Query 018299
Match_columns 358
No_of_seqs 339 out of 1907
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 07:49:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018299.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018299hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14369 zf-RING_3: zinc-finge 99.6 5E-16 1.1E-20 103.4 3.0 35 30-64 1-35 (35)
2 KOG4628 Predicted E3 ubiquitin 99.5 3.2E-15 6.9E-20 145.9 5.3 80 217-296 202-283 (348)
3 PF13639 zf-RING_2: Ring finge 99.5 2.8E-14 6E-19 99.7 2.3 44 244-287 1-44 (44)
4 PHA02929 N1R/p28-like protein; 99.2 1.5E-11 3.3E-16 115.3 5.6 70 222-291 150-227 (238)
5 PF12678 zf-rbx1: RING-H2 zinc 99.2 1E-11 2.2E-16 96.3 2.6 45 243-287 19-73 (73)
6 COG5540 RING-finger-containing 99.2 8.6E-12 1.9E-16 118.4 2.3 50 243-292 323-373 (374)
7 COG5243 HRD1 HRD ubiquitin lig 99.0 1E-10 2.2E-15 113.8 3.5 52 241-292 285-346 (491)
8 KOG0823 Predicted E3 ubiquitin 98.9 5E-10 1.1E-14 103.3 3.6 57 242-301 46-105 (230)
9 PLN03208 E3 ubiquitin-protein 98.9 7.4E-10 1.6E-14 100.4 3.6 52 241-295 16-83 (193)
10 PF13920 zf-C3HC4_3: Zinc fing 98.9 1.3E-09 2.8E-14 78.1 3.1 46 243-291 2-48 (50)
11 KOG0317 Predicted E3 ubiquitin 98.9 1.2E-09 2.7E-14 103.5 3.8 50 242-294 238-287 (293)
12 cd00162 RING RING-finger (Real 98.8 3E-09 6.6E-14 72.6 3.2 44 245-290 1-45 (45)
13 PF13923 zf-C3HC4_2: Zinc fing 98.8 2.7E-09 5.8E-14 72.6 2.7 39 246-286 1-39 (39)
14 PF15227 zf-C3HC4_4: zinc fing 98.8 5.6E-09 1.2E-13 72.4 2.9 38 246-286 1-42 (42)
15 PF12861 zf-Apc11: Anaphase-pr 98.7 6.8E-09 1.5E-13 82.2 2.3 54 240-293 18-84 (85)
16 KOG0320 Predicted E3 ubiquitin 98.7 7.2E-09 1.6E-13 92.1 2.3 50 243-293 131-180 (187)
17 KOG0802 E3 ubiquitin ligase [P 98.7 8.3E-09 1.8E-13 108.0 2.6 52 242-293 290-343 (543)
18 smart00504 Ubox Modified RING 98.7 2.2E-08 4.8E-13 74.4 3.7 46 244-292 2-47 (63)
19 PF00097 zf-C3HC4: Zinc finger 98.6 3.3E-08 7.3E-13 67.5 2.7 38 246-286 1-41 (41)
20 smart00184 RING Ring finger. E 98.6 3.9E-08 8.4E-13 64.7 2.8 38 246-286 1-39 (39)
21 PF14634 zf-RING_5: zinc-RING 98.6 3.8E-08 8.3E-13 68.7 2.5 44 245-288 1-44 (44)
22 PHA02926 zinc finger-like prot 98.5 4.1E-08 8.9E-13 90.3 2.9 51 242-292 169-231 (242)
23 TIGR00599 rad18 DNA repair pro 98.5 5.4E-08 1.2E-12 97.6 2.9 51 240-293 23-73 (397)
24 COG5194 APC11 Component of SCF 98.3 3.6E-07 7.9E-12 71.0 2.8 50 244-293 21-83 (88)
25 KOG2164 Predicted E3 ubiquitin 98.2 4.2E-07 9E-12 92.4 2.2 53 243-298 186-243 (513)
26 COG5574 PEX10 RING-finger-cont 98.2 5.9E-07 1.3E-11 84.6 1.7 50 242-294 214-265 (271)
27 KOG1493 Anaphase-promoting com 98.2 3.3E-07 7.1E-12 70.7 -0.3 51 242-292 19-82 (84)
28 PF13445 zf-RING_UBOX: RING-ty 98.2 1.4E-06 3E-11 60.8 2.6 34 246-280 1-35 (43)
29 KOG0287 Postreplication repair 98.1 5.7E-07 1.2E-11 87.1 0.5 47 243-292 23-69 (442)
30 smart00744 RINGv The RING-vari 98.1 1.9E-06 4E-11 61.8 2.5 42 245-287 1-49 (49)
31 COG5432 RAD18 RING-finger-cont 98.1 1.3E-06 2.8E-11 83.1 1.8 47 243-292 25-71 (391)
32 PF04564 U-box: U-box domain; 98.1 1.9E-06 4.1E-11 66.7 2.3 48 243-293 4-52 (73)
33 KOG1734 Predicted RING-contain 98.0 1.2E-06 2.6E-11 82.6 0.2 52 242-293 223-283 (328)
34 KOG0828 Predicted E3 ubiquitin 98.0 2.2E-06 4.7E-11 86.6 1.1 50 243-292 571-635 (636)
35 PF11793 FANCL_C: FANCL C-term 98.0 1.2E-06 2.7E-11 67.3 -0.5 51 243-293 2-68 (70)
36 COG5219 Uncharacterized conser 97.9 2.6E-06 5.7E-11 91.3 0.4 52 240-291 1466-1523(1525)
37 KOG0804 Cytoplasmic Zn-finger 97.9 4.9E-06 1.1E-10 83.4 2.1 49 241-291 173-222 (493)
38 KOG2177 Predicted E3 ubiquitin 97.9 4.1E-06 8.8E-11 78.0 1.2 44 241-287 11-54 (386)
39 TIGR00570 cdk7 CDK-activating 97.9 1E-05 2.2E-10 78.6 3.3 52 243-294 3-57 (309)
40 KOG2930 SCF ubiquitin ligase, 97.8 1.1E-05 2.4E-10 65.8 2.0 50 243-292 46-109 (114)
41 KOG0311 Predicted E3 ubiquitin 97.8 2.5E-06 5.4E-11 83.3 -2.1 59 234-295 34-94 (381)
42 KOG0824 Predicted E3 ubiquitin 97.5 3.1E-05 6.6E-10 74.4 1.3 48 243-293 7-55 (324)
43 PF14835 zf-RING_6: zf-RING of 97.5 1.9E-05 4.2E-10 59.3 -0.8 46 242-292 6-52 (65)
44 KOG4265 Predicted E3 ubiquitin 97.5 7.6E-05 1.6E-09 73.3 3.0 50 243-295 290-340 (349)
45 KOG0825 PHD Zn-finger protein 97.4 3.2E-05 6.9E-10 81.9 -0.4 50 243-292 123-172 (1134)
46 KOG4445 Uncharacterized conser 97.4 4.2E-05 9.2E-10 73.3 0.2 55 242-296 114-191 (368)
47 KOG0827 Predicted E3 ubiquitin 97.4 6.9E-05 1.5E-09 74.1 1.6 48 244-291 5-56 (465)
48 KOG1785 Tyrosine kinase negati 97.2 0.00021 4.5E-09 71.0 2.2 50 244-296 370-421 (563)
49 KOG1039 Predicted E3 ubiquitin 97.0 0.00027 5.8E-09 70.0 1.4 52 242-293 160-223 (344)
50 KOG4159 Predicted E3 ubiquitin 97.0 0.00037 8.1E-09 70.3 2.2 49 241-292 82-130 (398)
51 KOG0978 E3 ubiquitin ligase in 96.9 0.00024 5.2E-09 75.6 0.1 47 243-292 643-690 (698)
52 PF11789 zf-Nse: Zinc-finger o 96.9 0.00074 1.6E-08 49.9 2.7 41 243-285 11-53 (57)
53 KOG4172 Predicted E3 ubiquitin 96.8 0.00023 5E-09 51.7 -0.5 46 243-291 7-54 (62)
54 KOG1645 RING-finger-containing 96.8 0.00078 1.7E-08 67.2 2.9 48 243-290 4-55 (463)
55 KOG2660 Locus-specific chromos 96.8 0.0003 6.5E-09 68.4 -0.3 50 241-293 13-63 (331)
56 KOG0297 TNF receptor-associate 96.8 0.00064 1.4E-08 68.7 1.9 53 240-295 18-71 (391)
57 KOG2879 Predicted E3 ubiquitin 96.3 0.0033 7.1E-08 60.0 3.7 49 241-292 237-288 (298)
58 KOG0801 Predicted E3 ubiquitin 96.3 0.0013 2.9E-08 58.0 0.8 40 231-270 164-204 (205)
59 COG5152 Uncharacterized conser 96.2 0.0015 3.3E-08 59.5 0.3 46 243-291 196-241 (259)
60 KOG1941 Acetylcholine receptor 96.0 0.002 4.3E-08 64.0 0.3 48 243-290 365-415 (518)
61 KOG4692 Predicted E3 ubiquitin 95.9 0.0055 1.2E-07 60.3 2.9 48 242-292 421-468 (489)
62 KOG1002 Nucleotide excision re 95.9 0.0053 1.1E-07 63.2 2.8 82 203-294 503-589 (791)
63 PF12906 RINGv: RING-variant d 95.9 0.0058 1.3E-07 43.3 2.3 40 246-286 1-47 (47)
64 KOG0826 Predicted E3 ubiquitin 95.7 0.007 1.5E-07 59.0 2.8 46 242-290 299-345 (357)
65 KOG1428 Inhibitor of type V ad 95.7 0.0061 1.3E-07 68.7 2.6 51 242-292 3485-3545(3738)
66 KOG1814 Predicted E3 ubiquitin 95.5 0.0084 1.8E-07 60.1 2.4 47 243-289 184-238 (445)
67 KOG3970 Predicted E3 ubiquitin 95.4 0.0099 2.1E-07 55.3 2.4 51 242-293 49-107 (299)
68 KOG1571 Predicted E3 ubiquitin 95.2 0.012 2.5E-07 58.2 2.5 44 242-291 304-347 (355)
69 KOG1952 Transcription factor N 95.1 0.012 2.7E-07 63.5 2.4 49 242-290 190-246 (950)
70 KOG1813 Predicted E3 ubiquitin 95.0 0.0081 1.7E-07 57.9 0.7 46 244-292 242-287 (313)
71 PF05883 Baculo_RING: Baculovi 95.0 0.0083 1.8E-07 51.7 0.7 39 243-281 26-70 (134)
72 PF04641 Rtf2: Rtf2 RING-finge 94.9 0.043 9.3E-07 52.5 5.5 93 204-297 59-167 (260)
