Query 017269
Match_columns 374
No_of_seqs 363 out of 1848
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 07:05:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06547 DUF1117: Protein of u 100.0 4.8E-31 1E-35 218.0 6.4 96 250-345 1-98 (117)
2 KOG4628 Predicted E3 ubiquitin 99.6 7.8E-16 1.7E-20 152.3 5.8 79 160-238 203-283 (348)
3 PF14369 zf-RING_3: zinc-finge 99.6 1.2E-15 2.6E-20 103.8 3.2 35 6-40 1-35 (35)
4 PF13639 zf-RING_2: Ring finge 99.5 2E-14 4.4E-19 101.9 2.0 44 186-229 1-44 (44)
5 COG5243 HRD1 HRD ubiquitin lig 99.2 1.2E-11 2.5E-16 122.3 6.9 73 163-236 266-348 (491)
6 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.6E-11 3.4E-16 96.7 3.6 45 185-229 19-73 (73)
7 PHA02929 N1R/p28-like protein; 99.2 1.8E-11 3.9E-16 116.4 4.2 72 163-234 149-228 (238)
8 COG5540 RING-finger-containing 99.2 1.5E-11 3.2E-16 118.9 3.2 50 185-234 323-373 (374)
9 PLN03208 E3 ubiquitin-protein 98.9 8.1E-10 1.8E-14 101.7 5.1 54 183-239 16-85 (193)
10 KOG0823 Predicted E3 ubiquitin 98.9 7.5E-10 1.6E-14 103.9 4.3 59 183-244 45-106 (230)
11 cd00162 RING RING-finger (Real 98.8 2.5E-09 5.4E-14 73.7 3.4 44 187-232 1-45 (45)
12 KOG0317 Predicted E3 ubiquitin 98.8 2.2E-09 4.8E-14 103.5 3.7 50 184-236 238-287 (293)
13 PF13920 zf-C3HC4_3: Zinc fing 98.8 3E-09 6.5E-14 77.3 3.0 46 185-233 2-48 (50)
14 PF12861 zf-Apc11: Anaphase-pr 98.8 3.6E-09 7.8E-14 85.5 2.8 53 183-235 19-84 (85)
15 KOG0802 E3 ubiquitin ligase [P 98.8 2.6E-09 5.7E-14 112.7 1.8 51 184-234 290-342 (543)
16 PF13923 zf-C3HC4_2: Zinc fing 98.7 6.4E-09 1.4E-13 71.9 2.6 39 188-228 1-39 (39)
17 PF15227 zf-C3HC4_4: zinc fing 98.6 4.4E-08 9.6E-13 69.2 3.1 38 188-228 1-42 (42)
18 smart00504 Ubox Modified RING 98.6 5.6E-08 1.2E-12 73.1 3.8 47 186-235 2-48 (63)
19 smart00184 RING Ring finger. E 98.5 6.2E-08 1.4E-12 64.3 3.1 38 188-228 1-39 (39)
20 PHA02926 zinc finger-like prot 98.5 4.8E-08 1E-12 91.5 3.3 53 183-235 168-232 (242)
21 PF14634 zf-RING_5: zinc-RING 98.5 6.2E-08 1.3E-12 68.8 3.1 44 187-230 1-44 (44)
22 PF00097 zf-C3HC4: Zinc finger 98.5 8.6E-08 1.9E-12 66.5 3.0 39 188-228 1-41 (41)
23 KOG0320 Predicted E3 ubiquitin 98.5 5.8E-08 1.2E-12 88.1 2.5 51 185-236 131-181 (187)
24 COG5194 APC11 Component of SCF 98.5 1.1E-07 2.3E-12 75.7 2.9 50 186-235 21-83 (88)
25 TIGR00599 rad18 DNA repair pro 98.4 1.7E-07 3.7E-12 95.3 3.9 51 182-235 23-73 (397)
26 KOG1493 Anaphase-promoting com 98.3 2.2E-07 4.7E-12 73.4 1.0 50 185-234 20-82 (84)
27 COG5574 PEX10 RING-finger-cont 98.2 6.5E-07 1.4E-11 85.7 2.2 49 184-235 214-264 (271)
28 smart00744 RINGv The RING-vari 98.2 1.4E-06 3.1E-11 63.6 2.9 42 187-229 1-49 (49)
29 KOG0828 Predicted E3 ubiquitin 98.1 7.5E-07 1.6E-11 91.3 1.6 50 185-234 571-635 (636)
30 KOG1734 Predicted RING-contain 98.1 1E-06 2.2E-11 84.6 0.8 52 184-235 223-283 (328)
31 KOG2930 SCF ubiquitin ligase, 98.1 2E-06 4.3E-11 71.6 2.1 50 185-234 46-109 (114)
32 KOG2164 Predicted E3 ubiquitin 98.0 2.6E-06 5.6E-11 88.0 2.6 48 185-235 186-238 (513)
33 PF13445 zf-RING_UBOX: RING-ty 98.0 4.4E-06 9.5E-11 59.5 2.5 38 188-226 1-43 (43)
34 PF04564 U-box: U-box domain; 98.0 5.9E-06 1.3E-10 64.9 3.1 49 185-236 4-53 (73)
35 COG5219 Uncharacterized conser 97.9 2.8E-06 6.1E-11 92.5 0.4 51 183-233 1467-1523(1525)
36 KOG0287 Postreplication repair 97.9 4.8E-06 1E-10 82.2 1.1 49 186-237 24-72 (442)
37 TIGR00570 cdk7 CDK-activating 97.8 1.3E-05 2.9E-10 78.9 3.6 52 185-236 3-57 (309)
38 COG5432 RAD18 RING-finger-cont 97.8 1.2E-05 2.6E-10 78.1 2.3 48 185-235 25-72 (391)
39 KOG2177 Predicted E3 ubiquitin 97.8 9.4E-06 2E-10 75.3 1.3 44 183-229 11-54 (386)
40 KOG0804 Cytoplasmic Zn-finger 97.8 1.2E-05 2.5E-10 82.0 2.0 47 185-233 175-222 (493)
41 KOG4445 Uncharacterized conser 97.7 1.3E-05 2.7E-10 78.2 1.6 94 139-238 75-191 (368)
42 PF11793 FANCL_C: FANCL C-term 97.6 2E-05 4.2E-10 61.7 1.4 51 185-235 2-68 (70)
43 KOG0311 Predicted E3 ubiquitin 97.5 1E-05 2.2E-10 80.4 -2.0 59 175-235 33-92 (381)
44 KOG4265 Predicted E3 ubiquitin 97.5 5.5E-05 1.2E-09 75.4 3.0 48 185-235 290-338 (349)
45 KOG0827 Predicted E3 ubiquitin 97.4 5.7E-05 1.2E-09 75.9 2.0 50 186-235 5-58 (465)
46 KOG1039 Predicted E3 ubiquitin 97.3 0.0001 2.2E-09 74.0 1.9 50 184-233 160-221 (344)
47 KOG0825 PHD Zn-finger protein 97.3 4.7E-05 1E-09 82.0 -0.7 50 185-234 123-172 (1134)
48 KOG0824 Predicted E3 ubiquitin 97.2 0.00013 2.9E-09 71.2 1.9 48 185-235 7-55 (324)
49 PF14835 zf-RING_6: zf-RING of 97.2 0.00013 2.8E-09 56.2 1.0 46 186-235 8-53 (65)
50 KOG1785 Tyrosine kinase negati 97.1 0.00019 4E-09 72.6 1.5 48 186-236 370-419 (563)
51 KOG4172 Predicted E3 ubiquitin 97.1 0.00012 2.6E-09 54.6 -0.3 46 185-233 7-54 (62)
52 KOG1645 RING-finger-containing 96.9 0.00051 1.1E-08 69.6 2.9 48 185-232 4-55 (463)
53 KOG4159 Predicted E3 ubiquitin 96.9 0.00046 1E-08 70.6 2.3 50 183-235 82-131 (398)
54 KOG0801 Predicted E3 ubiquitin 96.9 0.00032 7E-09 63.1 0.8 40 173-212 164-204 (205)
55 KOG1941 Acetylcholine receptor 96.5 0.0011 2.4E-08 66.9 1.9 47 185-231 365-414 (518)
56 KOG0297 TNF receptor-associate 96.5 0.0014 3E-08 67.1 2.4 54 182-237 18-71 (391)
57 PF12906 RINGv: RING-variant d 96.3 0.0024 5.1E-08 46.2 2.1 40 188-228 1-47 (47)
58 KOG1428 Inhibitor of type V ad 96.3 0.0024 5.1E-08 72.9 2.7 69 166-234 3465-3545(3738)
59 PF11789 zf-Nse: Zinc-finger o 96.3 0.0022 4.9E-08 48.3 1.8 41 185-227 11-53 (57)
60 KOG0978 E3 ubiquitin ligase in 96.2 0.0016 3.5E-08 70.5 0.7 47 186-235 644-691 (698)
61 KOG2660 Locus-specific chromos 95.9 0.0022 4.7E-08 63.6 0.1 50 184-235 14-63 (331)
62 PF05883 Baculo_RING: Baculovi 95.9 0.0031 6.6E-08 55.3 0.9 38 185-222 26-69 (134)
63 PHA02862 5L protein; Provision 95.7 0.0067 1.4E-07 53.9 2.4 47 185-235 2-55 (156)
64 KOG4692 Predicted E3 ubiquitin 95.7 0.0081 1.8E-07 60.2 3.0 49 184-235 421-469 (489)
65 COG5152 Uncharacterized conser 95.5 0.0054 1.2E-07 57.1 1.2 44 186-232 197-240 (259)
66 PF10367 Vps39_2: Vacuolar sor 95.4 0.0064 1.4E-07 49.9 1.1 33 183-216 76-108 (109)
67 KOG3970 Predicted E3 ubiquitin 95.2 0.017 3.7E-07 54.8 3.5 50 185-235 50-107 (299)
68 PHA02825 LAP/PHD finger-like p 95.1 0.017 3.6E-07 52.1 3.0 48 184-235 7-61 (162)
69 KOG2879 Predicted E3 ubiquitin 95.0 0.027 5.9E-07 54.8 4.2 52 182-235 236-289 (298)
70 KOG1002 Nucleotide excision re 95.0 0.011 2.4E-07 62.0 1.5 49 184-235 535-588 (791)
71 KOG1571 Predicted E3 ubiquitin 94.6 0.02 4.3E-07 57.5 2.2 43 185-233 305-347 (355)
72 PF14570 zf-RING_4: RING/Ubox 94.5 0.026 5.6E-07 41.2 2.1 45 188-232 1-47 (48)
73 PF08746 zf-RING-like: RING-li 94.1 0.018 3.8E-07 40.9 0.5 41 188-228 1-43 (43)
74 COG5236 Uncharacterized conser 94.1 0.037 8E-07 55.5 2.8 48 184-234 60-109 (493)
75 PHA03096 p28-like protein; Pro 94.0 0.026 5.6E-07 55.6 1.6 47 186-232 179-236 (284)
76 KOG1814 Predicted E3 ubiquitin 93.9 0.022 4.8E-07 58.2 0.9 47 184-230 183-237 (445)
77 KOG0826 Predicted E3 ubiquitin 93.7 0.051 1.1E-06 54.1 3.1 47 184-232 299-345 (357)
78 KOG1813 Predicted E3 ubiquitin 93.7 0.031 6.7E-07 54.9 1.5 45 186-233 242-286 (313)
79 KOG1952 Transcription factor N 93.6 0.037 8E-07 60.9 2.0 49 184-232 190-246 (950)
80 KOG4275 Predicted E3 ubiquitin 93.4 0.018 3.8E-07 56.5 -0.7 42 185-233 300-342 (350)
81 KOG3039 Uncharacterized conser 93.4 0.069 1.5E-06 51.4 3.2 52 185-236 221-273 (303)
82 COG5222 Uncharacterized conser 93.1 0.07 1.5E-06 52.6 3.0 43 186-230 275-318 (427)
83 KOG0827 Predicted E3 ubiquitin 93.0 0.0066 1.4E-07 61.5 -4.4 51 186-236 197-248 (465)
84 KOG4739 Uncharacterized protei 92.5 0.055 1.2E-06 51.7 1.2 48 186-237 4-52 (233)
85 PF14447 Prok-RING_4: Prokaryo 92.5 0.09 2E-06 39.4 2.1 46 185-235 7-52 (55)
86 PF04641 Rtf2: Rtf2 RING-finge 92.4 0.24 5.3E-06 47.9 5.7 53 183-236 111-164 (260)
87 KOG4185 Predicted E3 ubiquitin 92.4 0.092 2E-06 51.2 2.7 47 186-232 4-54 (296)
88 KOG2114 Vacuolar assembly/sort 92.1 0.07 1.5E-06 58.8 1.6 42 186-232 841-882 (933)
89 COG0375 HybF Zn finger protein 92.0 0.11 2.3E-06 44.7 2.3 35 5-42 68-102 (115)
90 PF14446 Prok-RING_1: Prokaryo 91.6 0.19 4.2E-06 37.6 3.0 33 185-217 5-38 (54)
91 KOG2932 E3 ubiquitin ligase in 91.4 0.079 1.7E-06 52.5 1.0 43 186-232 91-133 (389)
92 KOG3053 Uncharacterized conser 90.7 0.098 2.1E-06 50.6 0.9 53 182-234 17-83 (293)
93 COG5175 MOT2 Transcriptional r 90.5 0.17 3.8E-06 50.7 2.4 52 184-235 13-66 (480)
94 PF10272 Tmpp129: Putative tra 89.5 0.31 6.7E-06 49.5 3.3 30 206-235 311-353 (358)
95 KOG1940 Zn-finger protein [Gen 89.4 0.17 3.7E-06 49.6 1.4 45 186-230 159-204 (276)
96 COG2093 DNA-directed RNA polym 89.2 0.18 4E-06 38.7 1.1 28 9-41 6-34 (64)
97 KOG2034 Vacuolar sorting prote 89.1 0.11 2.4E-06 57.6 -0.2 37 182-219 814-850 (911)
98 KOG3268 Predicted E3 ubiquitin 88.9 0.27 5.9E-06 45.3 2.2 49 186-235 166-230 (234)
99 COG5270 PUA domain (predicted 87.6 0.48 1.1E-05 43.9 3.0 41 6-54 13-54 (202)
100 KOG0298 DEAD box-containing he 87.6 0.41 8.9E-06 55.2 3.0 43 186-230 1154-1196(1394)
101 KOG1001 Helicase-like transcri 86.9 0.26 5.5E-06 54.1 0.9 48 186-237 455-504 (674)
102 KOG1100 Predicted E3 ubiquitin 86.4 0.35 7.5E-06 45.6 1.4 39 187-232 160-199 (207)
103 PF03854 zf-P11: P-11 zinc fin 86.0 0.28 6.1E-06 35.8 0.4 44 187-235 4-48 (50)
104 KOG1609 Protein involved in mR 85.7 0.44 9.5E-06 46.2 1.8 51 185-235 78-136 (323)
105 PRK03681 hypA hydrogenase nick 85.6 0.66 1.4E-05 39.6 2.6 35 5-41 68-102 (114)
106 KOG0802 E3 ubiquitin ligase [P 84.6 0.43 9.2E-06 51.0 1.2 49 184-239 478-526 (543)
107 PF05290 Baculo_IE-1: Baculovi 84.6 0.74 1.6E-05 40.5 2.5 50 185-236 80-135 (140)
108 COG5183 SSM4 Protein involved 84.3 0.76 1.6E-05 50.8 2.9 57 183-240 10-73 (1175)
109 TIGR00100 hypA hydrogenase nic 84.0 0.99 2.2E-05 38.5 3.0 34 5-41 68-101 (115)
110 PRK00564 hypA hydrogenase nick 83.8 0.95 2.1E-05 38.8 2.8 35 5-41 69-103 (117)
111 PRK00398 rpoP DNA-directed RNA 83.4 1.3 2.9E-05 31.4 3.0 34 6-40 2-35 (46)
112 PF13240 zinc_ribbon_2: zinc-r 81.6 0.74 1.6E-05 28.4 0.9 23 9-36 1-23 (23)
113 PF10571 UPF0547: Uncharacteri 80.8 0.9 1.9E-05 28.9 1.2 23 10-37 3-25 (26)
114 KOG3800 Predicted E3 ubiquitin 80.3 1.3 2.7E-05 43.8 2.5 49 187-235 2-53 (300)
115 PRK03824 hypA hydrogenase nick 80.2 1.5 3.4E-05 38.4 2.9 36 5-40 68-121 (135)
116 smart00659 RPOLCX RNA polymera 79.2 1.7 3.7E-05 31.0 2.3 32 7-40 2-33 (44)
117 PF07800 DUF1644: Protein of u 78.9 2 4.4E-05 38.9 3.2 32 185-219 2-46 (162)
118 KOG2817 Predicted E3 ubiquitin 78.7 1.5 3.3E-05 44.9 2.6 45 184-228 333-380 (394)
119 PRK12380 hydrogenase nickel in 78.4 1.8 4E-05 36.8 2.7 33 5-40 68-100 (113)
120 PF03604 DNA_RNApol_7kD: DNA d 78.4 2.1 4.6E-05 28.6 2.4 28 8-37 1-28 (32)
121 PF01155 HypA: Hydrogenase exp 78.3 1.2 2.6E-05 37.9 1.5 34 5-41 68-101 (113)
122 PF07754 DUF1610: Domain of un 77.3 1.4 2.9E-05 27.7 1.1 23 10-33 1-23 (24)
123 KOG0309 Conserved WD40 repeat- 76.6 1.3 2.9E-05 48.7 1.6 27 201-227 1043-1069(1081)
124 PRK06266 transcription initiat 76.0 1.6 3.5E-05 40.1 1.8 34 5-38 115-148 (178)
125 KOG0825 PHD Zn-finger protein 76.0 1.5 3.2E-05 48.6 1.7 49 186-234 97-155 (1134)
126 COG1996 RPC10 DNA-directed RNA 75.0 1.8 4E-05 31.7 1.5 35 5-40 4-38 (49)
127 KOG4367 Predicted Zn-finger pr 74.5 1.7 3.7E-05 45.1 1.7 35 184-221 3-37 (699)
128 KOG3161 Predicted E3 ubiquitin 74.2 1 2.2E-05 48.8 -0.0 42 186-230 12-54 (861)
129 KOG1812 Predicted E3 ubiquitin 73.9 1.8 3.8E-05 44.5 1.7 37 185-221 146-183 (384)
130 PF13248 zf-ribbon_3: zinc-rib 72.9 1.8 4E-05 27.2 1.0 24 8-36 3-26 (26)
131 PRK00762 hypA hydrogenase nick 72.4 2.8 6.1E-05 36.3 2.3 36 5-41 68-107 (124)
132 KOG3002 Zn finger protein [Gen 72.3 2.8 6E-05 41.8 2.5 41 186-233 49-91 (299)
133 KOG0269 WD40 repeat-containing 70.8 3.6 7.9E-05 45.4 3.2 40 186-227 780-820 (839)
134 PF06906 DUF1272: Protein of u 70.6 1.2 2.6E-05 33.6 -0.3 12 27-38 42-53 (57)
135 smart00834 CxxC_CXXC_SSSS Puta 70.5 4.1 8.8E-05 27.6 2.4 30 5-34 3-34 (41)
136 TIGR00373 conserved hypothetic 70.0 2.2 4.8E-05 38.3 1.2 37 5-42 107-143 (158)
137 COG5220 TFB3 Cdk activating ki 69.6 2.7 5.9E-05 40.6 1.7 48 185-232 10-63 (314)
138 KOG1829 Uncharacterized conser 67.1 2.3 4.9E-05 45.9 0.7 43 185-230 511-558 (580)
139 TIGR02605 CxxC_CxxC_SSSS putat 66.9 7.2 0.00016 28.0 3.2 37 5-41 3-41 (52)
140 KOG3899 Uncharacterized conser 65.5 3.3 7.1E-05 41.1 1.4 30 206-235 325-367 (381)
141 PF09723 Zn-ribbon_8: Zinc rib 65.0 8.8 0.00019 26.8 3.2 36 5-40 3-40 (42)
142 KOG1812 Predicted E3 ubiquitin 64.8 3.2 7E-05 42.6 1.3 43 186-228 307-351 (384)
143 smart00531 TFIIE Transcription 61.4 3.8 8.3E-05 36.2 1.0 35 5-39 97-136 (147)
144 KOG1815 Predicted E3 ubiquitin 60.2 7.8 0.00017 40.4 3.2 35 184-220 69-103 (444)
145 KOG4362 Transcriptional regula 60.1 2.2 4.8E-05 46.7 -0.9 48 185-235 21-71 (684)
146 KOG2066 Vacuolar assembly/sort 59.7 4 8.7E-05 45.3 1.0 44 185-229 784-831 (846)
147 KOG3005 GIY-YIG type nuclease 58.9 4.4 9.6E-05 39.6 1.0 47 186-232 183-242 (276)
148 PF02891 zf-MIZ: MIZ/SP-RING z 58.8 10 0.00023 27.5 2.7 42 186-230 3-49 (50)
149 PF13901 DUF4206: Domain of un 58.2 7.3 0.00016 36.4 2.3 39 185-229 152-196 (202)
150 smart00132 LIM Zinc-binding do 52.1 14 0.0003 23.9 2.3 38 187-233 1-38 (39)
151 KOG4718 Non-SMC (structural ma 51.6 8.4 0.00018 36.6 1.5 47 186-234 182-228 (235)
152 TIGR02098 MJ0042_CXXC MJ0042 f 51.5 8.2 0.00018 26.0 1.1 30 8-37 3-36 (38)
153 smart00249 PHD PHD zinc finger 49.5 9.8 0.00021 25.5 1.3 30 187-217 1-31 (47)
154 PF08772 NOB1_Zn_bind: Nin one 49.3 12 0.00027 29.6 2.0 32 7-42 9-40 (73)
155 PF07975 C1_4: TFIIH C1-like d 48.7 12 0.00025 27.7 1.6 42 188-229 2-50 (51)
156 PF09538 FYDLN_acid: Protein o 47.5 12 0.00026 31.8 1.7 32 5-39 7-39 (108)
157 KOG2068 MOT2 transcription fac 47.4 18 0.00038 36.5 3.1 49 186-234 250-299 (327)
158 PRK13794 hypothetical protein; 46.9 14 0.0003 39.1 2.5 30 6-43 9-38 (479)
159 KOG2807 RNA polymerase II tran 45.4 20 0.00042 36.3 3.1 47 185-231 330-376 (378)
160 smart00647 IBR In Between Ring 44.4 16 0.00035 26.7 1.9 35 6-40 17-54 (64)
161 PF08271 TF_Zn_Ribbon: TFIIB z 44.3 15 0.00032 25.6 1.6 34 8-42 1-34 (43)
162 PF06906 DUF1272: Protein of u 44.3 46 0.00099 25.2 4.2 48 186-235 6-54 (57)
163 TIGR00622 ssl1 transcription f 43.4 31 0.00067 29.6 3.6 45 186-230 56-111 (112)
164 PF00628 PHD: PHD-finger; Int 43.3 14 0.0003 26.1 1.3 43 187-230 1-50 (51)
165 PF07191 zinc-ribbons_6: zinc- 42.8 9.5 0.00021 30.1 0.4 29 6-41 16-44 (70)
166 PF00412 LIM: LIM domain; Int 42.3 19 0.00041 25.8 1.9 39 188-235 1-39 (58)
167 KOG3113 Uncharacterized conser 41.5 45 0.00098 32.7 4.8 52 185-238 111-163 (293)
168 PRK14890 putative Zn-ribbon RN 40.7 22 0.00047 27.2 2.0 36 1-37 1-36 (59)
169 KOG3579 Predicted E3 ubiquitin 40.4 19 0.00041 35.8 2.1 38 185-223 268-307 (352)
170 smart00154 ZnF_AN1 AN1-like Zi 40.4 15 0.00033 25.4 1.1 26 10-40 1-26 (39)
171 COG4391 Uncharacterized protei 39.9 18 0.00039 27.8 1.5 15 23-37 45-59 (62)
172 PF13719 zinc_ribbon_5: zinc-r 39.3 16 0.00034 24.9 1.0 26 186-211 3-36 (37)
173 KOG3993 Transcription factor ( 39.1 15 0.00033 38.3 1.3 22 11-38 286-307 (500)
174 PF02148 zf-UBP: Zn-finger in 39.1 13 0.00028 28.0 0.6 18 2-19 44-61 (63)
175 COG5109 Uncharacterized conser 38.9 22 0.00047 35.9 2.2 46 183-228 334-382 (396)
176 PRK08351 DNA-directed RNA poly 38.8 15 0.00033 28.2 1.0 19 9-34 5-23 (61)
177 KOG2169 Zn-finger transcriptio 38.7 20 0.00042 39.4 2.1 47 183-236 304-359 (636)
178 PRK06393 rpoE DNA-directed RNA 38.6 15 0.00032 28.5 0.9 19 10-35 8-26 (64)
179 PRK13795 hypothetical protein; 37.5 27 0.00058 38.3 2.9 32 6-45 11-42 (636)
180 PF08792 A2L_zn_ribbon: A2L zi 37.0 21 0.00045 23.9 1.3 28 8-36 4-31 (33)
181 PF14169 YdjO: Cold-inducible 36.6 25 0.00054 26.8 1.8 34 8-41 19-54 (59)
182 COG1066 Sms Predicted ATP-depe 36.4 33 0.00071 36.0 3.2 38 1-43 1-40 (456)
183 PF01485 IBR: IBR domain; Int 35.1 23 0.0005 25.7 1.4 29 8-37 19-51 (64)
184 PF05191 ADK_lid: Adenylate ki 34.4 40 0.00086 23.0 2.4 32 8-39 2-34 (36)
185 PF01363 FYVE: FYVE zinc finge 34.4 24 0.00052 26.6 1.5 35 185-219 9-44 (69)
186 KOG3842 Adaptor protein Pellin 33.9 37 0.00081 34.3 3.0 51 185-235 341-416 (429)
187 PF14803 Nudix_N_2: Nudix N-te 33.7 24 0.00051 23.9 1.1 25 9-33 2-29 (34)
188 PHA02776 E7 protein; Provision 33.4 21 0.00046 30.1 1.1 26 9-34 60-99 (101)
189 KOG4218 Nuclear hormone recept 32.0 17 0.00037 37.0 0.3 47 184-231 14-76 (475)
190 TIGR00155 pqiA_fam integral me 31.5 27 0.00059 36.1 1.7 29 9-37 15-44 (403)
191 PLN02189 cellulose synthase 31.5 60 0.0013 37.6 4.5 49 185-233 34-87 (1040)
192 KOG1815 Predicted E3 ubiquitin 31.2 16 0.00034 38.1 -0.1 37 186-222 227-268 (444)
193 PRK11823 DNA repair protein Ra 30.9 38 0.00082 35.4 2.7 35 1-40 1-37 (446)
194 KOG2041 WD40 repeat protein [G 30.8 33 0.00071 38.3 2.2 45 184-232 1130-1184(1189)
195 PF00527 E7: E7 protein, Early 30.5 19 0.00041 29.7 0.3 24 9-32 54-91 (92)
196 smart00661 RPOL9 RNA polymeras 29.8 32 0.00068 24.4 1.4 31 9-41 2-33 (52)
197 KOG0824 Predicted E3 ubiquitin 29.1 20 0.00044 35.8 0.3 49 182-232 102-150 (324)
