus 8 ~~ywCh~C~~~V 19 (375)
.+|||--|...|
T Consensus 2 ~ryyCdyC~~~~ 13 (38)
T PF06220_consen 2 PRYYCDYCKKYL 13 (38)
T ss_dssp -S-B-TTT--B-
T ss_pred cCeeccccccee
Confidence 589999999887
No 244
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=20.37 E-value=51 Score=22.53 Aligned_cols=11 Identities=45% Similarity=0.954 Sum_probs=7.6
Q ss_pred ccCCCCCCCce
Q 017252 27 IKCPFCQSGFV 37 (375)
Q Consensus 27 ~~CP~C~~gFv 37 (375)
-.||.|..||-
T Consensus 3 ~~CprC~kg~H 13 (36)
T PF14787_consen 3 GLCPRCGKGFH 13 (36)
T ss_dssp -C-TTTSSSCS
T ss_pred ccCcccCCCcc
Confidence 46999999984
No 245
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=20.10 E-value=70 Score=22.35 Aligned_cols=23 Identities=22% Similarity=0.414 Sum_probs=14.0
Q ss_pred eccccCcceeccCCCCccCCCCC
Q 017252 11 WCHMCSQIVDPIMEVEIKCPFCQ 33 (375)
Q Consensus 11 wCh~C~~~V~~~~~~e~~CP~C~ 33 (375)
-|..|.-+.-..-.-++.||.|+
T Consensus 19 ~Cp~C~~PL~~~k~g~~~Cv~C~ 41 (41)
T PF06677_consen 19 HCPDCGTPLMRDKDGKIYCVSCG 41 (41)
T ss_pred ccCCCCCeeEEecCCCEECCCCC
Confidence 48888544322123468899885
No 246
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=20.05 E-value=65 Score=21.82 Aligned_cols=25 Identities=16% Similarity=0.593 Sum_probs=18.8
Q ss_pred CceeccccCcceeccCCCCccCCCCC
Q 017252 8 SRYWCHMCSQIVDPIMEVEIKCPFCQ 33 (375)
Q Consensus 8 ~~ywCh~C~~~V~~~~~~e~~CP~C~ 33 (375)
..-||..|.+.+.-.. .-++|+.|+
T Consensus 10 ~~~~C~~C~~~i~~~~-~~~~C~~C~ 34 (49)
T smart00109 10 KPTKCCVCRKSIWGSF-QGLRCSWCK 34 (49)
T ss_pred CCCCccccccccCcCC-CCcCCCCCC
Confidence 3568999999986542 468899884
Done!