73 PF14570 zf-RING_4: RING/Ubox 94.9 0.013 2.9E-07 41.7 1.4 44 246-290 1-47 (48)
74 KOG3039 Uncharacterized conser 94.9 0.03 6.5E-07 52.8 4.0 54 243-296 221-275 (303)
75 PF10367 Vps39_2: Vacuolar sor 94.9 0.014 3.1E-07 47.4 1.6 33 241-274 76-108 (109)
76 KOG3268 Predicted E3 ubiquitin 94.7 0.015 3.3E-07 52.2 1.7 52 243-294 165-231 (234)
77 PHA02862 5L protein; Provision 94.5 0.024 5.2E-07 49.4 2.2 47 243-293 2-55 (156)
78 KOG4275 Predicted E3 ubiquitin 94.3 0.01 2.3E-07 57.0 -0.4 42 243-291 300-342 (350)
79 PHA02825 LAP/PHD finger-like p 93.9 0.044 9.5E-07 48.6 2.7 49 241-293 6-61 (162)
80 KOG0827 Predicted E3 ubiquitin 93.9 0.0048 1E-07 61.3 -3.7 51 243-293 196-247 (465)
81 PF08746 zf-RING-like: RING-li 93.8 0.023 4.9E-07 39.6 0.6 41 246-286 1-43 (43)
82 COG5222 Uncharacterized conser 93.2 0.054 1.2E-06 52.4 2.2 43 243-288 274-318 (427)
83 PF14447 Prok-RING_4: Prokaryo 93.1 0.061 1.3E-06 39.4 1.8 46 243-293 7-52 (55)
84 KOG4739 Uncharacterized protei 92.4 0.043 9.2E-07 51.6 0.4 45 245-293 5-50 (233)
85 PHA03096 p28-like protein; Pro 92.0 0.065 1.4E-06 52.0 1.2 36 244-279 179-219 (284)
86 KOG4185 Predicted E3 ubiquitin 92.0 0.1 2.2E-06 50.4 2.4 48 243-290 3-54 (296)
87 COG5236 Uncharacterized conser 91.5 0.14 3.1E-06 50.5 2.8 47 242-291 60-108 (493)
88 PF07800 DUF1644: Protein of u 90.8 0.22 4.7E-06 44.2 3.0 34 242-278 1-47 (162)
89 PF03854 zf-P11: P-11 zinc fin 90.5 0.1 2.2E-06 37.0 0.6 44 245-293 4-48 (50)
90 KOG2114 Vacuolar assembly/sort 90.4 0.11 2.5E-06 56.4 1.1 43 243-290 840-882 (933)
91 KOG2817 Predicted E3 ubiquitin 90.4 0.25 5.4E-06 49.6 3.4 49 241-289 332-383 (394)
92 KOG1940 Zn-finger protein [Gen 90.1 0.14 3.1E-06 49.3 1.4 46 243-288 158-204 (276)
93 KOG2932 E3 ubiquitin ligase in 89.8 0.13 2.8E-06 50.1 0.9 42 245-290 92-133 (389)
94 KOG0298 DEAD box-containing he 89.4 0.15 3.3E-06 57.7 1.2 44 243-288 1153-1196(1394)
95 PRK00398 rpoP DNA-directed RNA 89.4 0.41 9E-06 33.4 3.0 34 30-64 2-35 (46)
96 PF10272 Tmpp129: Putative tra 89.3 0.6 1.3E-05 46.8 5.1 30 264-293 311-353 (358)
97 COG0375 HybF Zn finger protein 89.3 0.26 5.7E-06 41.5 2.2 36 28-66 67-102 (115)
98 KOG1001 Helicase-like transcri 89.1 0.15 3.2E-06 55.2 0.7 49 244-296 455-505 (674)
99 PF14446 Prok-RING_1: Prokaryo 88.1 0.42 9.1E-06 34.9 2.3 33 243-275 5-38 (54)
100 KOG3899 Uncharacterized conser 87.0 0.88 1.9E-05 44.1 4.5 100 189-295 251-369 (381)
101 PF03604 DNA_RNApol_7kD: DNA d 86.4 0.72 1.6E-05 30.1 2.5 29 32-62 1-29 (32)
102 TIGR00100 hypA hydrogenase nic 86.2 0.63 1.4E-05 39.1 2.7 34 28-64 67-100 (115)
103 PF05290 Baculo_IE-1: Baculovi 86.0 0.48 1E-05 40.9 1.9 49 243-294 80-135 (140)
104 PRK03824 hypA hydrogenase nick 84.9 0.73 1.6E-05 39.9 2.6 35 28-62 67-119 (135)
105 PRK03681 hypA hydrogenase nick 84.8 0.82 1.8E-05 38.4 2.8 35 28-64 67-101 (114)
106 PRK12380 hydrogenase nickel in 84.6 0.86 1.9E-05 38.2 2.8 34 28-64 67-100 (113)
107 PRK06266 transcription initiat 83.5 0.6 1.3E-05 42.3 1.5 35 28-62 114-148 (178)
108 COG5183 SSM4 Protein involved 83.3 0.67 1.5E-05 50.4 2.0 55 242-297 11-72 (1175)
109 KOG2034 Vacuolar sorting prote 83.3 0.51 1.1E-05 51.8 1.1 38 239-277 813-850 (911)
110 COG5175 MOT2 Transcriptional r 83.2 0.7 1.5E-05 45.7 1.9 53 242-294 13-67 (480)
111 PF10571 UPF0547: Uncharacteri 83.1 0.67 1.5E-05 28.8 1.2 23 34-61 3-25 (26)
112 PF01155 HypA: Hydrogenase exp 82.7 0.69 1.5E-05 38.7 1.5 34 28-64 67-100 (113)
113 KOG3800 Predicted E3 ubiquitin 82.4 0.96 2.1E-05 43.8 2.5 48 245-292 2-52 (300)
114 KOG4362 Transcriptional regula 82.3 0.32 6.9E-06 52.2 -0.9 47 243-292 21-70 (684)
115 KOG3002 Zn finger protein [Gen 81.8 0.99 2.1E-05 44.2 2.4 44 243-291 48-91 (299)
116 smart00659 RPOLCX RNA polymera 81.7 1.3 2.9E-05 30.9 2.4 33 31-65 2-34 (44)
117 KOG3161 Predicted E3 ubiquitin 81.3 0.45 9.7E-06 50.5 -0.2 43 243-288 11-54 (861)
118 PRK00762 hypA hydrogenase nick 80.9 1.1 2.4E-05 38.1 2.1 36 28-64 67-106 (124)
119 PRK00564 hypA hydrogenase nick 80.8 1.3 2.8E-05 37.4 2.4 35 28-64 68-102 (117)
120 KOG0309 Conserved WD40 repeat- 80.2 0.99 2.1E-05 48.9 1.9 28 258-285 1042-1069(1081)
121 TIGR00373 conserved hypothetic 80.0 0.76 1.6E-05 40.8 0.8 37 28-65 106-142 (158)
122 PF07754 DUF1610: Domain of un 79.6 1.1 2.4E-05 27.4 1.2 22 34-57 1-23 (24)
123 COG4391 Uncharacterized protei 79.4 1.1 2.4E-05 33.5 1.4 21 41-61 39-59 (62)
124 COG2093 DNA-directed RNA polym 79.2 0.85 1.8E-05 34.2 0.7 28 33-65 6-34 (64)
125 KOG1609 Protein involved in mR 78.7 1.1 2.4E-05 43.1 1.6 51 243-293 78-136 (323)
126 KOG1812 Predicted E3 ubiquitin 78.6 1.1 2.5E-05 45.3 1.8 38 243-280 146-184 (384)
127 KOG4367 Predicted Zn-finger pr 78.2 1.1 2.3E-05 45.8 1.3 36 241-279 2-37 (699)
128 KOG4718 Non-SMC (structural ma 78.0 0.89 1.9E-05 42.2 0.7 46 243-290 181-226 (235)
129 COG5220 TFB3 Cdk activating ki 78.0 1 2.2E-05 42.6 1.0 48 243-290 10-63 (314)
130 PF13240 zinc_ribbon_2: zinc-r 77.8 1 2.2E-05 27.1 0.7 23 33-60 1-23 (23)
131 PF02891 zf-MIZ: MIZ/SP-RING z 77.2 2.6 5.7E-05 30.1 2.8 42 244-288 3-49 (50)
132 smart00834 CxxC_CXXC_SSSS Puta 76.5 2.2 4.8E-05 28.4 2.2 29 30-58 4-34 (41)
133 KOG3053 Uncharacterized conser 75.1 1.2 2.5E-05 42.6 0.6 51 242-292 19-83 (293)
134 COG5270 PUA domain (predicted 73.6 2.4 5.2E-05 38.6 2.2 32 28-67 11-42 (202)
135 PF08772 NOB1_Zn_bind: Nin one 73.6 1.7 3.8E-05 33.7 1.2 33 31-67 9-41 (73)
136 COG5109 Uncharacterized conser 73.1 2.8 6.1E-05 41.2 2.7 48 240-287 333-383 (396)
137 TIGR02098 MJ0042_CXXC MJ0042 f 71.5 2 4.4E-05 28.4 1.0 30 32-61 3-36 (38)
138 KOG0802 E3 ubiquitin ligase [P 69.1 2.9 6.3E-05 44.2 2.0 47 242-295 478-524 (543)
139 TIGR02605 CxxC_CxxC_SSSS putat 68.8 6.2 0.00013 27.9 3.1 35 30-64 4-40 (52)
140 KOG0825 PHD Zn-finger protein 68.6 2.3 5E-05 46.4 1.1 52 243-294 96-157 (1134)
141 smart00531 TFIIE Transcription 68.3 2 4.4E-05 37.4 0.6 36 28-63 96-136 (147)
142 COG1996 RPC10 DNA-directed RNA 67.4 3.6 7.8E-05 29.5 1.6 35 29-64 4-38 (49)
143 KOG0269 WD40 repeat-containing 67.4 4.3 9.3E-05 44.2 2.8 43 244-288 780-825 (839)
144 PF09538 FYDLN_acid: Protein o 66.9 3.5 7.5E-05 34.4 1.6 29 33-63 11-39 (108)
145 KOG1100 Predicted E3 ubiquitin 64.9 3.3 7.2E-05 38.4 1.3 39 246-291 161-200 (207)
146 PF13248 zf-ribbon_3: zinc-rib 64.8 3.2 7E-05 25.5 0.8 23 32-59 3-25 (26)
147 PF09723 Zn-ribbon_8: Zinc rib 63.4 9.5 0.0002 26.1 3.0 33 30-62 4-38 (42)
148 KOG3113 Uncharacterized conser 60.0 8.2 0.00018 36.9 2.9 52 244-297 112-164 (293)
149 KOG2066 Vacuolar assembly/sort 60.0 2.9 6.4E-05 45.6 -0.0 45 242-287 783-831 (846)
150 KOG1812 Predicted E3 ubiquitin 58.5 4.9 0.00011 40.7 1.3 44 243-286 306-351 (384)
151 PLN02189 cellulose synthase 55.9 14 0.0003 42.0 4.3 52 243-294 34-90 (1040)