198 PF05605 zf-Di19: Drought indu 29.0 30 0.00066 25.2 1.2 8 27-34 3-10 (54)
199 KOG1729 FYVE finger containing 29.0 11 0.00024 37.3 -1.5 38 186-223 215-252 (288)
200 PRK04338 N(2),N(2)-dimethylgua 28.8 44 0.00095 34.3 2.7 31 5-37 242-272 (382)
201 cd07973 Spt4 Transcription elo 28.4 30 0.00066 28.9 1.2 27 9-38 5-31 (98)
202 smart00064 FYVE Protein presen 28.3 15 0.00032 27.7 -0.6 34 186-219 11-45 (68)
203 COG5242 TFB4 RNA polymerase II 28.2 35 0.00076 33.0 1.7 19 132-150 206-224 (296)
204 TIGR02300 FYDLN_acid conserved 28.0 46 0.001 29.2 2.3 32 5-39 7-39 (129)
205 COG4847 Uncharacterized protei 27.5 44 0.00094 28.0 1.9 34 185-219 6-39 (103)
206 KOG4185 Predicted E3 ubiquitin 27.1 13 0.00029 36.1 -1.4 46 186-231 208-265 (296)
207 PF06750 DiS_P_DiS: Bacterial 26.9 60 0.0013 26.6 2.7 39 185-235 33-71 (92)
208 cd00065 FYVE FYVE domain; Zinc 26.5 43 0.00094 24.1 1.6 34 186-219 3-37 (57)
209 KOG2113 Predicted RNA binding 26.3 76 0.0016 32.1 3.7 46 182-232 340-386 (394)
210 PF06844 DUF1244: Protein of u 26.1 35 0.00076 26.7 1.1 12 209-220 11-22 (68)
211 PF07649 C1_3: C1-like domain; 25.9 40 0.00087 21.6 1.2 29 187-215 2-30 (30)
212 PF13832 zf-HC5HC2H_2: PHD-zin 25.4 36 0.00077 28.1 1.1 32 185-218 55-88 (110)
213 TIGR00155 pqiA_fam integral me 25.0 43 0.00093 34.7 1.8 24 9-36 217-240 (403)
214 PLN02436 cellulose synthase A 24.1 96 0.0021 36.2 4.4 49 185-233 36-89 (1094)
215 KOG3726 Uncharacterized conser 23.9 40 0.00086 37.2 1.3 40 186-228 655-695 (717)
216 PF03119 DNA_ligase_ZBD: NAD-d 23.8 42 0.00091 21.6 1.0 15 28-42 1-15 (28)
217 PF13717 zinc_ribbon_4: zinc-r 23.6 53 0.0012 22.2 1.5 28 9-36 4-35 (36)
218 PRK15103 paraquat-inducible me 23.5 47 0.001 34.6 1.8 28 9-36 12-40 (419)
219 PF10276 zf-CHCC: Zinc-finger 23.4 36 0.00077 23.9 0.6 12 26-37 29-40 (40)
220 PF05715 zf-piccolo: Piccolo Z 23.1 57 0.0012 25.0 1.7 15 222-236 2-16 (61)
221 KOG2071 mRNA cleavage and poly 23.1 52 0.0011 35.7 2.0 34 185-218 513-556 (579)
222 PF14353 CpXC: CpXC protein 23.0 49 0.0011 28.2 1.5 17 26-42 1-17 (128)
223 TIGR01053 LSD1 zinc finger dom 22.7 62 0.0013 21.4 1.6 25 9-34 3-27 (31)
224 PRK00464 nrdR transcriptional 22.4 49 0.0011 29.9 1.5 16 27-42 1-16 (154)
225 PF13913 zf-C2HC_2: zinc-finge 22.3 29 0.00063 21.6 0.0 13 27-39 3-15 (25)
226 PF14569 zf-UDP: Zinc-binding 22.3 1.1E+02 0.0023 24.8 3.2 51 185-235 9-64 (80)
227 PF03811 Zn_Tnp_IS1: InsA N-te 22.0 40 0.00087 23.1 0.6 11 26-36 5-15 (36)
228 PF13453 zf-TFIIB: Transcripti 21.9 35 0.00076 23.5 0.3 29 10-38 2-31 (41)
229 PF04216 FdhE: Protein involve 21.7 16 0.00035 35.7 -1.9 45 186-231 173-220 (290)
230 PF00130 C1_1: Phorbol esters/ 21.6 95 0.0021 22.0 2.6 34 184-217 10-45 (53)
231 KOG3039 Uncharacterized conser 21.6 48 0.001 32.4 1.3 31 186-219 44-74 (303)
232 KOG1842 FYVE finger-containing 21.5 43 0.00093 35.2 1.0 23 14-36 168-190 (505)
233 KOG3799 Rab3 effector RIM1 and 21.4 29 0.00063 30.9 -0.2 51 182-232 62-117 (169)
234 PF13771 zf-HC5HC2H: PHD-like 21.2 47 0.001 26.2 1.0 33 185-217 36-68 (90)
235 PRK11088 rrmA 23S rRNA methylt 21.0 59 0.0013 31.1 1.8 26 186-211 3-28 (272)
236 KOG0956 PHD finger protein AF1 20.9 44 0.00095 37.1 1.0 48 186-233 118-182 (900)
237 PF14255 Cys_rich_CPXG: Cystei 20.8 72 0.0016 23.7 1.8 18 27-44 1-18 (52)
238 PRK00432 30S ribosomal protein 20.8 46 0.001 24.3 0.8 14 27-40 21-34 (50)
239 PRK12495 hypothetical protein; 20.4 53 0.0011 31.5 1.3 31 5-38 40-70 (226)
No 1
>PF06547 DUF1117: Protein of unknown function (DUF1117); InterPro: IPR010543 This entry represents the C terminus of a number of hypothetical plant proteins.
Probab=99.97 E-value=4.8e-31 Score=218.01 Aligned_cols=96 Identities=60% Similarity=1.048 Sum_probs=85.8
Q ss_pred CCCcccccCCCCcccceeecCCcchhhccCCceeecCCCCCCCCCCCCceeeeccCCccccCC-CC-hhhhhhhhhhhhc
Q 017269 250 TLGLTIWRLPGGGFAVGRFNGSRRAAERELPVVFTEMDGGFNAPIGAPRRISWVPSRRRAREG-NG-FARAFRGFTSLLG 327 (374)
Q Consensus 250 ~~~~~~~~~pggg~av~r~~g~rr~~e~~~P~~~~~~d~~fn~~~~~pr~~s~~~~~~~~~~~-~~-~~r~~~~~~~~~~ 327 (374)
+++||||++|+||||||||+|++|++|+|||++||||||+||.+.++||||||+.++.+++++ || |+|+|||||+||+
T Consensus 1 avGLTIWRLPGGGFAVGRF~GgrR~gErelPvVyTEmDGgfn~~~g~PRRisW~~r~~r~~~~~gg~~~R~frn~fs~f~ 80 (117)
T PF06547_consen 1 AVGLTIWRLPGGGFAVGRFSGGRRAGERELPVVYTEMDGGFNNGGGAPRRISWSSRGGRSRERRGGGFRRVFRNLFSCFG 80 (117)
T ss_pred CcceEEEEcCCCceEEeeecCCCcCCcccCCEEEEEecCCccCCCCCceeeeecccCCcccccccchHHHHHHHHHHHhc
Confidence 478999999999999999999999999999999999999999656999999999999999996 55 9999999999999
Q ss_pred CcCCCCCcccccccCCCC
Q 017269 328 RIRLPTSRATAEFNRRSP 345 (374)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~ 345 (374)
++++++|++++.+++..+
T Consensus 81 ~~~~~~s~ss~~~s~~~s 98 (117)
T PF06547_consen 81 RIGSSSSSSSSSSSRSGS 98 (117)
T ss_pred CCCCCccccccccccccc
Confidence 999988877644444433
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=7.8e-16 Score=152.32 Aligned_cols=79 Identities=28% Similarity=0.721 Sum_probs=67.9
Q ss_pred cCCCCCHHHHhcCCceeeecccccCC-CcccccCCccccCCCeEEccccCccchhhHHHHHhcCC-CCCccCccCCCCCC
Q 017269 160 VNPPASKAAIESMPVVTIAESHVAKE-SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRN-SCPLCRRELPNEAN 237 (374)
Q Consensus 160 ~~ppas~~~i~~lp~~~~~~~~~~~~-~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~-sCPvCR~~l~~~~~ 237 (374)
....+.|..+.++|..+++....... ..|+||+|+|+.|+++++|||+|.||..||++||.++. .||+||..+.....
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 35678899999999999987654433 49999999999999999999999999999999998775 59999998877754
Q ss_pred C
Q 017269 238 D 238 (374)
Q Consensus 238 ~ 238 (374)
.
T Consensus 283 ~ 283 (348)
T KOG4628|consen 283 S 283 (348)
T ss_pred C
Confidence 4
No 3
>PF14369 zf-RING_3: zinc-finger
Probab=99.57 E-value=1.2e-15 Score=103.82 Aligned_cols=35 Identities=46% Similarity=1.248 Sum_probs=30.7
Q ss_pred CceeecccCcceeeccCCCCCccCCCCCCCceEEe
Q 017269 6 LSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 6 ~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi 40 (374)
++||||+|+|+|++....+++++||+|++||||||
T Consensus 1 ~~ywCh~C~~~V~~~~~~~~~~~CP~C~~gFvEei 35 (35)
T PF14369_consen 1 QRYWCHQCNRFVRIAPSPDSDVACPRCHGGFVEEI 35 (35)
T ss_pred CCEeCccCCCEeEeCcCCCCCcCCcCCCCcEeEeC
Confidence 48999999999999765566667999999999997
No 4
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.46 E-value=2e-14 Score=101.90 Aligned_cols=44 Identities=41% Similarity=1.114 Sum_probs=40.5
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCR 229 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 229 (374)
++|+||+++|..++.+..++|+|.||.+||..||+.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 36999999999999999999999999999999999999999997
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=1.2e-11 Score=122.31 Aligned_cols=73 Identities=27% Similarity=0.696 Sum_probs=55.9
Q ss_pred CCCHHHHhcCCceeeecccccCCCcccccCCc-cccC---------CCeEEccccCccchhhHHHHHhcCCCCCccCccC
Q 017269 163 PASKAAIESMPVVTIAESHVAKESHCAVCKEP-FQLN---------SEAREMPCKHIYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 163 pas~~~i~~lp~~~~~~~~~~~~~~C~ICle~-f~~~---------~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
.+.|+.-+-+|++...+- ..+|..|.||+|+ |..+ .+.+.|||+|+||.+|++.|++++++||+||.++
T Consensus 266 r~~kdl~~~~~t~t~eql-~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 266 RATKDLNAMYPTATEEQL-TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred HHhhHHHhhcchhhhhhh-cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 345566666666553332 4557899999999 4433 2569999999999999999999999999999997
Q ss_pred CCCC
Q 017269 233 PNEA 236 (374)
Q Consensus 233 ~~~~ 236 (374)
.-+.
T Consensus 345 ifd~ 348 (491)
T COG5243 345 IFDQ 348 (491)
T ss_pred cccc
Confidence 5553
No 6
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.18 E-value=1.6e-11 Score=96.72 Aligned_cols=45 Identities=44% Similarity=1.081 Sum_probs=36.1
Q ss_pred CCcccccCCcccc----------CCCeEEccccCccchhhHHHHHhcCCCCCccC
Q 017269 185 ESHCAVCKEPFQL----------NSEAREMPCKHIYHGECILPWLSMRNSCPLCR 229 (374)
Q Consensus 185 ~~~C~ICle~f~~----------~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 229 (374)
++.|+||++.|.. .-.+...+|+|.||..||.+||+.+++||+||
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 4569999999932 12345567999999999999999999999997
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.16 E-value=1.8e-11 Score=116.41 Aligned_cols=72 Identities=26% Similarity=0.557 Sum_probs=55.3
Q ss_pred CCCHHHHhcCCceeeeccc---ccCCCcccccCCccccCCC-----eEEccccCccchhhHHHHHhcCCCCCccCccCCC
Q 017269 163 PASKAAIESMPVVTIAESH---VAKESHCAVCKEPFQLNSE-----AREMPCKHIYHGECILPWLSMRNSCPLCRRELPN 234 (374)
Q Consensus 163 pas~~~i~~lp~~~~~~~~---~~~~~~C~ICle~f~~~~~-----~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 234 (374)
..++..++.+|.+...-+. ...+.+|+||++.+..... ...++|+|.||..||..|++.+.+||+||..+..
T Consensus 149 ~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 149 KNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred chhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 3478888899988644332 2346899999998765431 2345699999999999999999999999998754
No 8
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.5e-11 Score=118.87 Aligned_cols=50 Identities=38% Similarity=0.955 Sum_probs=46.6
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHh-cCCCCCccCccCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS-MRNSCPLCRRELPN 234 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~ 234 (374)
.-+|+|||+.|..+++.+.|||+|.||..||.+|+. .++.||+||.++|+
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 478999999999999999999999999999999997 66799999999985
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.94 E-value=8.1e-10 Score=101.74 Aligned_cols=54 Identities=19% Similarity=0.607 Sum_probs=43.2
Q ss_pred cCCCcccccCCccccCCCeEEccccCccchhhHHHHHhc----------------CCCCCccCccCCCCCCCC
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM----------------RNSCPLCRRELPNEANDR 239 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~----------------~~sCPvCR~~l~~~~~~~ 239 (374)
.++.+|+||++.++ +.++++|+|.||+.||..|+.. ...||+||.++.......
T Consensus 16 ~~~~~CpICld~~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvP 85 (193)
T PLN03208 16 GGDFDCNICLDQVR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVP 85 (193)
T ss_pred CCccCCccCCCcCC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEE
Confidence 34688999999875 5677899999999999999852 247999999997764443
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=7.5e-10 Score=103.87 Aligned_cols=59 Identities=20% Similarity=0.550 Sum_probs=46.0
Q ss_pred cCCCcccccCCccccCCCeEEccccCccchhhHHHHHhc---CCCCCccCccCCCCCCCCCCCCC
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM---RNSCPLCRRELPNEANDRGSNVG 244 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~---~~sCPvCR~~l~~~~~~~~~~~~ 244 (374)
....+|.||||.-+ +.+++.|+|.||+.||.+||.. .+.|||||.+|..++..+-...+
T Consensus 45 ~~~FdCNICLd~ak---dPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG 106 (230)
T KOG0823|consen 45 GGFFDCNICLDLAK---DPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG 106 (230)
T ss_pred CCceeeeeeccccC---CCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence 34589999988643 6667779999999999999963 44799999999887665544433
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.84 E-value=2.5e-09 Score=73.69 Aligned_cols=44 Identities=39% Similarity=1.061 Sum_probs=36.5
Q ss_pred cccccCCccccCCCeEEccccCccchhhHHHHHhc-CCCCCccCccC
Q 017269 187 HCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM-RNSCPLCRREL 232 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~-~~sCPvCR~~l 232 (374)
.|+||++.+ .+....++|+|.||..|+..|++. +..||+|+..+
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 499999987 235555569999999999999987 67899999764
No 12
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.82 E-value=2.2e-09 Score=103.48 Aligned_cols=50 Identities=34% Similarity=0.852 Sum_probs=43.5
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEA 236 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~ 236 (374)
....|.+|||... ....+||+|+||+.||..|+..+..||+||.++.+.+
T Consensus 238 a~~kC~LCLe~~~---~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 238 ATRKCSLCLENRS---NPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCceEEEecCCC---CCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 3478999988754 6778999999999999999999999999999886653
No 13
>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=98.80 E-value=3e-09 Score=77.35 Aligned_cols=46 Identities=28% Similarity=0.831 Sum_probs=39.5
Q ss_pred CCcccccCCccccCCCeEEccccCc-cchhhHHHHHhcCCCCCccCccCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHI-YHGECILPWLSMRNSCPLCRRELP 233 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~WL~~~~sCPvCR~~l~ 233 (374)
+..|.||++... .+..+||+|. |+..|+..|++....||+||.++.
T Consensus 2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 467999988754 6889999999 999999999999999999999874
No 14
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.77 E-value=3.6e-09 Score=85.46 Aligned_cols=53 Identities=34% Similarity=0.852 Sum_probs=40.3
Q ss_pred cCCCcccccCCcccc--------CCC--eEEccccCccchhhHHHHHhc---CCCCCccCccCCCC
Q 017269 183 AKESHCAVCKEPFQL--------NSE--AREMPCKHIYHGECILPWLSM---RNSCPLCRRELPNE 235 (374)
Q Consensus 183 ~~~~~C~ICle~f~~--------~~~--~~~lpC~H~FH~~CI~~WL~~---~~sCPvCR~~l~~~ 235 (374)
..++.|.||...|+. |++ +..-.|+|.||.+||.+||.. +..||+||+++..+
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 347889999998863 222 233349999999999999974 46899999987544
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=2.6e-09 Score=112.74 Aligned_cols=51 Identities=29% Similarity=0.922 Sum_probs=45.2
Q ss_pred CCCcccccCCccccCCC--eEEccccCccchhhHHHHHhcCCCCCccCccCCC
Q 017269 184 KESHCAVCKEPFQLNSE--AREMPCKHIYHGECILPWLSMRNSCPLCRRELPN 234 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~--~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 234 (374)
.+..|+||+|++..+.. ++.|||+|+||..|+..|+++.++||+||..+..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 46899999999987654 8999999999999999999999999999995533
No 16
>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=98.73 E-value=6.4e-09 Score=71.90 Aligned_cols=39 Identities=31% Similarity=0.858 Sum_probs=33.0
Q ss_pred ccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCcc
Q 017269 188 CAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLC 228 (374)
Q Consensus 188 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvC 228 (374)
|+||++.+.. .++.++|+|.|+..||..|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999998763 44788999999999999999988899998
No 17
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.57 E-value=4.4e-08 Score=69.19 Aligned_cols=38 Identities=29% Similarity=0.839 Sum_probs=29.9
Q ss_pred ccccCCccccCCCeEEccccCccchhhHHHHHhcC----CCCCcc
Q 017269 188 CAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMR----NSCPLC 228 (374)
Q Consensus 188 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~----~sCPvC 228 (374)
|+||++.|+ +.+.|+|+|.|+..||..|.+.. ..||+|
T Consensus 1 CpiC~~~~~---~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK---DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S---SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhC---CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999987 78999999999999999999643 369998
No 18
>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=98.56 E-value=5.6e-08 Score=73.06 Aligned_cols=47 Identities=21% Similarity=0.440 Sum_probs=41.2
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
..|+||++.++ +.+.++|+|.|+..||..|++.+.+||+|+.++..+
T Consensus 2 ~~Cpi~~~~~~---~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMK---DPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCC---CCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 46999999876 457889999999999999998888999999988544
No 19
>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=98.54 E-value=6.2e-08 Score=64.33 Aligned_cols=38 Identities=37% Similarity=1.045 Sum_probs=33.1
Q ss_pred ccccCCccccCCCeEEccccCccchhhHHHHHh-cCCCCCcc
Q 017269 188 CAVCKEPFQLNSEAREMPCKHIYHGECILPWLS-MRNSCPLC 228 (374)
Q Consensus 188 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~-~~~sCPvC 228 (374)
|+||++. ......++|+|.||..||..|++ .+..||+|
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899887 34778899999999999999998 66689998
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=98.53 E-value=4.8e-08 Score=91.54 Aligned_cols=53 Identities=32% Similarity=0.737 Sum_probs=39.1
Q ss_pred cCCCcccccCCccccC-----CCeEEc-cccCccchhhHHHHHhcC------CCCCccCccCCCC
Q 017269 183 AKESHCAVCKEPFQLN-----SEAREM-PCKHIYHGECILPWLSMR------NSCPLCRRELPNE 235 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~-----~~~~~l-pC~H~FH~~CI~~WL~~~------~sCPvCR~~l~~~ 235 (374)
..+.+|+||+|..-.. ....+| +|+|.||..||..|.+.+ .+||+||..+...