152 PF13717 zinc_ribbon_4: zinc-r 55.0 6 0.00013 26.3 0.9 28 33-60 4-35 (36)
153 KOG2068 MOT2 transcription fac 54.4 11 0.00023 37.4 2.8 52 243-295 249-302 (327)
154 KOG3005 GIY-YIG type nuclease 54.1 6.1 0.00013 38.0 1.1 48 244-291 183-243 (276)
155 PF14569 zf-UDP: Zinc-binding 54.0 15 0.00032 28.9 3.0 53 243-295 9-66 (80)
156 PF08271 TF_Zn_Ribbon: TFIIB z 53.4 8.4 0.00018 26.3 1.4 32 32-64 1-32 (43)
157 KOG4317 Predicted Zn-finger pr 52.9 8.7 0.00019 37.8 1.9 29 26-61 2-30 (383)
158 TIGR02300 FYDLN_acid conserved 52.7 8.9 0.00019 32.9 1.7 30 32-63 10-39 (129)
159 smart00132 LIM Zinc-binding do 52.6 13 0.00027 23.7 2.1 37 245-290 1-37 (39)
160 PLN02436 cellulose synthase A 52.4 16 0.00036 41.5 4.2 51 243-293 36-91 (1094)
161 PF00628 PHD: PHD-finger; Int 51.8 7 0.00015 27.2 0.8 44 245-288 1-50 (51)
162 smart00249 PHD PHD zinc finger 51.2 7.3 0.00016 25.8 0.8 31 245-275 1-31 (47)
163 COG1439 Predicted nucleic acid 50.9 10 0.00022 34.4 1.9 27 30-61 138-164 (177)
164 KOG2807 RNA polymerase II tran 50.7 13 0.00027 36.9 2.6 46 243-288 330-375 (378)
165 KOG1829 Uncharacterized conser 50.1 5.3 0.00011 42.6 -0.0 43 243-288 511-558 (580)
166 PF06906 DUF1272: Protein of u 49.5 24 0.00053 26.0 3.3 48 244-293 6-54 (57)
167 smart00154 ZnF_AN1 AN1-like Zi 49.1 9.2 0.0002 25.9 1.1 25 34-63 1-25 (39)
168 PF13901 DUF4206: Domain of un 49.0 11 0.00024 34.7 1.9 40 243-288 152-197 (202)
169 PF13719 zinc_ribbon_5: zinc-r 48.9 8.3 0.00018 25.7 0.8 28 34-61 5-36 (37)
170 KOG1815 Predicted E3 ubiquitin 48.6 8.3 0.00018 39.7 1.1 36 242-279 69-104 (444)
171 PF10122 Mu-like_Com: Mu-like 45.1 6.9 0.00015 28.3 -0.1 32 30-61 3-35 (51)
172 PRK12496 hypothetical protein; 44.8 15 0.00033 32.8 2.0 27 31-60 127-153 (164)
173 PF01363 FYVE: FYVE zinc finge 42.6 14 0.00031 27.4 1.3 35 243-277 9-44 (69)
174 PLN02638 cellulose synthase A 42.1 31 0.00068 39.4 4.4 52 243-294 17-73 (1079)
175 PF07975 C1_4: TFIIH C1-like d 41.8 16 0.00035 26.4 1.4 42 246-287 2-50 (51)
176 PLN02400 cellulose synthase 41.6 26 0.00056 40.1 3.6 52 243-294 36-92 (1085)
177 smart00647 IBR In Between Ring 41.6 19 0.00042 25.8 1.9 33 30-62 17-52 (64)
178 COG3813 Uncharacterized protei 40.7 6.9 0.00015 30.3 -0.7 35 21-62 19-53 (84)
179 PF05191 ADK_lid: Adenylate ki 40.7 19 0.00042 24.0 1.6 32 31-62 1-33 (36)
180 PF07191 zinc-ribbons_6: zinc- 40.6 4.4 9.4E-05 31.3 -1.8 41 244-292 2-42 (70)
181 PF10276 zf-CHCC: Zinc-finger 40.0 12 0.00027 25.6 0.5 12 50-61 29-40 (40)
182 smart00661 RPOL9 RNA polymeras 39.9 18 0.00038 25.3 1.4 31 33-65 2-33 (52)
183 KOG0824 Predicted E3 ubiquitin 39.2 11 0.00024 36.9 0.3 49 241-292 103-152 (324)
184 PF14255 Cys_rich_CPXG: Cystei 38.8 25 0.00055 25.5 2.0 18 51-68 1-18 (52)
185 PF06844 DUF1244: Protein of u 38.2 18 0.00038 27.6 1.2 13 267-279 11-23 (68)
186 PF05605 zf-Di19: Drought indu 38.1 17 0.00036 26.0 1.0 10 51-60 3-12 (54)
187 PF01485 IBR: IBR domain; Int 38.0 17 0.00037 26.0 1.1 28 33-60 20-50 (64)
188 PF06220 zf-U1: U1 zinc finger 37.9 12 0.00026 25.2 0.2 13 29-41 1-13 (38)
189 COG1675 TFA1 Transcription ini 37.7 9.4 0.0002 34.6 -0.4 38 27-65 109-146 (176)
190 PF14803 Nudix_N_2: Nudix N-te 37.3 19 0.0004 23.8 1.1 25 33-57 2-29 (34)
191 PF13453 zf-TFIIB: Transcripti 37.1 12 0.00026 25.3 0.1 29 34-62 2-31 (41)
192 PF03811 Zn_Tnp_IS1: InsA N-te 37.0 15 0.00033 24.5 0.6 11 50-60 5-15 (36)
193 PF04216 FdhE: Protein involve 36.9 5.5 0.00012 38.6 -2.2 47 243-289 172-220 (290)
194 PF14353 CpXC: CpXC protein 36.8 21 0.00045 30.1 1.6 17 50-66 1-17 (128)
195 COG3809 Uncharacterized protei 36.3 21 0.00046 28.2 1.4 30 33-62 3-33 (88)
196 KOG3039 Uncharacterized conser 36.2 22 0.00048 34.0 1.8 34 243-279 43-76 (303)
197 KOG2169 Zn-finger transcriptio 36.1 33 0.00072 37.1 3.4 48 243-294 306-359 (636)
198 TIGR01206 lysW lysine biosynth 36.1 23 0.00049 25.9 1.5 31 32-62 3-34 (54)
199 KOG3579 Predicted E3 ubiquitin 36.0 22 0.00048 34.7 1.8 38 243-281 268-307 (352)
200 COG1198 PriA Primosomal protei 35.2 24 0.00053 38.8 2.2 32 29-66 460-491 (730)
201 PF07295 DUF1451: Protein of u 35.2 38 0.00081 29.8 3.0 35 25-60 106-140 (146)
202 KOG4430 Topoisomerase I-bindin 34.6 25 0.00054 37.2 2.0 57 242-298 259-316 (553)
203 KOG0978 E3 ubiquitin ligase in 33.5 9.2 0.0002 41.6 -1.3 29 28-60 660-688 (698)
204 TIGR00622 ssl1 transcription f 33.3 48 0.001 27.9 3.2 44 244-287 56-110 (112)
205 TIGR00155 pqiA_fam integral me 33.2 25 0.00054 35.9 1.8 29 33-61 15-44 (403)
206 PF10263 SprT-like: SprT-like 32.7 28 0.00061 29.9 1.8 35 28-62 120-155 (157)
207 PF13913 zf-C2HC_2: zinc-finge 32.3 12 0.00027 22.7 -0.4 13 51-63 3-15 (25)
208 PLN02915 cellulose synthase A 32.0 55 0.0012 37.4 4.2 51 243-293 15-70 (1044)
209 PRK13794 hypothetical protein; 31.9 29 0.00063 36.2 2.1 24 29-59 8-31 (479)
210 KOG3993 Transcription factor ( 31.8 23 0.00051 36.3 1.3 24 35-64 286-309 (500)
211 KOG2113 Predicted RNA binding 31.7 72 0.0016 31.7 4.5 44 242-290 342-386 (394)
212 PHA02776 E7 protein; Provision 31.2 24 0.00052 29.1 1.0 26 33-58 60-99 (101)
213 PF00412 LIM: LIM domain; Int 30.9 39 0.00084 23.8 2.0 39 246-293 1-39 (58)
214 COG1813 Predicted transcriptio 30.7 14 0.00031 33.1 -0.4 27 33-61 5-36 (165)
215 TIGR01053 LSD1 zinc finger dom 30.4 38 0.00081 21.9 1.6 25 32-57 2-26 (31)
216 KOG3842 Adaptor protein Pellin 30.3 41 0.00089 33.3 2.6 50 243-292 341-415 (429)
217 PF11261 IRF-2BP1_2: Interfero 30.2 20 0.00043 25.9 0.3 28 30-57 2-31 (54)
218 PRK15103 paraquat-inducible me 29.5 34 0.00073 35.2 2.0 27 34-60 13-40 (419)
219 COG5627 MMS21 DNA repair prote 29.0 26 0.00057 33.2 1.0 47 243-291 189-239 (275)
220 PF06750 DiS_P_DiS: Bacterial 28.6 47 0.001 26.7 2.3 38 243-292 33-70 (92)
221 cd00065 FYVE FYVE domain; Zinc 28.3 38 0.00081 24.0 1.5 35 244-278 3-38 (57)
222 KOG1729 FYVE finger containing 28.3 12 0.00027 36.5 -1.3 38 244-281 215-252 (288)
223 PRK12495 hypothetical protein; 28.0 33 0.00072 32.2 1.5 31 28-61 39-69 (226)
224 PF00527 E7: E7 protein, Early 27.7 19 0.0004 29.1 -0.2 25 33-57 54-92 (92)
225 KOG2231 Predicted E3 ubiquitin 27.1 44 0.00095 36.4 2.4 47 245-294 2-55 (669)
226 PRK06393 rpoE DNA-directed RNA 27.0 32 0.00069 26.1 1.0 19 34-59 8-26 (64)
227 COG3043 NapB Nitrate reductase 26.8 37 0.0008 30.0 1.5 17 23-39 118-134 (155)
228 PF08792 A2L_zn_ribbon: A2L zi 26.8 39 0.00085 22.1 1.3 29 31-60 3-31 (33)
229 PRK14873 primosome assembly pr 26.4 39 0.00085 36.8 1.9 30 30-66 409-438 (665)
230 COG4260 Membrane protease subu 26.1 31 0.00067 33.8 0.9 32 30-61 314-345 (345)
231 PRK08351 DNA-directed RNA poly 25.4 39 0.00085 25.3 1.2 19 33-58 5-23 (61)
232 TIGR00155 pqiA_fam integral me 25.3 39 0.00085 34.5 1.6 24 33-60 217-240 (403)
233 PRK13795 hypothetical protein; 25.3 51 0.0011 35.7 2.5 31 28-66 9-39 (636)
234 KOG1815 Predicted E3 ubiquitin 25.0 25 0.00055 36.2 0.2 38 244-281 227-269 (444)
235 KOG2979 Protein involved in DN 24.9 39 0.00084 32.5 1.4 44 243-288 176-221 (262)
236 PF04423 Rad50_zn_hook: Rad50 24.6 28 0.00061 24.9 0.3 10 282-291 22-31 (54)
237 smart00064 FYVE Protein presen 24.3 50 0.0011 24.4 1.6 36 243-278 10-46 (68)
238 COG4847 Uncharacterized protei 24.0 69 0.0015 26.2 2.4 35 243-278 6-40 (103)
239 KOG4185 Predicted E3 ubiquitin 23.9 15 0.00032 35.4 -1.7 47 243-289 207-265 (296)
240 KOG2789 Putative Zn-finger pro 23.8 42 0.00091 34.2 1.4 31 243-276 74-106 (482)
241 KOG3612 PHD Zn-finger protein 23.8 53 0.0012 34.8 2.2 65 221-288 38-107 (588)
242 PF06827 zf-FPG_IleRS: Zinc fi 23.7 28 0.0006 21.8 0.1 7 51-57 22-28 (30)
243 KOG2041 WD40 repeat protein [G 23.2 57 0.0012 35.9 2.3 38 29-71 1115-1152(1189)
244 COG1066 Sms Predicted ATP-depe 23.0 66 0.0014 33.3 2.6 34 30-68 6-41 (456)
245 PRK04338 N(2),N(2)-dimethylgua 22.9 65 0.0014 32.6 2.6 31 29-61 242-272 (382)
246 PRK14811 formamidopyrimidine-D 22.8 45 0.00097 32.1 1.4 27 34-60 238-265 (269)
247 KOG2071 mRNA cleavage and poly 22.8 56 0.0012 34.9 2.1 36 242-277 512-557 (579)
248 TIGR00595 priA primosomal prot 22.7 61 0.0013 34.0 2.5 31 29-65 238-268 (505)
249 PF06943 zf-LSD1: LSD1 zinc fi 22.5 73 0.0016 19.7 1.8 24 34-58 1-24 (25)
250 KOG2463 Predicted RNA-binding 22.4 38 0.00082 33.7 0.8 31 31-65 242-272 (376)
251 TIGR00308 TRM1 tRNA(guanine-26 22.3 63 0.0014 32.7 2.4 33 29-61 231-263 (374)
252 KOG3799 Rab3 effector RIM1 and 22.1 21 0.00046 31.0 -0.9 51 240-290 62-117 (169)
253 PF15135 UPF0515: Uncharacteri 21.9 44 0.00095 32.0 1.1 30 34-63 135-168 (278)
254 PF14169 YdjO: Cold-inducible 21.5 67 0.0015 23.9 1.8 37 29-65 16-54 (59)
255 PF01396 zf-C4_Topoisom: Topoi 21.5 54 0.0012 22.0 1.2 14 51-64 2-15 (39)
256 PRK05580 primosome assembly pr 21.2 72 0.0016 34.8 2.7 31 29-65 406-436 (679)
257 PRK14890 putative Zn-ribbon RN 21.0 72 0.0016 23.8 1.8 27 30-58 6-33 (59)
258 KOG4323 Polycomb-like PHD Zn-f 20.9 25 0.00054 36.5 -0.8 48 243-290 168-225 (464)
259 PF04710 Pellino: Pellino; In 20.8 33 0.00071 35.0 0.0 50 243-292 328-402 (416)
260 PRK10220 hypothetical protein; 20.8 62 0.0013 27.1 1.6 28 34-63 6-33 (111)
261 KOG2932 E3 ubiquitin ligase in 20.8 43 0.00094 33.1 0.8 19 28-46 87-105 (389)
262 PF12172 DUF35_N: Rubredoxin-l 20.7 50 0.0011 21.6 0.9 25 32-61 12-36 (37)
263 PF12760 Zn_Tnp_IS1595: Transp 20.6 57 0.0012 22.5 1.2 16 50-65 18-33 (46)
264 PF13397 DUF4109: Domain of un 20.5 1.2E+02 0.0026 25.2 3.2 43 17-59 14-59 (105)
265 COG1579 Zn-ribbon protein, pos 20.4 36 0.00078 32.4 0.2 31 30-60 196-231 (239)
266 PF07282 OrfB_Zn_ribbon: Putat 20.3 52 0.0011 24.4 1.0 23 34-57 31-53 (69)
267 KOG1245 Chromatin remodeling c 20.2 32 0.00068 40.7 -0.3 48 243-290 1108-1159(1404)
268 PF11682 DUF3279: Protein of u 20.1 69 0.0015 27.6 1.8 23 23-45 20-42 (128)
No 1
>PF14369 zf-RING_3: zinc-finger
Probab=99.60 E-value=5e-16 Score=103.43 Aligned_cols=35 Identities=57% Similarity=1.228 Sum_probs=30.7
Q ss_pred CeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 30 PLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
++||||+|+++|++.+...++++||+|++||||||
T Consensus 1 ~~ywCh~C~~~V~~~~~~~~~~~CP~C~~gFvEei 35 (35)
T PF14369_consen 1 QRYWCHQCNRFVRIAPSPDSDVACPRCHGGFVEEI 35 (35)
T ss_pred CCEeCccCCCEeEeCcCCCCCcCCcCCCCcEeEeC
Confidence 47999999999999866555677999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=3.2e-15 Score=145.94 Aligned_cols=80 Identities=28% Similarity=0.701 Sum_probs=67.9
Q ss_pred CCCCCCCHHHHHhCCceeeeccccCCC-ccccccccccccCCccEEeccCCeeChhhHHHHHhcCCC-CCccceeccCCC
Q 018299 217 PGPPPVPEAAIQAIPTVKIMESHLAND-TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNS-CPVCRHEVPVSS 294 (358)
Q Consensus 217 ~~~ppas~~~i~~lp~~~~~~~~~~~~-~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~s-CPvCR~~l~~~~ 294 (358)
.....+.+..++++|...++....... ..|+||+|+|+.|++++.|||+|.||..||++||.++.+ ||+||+++....
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 355578999999999999977654332 499999999999999999999999999999999999865 999999876654
Q ss_pred CC
Q 018299 295 AS 296 (358)
Q Consensus 295 ~~ 296 (358)
..
T Consensus 282 ~~ 283 (348)
T KOG4628|consen 282 GS 283 (348)
T ss_pred CC
Confidence 43
No 3
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.45 E-value=2.8e-14 Score=99.71 Aligned_cols=44 Identities=50% Similarity=1.234 Sum_probs=40.7
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccc
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCR 287 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 287 (358)
++|+||++.|..++.++.++|+|.||.+||..|++.+.+||+||
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 37999999999899999999999999999999999999999997
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.20 E-value=1.5e-11 Score=115.29 Aligned_cols=70 Identities=29% Similarity=0.576 Sum_probs=55.4
Q ss_pred CCHHHHHhCCceeeecccc---CCCccccccccccccCCc-----cEEeccCCeeChhhHHHHHhcCCCCCccceecc
Q 018299 222 VPEAAIQAIPTVKIMESHL---ANDTTCPVCKEEFKVGGE-----ARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 222 as~~~i~~lp~~~~~~~~~---~~~~~C~ICle~~~~~~~-----~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
.++..++.+|.+....... ..+.+|+||++.+...+. ++.++|+|.||..||..|++.+.+||+||..+.
T Consensus 150 ~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 150 NYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred hhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 3888999999886543322 346899999999875431 344569999999999999999999999999875
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.18 E-value=1e-11 Score=96.27 Aligned_cols=45 Identities=38% Similarity=0.959 Sum_probs=36.2
Q ss_pred Ccccccccccccc----------CCccEEeccCCeeChhhHHHHHhcCCCCCccc
Q 018299 243 DTTCPVCKEEFKV----------GGEARELACKHIYHSECIVPWLRLHNSCPVCR 287 (358)
Q Consensus 243 ~~~C~ICle~~~~----------~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 287 (358)
+..|+||++.|.. .-.+...+|+|.||..||..||+.+++||+||
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 12445567999999999999999999999997
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=8.6e-12 Score=118.42 Aligned_cols=50 Identities=36% Similarity=0.927 Sum_probs=46.5
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHh-cCCCCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLR-LHNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~ 292 (358)
..+|+||++.|..+++++.|||+|.||..||.+|+. -++.||+||.+++.