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 3468999999975322 122345 599999999999999743 3699999987544
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.53 E-value=6.2e-08 Score=68.79 Aligned_cols=44 Identities=30% Similarity=0.818 Sum_probs=38.6
Q ss_pred cccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCc
Q 017269 187 HCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRR 230 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 230 (374)
+|+||++.|........++|+|+|+..||..+......||+||+
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 49999999966667889999999999999999866678999984
No 22
>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=98.50 E-value=8.6e-08 Score=66.46 Aligned_cols=39 Identities=38% Similarity=1.057 Sum_probs=32.9
Q ss_pred ccccCCccccCCCeEEccccCccchhhHHHHHh--cCCCCCcc
Q 017269 188 CAVCKEPFQLNSEAREMPCKHIYHGECILPWLS--MRNSCPLC 228 (374)
Q Consensus 188 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~--~~~sCPvC 228 (374)
|+||++.++. ....++|+|.|+..||..|++ ....||+|
T Consensus 1 C~iC~~~~~~--~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999998763 335899999999999999998 45579998
No 23
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=5.8e-08 Score=88.06 Aligned_cols=51 Identities=24% Similarity=0.673 Sum_probs=42.7
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEA 236 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~ 236 (374)
...|+|||+.++.... ....|+|+||+.||+.-|+....||+|+.+|..++
T Consensus 131 ~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 3789999999875322 34669999999999999999999999999887664
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.46 E-value=1.1e-07 Score=75.72 Aligned_cols=50 Identities=30% Similarity=0.743 Sum_probs=37.3
Q ss_pred CcccccCCcc-----------ccCCCeEEcc--ccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 186 SHCAVCKEPF-----------QLNSEAREMP--CKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 186 ~~C~ICle~f-----------~~~~~~~~lp--C~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
+.|+||...| ..+++....- |+|.||.+||.+||..+..||++|+++...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 4566665544 3444433332 999999999999999999999999987544
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.41 E-value=1.7e-07 Score=95.28 Aligned_cols=51 Identities=31% Similarity=0.671 Sum_probs=43.7
Q ss_pred ccCCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 182 VAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 182 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
+.....|+||++.|. ..++++|+|.||..||..|+.....||+|+..+...
T Consensus 23 Le~~l~C~IC~d~~~---~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFD---VPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhh---CccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 445688999999886 456789999999999999998888999999987654
No 26
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=2.2e-07 Score=73.37 Aligned_cols=50 Identities=32% Similarity=0.927 Sum_probs=37.0
Q ss_pred CCcccccCCcccc--------CCCe-EEcc-ccCccchhhHHHHHh---cCCCCCccCccCCC
Q 017269 185 ESHCAVCKEPFQL--------NSEA-REMP-CKHIYHGECILPWLS---MRNSCPLCRRELPN 234 (374)
Q Consensus 185 ~~~C~ICle~f~~--------~~~~-~~lp-C~H~FH~~CI~~WL~---~~~sCPvCR~~l~~ 234 (374)
++.|-||...|.. |++. .++- |.|.||.+||.+||. .+..||+||+++..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 4689999888863 3322 2222 999999999999995 33479999998754
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=6.5e-07 Score=85.72 Aligned_cols=49 Identities=29% Similarity=0.756 Sum_probs=41.4
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHH-HHhcCCC-CCccCccCCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILP-WLSMRNS-CPLCRRELPNE 235 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~-WL~~~~s-CPvCR~~l~~~ 235 (374)
.+..|+||++..+ ....++|+|+||..||.. |-+++.. ||+||+.+..+
T Consensus 214 ~d~kC~lC~e~~~---~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPE---VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccC---CcccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 4688999988754 778899999999999999 9876665 99999987655
No 28
>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=98.16 E-value=1.4e-06 Score=63.58 Aligned_cols=42 Identities=24% Similarity=0.816 Sum_probs=33.7
Q ss_pred cccccCCccccCCCeEEcccc-----CccchhhHHHHHhc--CCCCCccC
Q 017269 187 HCAVCKEPFQLNSEAREMPCK-----HIYHGECILPWLSM--RNSCPLCR 229 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~WL~~--~~sCPvCR 229 (374)
.|.||++ ...++...++||. |.+|..|+.+|+.. +.+||+|+
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 4445566789975 88999999999954 45899995
No 29
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=7.5e-07 Score=91.31 Aligned_cols=50 Identities=38% Similarity=1.014 Sum_probs=39.5
Q ss_pred CCcccccCCccccC---CC-----------eEEccccCccchhhHHHHHhcC-CCCCccCccCCC
Q 017269 185 ESHCAVCKEPFQLN---SE-----------AREMPCKHIYHGECILPWLSMR-NSCPLCRRELPN 234 (374)
Q Consensus 185 ~~~C~ICle~f~~~---~~-----------~~~lpC~H~FH~~CI~~WL~~~-~sCPvCR~~l~~ 234 (374)
...|+||+.+++.- .+ -..+||.|+||..|+..|.... -.||+||.+||.
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 46899999887531 12 2345899999999999999854 499999999875
No 30
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1e-06 Score=84.62 Aligned_cols=52 Identities=27% Similarity=0.834 Sum_probs=41.6
Q ss_pred CCCcccccCCccccCC-------CeEEccccCccchhhHHHHH--hcCCCCCccCccCCCC
Q 017269 184 KESHCAVCKEPFQLNS-------EAREMPCKHIYHGECILPWL--SMRNSCPLCRRELPNE 235 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~-------~~~~lpC~H~FH~~CI~~WL--~~~~sCPvCR~~l~~~ 235 (374)
++..|+||-..+.... +.-+|.|+|.||..||.-|- -.+++||.|+.++..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 3678999987765433 56778899999999999997 4677999999887544
No 31
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=2e-06 Score=71.62 Aligned_cols=50 Identities=34% Similarity=0.750 Sum_probs=37.0
Q ss_pred CCcccccCCccc------------cCCCeEEc--cccCccchhhHHHHHhcCCCCCccCccCCC
Q 017269 185 ESHCAVCKEPFQ------------LNSEAREM--PCKHIYHGECILPWLSMRNSCPLCRRELPN 234 (374)
Q Consensus 185 ~~~C~ICle~f~------------~~~~~~~l--pC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 234 (374)
-+.|+||...+. ..++.... -|+|.||.+||.+||+.++.||+|..++..
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 367999866432 11222222 299999999999999999999999887754
No 32
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=2.6e-06 Score=88.03 Aligned_cols=48 Identities=33% Similarity=0.845 Sum_probs=38.9
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhc-----CCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM-----RNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~-----~~sCPvCR~~l~~~ 235 (374)
+..|+|||+... .+..+.|+|+||..||..++.. ...||+|+..+..+
T Consensus 186 ~~~CPICL~~~~---~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPS---VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCC---cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 678999988754 5566669999999999998843 35899999988664
No 33
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.98 E-value=4.4e-06 Score=59.47 Aligned_cols=38 Identities=29% Similarity=0.891 Sum_probs=22.9
Q ss_pred ccccCCcccc-CCCeEEccccCccchhhHHHHHhcCC----CCC
Q 017269 188 CAVCKEPFQL-NSEAREMPCKHIYHGECILPWLSMRN----SCP 226 (374)
Q Consensus 188 C~ICle~f~~-~~~~~~lpC~H~FH~~CI~~WL~~~~----sCP 226 (374)
|+||+| |.. .+..+.|+|+|.|+.+||.+|++... .||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 754 45678999999999999999997432 576
No 34
>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=97.96 E-value=5.9e-06 Score=64.86 Aligned_cols=49 Identities=24% Similarity=0.497 Sum_probs=38.8
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhc-CCCCCccCccCCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM-RNSCPLCRRELPNEA 236 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~~ 236 (374)
+..|+||.+.|. +.+++||+|.|...||..||+. +.+||+|+..+...+
T Consensus 4 ~f~CpIt~~lM~---dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 4 EFLCPITGELMR---DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGB-TTTSSB-S---SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred ccCCcCcCcHhh---CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 478999988876 7889999999999999999988 789999998887653
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.89 E-value=2.8e-06 Score=92.48 Aligned_cols=51 Identities=29% Similarity=0.911 Sum_probs=37.6
Q ss_pred cCCCcccccCCccccCC---CeEEcc-ccCccchhhHHHHHh--cCCCCCccCccCC
Q 017269 183 AKESHCAVCKEPFQLNS---EAREMP-CKHIYHGECILPWLS--MRNSCPLCRRELP 233 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~---~~~~lp-C~H~FH~~CI~~WL~--~~~sCPvCR~~l~ 233 (374)
..-.+|+||...+..-+ .-+..+ |+|.||..||.+|++ .+++||+||.+++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34588999976654211 223334 999999999999996 5568999998875
No 36
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.85 E-value=4.8e-06 Score=82.24 Aligned_cols=49 Identities=29% Similarity=0.664 Sum_probs=43.5
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEAN 237 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~ 237 (374)
..|-||.|-|. .+.++||+|.||.-||..+|..+..||.|+.++.+...
T Consensus 24 LRC~IC~eyf~---ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 24 LRCGICFEYFN---IPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHhHHHHHhc---CceeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 67999988876 67899999999999999999999999999998866543
No 37
>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=97.82 E-value=1.3e-05 Score=78.93 Aligned_cols=52 Identities=23% Similarity=0.436 Sum_probs=38.7
Q ss_pred CCcccccCCccccCCC--eEEccccCccchhhHHHHH-hcCCCCCccCccCCCCC
Q 017269 185 ESHCAVCKEPFQLNSE--AREMPCKHIYHGECILPWL-SMRNSCPLCRRELPNEA 236 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~--~~~lpC~H~FH~~CI~~WL-~~~~sCPvCR~~l~~~~ 236 (374)
+..|+||+.+--.... ..+.+|+|.||..||...+ .....||+|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4689999996333333 2333799999999999966 45568999999886654
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.77 E-value=1.2e-05 Score=78.14 Aligned_cols=48 Identities=25% Similarity=0.588 Sum_probs=41.8
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
-..|-||.+-|. ...+++|+|.||.-||...|..+..||+||.+-.+.
T Consensus 25 ~lrC~IC~~~i~---ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 25 MLRCRICDCRIS---IPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred HHHhhhhhheee---cceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 367999999876 566888999999999999999999999999976544
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=9.4e-06 Score=75.34 Aligned_cols=44 Identities=32% Similarity=0.712 Sum_probs=38.3
Q ss_pred cCCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccC
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCR 229 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 229 (374)
..+..|+||++.|... +++||+|.||..||..++...-.||.||
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 3457899999999854 8999999999999999998555899999
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.75 E-value=1.2e-05 Score=82.03 Aligned_cols=47 Identities=30% Similarity=0.802 Sum_probs=38.4
Q ss_pred CCcccccCCccccCC-CeEEccccCccchhhHHHHHhcCCCCCccCccCC
Q 017269 185 ESHCAVCKEPFQLNS-EAREMPCKHIYHGECILPWLSMRNSCPLCRRELP 233 (374)
Q Consensus 185 ~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 233 (374)
-.+|+||||-+.... .+....|.|.||..|+..| ...+|||||.-..
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence 368999999986543 3455669999999999999 5678999999665
No 41
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.72 E-value=1.3e-05 Score=78.22 Aligned_cols=94 Identities=21% Similarity=0.454 Sum_probs=64.8
Q ss_pred cchhHHHHHHhhhcccCCccccCCCCCHHHHhcCCceeeecccccCCCcccccCCccccCCCeEEccccCccchhhHHHH
Q 017269 139 SGFDRVLDQLTQLDFNGVTRFVNPPASKAAIESMPVVTIAESHVAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPW 218 (374)
Q Consensus 139 ~~ld~LleqL~q~e~n~~~r~~~ppas~~~i~~lp~~~~~~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~W 218 (374)
+.|.+|..++..+-..+.+ -|+--+.|+....+.....+ ....|.|||.-|..++...+++|-|.||..|+..+
T Consensus 75 ~~~~~i~~~~~~iikq~~g----~pii~~lie~~~e~LT~nn~--p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRy 148 (368)
T KOG4445|consen 75 PEFREIQRQIQEIIKQNSG----MPIICQLIEHCSEFLTENNH--PNGQCVICLYGFASSPAFTVTACDHYMHFACLARY 148 (368)
T ss_pred HHHHHHHHHHHHHHHhcCC----CchhHHHHHHHHHHcccCCC--CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHH
Confidence 4567777777665544444 34445556554433322222 24679999999999999999999999999999877
Q ss_pred Hh-----------------------cCCCCCccCccCCCCCCC
Q 017269 219 LS-----------------------MRNSCPLCRRELPNEAND 238 (374)
Q Consensus 219 L~-----------------------~~~sCPvCR~~l~~~~~~ 238 (374)
|. ....|||||..|..+.+.
T Consensus 149 l~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s 191 (368)
T KOG4445|consen 149 LTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS 191 (368)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence 61 122699999998776443
No 42
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.64 E-value=2e-05 Score=61.68 Aligned_cols=51 Identities=22% Similarity=0.523 Sum_probs=23.3
Q ss_pred CCcccccCCccc-cCCC-eEEc---cccCccchhhHHHHHhc----C-------CCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQ-LNSE-AREM---PCKHIYHGECILPWLSM----R-------NSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~-~~~~-~~~l---pC~H~FH~~CI~~WL~~----~-------~sCPvCR~~l~~~ 235 (374)
+..|.||+..+. .+.. .... .|++.||..||..||.. + ..||.|+.+|..+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 357999998765 2222 2222 39999999999999941 1 1499999987543
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=1e-05 Score=80.40 Aligned_cols=59 Identities=22% Similarity=0.514 Sum_probs=44.7
Q ss_pred eeeecccccCCCcccccCCccccCCCeEEccccCccchhhHHHHHh-cCCCCCccCccCCCC
Q 017269 175 VTIAESHVAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS-MRNSCPLCRRELPNE 235 (374)
Q Consensus 175 ~~~~~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~~ 235 (374)
+.+....+..+..|+|||+-++. ...+.-|.|.||.+||..-++ .+++||.||+.+...
T Consensus 33 i~~~l~~~~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 33 IMVDLAMFDIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred heecHHHhhhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 34444455667899999997762 233334999999999999996 677999999988665
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=5.5e-05 Score=75.42 Aligned_cols=48 Identities=23% Similarity=0.698 Sum_probs=40.8
Q ss_pred CCcccccCCccccCCCeEEccccCc-cchhhHHHHHhcCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHI-YHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
..+|.|||.+-. +..+|||.|. .|..|.+..--+++.||+||+.+..-
T Consensus 290 gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 290 GKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred CCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 478999988754 7789999997 89999988767889999999987543
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=5.7e-05 Score=75.92 Aligned_cols=50 Identities=26% Similarity=0.789 Sum_probs=37.7
Q ss_pred CcccccCCccccCCCeEEcc-ccCccchhhHHHHHhcC---CCCCccCccCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMP-CKHIYHGECILPWLSMR---NSCPLCRRELPNE 235 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~WL~~~---~sCPvCR~~l~~~ 235 (374)
..|.||.+-+....++.-+. |+|+||..|+..|++.- ..||+|+-.++..
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r 58 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQER 58 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccce
Confidence 57999966555444555555 99999999999999743 4799999666554
No 46
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=0.0001 Score=73.98 Aligned_cols=50 Identities=30% Similarity=0.777 Sum_probs=38.0
Q ss_pred CCCcccccCCccccCC----CeEEcc-ccCccchhhHHHHH--hc-----CCCCCccCccCC
Q 017269 184 KESHCAVCKEPFQLNS----EAREMP-CKHIYHGECILPWL--SM-----RNSCPLCRRELP 233 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~----~~~~lp-C~H~FH~~CI~~WL--~~-----~~sCPvCR~~l~ 233 (374)
.+.+|.||++...... ...+|| |.|.||..||..|- ++ .+.||.||....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 4689999999764322 123456 99999999999998 44 578999998653
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.28 E-value=4.7e-05 Score=81.95 Aligned_cols=50 Identities=26% Similarity=0.573 Sum_probs=43.1
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPN 234 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 234 (374)
...|++|+..+..+......+|.|.||..||..|-+.-++||+||.++..
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 46899999988766666667799999999999999999999999998643
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.24 E-value=0.00013 Score=71.25 Aligned_cols=48 Identities=19% Similarity=0.482 Sum_probs=39.5
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcC-CCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMR-NSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~-~sCPvCR~~l~~~ 235 (374)
..+|+||+.+ +...+.|+|+|.||.-||+--.+.. .+|++||.+++..
T Consensus 7 ~~eC~IC~nt---~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNT---GNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeecc---CCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 4679999776 4466899999999999999877654 4799999999765
No 49
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.19 E-value=0.00013 Score=56.15 Aligned_cols=46 Identities=22% Similarity=0.607 Sum_probs=22.7
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
..|++|.+.++ +.+....|.|+|+..||..-+. ..||+|+.+.-..
T Consensus 8 LrCs~C~~~l~--~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 8 LRCSICFDILK--EPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp TS-SSS-S--S--S-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred cCCcHHHHHhc--CCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 56999988765 2334455999999999988654 3599999876544
No 50
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.11 E-value=0.00019 Score=72.56 Aligned_cols=48 Identities=27% Similarity=0.825 Sum_probs=40.0
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHh--cCCCCCccCccCCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS--MRNSCPLCRRELPNEA 236 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~--~~~sCPvCR~~l~~~~ 236 (374)
..|.||-| .+.++++-||+|..|..|+..|-. ..++||.||.++.-.+
T Consensus 370 eLCKICae---ndKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAE---NDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhc---cCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 57999955 455889999999999999999984 3579999999986543
No 51
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00012 Score=54.60 Aligned_cols=46 Identities=24% Similarity=0.646 Sum_probs=35.1
Q ss_pred CCcccccCCccccCCCeEEccccCc-cchhhHHHHHh-cCCCCCccCccCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHI-YHGECILPWLS-MRNSCPLCRRELP 233 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~WL~-~~~sCPvCR~~l~ 233 (374)
+++|.||+|. .-+.+...|+|+ .+.+|-..-++ .+..||+||+++.
T Consensus 7 ~dECTICye~---pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEH---PVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccC---cchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3789999664 224445669998 78899877665 7889999999864
No 52
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.00051 Score=69.63 Aligned_cols=48 Identities=25% Similarity=0.850 Sum_probs=37.2
Q ss_pred CCcccccCCcccc-CC-CeEEccccCccchhhHHHHHh--cCCCCCccCccC
Q 017269 185 ESHCAVCKEPFQL-NS-EAREMPCKHIYHGECILPWLS--MRNSCPLCRREL 232 (374)
Q Consensus 185 ~~~C~ICle~f~~-~~-~~~~lpC~H~FH~~CI~~WL~--~~~sCPvCR~~l 232 (374)
...|+||++.++. ++ ....+.|+|.|..+||..||. ....||.|..+-
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 4689999999874 33 344555999999999999995 223799997764
No 53
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=0.00046 Score=70.59 Aligned_cols=50 Identities=34% Similarity=0.685 Sum_probs=43.3
Q ss_pred cCCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
..+..|.||+..+. ..+.+||+|.||..||.+-+.+...||.||.+++.-
T Consensus 82 ~sef~c~vc~~~l~---~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 82 RSEFECCVCSRALY---PPVVTPCGHSFCLECLDRSLDQETECPLCRDELVEL 131 (398)
T ss_pred cchhhhhhhHhhcC---CCccccccccccHHHHHHHhccCCCCcccccccccc
Confidence 45789999977765 667789999999999999888888999999999863
No 54
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.00032 Score=63.14 Aligned_cols=40 Identities=23% Similarity=0.646 Sum_probs=32.6
Q ss_pred CceeeecccccC-CCcccccCCccccCCCeEEccccCccch
Q 017269 173 PVVTIAESHVAK-ESHCAVCKEPFQLNSEAREMPCKHIYHG 212 (374)
Q Consensus 173 p~~~~~~~~~~~-~~~C~ICle~f~~~~~~~~lpC~H~FH~ 212 (374)
|.+.+.++.+.. ..+|.||||+++.++.+..|||-.+||+
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 445555554443 4789999999999999999999999997
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.55 E-value=0.0011 Score=66.93 Aligned_cols=47 Identities=36% Similarity=0.849 Sum_probs=38.7
Q ss_pred CCcccccCCccccC-CCeEEccccCccchhhHHHHHhcCC--CCCccCcc
Q 017269 185 ESHCAVCKEPFQLN-SEAREMPCKHIYHGECILPWLSMRN--SCPLCRRE 231 (374)
Q Consensus 185 ~~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~WL~~~~--sCPvCR~~ 231 (374)
+..|..|-+.+-.. +....|||.|+||..|+...|.++. +||-||.-
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 57799998887654 3567899999999999999997554 89999943
No 56
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.51 E-value=0.0014 Score=67.09 Aligned_cols=54 Identities=26% Similarity=0.669 Sum_probs=43.6
Q ss_pred ccCCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCCCC
Q 017269 182 VAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEAN 237 (374)
Q Consensus 182 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~ 237 (374)
++.+..|+||...+.. .+....|+|.||..||..|+..+..||.|+..+...+.