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 579999999999999999999999999999999999 56789999999875
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.04 E-value=1e-10 Score=113.83 Aligned_cols=52 Identities=37% Similarity=0.924 Sum_probs=44.8
Q ss_pred CCCccccccccc-cccC---------CccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 241 ANDTTCPVCKEE-FKVG---------GEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 241 ~~~~~C~ICle~-~~~~---------~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
..|..|.||+|+ |..+ .+++.|||||++|.+|++.|++++.+||+||.++.-
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~if 346 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF 346 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccc
Confidence 357899999999 4433 367999999999999999999999999999999643
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=5e-10 Score=103.34 Aligned_cols=57 Identities=25% Similarity=0.623 Sum_probs=48.1
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhcCC---CCCccceeccCCCCCCCCCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN---SCPVCRHEVPVSSASSSHDV 301 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~---sCPvCR~~l~~~~~~~~~~~ 301 (358)
...+|.||||..+ +++++.|||+||+.||.+||..+. .|||||.+|..++.......
T Consensus 46 ~~FdCNICLd~ak---dPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGr 105 (230)
T KOG0823|consen 46 GFFDCNICLDLAK---DPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGR 105 (230)
T ss_pred CceeeeeeccccC---CCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeecc
Confidence 3679999999988 889999999999999999998654 49999999988776554433
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.91 E-value=7.4e-10 Score=100.37 Aligned_cols=52 Identities=25% Similarity=0.724 Sum_probs=43.4
Q ss_pred CCCccccccccccccCCccEEeccCCeeChhhHHHHHhc----------------CCCCCccceeccCCCC
Q 018299 241 ANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL----------------HNSCPVCRHEVPVSSA 295 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~----------------~~sCPvCR~~l~~~~~ 295 (358)
.++.+|+||++.++ .++.++|+|.||..||..|+.. ...||+||..+.....
T Consensus 16 ~~~~~CpICld~~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 16 GGDFDCNICLDQVR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CCccCCccCCCcCC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 35689999999987 7788999999999999999863 2369999999966443
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.87 E-value=1.3e-09 Score=78.12 Aligned_cols=46 Identities=33% Similarity=0.886 Sum_probs=40.7
Q ss_pred CccccccccccccCCccEEeccCCe-eChhhHHHHHhcCCCCCccceecc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHI-YHSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
+..|.||++... .+..+||+|. ||..|+..|++....||+||.++.
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 568999999977 7899999999 999999999999999999999874
No 11
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=1.2e-09 Score=103.52 Aligned_cols=50 Identities=28% Similarity=0.742 Sum_probs=45.2
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccCCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVSS 294 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~ 294 (358)
....|.|||+... .+..+||||+||..||..|+..+..||+||..+....
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 4679999999987 7889999999999999999999999999999886543
No 12
>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=98.81 E-value=3e-09 Score=72.58 Aligned_cols=44 Identities=41% Similarity=1.106 Sum_probs=36.5
Q ss_pred cccccccccccCCccEEeccCCeeChhhHHHHHhc-CCCCCccceec
Q 018299 245 TCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL-HNSCPVCRHEV 290 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~-~~sCPvCR~~l 290 (358)
.|+||++.+. +....++|+|.||..|+..|++. ...||+|+..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999983 34445559999999999999998 67799999764
No 13
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.81 E-value=2.7e-09 Score=72.60 Aligned_cols=39 Identities=36% Similarity=0.942 Sum_probs=33.2
Q ss_pred ccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCcc
Q 018299 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVC 286 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvC 286 (358)
|+||++.+.. .++.++|||.||..||..|++.+.+||+|
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 8999999882 44788999999999999999998899998
No 14
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.75 E-value=5.6e-09 Score=72.42 Aligned_cols=38 Identities=34% Similarity=0.932 Sum_probs=31.3
Q ss_pred ccccccccccCCccEEeccCCeeChhhHHHHHhcCC----CCCcc
Q 018299 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN----SCPVC 286 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~----sCPvC 286 (358)
|+||++.|+ +++.|+|+|.|+..||..|++... .||+|
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 899999999 899999999999999999998642 59988
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.70 E-value=6.8e-09 Score=82.23 Aligned_cols=54 Identities=33% Similarity=0.804 Sum_probs=41.4
Q ss_pred cCCCcccccccccccc--------CC--ccEEeccCCeeChhhHHHHHhcC---CCCCccceeccCC
Q 018299 240 LANDTTCPVCKEEFKV--------GG--EARELACKHIYHSECIVPWLRLH---NSCPVCRHEVPVS 293 (358)
Q Consensus 240 ~~~~~~C~ICle~~~~--------~~--~~~~lpC~H~FH~~CI~~WL~~~---~sCPvCR~~l~~~ 293 (358)
+.+++.|.||...|+. |+ .++.-.|+|.||..||.+||..+ ..||+||+++..+
T Consensus 18 ~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 18 VANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred cCCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 4458899999998862 22 23334599999999999999864 5699999987543
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=7.2e-09 Score=92.12 Aligned_cols=50 Identities=28% Similarity=0.715 Sum_probs=42.6
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
...|+|||+.+... .++.+.|||+||+.||+.-|+..+.||+|++.|..+
T Consensus 131 ~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 131 TYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 47999999999832 225578999999999999999999999999987654
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=8.3e-09 Score=108.01 Aligned_cols=52 Identities=33% Similarity=0.883 Sum_probs=45.7
Q ss_pred CCccccccccccccCCc--cEEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 242 NDTTCPVCKEEFKVGGE--ARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~--~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
.+..|+||+|.+..+.. ++.|+|+|+||..|+..|+++.++||+||..+...
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 37899999999996554 89999999999999999999999999999955443
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=98.65 E-value=2.2e-08 Score=74.42 Aligned_cols=46 Identities=26% Similarity=0.468 Sum_probs=41.6
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
..|+||++.+. .++.++|||+|+..||..|++.+.+||+|+..+..
T Consensus 2 ~~Cpi~~~~~~---~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMK---DPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCC---CCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 57999999998 57889999999999999999998899999988743
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.58 E-value=3.3e-08 Score=67.53 Aligned_cols=38 Identities=37% Similarity=1.072 Sum_probs=32.9
Q ss_pred ccccccccccCCccE-EeccCCeeChhhHHHHHh--cCCCCCcc
Q 018299 246 CPVCKEEFKVGGEAR-ELACKHIYHSECIVPWLR--LHNSCPVC 286 (358)
Q Consensus 246 C~ICle~~~~~~~~~-~lpC~H~FH~~CI~~WL~--~~~sCPvC 286 (358)
|+||++.+. ... .++|+|.||..||..|++ ....||+|
T Consensus 1 C~iC~~~~~---~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFE---DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCS---SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCcccc---CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988 444 889999999999999999 34569998
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.57 E-value=3.9e-08 Score=64.71 Aligned_cols=38 Identities=45% Similarity=1.197 Sum_probs=33.6
Q ss_pred ccccccccccCCccEEeccCCeeChhhHHHHHh-cCCCCCcc
Q 018299 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLR-LHNSCPVC 286 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~-~~~sCPvC 286 (358)
|+||++... .+..++|+|.||..|+..|++ ....||+|
T Consensus 1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999854 788999999999999999998 56679987
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.55 E-value=3.8e-08 Score=68.72 Aligned_cols=44 Identities=27% Similarity=0.748 Sum_probs=38.5
Q ss_pred cccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccce
Q 018299 245 TCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRH 288 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 288 (358)
.|.||++.|.....+..++|+|+||..||..+......||+||+
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 59999999965667889999999999999999856668999985
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=98.54 E-value=4.1e-08 Score=90.34 Aligned_cols=51 Identities=27% Similarity=0.668 Sum_probs=38.8
Q ss_pred CCccccccccccccCC-----c-cEEeccCCeeChhhHHHHHhcC------CCCCccceeccC
Q 018299 242 NDTTCPVCKEEFKVGG-----E-ARELACKHIYHSECIVPWLRLH------NSCPVCRHEVPV 292 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~-----~-~~~lpC~H~FH~~CI~~WL~~~------~sCPvCR~~l~~ 292 (358)
.+.+|+||++...... . ....+|+|.||..||..|.+.+ .+||+||..+..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 4789999999864321 1 2344699999999999999753 359999998754
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.50 E-value=5.4e-08 Score=97.61 Aligned_cols=51 Identities=33% Similarity=0.662 Sum_probs=44.6
Q ss_pred cCCCccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 240 LANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 240 ~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
+.....|+||++.|. .++.++|+|.||..||..|+.....||+|+..+...
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 344689999999998 667899999999999999999988999999987653
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.32 E-value=3.6e-07 Score=71.04 Aligned_cols=50 Identities=28% Similarity=0.743 Sum_probs=37.4
Q ss_pred cccccccccc-----------ccCCcc--EEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 244 TTCPVCKEEF-----------KVGGEA--RELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 244 ~~C~ICle~~-----------~~~~~~--~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
+.|+||...+ ..+++. ..-.|.|.||..||..||..++.||++|++....
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 5677776554 233332 2334999999999999999999999999987543
No 25
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=4.2e-07 Score=92.36 Aligned_cols=53 Identities=28% Similarity=0.725 Sum_probs=44.3
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcC-----CCCCccceeccCCCCCCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLH-----NSCPVCRHEVPVSSASSS 298 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~-----~sCPvCR~~l~~~~~~~~ 298 (358)
+..|+|||+... .+..+.|||+||..||..++... ..||+|+..+..+.....
T Consensus 186 ~~~CPICL~~~~---~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv 243 (513)
T KOG2164|consen 186 DMQCPICLEPPS---VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV 243 (513)
T ss_pred CCcCCcccCCCC---cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence 679999999988 77788899999999999998764 369999998877554443
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=5.9e-07 Score=84.55 Aligned_cols=50 Identities=28% Similarity=0.693 Sum_probs=43.6
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHH-HHhcCCC-CCccceeccCCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVP-WLRLHNS-CPVCRHEVPVSS 294 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~-WL~~~~s-CPvCR~~l~~~~ 294 (358)
.+..|+||++..+ .+..++|+|+||..||.. |-+.+.. ||+||+.+..+.
T Consensus 214 ~d~kC~lC~e~~~---~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 214 ADYKCFLCLEEPE---VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccceeeeecccC---CcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 3789999999988 889999999999999999 9877766 999999876543
No 27
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=3.3e-07 Score=70.70 Aligned_cols=51 Identities=33% Similarity=0.855 Sum_probs=38.6
Q ss_pred CCcccccccccccc--------C-CccEEec-cCCeeChhhHHHHHhcCC---CCCccceeccC
Q 018299 242 NDTTCPVCKEEFKV--------G-GEARELA-CKHIYHSECIVPWLRLHN---SCPVCRHEVPV 292 (358)
Q Consensus 242 ~~~~C~ICle~~~~--------~-~~~~~lp-C~H~FH~~CI~~WL~~~~---sCPvCR~~l~~ 292 (358)
.+++|-||.-.|.. | +-+..+. |.|.||..||.+||.... .||+||+++..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 46699999988852 2 2333333 999999999999997644 59999998754
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.15 E-value=1.4e-06 Score=60.80 Aligned_cols=34 Identities=29% Similarity=0.819 Sum_probs=22.2
Q ss_pred cccccccccc-CCccEEeccCCeeChhhHHHHHhcC
Q 018299 246 CPVCKEEFKV-GGEARELACKHIYHSECIVPWLRLH 280 (358)
Q Consensus 246 C~ICle~~~~-~~~~~~lpC~H~FH~~CI~~WL~~~ 280 (358)
|+||++ |.. ...++.|+|||+|+.+||..+++..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 753 4468999999999999999999854
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.13 E-value=5.7e-07 Score=87.13 Aligned_cols=47 Identities=30% Similarity=0.603 Sum_probs=43.7
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
...|-||.+.|. .++++||+|.||.-||..+|..+..||.|++++..
T Consensus 23 lLRC~IC~eyf~---ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 23 LLRCGICFEYFN---IPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHhHHHHHhc---CceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 579999999999 88999999999999999999999999999988744
No 30
>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=98.10 E-value=1.9e-06 Score=61.77 Aligned_cols=42 Identities=24% Similarity=0.807 Sum_probs=33.6
Q ss_pred cccccccccccCCccEEeccC-----CeeChhhHHHHHhcCC--CCCccc
Q 018299 245 TCPVCKEEFKVGGEARELACK-----HIYHSECIVPWLRLHN--SCPVCR 287 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~-----H~FH~~CI~~WL~~~~--sCPvCR 287 (358)
.|.||++ ...++.+..+||. |.+|..|+..|+..+. +||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 4444566788985 8999999999997654 799995
No 31
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.08 E-value=1.3e-06 Score=83.15 Aligned_cols=47 Identities=30% Similarity=0.589 Sum_probs=43.3
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
-..|-||.+.|. .+..++|+|.||+-||...|..+.-||+||.+...
T Consensus 25 ~lrC~IC~~~i~---ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 25 MLRCRICDCRIS---IPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred HHHhhhhhheee---cceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence 569999999999 88899999999999999999999999999987644
No 32
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.08 E-value=1.9e-06 Score=66.66 Aligned_cols=48 Identities=25% Similarity=0.495 Sum_probs=39.0
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhc-CCCCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL-HNSCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~ 293 (358)
...|+||.+.|. .++.++|||.|...||..||+. +.+||+|+..+...
T Consensus 4 ~f~CpIt~~lM~---dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMR---DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-S---SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhh---CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 578999999999 8999999999999999999999 78899999887543
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=1.2e-06 Score=82.58 Aligned_cols=52 Identities=31% Similarity=0.860 Sum_probs=43.0
Q ss_pred CCccccccccccccCC-------ccEEeccCCeeChhhHHHHHh--cCCCCCccceeccCC
Q 018299 242 NDTTCPVCKEEFKVGG-------EARELACKHIYHSECIVPWLR--LHNSCPVCRHEVPVS 293 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~-------~~~~lpC~H~FH~~CI~~WL~--~~~sCPvCR~~l~~~ 293 (358)
++..|+||-..+.... +..+|.|+|+||..||.-|-. .+.+||.|+..+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 4789999988776544 678899999999999999975 466899999987544
No 34
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=2.2e-06 Score=86.57 Aligned_cols=50 Identities=28% Similarity=0.840 Sum_probs=39.8
Q ss_pred CccccccccccccCC--------------ccEEeccCCeeChhhHHHHHhcCC-CCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGG--------------EARELACKHIYHSECIVPWLRLHN-SCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~--------------~~~~lpC~H~FH~~CI~~WL~~~~-sCPvCR~~l~~ 292 (358)
..+|+||+..+..-. .-..+||.|+||..|+..|...-+ .||+||..|+.
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 579999999874311 134559999999999999999554 89999999874
No 35
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.97 E-value=1.2e-06 Score=67.31 Aligned_cols=51 Identities=22% Similarity=0.589 Sum_probs=24.2
Q ss_pred Cccccccccccc-cCCccEEe----ccCCeeChhhHHHHHhc----CC-------CCCccceeccCC
Q 018299 243 DTTCPVCKEEFK-VGGEAREL----ACKHIYHSECIVPWLRL----HN-------SCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~-~~~~~~~l----pC~H~FH~~CI~~WL~~----~~-------sCPvCR~~l~~~ 293 (358)
+.+|.||+..+. .++.+... .|++.||..||..||.. +. .||.|+.+|..+
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 468999999875 33333222 49999999999999974 11 399999998653
No 36
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.91 E-value=2.6e-06 Score=91.33 Aligned_cols=52 Identities=25% Similarity=0.833 Sum_probs=39.4
Q ss_pred cCCCccccccccccccCC---ccEEec-cCCeeChhhHHHHHhcC--CCCCccceecc
Q 018299 240 LANDTTCPVCKEEFKVGG---EARELA-CKHIYHSECIVPWLRLH--NSCPVCRHEVP 291 (358)
Q Consensus 240 ~~~~~~C~ICle~~~~~~---~~~~lp-C~H~FH~~CI~~WL~~~--~sCPvCR~~l~ 291 (358)
.....+|+||+..+..-+ .-+..+ |+|.||..|+.+|++.. ++||+||.+++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 445689999998775211 223334 99999999999999975 46999998775
No 37
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.90 E-value=4.9e-06 Score=83.36 Aligned_cols=49 Identities=35% Similarity=0.861 Sum_probs=39.7
Q ss_pred CCCccccccccccccCC-ccEEeccCCeeChhhHHHHHhcCCCCCccceecc
Q 018299 241 ANDTTCPVCKEEFKVGG-EARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
.+..+|+|||+.+.... .++.+.|.|.||..|+..| ...+|||||+-..
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence 34679999999987544 3355569999999999999 5678999999765
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=4.1e-06 Score=77.97 Aligned_cols=44 Identities=39% Similarity=0.830 Sum_probs=38.9
Q ss_pred CCCccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccc
Q 018299 241 ANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCR 287 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 287 (358)
.+...|+||++.|. .++.++|+|.||..||..++.....||.||
T Consensus 11 ~~~~~C~iC~~~~~---~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFR---EPVLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhh---cCccccccchHhHHHHHHhcCCCcCCcccC
Confidence 35789999999999 458999999999999999998555799999
No 39
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.85 E-value=1e-05 Score=78.63 Aligned_cols=52 Identities=23% Similarity=0.519 Sum_probs=38.9
Q ss_pred CccccccccccccCCccEEe--ccCCeeChhhHHHHHhc-CCCCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKVGGEAREL--ACKHIYHSECIVPWLRL-HNSCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l--pC~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~~ 294 (358)
+..|+||+..-......+.| +|+|.||..||...+.. ...||+|+..+....
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 56899999964444333233 79999999999996644 457999999886654
No 40
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.78 E-value=1.1e-05 Score=65.79 Aligned_cols=50 Identities=26% Similarity=0.644 Sum_probs=37.3
Q ss_pred Cccccccccccc-------------cCC-ccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 243 DTTCPVCKEEFK-------------VGG-EARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~-------------~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
-+.|+||..-+- .++ .+..--|.|.||..||..||+..+.||+|.++...
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 578999865441 112 22233499999999999999999999999887643
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.78 E-value=2.5e-06 Score=83.25 Aligned_cols=59 Identities=25% Similarity=0.575 Sum_probs=46.5
Q ss_pred eeeccccCCCccccccccccccCCccEEec-cCCeeChhhHHHHHhc-CCCCCccceeccCCCC
Q 018299 234 KIMESHLANDTTCPVCKEEFKVGGEARELA-CKHIYHSECIVPWLRL-HNSCPVCRHEVPVSSA 295 (358)
Q Consensus 234 ~~~~~~~~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~~~ 295 (358)
.+....+..+..|+|||+.++ ..+..+ |.|.||.+||..-++. .++||.||+.+..+-.
T Consensus 34 ~~~l~~~~~~v~c~icl~llk---~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs 94 (381)
T KOG0311|consen 34 MVDLAMFDIQVICPICLSLLK---KTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS 94 (381)
T ss_pred eecHHHhhhhhccHHHHHHHH---hhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence 333444556789999999998 555555 9999999999999986 4679999998876543
No 42
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=3.1e-05 Score=74.36 Aligned_cols=48 Identities=23% Similarity=0.507 Sum_probs=42.0
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC-CCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN-SCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~-sCPvCR~~l~~~ 293 (358)
+.+|+||+.... .++.|+|+|.||.-||+--.+... +|++||++++..
T Consensus 7 ~~eC~IC~nt~n---~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGN---CPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCC---cCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 679999999877 778999999999999998877655 599999999764
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.46 E-value=1.9e-05 Score=59.33 Aligned_cols=46 Identities=30% Similarity=0.686 Sum_probs=24.1
Q ss_pred CCccccccccccccCCccE-EeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 242 NDTTCPVCKEEFKVGGEAR-ELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~-~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
+...|++|.+.++ +++ ...|.|+||+.||..-+. ..||+|+.+.-.
T Consensus 6 ~lLrCs~C~~~l~---~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~ 52 (65)
T PF14835_consen 6 ELLRCSICFDILK---EPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWI 52 (65)
T ss_dssp HTTS-SSS-S--S---S-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-
T ss_pred HhcCCcHHHHHhc---CCceeccCccHHHHHHhHHhcC--CCCCCcCChHHH
Confidence 3568999999988 554 456999999999988544 349999887643
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=7.6e-05 Score=73.26 Aligned_cols=50 Identities=26% Similarity=0.640 Sum_probs=42.8
Q ss_pred CccccccccccccCCccEEeccCCe-eChhhHHHHHhcCCCCCccceeccCCCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHI-YHSECIVPWLRLHNSCPVCRHEVPVSSA 295 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~WL~~~~sCPvCR~~l~~~~~ 295 (358)
..+|.||+.+-. ....|||.|. .|..|-+..--+++.||+||+.+...-.