T Consensus 18 ~~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred CcccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence 4556889999888763 22225799999999999999999999999988766543
No 57
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.33 E-value=0.0024 Score=46.20 Aligned_cols=40 Identities=28% Similarity=0.758 Sum_probs=27.2
Q ss_pred ccccCCccccCCCeEEccc--cC---ccchhhHHHHHh--cCCCCCcc
Q 017269 188 CAVCKEPFQLNSEAREMPC--KH---IYHGECILPWLS--MRNSCPLC 228 (374)
Q Consensus 188 C~ICle~f~~~~~~~~lpC--~H---~FH~~CI~~WL~--~~~sCPvC 228 (374)
|-||++.-+..+ ..+.|| +- ..|..||..|+. .+.+|++|
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 789988765544 567785 44 789999999996 45679988
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.29 E-value=0.0024 Score=72.85 Aligned_cols=69 Identities=25% Similarity=0.557 Sum_probs=48.4
Q ss_pred HHHHhcCCceeeecc--cccCCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCC----------CCCccCccCC
Q 017269 166 KAAIESMPVVTIAES--HVAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRN----------SCPLCRRELP 233 (374)
Q Consensus 166 ~~~i~~lp~~~~~~~--~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~----------sCPvCR~~l~ 233 (374)
+..-+-||-...+.. ..+.++.|-||..+--....+..|.|+|+||..|...-|+++- +||+|+.++.
T Consensus 3465 kNEE~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3465 KNEEHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cchhhcccccccChhhhhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 444455665543332 2345789999977654456778899999999999987665321 7999999874
Q ss_pred C
Q 017269 234 N 234 (374)
Q Consensus 234 ~ 234 (374)
.
T Consensus 3545 H 3545 (3738)
T KOG1428|consen 3545 H 3545 (3738)
T ss_pred h
Confidence 3
No 59
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.28 E-value=0.0022 Score=48.26 Aligned_cols=41 Identities=24% Similarity=0.722 Sum_probs=28.2
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhc--CCCCCc
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM--RNSCPL 227 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~--~~sCPv 227 (374)
...|+|.+..|+ +.++...|+|.|-+..|..||+. ...||+
T Consensus 11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 478999999987 45666679999999999999943 347998
No 60
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.17 E-value=0.0016 Score=70.46 Aligned_cols=47 Identities=23% Similarity=0.690 Sum_probs=37.6
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHh-cCCCCCccCccCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS-MRNSCPLCRRELPNE 235 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~~ 235 (374)
..|++|-+-++ ++++..|+|.||..||.+-+. ++..||.|-..+...
T Consensus 644 LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 644 LKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred eeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 67999976554 555666999999999999996 666899998776544
No 61
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.88 E-value=0.0022 Score=63.60 Aligned_cols=50 Identities=20% Similarity=0.538 Sum_probs=38.4
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
.-..|.+|.--|- +.-.+.-|-|.||+.||...|...++||.|...+-..
T Consensus 14 ~~itC~LC~GYli--DATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 14 PHITCRLCGGYLI--DATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred cceehhhccceee--cchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 3478999976554 2222334999999999999999999999998877443
No 62
>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=95.86 E-value=0.0031 Score=55.35 Aligned_cols=38 Identities=16% Similarity=0.424 Sum_probs=31.1
Q ss_pred CCcccccCCccccCCCeEEcccc------CccchhhHHHHHhcC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCK------HIYHGECILPWLSMR 222 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~------H~FH~~CI~~WL~~~ 222 (374)
..+|.||++.+...+.++.++|+ |+||.+|+.+|-+.+
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 36799999998876678888876 999999999994333
No 63
>PHA02862 5L protein; Provisional
Probab=95.70 E-value=0.0067 Score=53.85 Aligned_cols=47 Identities=19% Similarity=0.650 Sum_probs=35.1
Q ss_pred CCcccccCCccccCCCeEEcccc-----CccchhhHHHHHh--cCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCK-----HIYHGECILPWLS--MRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~WL~--~~~sCPvCR~~l~~~ 235 (374)
+..|-||+++-+ +. .-||. ..-|.+|+..|++ ++.+|++|+.+...+
T Consensus 2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 367999988743 22 35654 5789999999996 455899999987544
No 64
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.66 E-value=0.0081 Score=60.22 Aligned_cols=49 Identities=22% Similarity=0.502 Sum_probs=41.8
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
++..|+|| |...-.++..||+|.=|+.||.+.|...+.|=.|++.+...
T Consensus 421 Ed~lCpIC---yA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~ 469 (489)
T KOG4692|consen 421 EDNLCPIC---YAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDV 469 (489)
T ss_pred ccccCcce---ecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence 46889999 44445677889999999999999999999999999987653
No 65
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.53 E-value=0.0054 Score=57.07 Aligned_cols=44 Identities=18% Similarity=0.582 Sum_probs=38.5
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
..|.||.++|+ ..+...|+|.||..|...-++....|-+|-...
T Consensus 197 F~C~iCKkdy~---spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYE---SPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhcc---chhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 68999999998 567788999999999999888888999996643
No 66
>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=95.40 E-value=0.0064 Score=49.88 Aligned_cols=33 Identities=33% Similarity=0.753 Sum_probs=27.8
Q ss_pred cCCCcccccCCccccCCCeEEccccCccchhhHH
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCKHIYHGECIL 216 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~ 216 (374)
..+..|+||...+.. ......||+|.||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 346789999998865 578899999999999975
No 67
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.23 E-value=0.017 Score=54.75 Aligned_cols=50 Identities=22% Similarity=0.669 Sum_probs=40.3
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhc--------CCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM--------RNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~--------~~sCPvCR~~l~~~ 235 (374)
...|..|...+..++.+ .|-|-|.||++|+..|-.. ...||.|-.+|-..
T Consensus 50 ~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 46799999998888665 6779999999999999742 23799999988554
No 68
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.15 E-value=0.017 Score=52.15 Aligned_cols=48 Identities=27% Similarity=0.731 Sum_probs=35.4
Q ss_pred CCCcccccCCccccCCCeEEcc--ccC---ccchhhHHHHHh--cCCCCCccCccCCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMP--CKH---IYHGECILPWLS--MRNSCPLCRRELPNE 235 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lp--C~H---~FH~~CI~~WL~--~~~sCPvCR~~l~~~ 235 (374)
.+..|-||.++-. +. .-| |+. ..|.+|+..|+. +..+|++|+++....
T Consensus 7 ~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 7 MDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 4578999988743 22 346 544 569999999995 445899999987555
No 69
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.99 E-value=0.027 Score=54.81 Aligned_cols=52 Identities=29% Similarity=0.514 Sum_probs=38.8
Q ss_pred ccCCCcccccCCccccCCCeEEccccCccchhhHHHHHh--cCCCCCccCccCCCC
Q 017269 182 VAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS--MRNSCPLCRRELPNE 235 (374)
Q Consensus 182 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~--~~~sCPvCR~~l~~~ 235 (374)
...+.+|++|-+.=. ......+|+|+||..||..-+. ..-+||.|-.++...
T Consensus 236 ~t~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred ccCCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 345689999977532 2445666999999999999775 335899998877654
No 70
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.96 E-value=0.011 Score=62.00 Aligned_cols=49 Identities=27% Similarity=0.712 Sum_probs=39.1
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHh-----cCCCCCccCccCCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS-----MRNSCPLCRRELPNE 235 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~-----~~~sCPvCR~~l~~~ 235 (374)
.+.+|.+|.+.-+ +.....|.|.||..||..++. .+-+||+|...|..+
T Consensus 535 ~~~~C~lc~d~ae---d~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 535 GEVECGLCHDPAE---DYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred CceeecccCChhh---hhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 4578999987643 566778999999999999883 345899998887665
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.58 E-value=0.02 Score=57.52 Aligned_cols=43 Identities=30% Similarity=0.708 Sum_probs=32.1
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELP 233 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 233 (374)
...|.||+++.+ ..+.+||+|+-+ |+.-- +...+||+||..+.
T Consensus 305 p~lcVVcl~e~~---~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEPK---SAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCcc---ceeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 478999999866 488999999976 65442 33345999998763
No 72
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.50 E-value=0.026 Score=41.18 Aligned_cols=45 Identities=22% Similarity=0.494 Sum_probs=22.2
Q ss_pred ccccCCccccCC-CeEEccccCccchhhHHHHHh-cCCCCCccCccC
Q 017269 188 CAVCKEPFQLNS-EAREMPCKHIYHGECILPWLS-MRNSCPLCRREL 232 (374)
Q Consensus 188 C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l 232 (374)
|++|.+++...+ ...--+|++.++..|...-++ ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984332 333344889999999888775 567899999864
No 73
>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=94.08 E-value=0.018 Score=40.95 Aligned_cols=41 Identities=27% Similarity=0.732 Sum_probs=23.3
Q ss_pred ccccCCccccCCCeEEccccCccchhhHHHHHhcCC--CCCcc
Q 017269 188 CAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRN--SCPLC 228 (374)
Q Consensus 188 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~--sCPvC 228 (374)
|.+|.+....|.....-.|.-.+|..|+..+++... .||.|
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 778888766554333334999999999999997655 79988
No 74
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.06 E-value=0.037 Score=55.52 Aligned_cols=48 Identities=29% Similarity=0.709 Sum_probs=39.0
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHH--HhcCCCCCccCccCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPW--LSMRNSCPLCRRELPN 234 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~W--L~~~~sCPvCR~~l~~ 234 (374)
+...|.||-+.+. ....+||+|..|..|.... |...+.||+||+++.+
T Consensus 60 en~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 60 ENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred ccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 3478999977654 6789999999999998764 4578899999998744
No 75
>PHA03096 p28-like protein; Provisional
Probab=93.99 E-value=0.026 Score=55.57 Aligned_cols=47 Identities=17% Similarity=0.342 Sum_probs=33.3
Q ss_pred CcccccCCccccC----CCeEEcc-ccCccchhhHHHHHhcC---C---CCCccCccC
Q 017269 186 SHCAVCKEPFQLN----SEAREMP-CKHIYHGECILPWLSMR---N---SCPLCRREL 232 (374)
Q Consensus 186 ~~C~ICle~f~~~----~~~~~lp-C~H~FH~~CI~~WL~~~---~---sCPvCR~~l 232 (374)
..|.||+|..... ..-.+|+ |.|.|+..||..|-... . .||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 6799999986542 2345676 99999999999998422 2 455555544
No 76
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.88 E-value=0.022 Score=58.16 Aligned_cols=47 Identities=19% Similarity=0.525 Sum_probs=37.0
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhcC--------CCCCccCc
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMR--------NSCPLCRR 230 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~--------~sCPvCR~ 230 (374)
.-..|.||.++.......+.+||.|.||+.|+..++..+ -.||-|..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 357899999986654788899999999999999998421 15877654
No 77
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.74 E-value=0.051 Score=54.11 Aligned_cols=47 Identities=17% Similarity=0.328 Sum_probs=35.5
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
....|+||+..-... .+..--+-+||..||...+..++.|||--.++
T Consensus 299 ~~~~CpvClk~r~Np--tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNP--TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCC--ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 347899998875432 22222589999999999999999999865544
No 78
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.68 E-value=0.031 Score=54.93 Aligned_cols=45 Identities=20% Similarity=0.521 Sum_probs=39.1
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELP 233 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 233 (374)
..|-||.+.|. ..++..|+|.||..|...-++....|.+|-..+-
T Consensus 242 f~c~icr~~f~---~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFY---RPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccc---cchhhcCCceeehhhhccccccCCcceecccccc
Confidence 56999999997 5667889999999999998888899999977653
No 79
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=93.56 E-value=0.037 Score=60.89 Aligned_cols=49 Identities=24% Similarity=0.699 Sum_probs=35.3
Q ss_pred CCCcccccCCccccCCCeEE-ccccCccchhhHHHHHhcC-------CCCCccCccC
Q 017269 184 KESHCAVCKEPFQLNSEARE-MPCKHIYHGECILPWLSMR-------NSCPLCRREL 232 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~-lpC~H~FH~~CI~~WL~~~-------~sCPvCR~~l 232 (374)
...+|.||.+.+...+.+-. -.|-|+||..||..|-+.. -.||.|....
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 34789999998875443222 2388999999999998421 2699998543
No 80
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.39 E-value=0.018 Score=56.54 Aligned_cols=42 Identities=26% Similarity=0.667 Sum_probs=32.6
Q ss_pred CCcccccCCccccCCCeEEccccCc-cchhhHHHHHhcCCCCCccCccCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHI-YHGECILPWLSMRNSCPLCRRELP 233 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~WL~~~~sCPvCR~~l~ 233 (374)
+..|+||++.- -+...|+|+|+ -|..|-+. -+.||+||+.|.
T Consensus 300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC---cceEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence 57899997753 47889999997 57777544 358999998764
No 81
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.35 E-value=0.069 Score=51.39 Aligned_cols=52 Identities=15% Similarity=0.361 Sum_probs=44.2
Q ss_pred CCcccccCCccccCCCeEEc-cccCccchhhHHHHHhcCCCCCccCccCCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREM-PCKHIYHGECILPWLSMRNSCPLCRRELPNEA 236 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~ 236 (374)
...|+||.+.+.....+..| ||+|+|+.+|+.+.+.....||+|-.++...+
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 47899999999876655555 59999999999999999999999988886663
No 82
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.15 E-value=0.07 Score=52.62 Aligned_cols=43 Identities=28% Similarity=0.616 Sum_probs=32.5
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHh-cCCCCCccCc
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS-MRNSCPLCRR 230 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~ 230 (374)
..|+.|..-+. +.+++-.|+|.||..||..-|. ....||.|..
T Consensus 275 LkCplc~~Llr--np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLR--NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhh--CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 67999977654 3344423999999999998885 5568999955
No 83
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.97 E-value=0.0066 Score=61.45 Aligned_cols=51 Identities=33% Similarity=0.755 Sum_probs=44.2
Q ss_pred CcccccCCccccC-CCeEEccccCccchhhHHHHHhcCCCCCccCccCCCCC
Q 017269 186 SHCAVCKEPFQLN-SEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEA 236 (374)
Q Consensus 186 ~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~ 236 (374)
..|+||.+.++.. +++..+-|+|++|..||.+||.....||.|+.+|+...
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 6799999888765 56777789999999999999988889999999997653
No 84
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.51 E-value=0.055 Score=51.75 Aligned_cols=48 Identities=21% Similarity=0.537 Sum_probs=36.1
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCC-CCCccCccCCCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRN-SCPLCRRELPNEAN 237 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~-sCPvCR~~l~~~~~ 237 (374)
.+|..|... ..++....+.|.|+||..|... .+. .||+|+..+.....
T Consensus 4 VhCn~C~~~-~~~~~f~LTaC~HvfC~~C~k~---~~~~~C~lCkk~ir~i~l 52 (233)
T KOG4739|consen 4 VHCNKCFRF-PSQDPFFLTACRHVFCEPCLKA---SSPDVCPLCKKSIRIIQL 52 (233)
T ss_pred EEecccccc-CCCCceeeeechhhhhhhhccc---CCccccccccceeeeeec
Confidence 368888663 3467777888999999999765 233 89999998766544
No 85
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.47 E-value=0.09 Score=39.40 Aligned_cols=46 Identities=24% Similarity=0.683 Sum_probs=34.4
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
...|-.|.. .+.+-.++||+|+.+..|..- ++-+.||+|-+++...
T Consensus 7 ~~~~~~~~~---~~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGF---VGTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFD 52 (55)
T ss_pred ceeEEEccc---cccccccccccceeeccccCh--hhccCCCCCCCcccCC
Confidence 356777744 345677899999999999554 4777899998877554
No 86
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.43 E-value=0.24 Score=47.89 Aligned_cols=53 Identities=17% Similarity=0.453 Sum_probs=40.2
Q ss_pred cCCCcccccCCccccCCC-eEEccccCccchhhHHHHHhcCCCCCccCccCCCCC
Q 017269 183 AKESHCAVCKEPFQLNSE-AREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEA 236 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~ 236 (374)
.....|+|+..+|..... +...||+|+|...+|..- .....||+|-.++...+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 345899999999954444 445579999999999986 33557999988876553
No 87
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.37 E-value=0.092 Score=51.21 Aligned_cols=47 Identities=26% Similarity=0.654 Sum_probs=38.7
Q ss_pred CcccccCCccccCC---CeEEccccCccchhhHHHHHhcC-CCCCccCccC
Q 017269 186 SHCAVCKEPFQLNS---EAREMPCKHIYHGECILPWLSMR-NSCPLCRREL 232 (374)
Q Consensus 186 ~~C~ICle~f~~~~---~~~~lpC~H~FH~~CI~~WL~~~-~sCPvCR~~l 232 (374)
..|-||-++|...+ ..+.|.|+|.|+..|+.+-+... ..||.||...
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 56999999998763 45677799999999998877644 4799999985
No 88
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.10 E-value=0.07 Score=58.81 Aligned_cols=42 Identities=33% Similarity=0.820 Sum_probs=33.0
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
..|..|--.++. ..+..-|+|.||.+|+. .....||-|+.++
T Consensus 841 skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 589999766543 56677799999999987 4556899998854
No 89
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=92.01 E-value=0.11 Score=44.69 Aligned_cols=35 Identities=23% Similarity=0.616 Sum_probs=28.2
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEecc
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIET 42 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~~ 42 (374)
....||..|++.+... .-+..||.|+|..+.-+..
T Consensus 68 p~~~~C~~C~~~~~~e---~~~~~CP~C~s~~~~i~~G 102 (115)
T COG0375 68 PAECWCLDCGQEVELE---ELDYRCPKCGSINLRIIGG 102 (115)
T ss_pred ccEEEeccCCCeecch---hheeECCCCCCCceEEecC
Confidence 4578999999999874 4457799999999987754
No 90
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=91.60 E-value=0.19 Score=37.55 Aligned_cols=33 Identities=27% Similarity=0.657 Sum_probs=29.2
Q ss_pred CCcccccCCccccCCCeEEcc-ccCccchhhHHH
Q 017269 185 ESHCAVCKEPFQLNSEAREMP-CKHIYHGECILP 217 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~ 217 (374)
...|.+|-+.|+.++++++.| |+-.||.+|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 467999999999899999999 999999999543
No 91
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.44 E-value=0.079 Score=52.51 Aligned_cols=43 Identities=33% Similarity=0.818 Sum_probs=30.6
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
-.|--|-.. +.-.-+.+||+|+||.+|... ...+.||.|-..|
T Consensus 91 HfCd~Cd~P--I~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFP--IAIYGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCc--ceeeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 346666333 333557889999999999754 3466899997766
No 92
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.71 E-value=0.098 Score=50.58 Aligned_cols=53 Identities=28% Similarity=0.597 Sum_probs=34.5
Q ss_pred ccCCCcccccCCccccCC-CeEEcccc-----CccchhhHHHHHhcC--------CCCCccCccCCC
Q 017269 182 VAKESHCAVCKEPFQLNS-EAREMPCK-----HIYHGECILPWLSMR--------NSCPLCRRELPN 234 (374)
Q Consensus 182 ~~~~~~C~ICle~f~~~~-~~~~lpC~-----H~FH~~CI~~WL~~~--------~sCPvCR~~l~~ 234 (374)
.+.+..|-||...=++.- ..-+-||. |..|..||..|+..+ -+||-|+++...
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 344678999966533221 11234553 889999999999322 269999998633
No 93
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.48 E-value=0.17 Score=50.69 Aligned_cols=52 Identities=27% Similarity=0.618 Sum_probs=36.0
Q ss_pred CCCcccccCCccccCCC-eEEccccCccchhhHHHHHh-cCCCCCccCccCCCC
Q 017269 184 KESHCAVCKEPFQLNSE-AREMPCKHIYHGECILPWLS-MRNSCPLCRRELPNE 235 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~~ 235 (374)
+++.|+.|+|++...++ ..-.||+-..|.-|....-+ .+..||.||.....+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 34669999999987653 44566887777777443222 456899999976544
No 94
>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=89.48 E-value=0.31 Score=49.53 Aligned_cols=30 Identities=27% Similarity=0.773 Sum_probs=23.3
Q ss_pred ccCccchhhHHHHHh-------------cCCCCCccCccCCCC
Q 017269 206 CKHIYHGECILPWLS-------------MRNSCPLCRRELPNE 235 (374)
Q Consensus 206 C~H~FH~~CI~~WL~-------------~~~sCPvCR~~l~~~ 235 (374)
|.-++|.+|+-+|+. .+-.||.||++....
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 777889999999983 233799999986543
No 95
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=89.35 E-value=0.17 Score=49.58 Aligned_cols=45 Identities=29% Similarity=0.769 Sum_probs=37.9
Q ss_pred CcccccCCccccC-CCeEEccccCccchhhHHHHHhcCCCCCccCc
Q 017269 186 SHCAVCKEPFQLN-SEAREMPCKHIYHGECILPWLSMRNSCPLCRR 230 (374)
Q Consensus 186 ~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 230 (374)
..|+||.+.+-.. ..+..++|+|.-|..|+......+-+||+|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 4499999876554 46778999999999999998877799999977
No 96
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=89.25 E-value=0.18 Score=38.68 Aligned_cols=28 Identities=32% Similarity=0.731 Sum_probs=21.8
Q ss_pred eecccCcceeeccCCCCCccCCCCCCC-ceEEec
Q 017269 9 WCYRCNRIIRIQSRTEDAIVCPDCHTG-FIEQIE 41 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~~~~~CP~C~~g-FvEEi~ 41 (374)
=|++|.+.+. ++.-+||.|++. |.||-.
T Consensus 6 AC~~Ck~l~~-----~d~e~CP~Cgs~~~te~W~ 34 (64)
T COG2093 6 ACKNCKRLTP-----EDTEICPVCGSTDLTEEWF 34 (64)
T ss_pred HHhhccccCC-----CCCccCCCCCCcccchhhc
Confidence 3999998774 444689999998 888764
No 97
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.13 E-value=0.11 Score=57.64 Aligned_cols=37 Identities=22% Similarity=0.740 Sum_probs=30.0
Q ss_pred ccCCCcccccCCccccCCCeEEccccCccchhhHHHHH
Q 017269 182 VAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWL 219 (374)
Q Consensus 182 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL 219 (374)
+...+.|.+|...+.. ....+.||+|.||.+||.+-.
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 4456899999887654 467789999999999998764
No 98
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.87 E-value=0.27 Score=45.30 Aligned_cols=49 Identities=27% Similarity=0.821 Sum_probs=33.6
Q ss_pred CcccccCCcccc-----CCCeEEccccCccchhhHHHHHhc----CC-------CCCccCccCCCC
Q 017269 186 SHCAVCKEPFQL-----NSEAREMPCKHIYHGECILPWLSM----RN-------SCPLCRRELPNE 235 (374)
Q Consensus 186 ~~C~ICle~f~~-----~~~~~~lpC~H~FH~~CI~~WL~~----~~-------sCPvCR~~l~~~ 235 (374)
..|.||.- |.. +...-...|+.-||.-|+..||+. ++ .||.|-.++..+
T Consensus 166 ~~cgicya-yqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 166 GACGICYA-YQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hcccceee-eecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 46889954 222 223334559999999999999942 21 599998877544
No 99
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]
Probab=87.63 E-value=0.48 Score=43.89 Aligned_cols=41 Identities=24% Similarity=0.541 Sum_probs=27.6
Q ss_pred CceeecccCcceeeccCCCCCccCCCCCCCceEEec-cCCCCCCCCCchh
Q 017269 6 LSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIE-TIQRPSNERYPAA 54 (374)
Q Consensus 6 ~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~-~~~~~~~~~f~~~ 54 (374)
.-|||..|+-.+.. -.|+-|+++| ||+. .++...+.-||..
T Consensus 13 ~iyWCe~cNlPl~~-------~~c~~cg~~~-~~l~LTpPaD~R~~fp~d 54 (202)
T COG5270 13 PIYWCEKCNLPLLG-------RRCSVCGSKV-EELRLTPPADVRPAFPYD 54 (202)
T ss_pred ceeehhhCCCcccc-------ccccccCCcc-eEEEeCCCCCccccCchH
Confidence 46999999988754 4899999666 4554 4443344455543
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=87.58 E-value=0.41 Score=55.17 Aligned_cols=43 Identities=23% Similarity=0.607 Sum_probs=36.6
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCc
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRR 230 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 230 (374)
..|.||++.+.. .-.+.-|+|.++..|+..|+..+..||.|+.
T Consensus 1154 ~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 589999998763 2345559999999999999999999999974
No 101
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=86.90 E-value=0.26 Score=54.07 Aligned_cols=48 Identities=25% Similarity=0.557 Sum_probs=39.1
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCC--CCCccCccCCCCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRN--SCPLCRRELPNEAN 237 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~--sCPvCR~~l~~~~~ 237 (374)
..|.||++ -+.+...+|+|.||..|+..-+.... .||+||..+..+..
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 78999988 34777888999999999999886433 59999998866643
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.40 E-value=0.35 Score=45.58 Aligned_cols=39 Identities=31% Similarity=0.775 Sum_probs=29.1
Q ss_pred cccccCCccccCCCeEEccccCc-cchhhHHHHHhcCCCCCccCccC
Q 017269 187 HCAVCKEPFQLNSEAREMPCKHI-YHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
.|-+|.+ ....+..+||.|. +|..|=.. -.+||+|+...
T Consensus 160 ~Cr~C~~---~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 160 SCRKCGE---REATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred cceecCc---CCceEEeecccceEeccccccc----CccCCCCcChh
Confidence 3888854 4557999999985 88888543 44699998754
No 103
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=85.97 E-value=0.28 Score=35.78 Aligned_cols=44 Identities=27% Similarity=0.670 Sum_probs=25.5
Q ss_pred cccccCCccccCCCeEEcccc-CccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 187 HCAVCKEPFQLNSEAREMPCK-HIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lpC~-H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
.|.-|+-+.+ . ...|+ |..+..|+...|.....||+|..+||..
T Consensus 4 nCKsCWf~~k---~--Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFANK---G--LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S--S---S--EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcCC---C--eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 4666765432 2 33365 9999999999999999999999999875
No 104
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.72 E-value=0.44 Score=46.25 Aligned_cols=51 Identities=24% Similarity=0.565 Sum_probs=37.6
Q ss_pred CCcccccCCccccCCC-eEEcccc-----CccchhhHHHHHh--cCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSE-AREMPCK-----HIYHGECILPWLS--MRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~-~~~lpC~-----H~FH~~CI~~WL~--~~~sCPvCR~~l~~~ 235 (374)
+..|-||.++...... ..+.||. +..|..|+..|+. ...+|.+|.......
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 4679999997654322 5577754 5679999999996 556899998865443
No 105
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=85.64 E-value=0.66 Score=39.57 Aligned_cols=35 Identities=23% Similarity=0.759 Sum_probs=25.4
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEec
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~ 41 (374)
....||..|...+... ......||.|++.-++-+.
T Consensus 68 p~~~~C~~Cg~~~~~~--~~~~~~CP~Cgs~~~~i~~ 102 (114)
T PRK03681 68 EAECWCETCQQYVTLL--TQRVRRCPQCHGDMLRIVA 102 (114)
T ss_pred CcEEEcccCCCeeecC--CccCCcCcCcCCCCcEEcc
Confidence 4679999999887653 2222569999998776553
No 106
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.63 E-value=0.43 Score=50.96 Aligned_cols=49 Identities=31% Similarity=0.790 Sum_probs=40.7
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCCCCCC
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEANDR 239 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~~~ 239 (374)
....|.||++++ ..+..+|. |..|+..|+..+.+||+|+..+..++...
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~ 526 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLS 526 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccccC
Confidence 357899998886 56677788 99999999999999999999887775443
No 107
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=84.56 E-value=0.74 Score=40.54 Aligned_cols=50 Identities=22% Similarity=0.511 Sum_probs=35.9
Q ss_pred CCcccccCCccccCCCeEEcc---ccCccchhhHHHHH---hcCCCCCccCccCCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMP---CKHIYHGECILPWL---SMRNSCPLCRRELPNEA 236 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lp---C~H~FH~~CI~~WL---~~~~sCPvCR~~l~~~~ 236 (374)
-.+|.||.|.-.+ +...-| |+-..|..|-.... ..+..||+|++......
T Consensus 80 lYeCnIC~etS~e--e~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 80 LYECNICKETSAE--ERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred ceeccCcccccch--hhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 4789999997442 333334 89888888866544 36779999999887653
No 108
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=84.32 E-value=0.76 Score=50.85 Aligned_cols=57 Identities=21% Similarity=0.574 Sum_probs=40.3
Q ss_pred cCCCcccccCCccccCCCeEEcccc-----CccchhhHHHHHh--cCCCCCccCccCCCCCCCCC
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCK-----HIYHGECILPWLS--MRNSCPLCRRELPNEANDRG 240 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~WL~--~~~sCPvCR~~l~~~~~~~~ 240 (374)
+++..|.||..+=..++ ..-=||+ ...|.+|+..|+. ....|-+|+.++.-++-..+
T Consensus 10 ~d~~~CRICr~e~~~d~-pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e 73 (1175)
T COG5183 10 EDKRSCRICRTEDIRDD-PLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKE 73 (1175)
T ss_pred ccchhceeecCCCCCCC-cCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeeccc
Confidence 34578999988744443 3345666 3589999999996 44579999998866654433
No 109
>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=84.02 E-value=0.99 Score=38.53 Aligned_cols=34 Identities=21% Similarity=0.472 Sum_probs=25.9
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEec
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~ 41 (374)
....||..|...+.+. .....||.|++..++-+.
T Consensus 68 p~~~~C~~Cg~~~~~~---~~~~~CP~Cgs~~~~i~~ 101 (115)
T TIGR00100 68 PVECECEDCSEEVSPE---IDLYRCPKCHGIMLQVRA 101 (115)
T ss_pred CcEEEcccCCCEEecC---CcCccCcCCcCCCcEEec
Confidence 4678999999887663 234789999998876553
No 110
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=83.79 E-value=0.95 Score=38.78 Aligned_cols=35 Identities=20% Similarity=0.465 Sum_probs=25.3
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEec
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~ 41 (374)
....||..|.....+. ......||.|++..++-+.
T Consensus 69 p~~~~C~~Cg~~~~~~--~~~~~~CP~Cgs~~~~i~~ 103 (117)
T PRK00564 69 KVELECKDCSHVFKPN--ALDYGVCEKCHSKNVIITQ 103 (117)
T ss_pred CCEEEhhhCCCccccC--CccCCcCcCCCCCceEEec
Confidence 4679999999776553 2233459999999887553
No 111
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=83.37 E-value=1.3 Score=31.44 Aligned_cols=34 Identities=24% Similarity=0.586 Sum_probs=26.7
Q ss_pred CceeecccCcceeeccCCCCCccCCCCCCCceEEe
Q 017269 6 LSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 6 ~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi 40 (374)
..|=|-+|...+.... ....+.||+|++.++-..
T Consensus 2 ~~y~C~~CG~~~~~~~-~~~~~~Cp~CG~~~~~~~ 35 (46)
T PRK00398 2 AEYKCARCGREVELDE-YGTGVRCPYCGYRILFKE 35 (46)
T ss_pred CEEECCCCCCEEEECC-CCCceECCCCCCeEEEcc
Confidence 4689999999988863 233799999999988643
No 112
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=81.61 E-value=0.74 Score=28.42 Aligned_cols=23 Identities=39% Similarity=0.983 Sum_probs=17.7
Q ss_pred eecccCcceeeccCCCCCccCCCCCCCc
Q 017269 9 WCYRCNRIIRIQSRTEDAIVCPDCHTGF 36 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~~~~~CP~C~~gF 36 (374)
+|..|-..|. ++..+||.|+..|
T Consensus 1 ~Cp~CG~~~~-----~~~~fC~~CG~~l 23 (23)
T PF13240_consen 1 YCPNCGAEIE-----DDAKFCPNCGTPL 23 (23)
T ss_pred CCcccCCCCC-----CcCcchhhhCCcC
Confidence 5889998874 3468999999754
No 113
>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=80.84 E-value=0.9 Score=28.95 Aligned_cols=23 Identities=30% Similarity=0.719 Sum_probs=18.7
Q ss_pred ecccCcceeeccCCCCCccCCCCCCCce
Q 017269 10 CYRCNRIIRIQSRTEDAIVCPDCHTGFI 37 (374)
Q Consensus 10 Ch~C~r~V~~~~~~~~~~~CP~C~~gFv 37 (374)
|-.|...|... ...||+|+--|.
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 78899988654 579999998874
No 114
>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=80.35 E-value=1.3 Score=43.77 Aligned_cols=49 Identities=27% Similarity=0.487 Sum_probs=35.5
Q ss_pred cccccCCccccCC--CeEEccccCccchhhHHHHHhcC-CCCCccCccCCCC
Q 017269 187 HCAVCKEPFQLNS--EAREMPCKHIYHGECILPWLSMR-NSCPLCRRELPNE 235 (374)
Q Consensus 187 ~C~ICle~f~~~~--~~~~lpC~H~FH~~CI~~WL~~~-~sCPvCR~~l~~~ 235 (374)
.|++|+.+.-... ...+-+|.|..|..|+...+... ..||.|-..|-..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 4999987643322 23333699999999999988655 4899998776544
No 115
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=80.16 E-value=1.5 Score=38.42 Aligned_cols=36 Identities=17% Similarity=0.405 Sum_probs=24.9
Q ss_pred CCceeecccCcceeecc---------------CC---CCCccCCCCCCCceEEe
Q 017269 5 GLSYWCYRCNRIIRIQS---------------RT---EDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~---------------~~---~~~~~CP~C~~gFvEEi 40 (374)
...|||..|........ .+ .....||.|++.-++-+
T Consensus 68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~ 121 (135)
T PRK03824 68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIV 121 (135)
T ss_pred ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEe
Confidence 46899999997776530 00 23467999999876644
No 116
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=79.17 E-value=1.7 Score=31.05 Aligned_cols=32 Identities=25% Similarity=0.612 Sum_probs=27.2
Q ss_pred ceeecccCcceeeccCCCCCccCCCCCCCceEEe
Q 017269 7 SYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 7 ~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi 40 (374)
.|-|-.|...+.+. ..+.+.||.|+.-.|-..
T Consensus 2 ~Y~C~~Cg~~~~~~--~~~~irC~~CG~rIlyK~ 33 (44)
T smart00659 2 IYICGECGRENEIK--SKDVVRCRECGYRILYKK 33 (44)
T ss_pred EEECCCCCCEeecC--CCCceECCCCCceEEEEe
Confidence 58999999999886 567899999999888654
No 117
>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=78.89 E-value=2 Score=38.91 Aligned_cols=32 Identities=22% Similarity=0.561 Sum_probs=20.3
Q ss_pred CCcccccCCccccCCCeEEcc------------ccCc-cchhhHHHHH
Q 017269 185 ESHCAVCKEPFQLNSEAREMP------------CKHI-YHGECILPWL 219 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lp------------C~H~-FH~~CI~~WL 219 (374)
+..|+||||- ...++.|- |... =|..||+++-
T Consensus 2 d~~CpICme~---PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEH---PHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccC---CCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 5689999884 22333433 4433 3788999874
No 118
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.75 E-value=1.5 Score=44.88 Aligned_cols=45 Identities=20% Similarity=0.378 Sum_probs=38.9
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCC---CCCcc
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRN---SCPLC 228 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~---sCPvC 228 (374)
+-..|||-.+.-...+.+..|.|+|+..++-|.+..+... .||.|
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCC
Confidence 4578999999888888999999999999999999776443 69999
No 119
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=78.43 E-value=1.8 Score=36.81 Aligned_cols=33 Identities=24% Similarity=0.805 Sum_probs=24.5
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEe
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi 40 (374)
...+||..|.....+. .....||.|++.-++-+
T Consensus 68 p~~~~C~~Cg~~~~~~---~~~~~CP~Cgs~~~~i~ 100 (113)
T PRK12380 68 PAQAWCWDCSQVVEIH---QHDAQCPHCHGERLRVD 100 (113)
T ss_pred CcEEEcccCCCEEecC---CcCccCcCCCCCCcEEc
Confidence 4679999999777653 23456999998876654
No 120
>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=78.41 E-value=2.1 Score=28.61 Aligned_cols=28 Identities=29% Similarity=0.845 Sum_probs=21.9
Q ss_pred eeecccCcceeeccCCCCCccCCCCCCCce
Q 017269 8 YWCYRCNRIIRIQSRTEDAIVCPDCHTGFI 37 (374)
Q Consensus 8 YWCh~C~r~V~~~~~~~~~~~CP~C~~gFv 37 (374)
|-|-.|...|.+. ..+.+.||.|+.-.|
T Consensus 1 Y~C~~Cg~~~~~~--~~~~irC~~CG~RIl 28 (32)
T PF03604_consen 1 YICGECGAEVELK--PGDPIRCPECGHRIL 28 (32)
T ss_dssp EBESSSSSSE-BS--TSSTSSBSSSS-SEE
T ss_pred CCCCcCCCeeEcC--CCCcEECCcCCCeEE
Confidence 7799999999976 567899999997655
No 121
>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=78.28 E-value=1.2 Score=37.86 Aligned_cols=34 Identities=24% Similarity=0.434 Sum_probs=22.9
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEec
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~ 41 (374)
....||..|.....+. .....||.|++.-++-+.
T Consensus 68 p~~~~C~~Cg~~~~~~---~~~~~CP~Cgs~~~~i~~ 101 (113)
T PF01155_consen 68 PARARCRDCGHEFEPD---EFDFSCPRCGSPDVEIIS 101 (113)
T ss_dssp --EEEETTTS-EEECH---HCCHH-SSSSSS-EEEEE
T ss_pred CCcEECCCCCCEEecC---CCCCCCcCCcCCCcEEcc
Confidence 3578999999998875 233789999999876553
No 122
>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=77.27 E-value=1.4 Score=27.73 Aligned_cols=23 Identities=30% Similarity=0.781 Sum_probs=17.2
Q ss_pred ecccCcceeeccCCCCCccCCCCC
Q 017269 10 CYRCNRIIRIQSRTEDAIVCPDCH 33 (374)
Q Consensus 10 Ch~C~r~V~~~~~~~~~~~CP~C~ 33 (374)
|.+|.+.|..+- ......||.|+
T Consensus 1 C~sC~~~i~~r~-~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPRE-QAVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCcc-cCceEeCCCCC
Confidence 788988887652 14568999997
No 123
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=76.64 E-value=1.3 Score=48.73 Aligned_cols=27 Identities=26% Similarity=0.736 Sum_probs=23.4
Q ss_pred eEEccccCccchhhHHHHHhcCCCCCc
Q 017269 201 AREMPCKHIYHGECILPWLSMRNSCPL 227 (374)
Q Consensus 201 ~~~lpC~H~FH~~CI~~WL~~~~sCPv 227 (374)
.....|+|..|.+|...|++...+||.
T Consensus 1043 ~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1043 NFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhhccccccccHHHHHHHHhcCCcCCC
Confidence 344569999999999999999999984
No 124
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=75.97 E-value=1.6 Score=40.10 Aligned_cols=34 Identities=21% Similarity=0.560 Sum_probs=26.9
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceE
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIE 38 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvE 38 (374)
...|.|-.|...++.--..+....||.|++-++|
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 5789999999888764223567999999998877
No 125
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=75.96 E-value=1.5 Score=48.60 Aligned_cols=49 Identities=10% Similarity=0.221 Sum_probs=35.9
Q ss_pred CcccccCCccccC-CCeEEcc---ccCccchhhHHHHHh------cCCCCCccCccCCC
Q 017269 186 SHCAVCKEPFQLN-SEAREMP---CKHIYHGECILPWLS------MRNSCPLCRRELPN 234 (374)
Q Consensus 186 ~~C~ICle~f~~~-~~~~~lp---C~H~FH~~CI~~WL~------~~~sCPvCR~~l~~ 234 (374)
..|.||+.++... +..-.+| |.|.||..||..|+. .+-.|++|.+-|..
T Consensus 97 ~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred cccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 6788888777752 3345566 999999999999984 23468888776543
No 126
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=74.99 E-value=1.8 Score=31.74 Aligned_cols=35 Identities=26% Similarity=0.667 Sum_probs=27.6
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEe
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi 40 (374)
...|-|-.|.+.|... .....+.||+|++-.|=..
T Consensus 4 ~~~Y~C~~Cg~~~~~~-~~~~~irCp~Cg~rIl~K~ 38 (49)
T COG1996 4 MMEYKCARCGREVELD-QETRGIRCPYCGSRILVKE 38 (49)
T ss_pred eEEEEhhhcCCeeehh-hccCceeCCCCCcEEEEec
Confidence 5679999999999643 2567799999999877544
No 127
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=74.47 E-value=1.7 Score=45.15 Aligned_cols=35 Identities=29% Similarity=0.585 Sum_probs=29.5
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHhc
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM 221 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~ 221 (374)
++..|+||..-|+ +.++|||+|..|..|...-+.+
T Consensus 3 eelkc~vc~~f~~---epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 3 EELKCPVCGSFYR---EPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred ccccCceehhhcc---CceEeecccHHHHHHHHhhccc
Confidence 4578999988877 7899999999999998876643
No 128
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.19 E-value=1 Score=48.80 Aligned_cols=42 Identities=29% Similarity=0.711 Sum_probs=31.6
Q ss_pred CcccccCCccccCC-CeEEccccCccchhhHHHHHhcCCCCCccCc
Q 017269 186 SHCAVCKEPFQLNS-EAREMPCKHIYHGECILPWLSMRNSCPLCRR 230 (374)
Q Consensus 186 ~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 230 (374)
..|.||+..|-... ..+.|-|+|..|.+|+..- .+.+|| |++
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 56999988876543 4556669999999998774 566888 544
No 129
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.89 E-value=1.8 Score=44.48 Aligned_cols=37 Identities=16% Similarity=0.518 Sum_probs=27.1
Q ss_pred CCcccccC-CccccCCCeEEccccCccchhhHHHHHhc
Q 017269 185 ESHCAVCK-EPFQLNSEAREMPCKHIYHGECILPWLSM 221 (374)
Q Consensus 185 ~~~C~ICl-e~f~~~~~~~~lpC~H~FH~~CI~~WL~~ 221 (374)
...|.||. +..+..+.....-|.|.||.+|+...++.
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 47899999 44443334445559999999999998863
No 130
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=72.93 E-value=1.8 Score=27.22 Aligned_cols=24 Identities=33% Similarity=0.859 Sum_probs=17.7
Q ss_pred eeecccCcceeeccCCCCCccCCCCCCCc
Q 017269 8 YWCYRCNRIIRIQSRTEDAIVCPDCHTGF 36 (374)
Q Consensus 8 YWCh~C~r~V~~~~~~~~~~~CP~C~~gF 36 (374)
..|.+|...|. .++.+||+|+..+
T Consensus 3 ~~Cp~Cg~~~~-----~~~~fC~~CG~~L 26 (26)
T PF13248_consen 3 MFCPNCGAEID-----PDAKFCPNCGAKL 26 (26)
T ss_pred CCCcccCCcCC-----cccccChhhCCCC
Confidence 46999999553 4468999998653
No 131
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=72.43 E-value=2.8 Score=36.26 Aligned_cols=36 Identities=17% Similarity=0.316 Sum_probs=23.5
Q ss_pred CCceeecccCcceeeccCC--CC--CccCCCCCCCceEEec
Q 017269 5 GLSYWCYRCNRIIRIQSRT--ED--AIVCPDCHTGFIEQIE 41 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~--~~--~~~CP~C~~gFvEEi~ 41 (374)
....|| .|.....+.... .- ...||.|++.-++-+.
T Consensus 68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~ 107 (124)
T PRK00762 68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILG 107 (124)
T ss_pred CeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEec
Confidence 467999 999775542100 01 1469999998877553
No 132
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=72.26 E-value=2.8 Score=41.76 Aligned_cols=41 Identities=29% Similarity=0.731 Sum_probs=32.2
Q ss_pred CcccccCCccccCCCeEEccc--cCccchhhHHHHHhcCCCCCccCccCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPC--KHIYHGECILPWLSMRNSCPLCRRELP 233 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC--~H~FH~~CI~~WL~~~~sCPvCR~~l~ 233 (374)
.+|+||.+.+.. -++.| +|+-|..|=. +.++.||.||-++.
T Consensus 49 leCPvC~~~l~~----Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 49 LDCPVCFNPLSP----PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred ccCchhhccCcc----cceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 679999888763 24556 5999999965 46889999999885
No 133
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=70.79 E-value=3.6 Score=45.39 Aligned_cols=40 Identities=20% Similarity=0.461 Sum_probs=29.7
Q ss_pred CcccccCCccccCCCeEEcc-ccCccchhhHHHHHhcCCCCCc
Q 017269 186 SHCAVCKEPFQLNSEAREMP-CKHIYHGECILPWLSMRNSCPL 227 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~WL~~~~sCPv 227 (374)
..|.+|-..+. |. ....+ |+|.-|.+|+.+|+..+.-||.