T Consensus 290 gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~ 340 (349)
T KOG4265|consen 290 GKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLE 340 (349)
T ss_pred CCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCCccccchHhhhe
Confidence 579999999988 8899999997 6889998887788999999998855433
No 45
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.40 E-value=3.2e-05 Score=81.91 Aligned_cols=50 Identities=30% Similarity=0.600 Sum_probs=44.6
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
...|++|+..+.++......+|+|+||..||..|-+.-++||+||.++..
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 57899999999877777777899999999999999999999999998744
No 46
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.38 E-value=4.2e-05 Score=73.29 Aligned_cols=55 Identities=27% Similarity=0.639 Sum_probs=45.8
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhc-----------------------CCCCCccceeccCCCCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL-----------------------HNSCPVCRHEVPVSSAS 296 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~-----------------------~~sCPvCR~~l~~~~~~ 296 (358)
..-.|.|||--|..++....++|.|.||..|+..+|.. ...|||||..|..+..+
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s 191 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS 191 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence 35799999999999998999999999999999988721 12499999999776554
No 47
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=6.9e-05 Score=74.06 Aligned_cols=48 Identities=25% Similarity=0.821 Sum_probs=37.4
Q ss_pred ccccccccccccCCccEEec-cCCeeChhhHHHHHhcC---CCCCccceecc
Q 018299 244 TTCPVCKEEFKVGGEARELA-CKHIYHSECIVPWLRLH---NSCPVCRHEVP 291 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~WL~~~---~sCPvCR~~l~ 291 (358)
..|.||.+-+.....+.-+. |||+||..|+..|++.. ..||+|+-.++
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 58999966666555565555 99999999999999864 36999995443
No 48
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.15 E-value=0.00021 Score=70.99 Aligned_cols=50 Identities=26% Similarity=0.736 Sum_probs=41.9
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhc--CCCCCccceeccCCCCC
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL--HNSCPVCRHEVPVSSAS 296 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~--~~sCPvCR~~l~~~~~~ 296 (358)
.-|.||-|.-+ .+++-||||..|..|+..|-.. .++||.||.+++-....
T Consensus 370 eLCKICaendK---dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 370 ELCKICAENDK---DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHhhccCC---CcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 46999988766 7888899999999999999854 46899999999776543
No 49
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00027 Score=70.02 Aligned_cols=52 Identities=27% Similarity=0.671 Sum_probs=38.3
Q ss_pred CCccccccccccccCC----ccEEec-cCCeeChhhHHHHH--hc-----CCCCCccceeccCC
Q 018299 242 NDTTCPVCKEEFKVGG----EARELA-CKHIYHSECIVPWL--RL-----HNSCPVCRHEVPVS 293 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~----~~~~lp-C~H~FH~~CI~~WL--~~-----~~sCPvCR~~l~~~ 293 (358)
.+.+|.||++...... ...+|| |.|.||..||..|- ++ ...||.||......
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 4789999999876322 012334 99999999999998 34 35699999866443
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00037 Score=70.30 Aligned_cols=49 Identities=27% Similarity=0.604 Sum_probs=43.7
Q ss_pred CCCccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 241 ANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
..+..|.||+.-+. .++.+||+|.||..||..-+.....||.||.++..
T Consensus 82 ~sef~c~vc~~~l~---~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALY---PPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcC---CCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 35789999999998 88888999999999999988877789999999975
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.00024 Score=75.63 Aligned_cols=47 Identities=26% Similarity=0.671 Sum_probs=40.6
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhc-CCCCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL-HNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~-~~sCPvCR~~l~~ 292 (358)
-..|++|-..++ .+++..|+|+||..||.+-+.. +..||.|...+-.
T Consensus 643 ~LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 643 LLKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred ceeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 468999998888 7778889999999999999985 5679999887754
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.90 E-value=0.00074 Score=49.90 Aligned_cols=41 Identities=24% Similarity=0.728 Sum_probs=28.7
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC--CCCc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN--SCPV 285 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~--sCPv 285 (358)
...|+|.+..|+ +.++...|+|+|-...|..||+.+. .||+
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 579999999998 3555568999999999999995443 4998
No 53
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00023 Score=51.73 Aligned_cols=46 Identities=26% Similarity=0.696 Sum_probs=35.9
Q ss_pred CccccccccccccCCccEEeccCCe-eChhhHHHHHh-cCCCCCccceecc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHI-YHSECIVPWLR-LHNSCPVCRHEVP 291 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~WL~-~~~sCPvCR~~l~ 291 (358)
+.+|.||+|.-. ..+..-|+|. .|..|-...++ .+..||+||.++.
T Consensus 7 ~dECTICye~pv---dsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPV---DSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcc---hHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 479999999865 3445569996 57888777666 7889999999874
No 54
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00078 Score=67.20 Aligned_cols=48 Identities=35% Similarity=0.965 Sum_probs=36.6
Q ss_pred Ccccccccccccc-CC-ccEEeccCCeeChhhHHHHHhcC--CCCCccceec
Q 018299 243 DTTCPVCKEEFKV-GG-EARELACKHIYHSECIVPWLRLH--NSCPVCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~~~-~~-~~~~lpC~H~FH~~CI~~WL~~~--~sCPvCR~~l 290 (358)
...|+||++.++. ++ ....+.|+|.|..+||..||... ..||.|..+-
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 5689999998864 33 34555699999999999999522 2499997643
No 55
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.78 E-value=0.0003 Score=68.43 Aligned_cols=50 Identities=26% Similarity=0.654 Sum_probs=42.5
Q ss_pred CCCccccccccccccCCccEEec-cCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 241 ANDTTCPVCKEEFKVGGEARELA-CKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
.....|.+|...|. .+.++. |-|.||..||...|+..++||+|...+-..
T Consensus 13 n~~itC~LC~GYli---DATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLI---DATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceee---cchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 34679999999998 455555 999999999999999999999999877554
No 56
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.75 E-value=0.00064 Score=68.74 Aligned_cols=53 Identities=28% Similarity=0.784 Sum_probs=45.0
Q ss_pred cCCCccccccccccccCCccEE-eccCCeeChhhHHHHHhcCCCCCccceeccCCCC
Q 018299 240 LANDTTCPVCKEEFKVGGEARE-LACKHIYHSECIVPWLRLHNSCPVCRHEVPVSSA 295 (358)
Q Consensus 240 ~~~~~~C~ICle~~~~~~~~~~-lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~ 295 (358)
+.++..|+||...+. .+.. ..|+|.||..||..|+..+..||.|+..+.....
T Consensus 18 ~~~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 18 LDENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred CcccccCcccccccc---CCCCCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence 456789999999998 5555 5899999999999999999999999988765443
No 57
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.35 E-value=0.0033 Score=59.95 Aligned_cols=49 Identities=35% Similarity=0.693 Sum_probs=38.9
Q ss_pred CCCccccccccccccCCccEEe-ccCCeeChhhHHHHHhcC--CCCCccceeccC
Q 018299 241 ANDTTCPVCKEEFKVGGEAREL-ACKHIYHSECIVPWLRLH--NSCPVCRHEVPV 292 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~WL~~~--~sCPvCR~~l~~ 292 (358)
..+.+|++|-+.-. .+.++ +|+|+||..||..=+... .+||.|-.++..
T Consensus 237 t~~~~C~~Cg~~Pt---iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 237 TSDTECPVCGEPPT---IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred cCCceeeccCCCCC---CCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 45789999998866 44444 599999999999977654 579999887764
No 58
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.0013 Score=58.03 Aligned_cols=40 Identities=28% Similarity=0.670 Sum_probs=31.2
Q ss_pred CceeeeccccC-CCccccccccccccCCccEEeccCCeeCh
Q 018299 231 PTVKIMESHLA-NDTTCPVCKEEFKVGGEARELACKHIYHS 270 (358)
Q Consensus 231 p~~~~~~~~~~-~~~~C~ICle~~~~~~~~~~lpC~H~FH~ 270 (358)
|.+.|....+. ..-+|.||||+++.+++...|||-.+||+
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 33444444443 34699999999999999999999999996
No 59
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.15 E-value=0.0015 Score=59.50 Aligned_cols=46 Identities=22% Similarity=0.565 Sum_probs=41.3
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceecc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
...|.||..+|+ .++.+.|+|.||..|...-.+....|-+|-+...
T Consensus 196 PF~C~iCKkdy~---spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDYE---SPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred ceeehhchhhcc---chhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 468999999999 8889999999999999999999999999977553
No 60
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.98 E-value=0.002 Score=64.03 Aligned_cols=48 Identities=31% Similarity=0.743 Sum_probs=39.4
Q ss_pred CccccccccccccCC-ccEEeccCCeeChhhHHHHHhcCC--CCCccceec
Q 018299 243 DTTCPVCKEEFKVGG-EARELACKHIYHSECIVPWLRLHN--SCPVCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~WL~~~~--sCPvCR~~l 290 (358)
+..|-.|-+.+...+ ..--|||.|+||..|+...|+.+. +||-||+-.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 578999999886543 566789999999999999998754 699999533
No 61
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0055 Score=60.32 Aligned_cols=48 Identities=27% Similarity=0.474 Sum_probs=43.2
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
++..|+||+..-. .++..||+|.-|+.||.+-|-..+.|=.|+..+..
T Consensus 421 Ed~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 421 EDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred ccccCcceecccc---hhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 5789999988766 78889999999999999999999999999998764
No 62
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.88 E-value=0.0053 Score=63.19 Aligned_cols=82 Identities=20% Similarity=0.425 Sum_probs=55.2
Q ss_pred hHHHHHHHHHhcCCCCCCCCCHHHHHhCCceeeeccccCCCccccccccccccCCccEEeccCCeeChhhHHHHHhc---
Q 018299 203 GMQQLIEEITQNDRPGPPPVPEAAIQAIPTVKIMESHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL--- 279 (358)
Q Consensus 203 ~l~~li~~l~~~~~~~~ppas~~~i~~lp~~~~~~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~--- 279 (358)
.+.+||..|.|....+--. ..++...++.. -....+|-+|-+.-+ ..+...|.|.||..||..++..