T Consensus 780 ~~CtVC~~vi~-G~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIR-GV-DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceee-ee-EeecccccccccHHHHHHHHhcCCCCcc
Confidence 47888866543 21 22233 9999999999999999888876
No 134
>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=70.56 E-value=1.2 Score=33.57 Aligned_cols=12 Identities=33% Similarity=0.941 Sum_probs=10.7
Q ss_pred ccCCCCCCCceE
Q 017269 27 IVCPDCHTGFIE 38 (374)
Q Consensus 27 ~~CP~C~~gFvE 38 (374)
-+||+|+|+||.
T Consensus 42 ~~CPNCgGelv~ 53 (57)
T PF06906_consen 42 GVCPNCGGELVR 53 (57)
T ss_pred CcCcCCCCcccc
Confidence 589999999985
No 135
>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=70.53 E-value=4.1 Score=27.63 Aligned_cols=30 Identities=20% Similarity=0.655 Sum_probs=22.6
Q ss_pred CCceeecccCcceeeccC--CCCCccCCCCCC
Q 017269 5 GLSYWCYRCNRIIRIQSR--TEDAIVCPDCHT 34 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~--~~~~~~CP~C~~ 34 (374)
...|-|-.|...+.+... ..+.+.||.|++
T Consensus 3 ~Y~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 3 IYEYRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred CEEEEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 357999999997765432 245689999998
No 136
>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=70.04 E-value=2.2 Score=38.35 Aligned_cols=37 Identities=14% Similarity=0.388 Sum_probs=27.1
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceEEecc
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIET 42 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~~ 42 (374)
...|.|-+|...++..-..+.+..||.|++. +|++++
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 5789999999887764223557999999987 444543
No 137
>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=69.62 E-value=2.7 Score=40.59 Aligned_cols=48 Identities=31% Similarity=0.643 Sum_probs=35.7
Q ss_pred CCcccccCCccccCCCeEE--cc-ccCccchhhHHHHHhcC-CCCC--ccCccC
Q 017269 185 ESHCAVCKEPFQLNSEARE--MP-CKHIYHGECILPWLSMR-NSCP--LCRREL 232 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~--lp-C~H~FH~~CI~~WL~~~-~sCP--vCR~~l 232 (374)
+..|+||..+--..-+++. -| |-|..|..|+...+... ..|| -|-.-|
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 4689999987544444443 45 99999999999999754 5799 785544
No 138
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=67.08 E-value=2.3 Score=45.92 Aligned_cols=43 Identities=26% Similarity=0.725 Sum_probs=28.2
Q ss_pred CCcccccCCc-----cccCCCeEEccccCccchhhHHHHHhcCCCCCccCc
Q 017269 185 ESHCAVCKEP-----FQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRR 230 (374)
Q Consensus 185 ~~~C~ICle~-----f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 230 (374)
...|.+|... |+.....+-..|+++||+.|+.. ....||-|-.
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 4778888432 44333344455999999999544 4455999933
No 139
>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=66.92 E-value=7.2 Score=28.04 Aligned_cols=37 Identities=16% Similarity=0.525 Sum_probs=25.4
Q ss_pred CCceeecccCcceeeccC--CCCCccCCCCCCCceEEec
Q 017269 5 GLSYWCYRCNRIIRIQSR--TEDAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~--~~~~~~CP~C~~gFvEEi~ 41 (374)
...|-|-.|.....++.. .+..+.||.|++.=++.+-
T Consensus 3 ~Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~ 41 (52)
T TIGR02605 3 IYEYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLL 41 (52)
T ss_pred CEEEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEe
Confidence 357999999995555432 2346789999996555553
No 140
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.45 E-value=3.3 Score=41.10 Aligned_cols=30 Identities=20% Similarity=0.679 Sum_probs=23.8
Q ss_pred ccCccchhhHHHHH-------------hcCCCCCccCccCCCC
Q 017269 206 CKHIYHGECILPWL-------------SMRNSCPLCRRELPNE 235 (374)
Q Consensus 206 C~H~FH~~CI~~WL-------------~~~~sCPvCR~~l~~~ 235 (374)
|.-++|.+|+.+|+ +++-+||.||+.....
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 67788999999987 2345899999987654
No 141
>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=65.04 E-value=8.8 Score=26.85 Aligned_cols=36 Identities=19% Similarity=0.641 Sum_probs=24.2
Q ss_pred CCceeecccCcceeeccC--CCCCccCCCCCCCceEEe
Q 017269 5 GLSYWCYRCNRIIRIQSR--TEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~--~~~~~~CP~C~~gFvEEi 40 (374)
...|-|-.|......... ..+.+.||.|++.=++.+
T Consensus 3 ~Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~ 40 (42)
T PF09723_consen 3 IYEYRCEECGHEFEVLQSISEDDPVPCPECGSTEVRRV 40 (42)
T ss_pred CEEEEeCCCCCEEEEEEEcCCCCCCcCCCCCCCceEEe
Confidence 457999999944333222 246799999999655543
No 142
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.82 E-value=3.2 Score=42.62 Aligned_cols=43 Identities=23% Similarity=0.527 Sum_probs=32.5
Q ss_pred CcccccCCccccCCCe--EEccccCccchhhHHHHHhcCCCCCcc
Q 017269 186 SHCAVCKEPFQLNSEA--REMPCKHIYHGECILPWLSMRNSCPLC 228 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~--~~lpC~H~FH~~CI~~WL~~~~sCPvC 228 (374)
..|++|.-.++..... .+..|+|.|+..|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 6788887766554433 344499999999999998888888655
No 143
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=61.36 E-value=3.8 Score=36.23 Aligned_cols=35 Identities=20% Similarity=0.517 Sum_probs=25.6
Q ss_pred CCceeecccCcceeecc-----CCCCCccCCCCCCCceEE
Q 017269 5 GLSYWCYRCNRIIRIQS-----RTEDAIVCPDCHTGFIEQ 39 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~-----~~~~~~~CP~C~~gFvEE 39 (374)
...|.|-.|...+...- ..+....||.|+.-+++.
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 57899999998887621 122338999999887763
No 144
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.22 E-value=7.8 Score=40.37 Aligned_cols=35 Identities=23% Similarity=0.609 Sum_probs=29.2
Q ss_pred CCCcccccCCccccCCCeEEccccCccchhhHHHHHh
Q 017269 184 KESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLS 220 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~ 220 (374)
....|-||.+.+.. ....+.|+|.|+..|+...|+
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred ccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhh
Confidence 35789999888764 567778999999999999884
No 145
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=60.14 E-value=2.2 Score=46.69 Aligned_cols=48 Identities=21% Similarity=0.610 Sum_probs=36.4
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhc---CCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM---RNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~---~~sCPvCR~~l~~~ 235 (374)
..+|+||+..+.. ...+.|.|.|+.-|+..-|.. ...||+|+..+...
T Consensus 21 ~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 21 ILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred hccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 4679999888763 356779999999998876643 34799999766443
No 146
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.72 E-value=4 Score=45.26 Aligned_cols=44 Identities=27% Similarity=0.577 Sum_probs=33.0
Q ss_pred CCcccccCCcccc-C---CCeEEccccCccchhhHHHHHhcCCCCCccC
Q 017269 185 ESHCAVCKEPFQL-N---SEAREMPCKHIYHGECILPWLSMRNSCPLCR 229 (374)
Q Consensus 185 ~~~C~ICle~f~~-~---~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 229 (374)
+..|.-|.+.... + +.++.+-|+|+||+.|+.--..+++ |-.|-
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 4689999876542 2 4678888999999999988776555 66663
No 147
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=58.89 E-value=4.4 Score=39.65 Aligned_cols=47 Identities=23% Similarity=0.587 Sum_probs=33.7
Q ss_pred CcccccCCccc-cCCCeEEcc---ccCccchhhHHHHHhc---------CCCCCccCccC
Q 017269 186 SHCAVCKEPFQ-LNSEAREMP---CKHIYHGECILPWLSM---------RNSCPLCRREL 232 (374)
Q Consensus 186 ~~C~ICle~f~-~~~~~~~lp---C~H~FH~~CI~~WL~~---------~~sCPvCR~~l 232 (374)
.+|-+|.+++. .+......+ |.-.+|..|+..-+.. ...||.|+..+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 58999999994 333333333 8899999999995421 23699998855
No 148
>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=58.76 E-value=10 Score=27.55 Aligned_cols=42 Identities=21% Similarity=0.585 Sum_probs=20.9
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhc---C--CCCCccCc
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM---R--NSCPLCRR 230 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~---~--~sCPvCR~ 230 (374)
..|+|....++. .++...|.|.-+.+ +..||+. . -.||+|.+
T Consensus 3 L~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 468888877653 56667799986543 4556632 2 26999975
No 149
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=58.16 E-value=7.3 Score=36.40 Aligned_cols=39 Identities=33% Similarity=0.947 Sum_probs=27.9
Q ss_pred CCcccccCCc-----cccCCCeEEcc-ccCccchhhHHHHHhcCCCCCccC
Q 017269 185 ESHCAVCKEP-----FQLNSEAREMP-CKHIYHGECILPWLSMRNSCPLCR 229 (374)
Q Consensus 185 ~~~C~ICle~-----f~~~~~~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR 229 (374)
...|-||.++ |+. +.+...+ |+-.||..|.. ...||-|-
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 5789999753 333 2445555 99999999954 26799994
No 150
>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=52.12 E-value=14 Score=23.95 Aligned_cols=38 Identities=26% Similarity=0.640 Sum_probs=24.7
Q ss_pred cccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCC
Q 017269 187 HCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELP 233 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 233 (374)
.|..|.+.+...+.. ...=+..||.+|+ .|..|...|.
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccCC--------CCcccCCcCc
Confidence 378888877654222 2224788998884 5888877653
No 151
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=51.57 E-value=8.4 Score=36.61 Aligned_cols=47 Identities=28% Similarity=0.622 Sum_probs=36.1
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPN 234 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 234 (374)
..|.+|.+-.- ..++.=.|+-.||..|+...+.....||.|-.-++.
T Consensus 182 k~Cn~Ch~LvI--qg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~h 228 (235)
T KOG4718|consen 182 KNCNLCHCLVI--QGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWTH 228 (235)
T ss_pred HHHhHhHHHhh--eeeccCcccchhhhHHHHHHhcccCcCCchhcccCc
Confidence 67999987643 233334488999999999999999999999555543
No 152
>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=51.48 E-value=8.2 Score=25.98 Aligned_cols=30 Identities=17% Similarity=0.484 Sum_probs=21.6
Q ss_pred eeecccCcceeeccC----CCCCccCCCCCCCce
Q 017269 8 YWCYRCNRIIRIQSR----TEDAIVCPDCHTGFI 37 (374)
Q Consensus 8 YWCh~C~r~V~~~~~----~~~~~~CP~C~~gFv 37 (374)
+=|-.|...+.+... ....+.||.|+.-|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 458899998887632 122489999998774
No 153
>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 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=49.35 E-value=12 Score=29.60 Aligned_cols=32 Identities=19% Similarity=0.549 Sum_probs=15.9
Q ss_pred ceeecccCcceeeccCCCCCccCCCCCCCceEEecc
Q 017269 7 SYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIET 42 (374)
Q Consensus 7 ~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~~ 42 (374)
-++||.|-..... ..-.+||.|+..=|..+.-
T Consensus 9 vlrC~aCf~~t~~----~~k~FCp~CGn~TL~rvsv 40 (73)
T PF08772_consen 9 VLRCHACFKITKD----MTKQFCPKCGNATLKRVSV 40 (73)
T ss_dssp EEE-SSS--EES-----SS--S-SSS--S--EEEE-
T ss_pred eEEccccccCcCC----CCceeCcccCCCcceEEEE
Confidence 3689999987764 2357999999999998864
No 155
>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=48.71 E-value=12 Score=27.75 Aligned_cols=42 Identities=26% Similarity=0.635 Sum_probs=20.5
Q ss_pred ccccCCccccCC------CeEEcc-ccCccchhhHHHHHhcCCCCCccC
Q 017269 188 CAVCKEPFQLNS------EAREMP-CKHIYHGECILPWLSMRNSCPLCR 229 (374)
Q Consensus 188 C~ICle~f~~~~------~~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR 229 (374)
|--|+..|.... ....-| |++.|+.+|=.--=+.-..||-|-
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 556776666542 234445 999999999433223444799883
No 156
>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=47.47 E-value=12 Score=31.81 Aligned_cols=32 Identities=34% Similarity=0.766 Sum_probs=23.7
Q ss_pred CCceeecccCc-ceeeccCCCCCccCCCCCCCceEE
Q 017269 5 GLSYWCYRCNR-IIRIQSRTEDAIVCPDCHTGFIEQ 39 (374)
Q Consensus 5 ~~~YWCh~C~r-~V~~~~~~~~~~~CP~C~~gFvEE 39 (374)
+...-|..|.. |+-+ +..-++||+|+.-|.-+
T Consensus 7 GtKR~Cp~CG~kFYDL---nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYDL---NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCcccCCCCcchhccC---CCCCccCCCCCCccCcc
Confidence 34566999975 4544 56778999999988776
No 157
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=47.45 E-value=18 Score=36.53 Aligned_cols=49 Identities=22% Similarity=0.473 Sum_probs=35.1
Q ss_pred CcccccCCccccCC-CeEEccccCccchhhHHHHHhcCCCCCccCccCCC
Q 017269 186 SHCAVCKEPFQLNS-EAREMPCKHIYHGECILPWLSMRNSCPLCRRELPN 234 (374)
Q Consensus 186 ~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 234 (374)
..|+||-+.....+ ...-.||++..|..|+..-...+.+||.||.....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 68999988763332 33334478888888888877888899999954433
No 158
>PRK13794 hypothetical protein; Provisional
Probab=46.90 E-value=14 Score=39.10 Aligned_cols=30 Identities=20% Similarity=0.534 Sum_probs=22.4
Q ss_pred CceeecccCcceeeccCCCCCccCCCCCCCceEEeccC
Q 017269 6 LSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIETI 43 (374)
Q Consensus 6 ~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~~~ 43 (374)
.-|||-.|+-+|.-. .|..|+.. ..++.-.
T Consensus 9 ~~~wc~~cn~p~~~~-------~c~~cg~~-~~~~~~~ 38 (479)
T PRK13794 9 HLKWCDNCNVPVLGK-------KCAICGSE-TREVKVT 38 (479)
T ss_pred EEEEcCCCCCeecCC-------chhHhCCC-eeEEecC
Confidence 469999999988643 69999997 4445443
No 159
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=45.37 E-value=20 Score=36.31 Aligned_cols=47 Identities=19% Similarity=0.490 Sum_probs=31.1
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCcc
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRE 231 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~ 231 (374)
+..|-.|.++.......+--.|++.||.+|=.---+.-..||-|.+.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 35599997766544333333499999999954433444579999753
No 160
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=44.43 E-value=16 Score=26.65 Aligned_cols=35 Identities=23% Similarity=0.584 Sum_probs=25.7
Q ss_pred Cceeec--ccCcceeec-cCCCCCccCCCCCCCceEEe
Q 017269 6 LSYWCY--RCNRIIRIQ-SRTEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 6 ~~YWCh--~C~r~V~~~-~~~~~~~~CP~C~~gFvEEi 40 (374)
..=||- .|...|... ......+.||.|+--|--.-
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C 54 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRC 54 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCC
Confidence 456999 999988875 22455689999998886443
No 161
>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=44.35 E-value=15 Score=25.62 Aligned_cols=34 Identities=21% Similarity=0.448 Sum_probs=21.2
Q ss_pred eeecccCcceeeccCCCCCccCCCCCCCceEEecc
Q 017269 8 YWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIET 42 (374)
Q Consensus 8 YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~~ 42 (374)
|-|-.|.....+.-..+.+++|+.| |--|||...
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~C-G~Vl~e~~i 34 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNC-GLVLEENII 34 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT--BBEE-TTB
T ss_pred CCCcCCcCCceEEcCCCCeEECCCC-CCEeecccc
Confidence 5688888865333235678899999 445555443
No 162
>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=44.35 E-value=46 Score=25.23 Aligned_cols=48 Identities=25% Similarity=0.548 Sum_probs=35.2
Q ss_pred CcccccCCccccCC-CeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 186 SHCAVCKEPFQLNS-EAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 186 ~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
..|-.|-.++..+. ++.+..=...|+.+|...-| +..||.|--+|...
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 45788888887665 55553333579999998865 78999998877654
No 163
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=43.35 E-value=31 Score=29.62 Aligned_cols=45 Identities=22% Similarity=0.525 Sum_probs=32.4
Q ss_pred CcccccCCccccCC----------CeEEcc-ccCccchhhHHHHHhcCCCCCccCc
Q 017269 186 SHCAVCKEPFQLNS----------EAREMP-CKHIYHGECILPWLSMRNSCPLCRR 230 (374)
Q Consensus 186 ~~C~ICle~f~~~~----------~~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR~ 230 (374)
..|--|+..|.... ..-.-+ |++.|+.+|=.-+-+.-..||-|-.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 45999988876421 112244 9999999998887777678999953
No 164
>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=43.31 E-value=14 Score=26.12 Aligned_cols=43 Identities=30% Similarity=0.651 Sum_probs=28.4
Q ss_pred cccccCCccccCCCeEEcc-ccCccchhhHHHHHh------cCCCCCccCc
Q 017269 187 HCAVCKEPFQLNSEAREMP-CKHIYHGECILPWLS------MRNSCPLCRR 230 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~WL~------~~~sCPvCR~ 230 (374)
.|.||..... .+..+.-. |...||..|+..-+. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~-~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDD-DGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCT-TSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCC-CCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3889988433 33343433 999999999987653 1347888853
No 165
>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=42.82 E-value=9.5 Score=30.07 Aligned_cols=29 Identities=28% Similarity=0.733 Sum_probs=17.2
Q ss_pred CceeecccCcceeeccCCCCCccCCCCCCCceEEec
Q 017269 6 LSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 6 ~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~ 41 (374)
..|.|-.|+..+... ..||.|+.. ||.+.
T Consensus 16 ~~~~C~~C~~~~~~~------a~CPdC~~~-Le~Lk 44 (70)
T PF07191_consen 16 GHYHCEACQKDYKKE------AFCPDCGQP-LEVLK 44 (70)
T ss_dssp TEEEETTT--EEEEE------EE-TTT-SB--EEEE
T ss_pred CEEECccccccceec------ccCCCcccH-HHHHH
Confidence 578888888887765 688888865 34443
No 166
>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=42.25 E-value=19 Score=25.84 Aligned_cols=39 Identities=26% Similarity=0.611 Sum_probs=26.4
Q ss_pred ccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 188 CAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 188 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
|..|.+.+...+ .....-+..||..|+ .|-.|...|...
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEcccc--------ccCCCCCccCCC
Confidence 677888776433 332346788998885 688888877554
No 167
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.46 E-value=45 Score=32.67 Aligned_cols=52 Identities=10% Similarity=0.181 Sum_probs=36.3
Q ss_pred CCcccccCCccccCCC-eEEccccCccchhhHHHHHhcCCCCCccCccCCCCCCC
Q 017269 185 ESHCAVCKEPFQLNSE-AREMPCKHIYHGECILPWLSMRNSCPLCRRELPNEAND 238 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~~ 238 (374)
...|+|---+|..... +...+|+|+|-..-+... ...+|++|-+.+..++..
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVI 163 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeE
Confidence 3679988777654433 345569999998776653 356899999887666443
No 168
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=40.72 E-value=22 Score=27.18 Aligned_cols=36 Identities=22% Similarity=0.429 Sum_probs=25.2
Q ss_pred CCCCCCceeecccCcceeeccCCCCCccCCCCCCCce
Q 017269 1 MSSIGLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFI 37 (374)
Q Consensus 1 mss~~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFv 37 (374)
|+......-|-.|.+.|.... ......||.|+.-.|
T Consensus 1 ~~~~~~~~~CtSCg~~i~~~~-~~~~F~CPnCG~~~I 36 (59)
T PRK14890 1 ISEMMEPPKCTSCGIEIAPRE-KAVKFLCPNCGEVII 36 (59)
T ss_pred CcccccCccccCCCCcccCCC-ccCEeeCCCCCCeeE
Confidence 445566778999999887542 145689999986433
No 169
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.41 E-value=19 Score=35.78 Aligned_cols=38 Identities=16% Similarity=0.317 Sum_probs=29.3
Q ss_pred CCcccccCCccccCCCeEEcc--ccCccchhhHHHHHhcCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMP--CKHIYHGECILPWLSMRN 223 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lp--C~H~FH~~CI~~WL~~~~ 223 (374)
-..|.+|.|.++.. ..+..| =.|+||+.|-..-+|++.
T Consensus 268 pLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 268 PLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred ceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHhhc
Confidence 37899999998743 445655 579999999999987543
No 170
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=40.41 E-value=15 Score=25.37 Aligned_cols=26 Identities=19% Similarity=0.577 Sum_probs=20.8
Q ss_pred ecccCcceeeccCCCCCccCCCCCCCceEEe
Q 017269 10 CYRCNRIIRIQSRTEDAIVCPDCHTGFIEQI 40 (374)
Q Consensus 10 Ch~C~r~V~~~~~~~~~~~CP~C~~gFvEEi 40 (374)
|+.|.+.+.+. ...|.+|+.-|-.+=
T Consensus 1 C~~C~~~~~l~-----~f~C~~C~~~FC~~H 26 (39)
T smart00154 1 CHFCRKKVGLT-----GFKCRHCGNLFCGEH 26 (39)
T ss_pred CcccCCccccc-----CeECCccCCcccccc
Confidence 88899987764 378999999997643
No 171
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.88 E-value=18 Score=27.81 Aligned_cols=15 Identities=40% Similarity=0.933 Sum_probs=12.1
Q ss_pred CCCCccCCCCCCCce
Q 017269 23 TEDAIVCPDCHTGFI 37 (374)
Q Consensus 23 ~~~~~~CP~C~~gFv 37 (374)
...+++||+|+.-|.
T Consensus 45 ~~gev~CPYC~t~y~ 59 (62)
T COG4391 45 DEGEVVCPYCSTRYR 59 (62)
T ss_pred CCCcEecCccccEEE
Confidence 467899999997664
No 172
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=39.28 E-value=16 Score=24.90 Aligned_cols=26 Identities=23% Similarity=0.795 Sum_probs=15.4
Q ss_pred CcccccCCccccCCC-------eEEcc-ccCccc
Q 017269 186 SHCAVCKEPFQLNSE-------AREMP-CKHIYH 211 (374)
Q Consensus 186 ~~C~ICle~f~~~~~-------~~~lp-C~H~FH 211 (374)
..|+-|...|+..++ ....+ |+|+|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 358888887765543 22333 666664
No 173
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=39.14 E-value=15 Score=38.29 Aligned_cols=22 Identities=36% Similarity=0.887 Sum_probs=19.0
Q ss_pred cccCcceeeccCCCCCccCCCCCCCceE
Q 017269 11 YRCNRIIRIQSRTEDAIVCPDCHTGFIE 38 (374)
Q Consensus 11 h~C~r~V~~~~~~~~~~~CP~C~~gFvE 38 (374)
|.|.|.|++ |..||.|+.-|--
T Consensus 286 HrC~RIV~v------EYrCPEC~KVFsC 307 (500)
T KOG3993|consen 286 HRCPRIVHV------EYRCPECDKVFSC 307 (500)
T ss_pred ccCCeeEEe------eecCCcccccccC
Confidence 899999987 4899999998853
No 174
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=39.08 E-value=13 Score=28.02 Aligned_cols=18 Identities=33% Similarity=0.693 Sum_probs=14.1
Q ss_pred CCCCCceeecccCcceee
Q 017269 2 SSIGLSYWCYRCNRIIRI 19 (374)
Q Consensus 2 ss~~~~YWCh~C~r~V~~ 19 (374)
+..+.+.|||.|+.+|..
T Consensus 44 ~~~~~~i~C~~C~~~v~~ 61 (63)
T PF02148_consen 44 SLSTGSIWCYACDDYVYD 61 (63)
T ss_dssp ETTTTCEEETTTTEEEES
T ss_pred ECCCCeEEEcCCCcEEeC
Confidence 344678999999999853
No 175
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=38.89 E-value=22 Score=35.89 Aligned_cols=46 Identities=22% Similarity=0.348 Sum_probs=36.4
Q ss_pred cCCCcccccCCccccCCCeEEccccCccchhhHHHHHhc---CCCCCcc
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSM---RNSCPLC 228 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~---~~sCPvC 228 (374)
..-..|+|-.+.-...+.+..|.|+|+.-+.-+...-+. .-.||.|
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 345789999888777788899999999999888875432 2369999
No 176
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=38.82 E-value=15 Score=28.16 Aligned_cols=19 Identities=32% Similarity=0.751 Sum_probs=14.2
Q ss_pred eecccCcceeeccCCCCCccCCCCCC
Q 017269 9 WCYRCNRIIRIQSRTEDAIVCPDCHT 34 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~~~~~CP~C~~ 34 (374)
=|-.|.+.+. +-.||.|++
T Consensus 5 AC~~C~~i~~-------~~~CP~Cgs 23 (61)
T PRK08351 5 ACRHCHYITT-------EDRCPVCGS 23 (61)
T ss_pred hhhhCCcccC-------CCcCCCCcC
Confidence 3888888772 237999998
No 177
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=38.75 E-value=20 Score=39.38 Aligned_cols=47 Identities=21% Similarity=0.503 Sum_probs=26.8
Q ss_pred cCCCcccccCCccccCCCeEEccccCccch--hhHHH-HHh-c---C--CCCCccCccCCCCC
Q 017269 183 AKESHCAVCKEPFQLNSEAREMPCKHIYHG--ECILP-WLS-M---R--NSCPLCRRELPNEA 236 (374)
Q Consensus 183 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~--~CI~~-WL~-~---~--~sCPvCR~~l~~~~ 236 (374)
.-...|+|+..-+ .+||.+..|+ .|.+. |+. . . -.||||....+.+.
T Consensus 304 ~vSL~CPl~~~Rm-------~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~ 359 (636)
T KOG2169|consen 304 RVSLNCPLSKMRM-------SLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEG 359 (636)
T ss_pred eeEecCCccccee-------ecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccc
Confidence 3347899986553 4455544444 45443 432 1 1 16999988765553
No 178
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=38.57 E-value=15 Score=28.51 Aligned_cols=19 Identities=26% Similarity=0.719 Sum_probs=14.6
Q ss_pred ecccCcceeeccCCCCCccCCCCCCC
Q 017269 10 CYRCNRIIRIQSRTEDAIVCPDCHTG 35 (374)
Q Consensus 10 Ch~C~r~V~~~~~~~~~~~CP~C~~g 35 (374)
|-.|.+.+. +-.||.|++.
T Consensus 8 C~~C~~i~~-------~~~Cp~Cgs~ 26 (64)
T PRK06393 8 CKKCKRLTP-------EKTCPVHGDE 26 (64)
T ss_pred HhhCCcccC-------CCcCCCCCCC
Confidence 888888772 2399999984
No 179
>PRK13795 hypothetical protein; Provisional
Probab=37.50 E-value=27 Score=38.30 Aligned_cols=32 Identities=22% Similarity=0.430 Sum_probs=23.7
Q ss_pred CceeecccCcceeeccCCCCCccCCCCCCCceEEeccCCC
Q 017269 6 LSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIEQIETIQR 45 (374)
Q Consensus 6 ~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvEEi~~~~~ 45 (374)
.-|||..|+-+|.- -.|..|+.+. .++.-.+|
T Consensus 11 ~~~wc~~cn~p~~~-------~~c~~c~~~~-~~~~~t~p 42 (636)
T PRK13795 11 HIYWCEKCNVPLLG-------KKCGICGKEG-FKVRLTPP 42 (636)
T ss_pred eEEEcccCCCeecc-------ccccccCCCc-eEeecCCC
Confidence 46999999998864 3799999875 55654333
No 180
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=37.05 E-value=21 Score=23.94 Aligned_cols=28 Identities=25% Similarity=0.489 Sum_probs=20.7
Q ss_pred eeecccCcceeeccCCCCCccCCCCCCCc
Q 017269 8 YWCYRCNRIIRIQSRTEDAIVCPDCHTGF 36 (374)
Q Consensus 8 YWCh~C~r~V~~~~~~~~~~~CP~C~~gF 36 (374)
+=|..|........ .++..+|+.|+.-|
T Consensus 4 ~~C~~C~~~~i~~~-~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 4 KKCSKCGGNGIVNK-EDDYEVCIFCGSSF 31 (33)
T ss_pred eEcCCCCCCeEEEe-cCCeEEcccCCcEe
Confidence 45888988877621 57778999998654
No 181
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=36.60 E-value=25 Score=26.85 Aligned_cols=34 Identities=26% Similarity=0.574 Sum_probs=23.7
Q ss_pred eeecc--cCcceeeccCCCCCccCCCCCCCceEEec
Q 017269 8 YWCYR--CNRIIRIQSRTEDAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 8 YWCh~--C~r~V~~~~~~~~~~~CP~C~~gFvEEi~ 41 (374)
+=|-. |+--+|-.-..++.++||.|++..+++..
T Consensus 19 W~Ct~e~C~gWmR~nFs~~~~p~CPlC~s~M~~~~r 54 (59)
T PF14169_consen 19 WECTSEDCNGWMRDNFSFEEEPVCPLCKSPMVSGTR 54 (59)
T ss_pred EEeCCCCCCcccccccccCCCccCCCcCCcccccee
Confidence 33544 66666654334667999999999998764
No 182
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=36.42 E-value=33 Score=35.98 Aligned_cols=38 Identities=18% Similarity=0.456 Sum_probs=29.9
Q ss_pred CCCCCCceeecccCcceeeccCCCCCccCCCCC--CCceEEeccC
Q 017269 1 MSSIGLSYWCYRCNRIIRIQSRTEDAIVCPDCH--TGFIEQIETI 43 (374)
Q Consensus 1 mss~~~~YWCh~C~r~V~~~~~~~~~~~CP~C~--~gFvEEi~~~ 43 (374)
|.-....|-|..|--...-| .-+||.|+ .-|+||....
T Consensus 1 MaK~~t~f~C~~CG~~s~KW-----~GkCp~Cg~Wns~vE~~~~~ 40 (456)
T COG1066 1 MAKKKTAFVCQECGYVSPKW-----LGKCPACGAWNTLVEEVLAA 40 (456)
T ss_pred CCCcccEEEcccCCCCCccc-----cccCCCCCCccceEEeeccc
Confidence 55555789999998876666 36999999 7899998654
No 183
>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=35.15 E-value=23 Score=25.74 Aligned_cols=29 Identities=34% Similarity=0.909 Sum_probs=16.2
Q ss_pred eeecc--cCcceeeccCCCCC--ccCCCCCCCce
Q 017269 8 YWCYR--CNRIIRIQSRTEDA--IVCPDCHTGFI 37 (374)
Q Consensus 8 YWCh~--C~r~V~~~~~~~~~--~~CP~C~~gFv 37 (374)
-||-. |...+..... ... +.|+.|+.-|-
T Consensus 19 ~~Cp~~~C~~~~~~~~~-~~~~~~~C~~C~~~fC 51 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDG-CNSPIVTCPSCGTEFC 51 (64)
T ss_dssp C--TTSST---ECS-SS-TTS--CCTTSCCSEEC
T ss_pred cCCCCCCCcccEEecCC-CCCCeeECCCCCCcCc
Confidence 49988 9999988642 333 89999987663
No 184
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=34.42 E-value=40 Score=23.01 Aligned_cols=32 Identities=25% Similarity=0.605 Sum_probs=24.6
Q ss_pred eeecccCcceeeccC-CCCCccCCCCCCCceEE
Q 017269 8 YWCYRCNRIIRIQSR-TEDAIVCPDCHTGFIEQ 39 (374)
Q Consensus 8 YWCh~C~r~V~~~~~-~~~~~~CP~C~~gFvEE 39 (374)
.-|-.|.+..++.-. +..+.+|..|++.++..
T Consensus 2 r~C~~Cg~~Yh~~~~pP~~~~~Cd~cg~~L~qR 34 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNPPKVEGVCDNCGGELVQR 34 (36)
T ss_dssp EEETTTTEEEETTTB--SSTTBCTTTTEBEBEE
T ss_pred cCcCCCCCccccccCCCCCCCccCCCCCeeEeC
Confidence 468899999888532 46678999999988764
No 185
>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=34.37 E-value=24 Score=26.63 Aligned_cols=35 Identities=20% Similarity=0.535 Sum_probs=18.4
Q ss_pred CCcccccCCccccCCCeEEcc-ccCccchhhHHHHH
Q 017269 185 ESHCAVCKEPFQLNSEAREMP-CKHIYHGECILPWL 219 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~WL 219 (374)
...|.+|...|..-..-.... |+++|+..|....+
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 378999999997654444444 99999999976554
No 186
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=33.95 E-value=37 Score=34.26 Aligned_cols=51 Identities=24% Similarity=0.625 Sum_probs=35.2
Q ss_pred CCcccccCCccc---------------cCC-CeEEccccCccchhhHHHHHh---------cCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQ---------------LNS-EAREMPCKHIYHGECILPWLS---------MRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~---------------~~~-~~~~lpC~H~FH~~CI~~WL~---------~~~sCPvCR~~l~~~ 235 (374)
+.+|++|+..=. .|- ...--||+|+--..-..-|-+ -+..||.|-+.|..+
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 578999987511 111 123457999999888888974 245799998877554
No 187
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=33.67 E-value=24 Score=23.90 Aligned_cols=25 Identities=24% Similarity=0.785 Sum_probs=10.3
Q ss_pred eecccCcceeeccCC---CCCccCCCCC
Q 017269 9 WCYRCNRIIRIQSRT---EDAIVCPDCH 33 (374)
Q Consensus 9 WCh~C~r~V~~~~~~---~~~~~CP~C~ 33 (374)
||-+|-..+...++. ..-.+||.|+
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 566676666654432 2234677765
No 188
>PHA02776 E7 protein; Provisional
Probab=33.42 E-value=21 Score=30.08 Aligned_cols=26 Identities=31% Similarity=0.735 Sum_probs=19.2
Q ss_pred eecccCcceeeccCCC--------------CCccCCCCCC
Q 017269 9 WCYRCNRIIRIQSRTE--------------DAIVCPDCHT 34 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~--------------~~~~CP~C~~ 34 (374)
-|+.|.+.|++.+..+ -.++||.|-.
T Consensus 60 ~C~~C~~~lRL~V~st~~~IR~lqqLLl~~L~ivCp~Ca~ 99 (101)
T PHA02776 60 CCCGCDNNVRLVVECTEPDIQELHNLLLGSLNIVCPICAP 99 (101)
T ss_pred ECCCCCCeEEEEEEcChhhHHHHHHHhcCCeEEECCCCCC
Confidence 4999999999865332 2578999964
No 189
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=31.97 E-value=17 Score=37.05 Aligned_cols=47 Identities=23% Similarity=0.521 Sum_probs=27.7
Q ss_pred CCCcccccCCccccCCCeEEcc---ccCccc--------hhhHHHHH-----hcCCCCCccCcc
Q 017269 184 KESHCAVCKEPFQLNSEAREMP---CKHIYH--------GECILPWL-----SMRNSCPLCRRE 231 (374)
Q Consensus 184 ~~~~C~ICle~f~~~~~~~~lp---C~H~FH--------~~CI~~WL-----~~~~sCPvCR~~ 231 (374)
.++.|+||-|... |-.-..|. |+-.|. ..|+..-- .+++.||.||..
T Consensus 14 l~ElCPVCGDkVS-GYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 14 LGELCPVCGDKVS-GYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred cccccccccCccc-cceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 3578999988754 33333444 555553 33543321 245679999975
No 190
>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=31.48 E-value=27 Score=36.10 Aligned_cols=29 Identities=21% Similarity=0.689 Sum_probs=21.9
Q ss_pred eecccCcceeeccC-CCCCccCCCCCCCce
Q 017269 9 WCYRCNRIIRIQSR-TEDAIVCPDCHTGFI 37 (374)
Q Consensus 9 WCh~C~r~V~~~~~-~~~~~~CP~C~~gFv 37 (374)
=||.|+.-++.... ..+...||.|+.-..
T Consensus 15 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~ 44 (403)
T TIGR00155 15 LCSQCDMLVALPRIESGQKAACPRCGTTLT 44 (403)
T ss_pred eCCCCCCcccccCCCCCCeeECCCCCCCCc
Confidence 39999998876532 345678999998774
No 191
>PLN02189 cellulose synthase
Probab=31.48 E-value=60 Score=37.64 Aligned_cols=49 Identities=16% Similarity=0.356 Sum_probs=34.1
Q ss_pred CCcccccCCcccc---CCCeEEcc-ccCccchhhHHHHH-hcCCCCCccCccCC
Q 017269 185 ESHCAVCKEPFQL---NSEAREMP-CKHIYHGECILPWL-SMRNSCPLCRRELP 233 (374)
Q Consensus 185 ~~~C~ICle~f~~---~~~~~~lp-C~H~FH~~CI~~WL-~~~~sCPvCR~~l~ 233 (374)
...|.||-|++.. |+.-+... |+--.|..|..-=- +.+++||.|++...
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 3579999998753 33333344 77779999984322 35679999998775
No 192
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.22 E-value=16 Score=38.14 Aligned_cols=37 Identities=22% Similarity=0.553 Sum_probs=27.2
Q ss_pred CcccccCCccccCCC-----eEEccccCccchhhHHHHHhcC
Q 017269 186 SHCAVCKEPFQLNSE-----AREMPCKHIYHGECILPWLSMR 222 (374)
Q Consensus 186 ~~C~ICle~f~~~~~-----~~~lpC~H~FH~~CI~~WL~~~ 222 (374)
..|+.|...++.... ....+|+|.||..|+..|....
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred ccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 459999888776542 2233599999999999987653
No 193
>PRK11823 DNA repair protein RadA; Provisional
Probab=30.87 E-value=38 Score=35.42 Aligned_cols=35 Identities=23% Similarity=0.531 Sum_probs=28.0
Q ss_pred CCCCCCceeecccCcceeeccCCCCCccCCCCC--CCceEEe
Q 017269 1 MSSIGLSYWCYRCNRIIRIQSRTEDAIVCPDCH--TGFIEQI 40 (374)
Q Consensus 1 mss~~~~YWCh~C~r~V~~~~~~~~~~~CP~C~--~gFvEEi 40 (374)
|+.....|-|.+|--.-..| --.||.|+ +-|+||+
T Consensus 1 m~~~~~~y~C~~Cg~~~~~~-----~g~Cp~C~~w~t~~e~~ 37 (446)
T PRK11823 1 MAKKKTAYVCQECGAESPKW-----LGRCPECGAWNTLVEEV 37 (446)
T ss_pred CCCCCCeEECCcCCCCCccc-----CeeCcCCCCccceeeec
Confidence 66557789999999877666 36999999 6788876
No 194
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=30.85 E-value=33 Score=38.33 Aligned_cols=45 Identities=31% Similarity=0.631 Sum_probs=29.0
Q ss_pred CCCcccccCCcccc----C----CC-eEEcc-ccCccchhhHHHHHhcCCCCCccCccC
Q 017269 184 KESHCAVCKEPFQL----N----SE-AREMP-CKHIYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 184 ~~~~C~ICle~f~~----~----~~-~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
.+..|+-|...|.. | +. .=..| |+|.-|.+=|.. ++.||+|...+
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 35678888777642 1 11 12233 999998876644 78999997654
No 195
>PF00527 E7: E7 protein, Early protein; InterPro: IPR000148 This family includes the E7 oncoprotein from various papillomaviruses []. Along with E5 and E6 their activities seem to be especially important for viral oncogenesis. E5 is located at the cell surface and reduces cell gap-gap junction communication. In cervical cancer E5 is expressed in earlier stages of neoplastic transformation of the cervical epithelium during viral infection. The role of E7 is less well understood but it has been shown to impede growth arrest signals in both NIH 3T3 cells and HFKs and that this correlates with elevated cdc25A gene expression. This deregulation of cdc25A is linked to disruption of cell cycle arrest [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2F8B_A 2EWL_A 2B9D_A.
Probab=30.48 E-value=19 Score=29.67 Aligned_cols=24 Identities=33% Similarity=0.877 Sum_probs=13.9
Q ss_pred eecccCcceeeccCCC--------------CCccCCCC
Q 017269 9 WCYRCNRIIRIQSRTE--------------DAIVCPDC 32 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~--------------~~~~CP~C 32 (374)
.|+.|.+.|++.+..+ -.++||.|
T Consensus 54 ~C~~C~~~lrl~V~as~~~Ir~lq~LLl~~L~lvCp~C 91 (92)
T PF00527_consen 54 CCGRCGKRLRLVVVASHEGIRTLQQLLLGDLSLVCPPC 91 (92)
T ss_dssp EBTTT--EEEEEEEC-HHHHHHHHHHHHCT-EE--CCC
T ss_pred ECCCCCCEEEEEEEeChhhHHHHHHHhhcCceEeCCCC
Confidence 5999999999865332 25789888
No 196
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=29.78 E-value=32 Score=24.42 Aligned_cols=31 Identities=29% Similarity=0.749 Sum_probs=20.0
Q ss_pred eecccCcceeeccCCC-CCccCCCCCCCceEEec
Q 017269 9 WCYRCNRIIRIQSRTE-DAIVCPDCHTGFIEQIE 41 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~-~~~~CP~C~~gFvEEi~ 41 (374)
||-.|...+....... ...+||.|+ +++.+.
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg--~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCG--YEEPIE 33 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCC--CeEECC
Confidence 7889988776542111 257899998 455443
No 197
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.12 E-value=20 Score=35.76 Aligned_cols=49 Identities=24% Similarity=0.547 Sum_probs=37.1
Q ss_pred ccCCCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccC
Q 017269 182 VAKESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 182 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
......|-||...+.... +.--|.|.|+..|...|....+.||.|+...
T Consensus 102 ~~~~~~~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred cCCccceeeeeeeEEecc--cccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 334578999977664322 1122999999999999999999999998765
No 198
>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=29.04 E-value=30 Score=25.15 Aligned_cols=8 Identities=38% Similarity=1.144 Sum_probs=3.7
Q ss_pred ccCCCCCC
Q 017269 27 IVCPDCHT 34 (374)
Q Consensus 27 ~~CP~C~~ 34 (374)
..||+|+.
T Consensus 3 f~CP~C~~ 10 (54)
T PF05605_consen 3 FTCPYCGK 10 (54)
T ss_pred cCCCCCCC
Confidence 34444444
No 199
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.00 E-value=11 Score=37.31 Aligned_cols=38 Identities=21% Similarity=0.607 Sum_probs=25.8
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHHhcCC
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRN 223 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~ 223 (374)
.+|.+|.++|+.+.......|.-+||..|+..|++...
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 37888888877655555555555888888888875443
No 200
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=28.79 E-value=44 Score=34.28 Aligned_cols=31 Identities=26% Similarity=0.587 Sum_probs=22.1
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCce
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFI 37 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFv 37 (374)
.--|+|+.|..+..... ...-.||+|++.++
T Consensus 242 g~~~~C~~c~~~~~~~~--~~~~~C~~c~~~~~ 272 (382)
T PRK04338 242 GYVYYCPKCLYREEVEG--LPPEECPVCGGKFG 272 (382)
T ss_pred eeEEECCCCCcEEEecC--CCCCCCCCCCCcce
Confidence 34689999999876542 23458999988655
No 201
>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=28.41 E-value=30 Score=28.92 Aligned_cols=27 Identities=26% Similarity=0.707 Sum_probs=18.7
Q ss_pred eecccCcceeeccCCCCCccCCCCCCCceE
Q 017269 9 WCYRCNRIIRIQSRTEDAIVCPDCHTGFIE 38 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~~~~~CP~C~~gFvE 38 (374)
=|..|...+... .-..-.||.|+ +|++
T Consensus 5 AC~~C~~I~~~~--qf~~~gCpnC~-~~l~ 31 (98)
T cd07973 5 ACLLCSLIKTED--QFERDGCPNCE-GYLD 31 (98)
T ss_pred hhccCCcccccc--cccCCCCCCCc-chhc
Confidence 488998877543 22346899998 6665
No 202
>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 COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=28.19 E-value=35 Score=32.95 Aligned_cols=19 Identities=21% Similarity=0.256 Sum_probs=13.8
Q ss_pred hhhhhcccchhHHHHHHhh
Q 017269 132 MSDFLMGSGFDRVLDQLTQ 150 (374)
Q Consensus 132 ~~d~l~g~~ld~LleqL~q 150 (374)
-++|+.-++-+-||+.|+.
T Consensus 206 gG~Yl~ve~~eGllqyL~~ 224 (296)
T COG5242 206 GGDYLTVEDTEGLLQYLLS 224 (296)
T ss_pred CCeeEeecCchhHHHHHHH
Confidence 3677777777778888754
No 204
>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=27.96 E-value=46 Score=29.24 Aligned_cols=32 Identities=16% Similarity=0.219 Sum_probs=23.6
Q ss_pred CCceeecccCcc-eeeccCCCCCccCCCCCCCceEE
Q 017269 5 GLSYWCYRCNRI-IRIQSRTEDAIVCPDCHTGFIEQ 39 (374)
Q Consensus 5 ~~~YWCh~C~r~-V~~~~~~~~~~~CP~C~~gFvEE 39 (374)
+...-|..|... +-+ +...++||+|+.-|..+
T Consensus 7 GtKr~Cp~cg~kFYDL---nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 7 GTKRICPNTGSKFYDL---NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred CccccCCCcCcccccc---CCCCccCCCcCCccCcc
Confidence 355679999754 444 56789999999887655
No 205
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.47 E-value=44 Score=28.01 Aligned_cols=34 Identities=24% Similarity=0.251 Sum_probs=28.2
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHH
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWL 219 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL 219 (374)
+..|.||-+.+..|+...-++ +-..|.+|+..=.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHH
Confidence 367999999999998776666 8899999987743
No 206
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.13 E-value=13 Score=36.12 Aligned_cols=46 Identities=24% Similarity=0.515 Sum_probs=37.1
Q ss_pred CcccccCCccccC---CCeEEcc--------ccCccchhhHHHHHhcCC-CCCccCcc
Q 017269 186 SHCAVCKEPFQLN---SEAREMP--------CKHIYHGECILPWLSMRN-SCPLCRRE 231 (374)
Q Consensus 186 ~~C~ICle~f~~~---~~~~~lp--------C~H~FH~~CI~~WL~~~~-sCPvCR~~ 231 (374)
..|.||...|... .....+. |+|..+..|+..-+.+.. .||.|+..
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 6799999988732 3456677 999999999999986554 89999874
No 207
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=26.85 E-value=60 Score=26.59 Aligned_cols=39 Identities=33% Similarity=0.779 Sum_probs=30.4
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHHHHhcCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILPWLSMRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 235 (374)
-+.|.-|...+.--+.+ | |..||..+..|..|+++++..
T Consensus 33 rS~C~~C~~~L~~~~lI---P---------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLI---P---------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CCcCcCCCCcCcccccc---h---------HHHHHHhCCCCcccCCCCChH
Confidence 47899998887644322 2 778999999999999998764
No 208
>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=26.50 E-value=43 Score=24.07 Aligned_cols=34 Identities=26% Similarity=0.660 Sum_probs=23.2
Q ss_pred CcccccCCccccCCCeEEcc-ccCccchhhHHHHH
Q 017269 186 SHCAVCKEPFQLNSEAREMP-CKHIYHGECILPWL 219 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~WL 219 (374)
..|.+|...|.......... |+++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 56999988887543322333 89999998876543
No 209
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=26.32 E-value=76 Score=32.13 Aligned_cols=46 Identities=7% Similarity=-0.061 Sum_probs=32.5
Q ss_pred ccCCCcccccCCccccCCCeEEccccC-ccchhhHHHHHhcCCCCCccCccC
Q 017269 182 VAKESHCAVCKEPFQLNSEAREMPCKH-IYHGECILPWLSMRNSCPLCRREL 232 (374)
Q Consensus 182 ~~~~~~C~ICle~f~~~~~~~~lpC~H-~FH~~CI~~WL~~~~sCPvCR~~l 232 (374)
+....+|.+|-+... .....+|+| +|+..|.. +....+||+|.+.+
T Consensus 340 ~~s~~~~~~~~~~~~---st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 340 LMSSLKGTSAGFGLL---STIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred chhhcccccccCcee---eeEeecCCcccChhhhhh--cccCCccccccccc
Confidence 334577999866543 334567998 58888876 67788999997643
No 210
>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=26.12 E-value=35 Score=26.67 Aligned_cols=12 Identities=17% Similarity=0.689 Sum_probs=8.7
Q ss_pred ccchhhHHHHHh
Q 017269 209 IYHGECILPWLS 220 (374)
Q Consensus 209 ~FH~~CI~~WL~ 220 (374)
-||..||.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999984
No 211
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=25.93 E-value=40 Score=21.57 Aligned_cols=29 Identities=28% Similarity=0.541 Sum_probs=9.6
Q ss_pred cccccCCccccCCCeEEccccCccchhhH
Q 017269 187 HCAVCKEPFQLNSEAREMPCKHIYHGECI 215 (374)
Q Consensus 187 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI 215 (374)
.|.+|.+....+..-.-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 58888877654122223448889999885
No 212
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=25.36 E-value=36 Score=28.07 Aligned_cols=32 Identities=16% Similarity=0.440 Sum_probs=21.8
Q ss_pred CCcccccCCccccCCCeEEcc--ccCccchhhHHHH
Q 017269 185 ESHCAVCKEPFQLNSEAREMP--CKHIYHGECILPW 218 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lp--C~H~FH~~CI~~W 218 (374)
...|.||... .|..++-.. |...||..|....
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 4679999876 333222222 8889999998663
No 213
>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=24.99 E-value=43 Score=34.69 Aligned_cols=24 Identities=33% Similarity=0.715 Sum_probs=18.0
Q ss_pred eecccCcceeeccCCCCCccCCCCCCCc
Q 017269 9 WCYRCNRIIRIQSRTEDAIVCPDCHTGF 36 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~~~~~CP~C~~gF 36 (374)
=||.|+..+.. .+...||.|+.-.
T Consensus 217 ~C~~Cd~~~~~----~~~a~CpRC~~~L 240 (403)
T TIGR00155 217 SCSACHTTILP----AQEPVCPRCSTPL 240 (403)
T ss_pred cCCCCCCccCC----CCCcCCcCCCCcc
Confidence 39999996632 3457899999876
No 214
>PLN02436 cellulose synthase A
Probab=24.13 E-value=96 Score=36.18 Aligned_cols=49 Identities=16% Similarity=0.408 Sum_probs=33.9
Q ss_pred CCcccccCCcccc---CCCeEEcc-ccCccchhhHHHHH-hcCCCCCccCccCC
Q 017269 185 ESHCAVCKEPFQL---NSEAREMP-CKHIYHGECILPWL-SMRNSCPLCRRELP 233 (374)
Q Consensus 185 ~~~C~ICle~f~~---~~~~~~lp-C~H~FH~~CI~~WL-~~~~sCPvCR~~l~ 233 (374)
...|.||-|++.. |+.-+... |+--.|..|..-=- +.+++||.|++...
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3579999998643 33333333 77779999984333 35678999998775
No 215
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.86 E-value=40 Score=37.22 Aligned_cols=40 Identities=25% Similarity=0.496 Sum_probs=29.5
Q ss_pred CcccccCCccc-cCCCeEEccccCccchhhHHHHHhcCCCCCcc
Q 017269 186 SHCAVCKEPFQ-LNSEAREMPCKHIYHGECILPWLSMRNSCPLC 228 (374)
Q Consensus 186 ~~C~ICle~f~-~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvC 228 (374)
..|-||...=. +.+-.+++.|+-.||..| |+...+.||+|
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC 695 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVC 695 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCccc
Confidence 57889976422 223455566999999888 77789999999
No 216
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=23.82 E-value=42 Score=21.58 Aligned_cols=15 Identities=20% Similarity=0.674 Sum_probs=8.3
Q ss_pred cCCCCCCCceEEecc
Q 017269 28 VCPDCHTGFIEQIET 42 (374)
Q Consensus 28 ~CP~C~~gFvEEi~~ 42 (374)
.||.|++..+.+-++
T Consensus 1 ~CP~C~s~l~~~~~e 15 (28)
T PF03119_consen 1 TCPVCGSKLVREEGE 15 (28)
T ss_dssp B-TTT--BEEE-CCT
T ss_pred CcCCCCCEeEcCCCC
Confidence 599999999965544
No 217
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=23.58 E-value=53 Score=22.22 Aligned_cols=28 Identities=21% Similarity=0.546 Sum_probs=18.0
Q ss_pred eecccCcceeeccC----CCCCccCCCCCCCc
Q 017269 9 WCYRCNRIIRIQSR----TEDAIVCPDCHTGF 36 (374)
Q Consensus 9 WCh~C~r~V~~~~~----~~~~~~CP~C~~gF 36 (374)
=|.+|.....+... ....+.|+.|+--|
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 37788887776421 12357888888654
No 218
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=23.52 E-value=47 Score=34.62 Aligned_cols=28 Identities=21% Similarity=0.687 Sum_probs=21.1
Q ss_pred eecccCcceeeccC-CCCCccCCCCCCCc
Q 017269 9 WCYRCNRIIRIQSR-TEDAIVCPDCHTGF 36 (374)
Q Consensus 9 WCh~C~r~V~~~~~-~~~~~~CP~C~~gF 36 (374)
=||.|+.-+..... ..+...||.|+...
T Consensus 12 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L 40 (419)
T PRK15103 12 LCPQCDMLVALPRLEHGQKAACPRCGTTL 40 (419)
T ss_pred cCCCCCceeecCCCCCCCeeECCCCCCCC
Confidence 39999999876532 23457899999877
No 219
>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=23.39 E-value=36 Score=23.92 Aligned_cols=12 Identities=42% Similarity=1.190 Sum_probs=10.0
Q ss_pred CccCCCCCCCce
Q 017269 26 AIVCPDCHTGFI 37 (374)
Q Consensus 26 ~~~CP~C~~gFv 37 (374)
.+.||+|+--|+
T Consensus 29 ~~~CpYCg~~yv 40 (40)
T PF10276_consen 29 PVVCPYCGTRYV 40 (40)
T ss_dssp EEEETTTTEEEE
T ss_pred eEECCCCCCEEC
Confidence 489999998775
No 220
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=23.08 E-value=57 Score=25.02 Aligned_cols=15 Identities=33% Similarity=0.882 Sum_probs=9.8
Q ss_pred CCCCCccCccCCCCC
Q 017269 222 RNSCPLCRRELPNEA 236 (374)
Q Consensus 222 ~~sCPvCR~~l~~~~ 236 (374)
+..||+|+.++....
T Consensus 2 k~~CPlCkt~~n~gs 16 (61)
T PF05715_consen 2 KSLCPLCKTTLNVGS 16 (61)
T ss_pred CccCCcccchhhcCC
Confidence 346888888774443
No 221
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.05 E-value=52 Score=35.70 Aligned_cols=34 Identities=24% Similarity=0.673 Sum_probs=23.6
Q ss_pred CCcccccCCccccC-----C-----CeEEccccCccchhhHHHH
Q 017269 185 ESHCAVCKEPFQLN-----S-----EAREMPCKHIYHGECILPW 218 (374)
Q Consensus 185 ~~~C~ICle~f~~~-----~-----~~~~lpC~H~FH~~CI~~W 218 (374)
...|+||.|+|+.- + +.+.+.=+-+||..|+..-
T Consensus 513 ~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 513 QASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 47899999998641 1 2333435889999998663
No 222
>PF14353 CpXC: CpXC protein
Probab=22.96 E-value=49 Score=28.17 Aligned_cols=17 Identities=35% Similarity=0.704 Sum_probs=14.8
Q ss_pred CccCCCCCCCceEEecc
Q 017269 26 AIVCPDCHTGFIEQIET 42 (374)
Q Consensus 26 ~~~CP~C~~gFvEEi~~ 42 (374)
++.||+|+..|--++..
T Consensus 1 ~itCP~C~~~~~~~v~~ 17 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWT 17 (128)
T ss_pred CcCCCCCCCeeEEEEEe
Confidence 37899999999999875
No 223
>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=22.66 E-value=62 Score=21.44 Aligned_cols=25 Identities=24% Similarity=0.638 Sum_probs=19.1
Q ss_pred eecccCcceeeccCCCCCccCCCCCC
Q 017269 9 WCYRCNRIIRIQSRTEDAIVCPDCHT 34 (374)
Q Consensus 9 WCh~C~r~V~~~~~~~~~~~CP~C~~ 34 (374)
+|+.|+..+..- .+...+.|..|+.
T Consensus 3 ~C~~C~t~L~yP-~gA~~vrCs~C~~ 27 (31)
T TIGR01053 3 VCGGCRTLLMYP-RGASSVRCALCQT 27 (31)
T ss_pred CcCCCCcEeecC-CCCCeEECCCCCe
Confidence 799999887763 3566799999973
No 224
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=22.43 E-value=49 Score=29.86 Aligned_cols=16 Identities=25% Similarity=0.528 Sum_probs=13.5
Q ss_pred ccCCCCCCCceEEecc
Q 017269 27 IVCPDCHTGFIEQIET 42 (374)
Q Consensus 27 ~~CP~C~~gFvEEi~~ 42 (374)
++||+|++.+.+-++.
T Consensus 1 m~cp~c~~~~~~~~~s 16 (154)
T PRK00464 1 MRCPFCGHPDTRVIDS 16 (154)
T ss_pred CcCCCCCCCCCEeEec
Confidence 4799999999887765
No 225
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=22.32 E-value=29 Score=21.57 Aligned_cols=13 Identities=31% Similarity=0.769 Sum_probs=10.4
Q ss_pred ccCCCCCCCceEE
Q 017269 27 IVCPDCHTGFIEQ 39 (374)
Q Consensus 27 ~~CP~C~~gFvEE 39 (374)
+.||.|+--|.++
T Consensus 3 ~~C~~CgR~F~~~ 15 (25)
T PF13913_consen 3 VPCPICGRKFNPD 15 (25)
T ss_pred CcCCCCCCEECHH
Confidence 6899999988653
No 226
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=22.31 E-value=1.1e+02 Score=24.81 Aligned_cols=51 Identities=18% Similarity=0.368 Sum_probs=19.2
Q ss_pred CCcccccCCccccCC--CeEE--ccccCccchhhHHHHHh-cCCCCCccCccCCCC
Q 017269 185 ESHCAVCKEPFQLNS--EARE--MPCKHIYHGECILPWLS-MRNSCPLCRRELPNE 235 (374)
Q Consensus 185 ~~~C~ICle~f~~~~--~~~~--lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~~ 235 (374)
...|-||-|++-... ++.+ ..|.--.+..|..-=.+ .++.||-|++.....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence 468999998864432 2222 23777778888765443 677999999876533
No 227
>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=22.02 E-value=40 Score=23.06 Aligned_cols=11 Identities=27% Similarity=0.872 Sum_probs=8.8
Q ss_pred CccCCCCCCCc
Q 017269 26 AIVCPDCHTGF 36 (374)
Q Consensus 26 ~~~CP~C~~gF 36 (374)
++.||.|++.=
T Consensus 5 ~v~CP~C~s~~ 15 (36)
T PF03811_consen 5 DVHCPRCQSTE 15 (36)
T ss_pred eeeCCCCCCCC
Confidence 58999999753
No 228
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=21.86 E-value=35 Score=23.50 Aligned_cols=29 Identities=24% Similarity=0.613 Sum_probs=16.6
Q ss_pred ecccCcceeeccCCC-CCccCCCCCCCceE
Q 017269 10 CYRCNRIIRIQSRTE-DAIVCPDCHTGFIE 38 (374)
Q Consensus 10 Ch~C~r~V~~~~~~~-~~~~CP~C~~gFvE 38 (374)
|-.|+.......... .--.||.|+|-|+.
T Consensus 2 CP~C~~~l~~~~~~~~~id~C~~C~G~W~d 31 (41)
T PF13453_consen 2 CPRCGTELEPVRLGDVEIDVCPSCGGIWFD 31 (41)
T ss_pred cCCCCcccceEEECCEEEEECCCCCeEEcc
Confidence 666766544332111 12369999988875
No 229
>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=21.67 E-value=16 Score=35.71 Aligned_cols=45 Identities=27% Similarity=0.514 Sum_probs=19.6
Q ss_pred CcccccCCccccCCCeEEc---cccCccchhhHHHHHhcCCCCCccCcc
Q 017269 186 SHCAVCKEPFQLNSEAREM---PCKHIYHGECILPWLSMRNSCPLCRRE 231 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~l---pC~H~FH~~CI~~WL~~~~sCPvCR~~ 231 (374)
..|+||=..-... .++.- -=.|.+|.-|-..|--.+..||.|-..
T Consensus 173 g~CPvCGs~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 173 GYCPVCGSPPVLS-VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp SS-TTT---EEEE-EEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CcCCCCCCcCceE-EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 6899996542110 00000 015667778888898788899999554
No 230
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=21.58 E-value=95 Score=21.97 Aligned_cols=34 Identities=24% Similarity=0.408 Sum_probs=22.7
Q ss_pred CCCcccccCCcc--ccCCCeEEccccCccchhhHHH
Q 017269 184 KESHCAVCKEPF--QLNSEAREMPCKHIYHGECILP 217 (374)
Q Consensus 184 ~~~~C~ICle~f--~~~~~~~~lpC~H~FH~~CI~~ 217 (374)
....|.+|.+.+ ...+..+-.-|+-..|..|+..
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 446899999987 3334444455999999999754
No 231
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.56 E-value=48 Score=32.44 Aligned_cols=31 Identities=19% Similarity=0.491 Sum_probs=26.9
Q ss_pred CcccccCCccccCCCeEEccccCccchhhHHHHH
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYHGECILPWL 219 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~WL 219 (374)
+.|+.||..+. ..++.|=+|+|+..||...+
T Consensus 44 dcCsLtLqPc~---dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 44 DCCSLTLQPCR---DPVITPDGYLFDREAILEYI 74 (303)
T ss_pred ceeeeeccccc---CCccCCCCeeeeHHHHHHHH
Confidence 67999988765 67788899999999999986
No 232
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=21.52 E-value=43 Score=35.24 Aligned_cols=23 Identities=17% Similarity=0.485 Sum_probs=19.5
Q ss_pred CcceeeccCCCCCccCCCCCCCc
Q 017269 14 NRIIRIQSRTEDAIVCPDCHTGF 36 (374)
Q Consensus 14 ~r~V~~~~~~~~~~~CP~C~~gF 36 (374)
.|.|.+|.+..+..+||.|...|
T Consensus 168 EqsvVpW~DDs~V~~CP~Ca~~F 190 (505)
T KOG1842|consen 168 EQSVVPWLDDSSVQFCPECANSF 190 (505)
T ss_pred HhccccccCCCcccccccccchh
Confidence 36788888778889999999988
No 233
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.39 E-value=29 Score=30.91 Aligned_cols=51 Identities=20% Similarity=0.477 Sum_probs=29.5
Q ss_pred ccCCCcccccCCc-cccCCCeEEccccCccchhhHHHHHhc-CC---CCCccCccC
Q 017269 182 VAKESHCAVCKEP-FQLNSEAREMPCKHIYHGECILPWLSM-RN---SCPLCRREL 232 (374)
Q Consensus 182 ~~~~~~C~ICle~-f~~~~~~~~lpC~H~FH~~CI~~WL~~-~~---sCPvCR~~l 232 (374)
+..+..|-||+.. |..|-.....-|.-.||..|--.--.+ ++ .|-+|+...
T Consensus 62 v~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred cCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 4457899999875 333333333336666666665443322 33 688897653
No 234
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=21.21 E-value=47 Score=26.17 Aligned_cols=33 Identities=18% Similarity=0.417 Sum_probs=20.6
Q ss_pred CCcccccCCccccCCCeEEccccCccchhhHHH
Q 017269 185 ESHCAVCKEPFQLNSEAREMPCKHIYHGECILP 217 (374)
Q Consensus 185 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~ 217 (374)
...|.+|....-..-....-.|...||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 367999976522111222223999999999765
No 235
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=21.04 E-value=59 Score=31.14 Aligned_cols=26 Identities=23% Similarity=0.690 Sum_probs=19.8
Q ss_pred CcccccCCccccCCCeEEccccCccc
Q 017269 186 SHCAVCKEPFQLNSEAREMPCKHIYH 211 (374)
Q Consensus 186 ~~C~ICle~f~~~~~~~~lpC~H~FH 211 (374)
..|+||...+...+..-..+.+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCc
Confidence 46999999997666656666778883
No 236
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=20.91 E-value=44 Score=37.05 Aligned_cols=48 Identities=23% Similarity=0.515 Sum_probs=31.3
Q ss_pred CcccccCCccccCC----CeEEcc---ccCccchhhHHHH--H--------hcCCCCCccCccCC
Q 017269 186 SHCAVCKEPFQLNS----EAREMP---CKHIYHGECILPW--L--------SMRNSCPLCRRELP 233 (374)
Q Consensus 186 ~~C~ICle~f~~~~----~~~~lp---C~H~FH~~CI~~W--L--------~~~~sCPvCR~~l~ 233 (374)
..|-||.|+=...+ .++... |+..||..|...- | ..-+.|-.|++-+.
T Consensus 118 KtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 118 KTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFS 182 (900)
T ss_pred ceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHH
Confidence 57999988733222 222333 8899999998754 1 23457999987653
No 237
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=20.85 E-value=72 Score=23.66 Aligned_cols=18 Identities=28% Similarity=0.482 Sum_probs=14.2
Q ss_pred ccCCCCCCCceEEeccCC
Q 017269 27 IVCPDCHTGFIEQIETIQ 44 (374)
Q Consensus 27 ~~CP~C~~gFvEEi~~~~ 44 (374)
+.||+|+..|-=.++...
T Consensus 1 i~CPyCge~~~~~iD~s~ 18 (52)
T PF14255_consen 1 IQCPYCGEPIEILIDPSA 18 (52)
T ss_pred CCCCCCCCeeEEEEecCC
Confidence 479999999888777643
No 238
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=20.84 E-value=46 Score=24.31 Aligned_cols=14 Identities=36% Similarity=1.046 Sum_probs=10.6
Q ss_pred ccCCCCCCCceEEe
Q 017269 27 IVCPDCHTGFIEQI 40 (374)
Q Consensus 27 ~~CP~C~~gFvEEi 40 (374)
.+||.|+++|+..-
T Consensus 21 ~fCP~Cg~~~m~~~ 34 (50)
T PRK00432 21 KFCPRCGSGFMAEH 34 (50)
T ss_pred CcCcCCCcchhecc
Confidence 49999998866543
No 239
>PRK12495 hypothetical protein; Provisional
Probab=20.45 E-value=53 Score=31.47 Aligned_cols=31 Identities=23% Similarity=0.475 Sum_probs=24.1
Q ss_pred CCceeecccCcceeeccCCCCCccCCCCCCCceE
Q 017269 5 GLSYWCYRCNRIIRIQSRTEDAIVCPDCHTGFIE 38 (374)
Q Consensus 5 ~~~YWCh~C~r~V~~~~~~~~~~~CP~C~~gFvE 38 (374)
...++|-.|.-.|-.. ...++||.|+.-+-+
T Consensus 40 msa~hC~~CG~PIpa~---pG~~~Cp~CQ~~~~~ 70 (226)
T PRK12495 40 MTNAHCDECGDPIFRH---DGQEFCPTCQQPVTE 70 (226)
T ss_pred cchhhcccccCcccCC---CCeeECCCCCCcccc
Confidence 3568999999999732 566899999976554
Done!