T Consensus 503 nIF~LitRmRQ~aDHP~LV-l~S~~~n~~~e------nk~~~~C~lc~d~ae---d~i~s~ChH~FCrlCi~eyv~~f~~ 572 (791)
T KOG1002|consen 503 NIFTLITRMRQAADHPDLV-LYSANANLPDE------NKGEVECGLCHDPAE---DYIESSCHHKFCRLCIKEYVESFME 572 (791)
T ss_pred HHHHHHHHHHHhccCccee-eehhhcCCCcc------ccCceeecccCChhh---hhHhhhhhHHHHHHHHHHHHHhhhc
Confidence 3667888876654332211 11122222221 124579999999877 7888999999999999998864
Q ss_pred --CCCCCccceeccCCC
Q 018299 280 --HNSCPVCRHEVPVSS 294 (358)
Q Consensus 280 --~~sCPvCR~~l~~~~ 294 (358)
+-+||+|-..|..+.
T Consensus 573 ~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 573 NNNVTCPVCHIGLSIDL 589 (791)
T ss_pred ccCCCCccccccccccc
Confidence 336999998887653
No 63
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.88 E-value=0.0058 Score=43.28 Aligned_cols=40 Identities=28% Similarity=0.744 Sum_probs=27.4
Q ss_pred ccccccccccCCccEEecc--CC---eeChhhHHHHHhc--CCCCCcc
Q 018299 246 CPVCKEEFKVGGEARELAC--KH---IYHSECIVPWLRL--HNSCPVC 286 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lpC--~H---~FH~~CI~~WL~~--~~sCPvC 286 (358)
|-||++.-...+ ....|| +- ..|..|+..|+.. ..+|++|
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 779999877554 566775 44 7899999999985 3469887
No 64
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.73 E-value=0.007 Score=59.03 Aligned_cols=46 Identities=22% Similarity=0.523 Sum_probs=37.7
Q ss_pred CCccccccccccccCCccEEec-cCCeeChhhHHHHHhcCCCCCccceec
Q 018299 242 NDTTCPVCKEEFKVGGEARELA-CKHIYHSECIVPWLRLHNSCPVCRHEV 290 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR~~l 290 (358)
....|+||+.... .+..+. -|-+||..||...+..++.|||--.+.
T Consensus 299 ~~~~CpvClk~r~---Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQ---NPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccC---CCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 4679999999877 344444 699999999999999999999976654
No 65
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.71 E-value=0.0061 Score=68.67 Aligned_cols=51 Identities=31% Similarity=0.686 Sum_probs=42.1
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhcCC----------CCCccceeccC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN----------SCPVCRHEVPV 292 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~----------sCPvCR~~l~~ 292 (358)
.++.|.||..+--.....++|.|+|+||..|....|+..- +||+|+.++..
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 4689999998876666889999999999999998887532 59999988754
No 66
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.47 E-value=0.0084 Score=60.11 Aligned_cols=47 Identities=21% Similarity=0.472 Sum_probs=38.6
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC--------CCCcccee
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN--------SCPVCRHE 289 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~--------sCPvCR~~ 289 (358)
...|.||+++..-....+.+||.|+||..|+..++..+. .||-|...
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 579999999987557888999999999999999987533 38876553
No 67
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.39 E-value=0.0099 Score=55.26 Aligned_cols=51 Identities=24% Similarity=0.650 Sum_probs=41.4
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhcC--------CCCCccceeccCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLH--------NSCPVCRHEVPVS 293 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~--------~sCPvCR~~l~~~ 293 (358)
....|..|.-.+..++. +.|.|-|+||.+|+..|-..- ..||.|..++...
T Consensus 49 Y~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 35789999999987764 578899999999999998541 2499999998554
No 68
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.24 E-value=0.012 Score=58.21 Aligned_cols=44 Identities=32% Similarity=0.668 Sum_probs=34.0
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceecc
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
....|.||+++.+ ..+.+||||.-| |+.--.. -.+||+||..+.
T Consensus 304 ~p~lcVVcl~e~~---~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPK---SAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCcc---ceeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 3578999999998 689999999976 6555322 234999998763
No 69
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.11 E-value=0.012 Score=63.53 Aligned_cols=49 Identities=29% Similarity=0.767 Sum_probs=36.6
Q ss_pred CCccccccccccccCCccEEe-ccCCeeChhhHHHHHhcCC-------CCCccceec
Q 018299 242 NDTTCPVCKEEFKVGGEAREL-ACKHIYHSECIVPWLRLHN-------SCPVCRHEV 290 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~WL~~~~-------sCPvCR~~l 290 (358)
...+|.||++.+.....+-.- .|-|+||..||..|-+... .||.|....
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 357999999998854433222 3999999999999987522 399998543
No 70
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.02 E-value=0.0081 Score=57.88 Aligned_cols=46 Identities=20% Similarity=0.484 Sum_probs=41.7
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
..|-||...|. .++.+.|+|.||..|-..-++....|.+|-+....
T Consensus 242 f~c~icr~~f~---~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFY---RPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred ccccccccccc---cchhhcCCceeehhhhccccccCCcceeccccccc
Confidence 57999999999 88999999999999999998888999999887644
No 71
>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=95.01 E-value=0.0083 Score=51.70 Aligned_cols=39 Identities=15% Similarity=0.447 Sum_probs=31.3
Q ss_pred CccccccccccccCCccEEeccC------CeeChhhHHHHHhcCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACK------HIYHSECIVPWLRLHN 281 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~------H~FH~~CI~~WL~~~~ 281 (358)
..+|.||++.+...+.++.++|+ |.||.+|+..|-+.++
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~ 70 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN 70 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence 46999999999875567777776 8999999999944333
No 72
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.94 E-value=0.043 Score=52.48 Aligned_cols=93 Identities=15% Similarity=0.337 Sum_probs=60.6
Q ss_pred HHHHHHHHHhcCCCCCCCCC---HHHHHhCCceeeeccc------------cCCCccccccccccccCCccEEe-ccCCe
Q 018299 204 MQQLIEEITQNDRPGPPPVP---EAAIQAIPTVKIMESH------------LANDTTCPVCKEEFKVGGEAREL-ACKHI 267 (358)
Q Consensus 204 l~~li~~l~~~~~~~~ppas---~~~i~~lp~~~~~~~~------------~~~~~~C~ICle~~~~~~~~~~l-pC~H~ 267 (358)
.+.+|+.|......+..+.. ...++.|-.++++... ......|||...+|......+.| +|||+
T Consensus 59 Keaile~Ll~~~~~~~~~~~~~hI~~LKDl~~l~~~~n~~~~~~~~~~~~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V 138 (260)
T PF04641_consen 59 KEAILEFLLDKKKNKDLPKTFSHIKSLKDLVELKFTKNPSYKEEDKSSGDNSEGRFICPVTGKEFNGKHKFVYLRPCGCV 138 (260)
T ss_pred HHHHHHHHHhcCcCCCCccccccccCccceeeEEeEecCccccccccccccCCceeECCCCCcccCCceeEEEEcCCCCE
Confidence 67888888765432222222 2234555555555432 23357999999999644444444 79999
Q ss_pred eChhhHHHHHhcCCCCCccceeccCCCCCC
Q 018299 268 YHSECIVPWLRLHNSCPVCRHEVPVSSASS 297 (358)
Q Consensus 268 FH~~CI~~WL~~~~sCPvCR~~l~~~~~~~ 297 (358)
|...+|... .....||+|-.++...+...
T Consensus 139 ~s~~alke~-k~~~~Cp~c~~~f~~~DiI~ 167 (260)
T PF04641_consen 139 FSEKALKEL-KKSKKCPVCGKPFTEEDIIP 167 (260)
T ss_pred eeHHHHHhh-cccccccccCCccccCCEEE
Confidence 999999997 33557999999987554433
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.91 E-value=0.013 Score=41.72 Aligned_cols=44 Identities=27% Similarity=0.590 Sum_probs=22.1
Q ss_pred ccccccccccCCccEEec--cCCeeChhhHHHHHh-cCCCCCccceec
Q 018299 246 CPVCKEEFKVGGEARELA--CKHIYHSECIVPWLR-LHNSCPVCRHEV 290 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lp--C~H~FH~~CI~~WL~-~~~sCPvCR~~l 290 (358)
|++|.+++... ....+| |++.++..|...-++ ....||-||.+.
T Consensus 1 cp~C~e~~d~~-d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDET-DKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CC-CTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccC-CCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78999998433 334455 899999999888876 467899999864
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.88 E-value=0.03 Score=52.81 Aligned_cols=54 Identities=19% Similarity=0.319 Sum_probs=46.2
Q ss_pred CccccccccccccCCccEEe-ccCCeeChhhHHHHHhcCCCCCccceeccCCCCC
Q 018299 243 DTTCPVCKEEFKVGGEAREL-ACKHIYHSECIVPWLRLHNSCPVCRHEVPVSSAS 296 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~~ 296 (358)
...|+||.+.+........| ||+|+|+.+|+.+.++....||+|-.++...+..
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII 275 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence 46899999999877766666 5999999999999999999999999988766543
No 75
>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=94.85 E-value=0.014 Score=47.35 Aligned_cols=33 Identities=27% Similarity=0.615 Sum_probs=27.8
Q ss_pred CCCccccccccccccCCccEEeccCCeeChhhHH
Q 018299 241 ANDTTCPVCKEEFKVGGEARELACKHIYHSECIV 274 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~ 274 (358)
.++..|+||...+.. ......||+|+||..|+.
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 456789999999875 567788999999999974
No 76
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.74 E-value=0.015 Score=52.24 Aligned_cols=52 Identities=23% Similarity=0.585 Sum_probs=38.0
Q ss_pred CccccccccccccCCcc----EEeccCCeeChhhHHHHHhcCC-----------CCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKVGGEA----RELACKHIYHSECIVPWLRLHN-----------SCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~----~~lpC~H~FH~~CI~~WL~~~~-----------sCPvCR~~l~~~~ 294 (358)
...|-||+..--.|..+ --..|+..||.-|+..||+.-- .||+|..++..+.
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 35799998765554433 2335999999999999997421 2999999886654
No 77
>PHA02862 5L protein; Provisional
Probab=94.46 E-value=0.024 Score=49.36 Aligned_cols=47 Identities=17% Similarity=0.651 Sum_probs=35.5
Q ss_pred CccccccccccccCCccEEeccC-----CeeChhhHHHHHhcCC--CCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACK-----HIYHSECIVPWLRLHN--SCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~-----H~FH~~CI~~WL~~~~--sCPvCR~~l~~~ 293 (358)
+..|-||+++-++ . .-||. ...|..|+..|++... +|++|+.+...+
T Consensus 2 ~diCWIC~~~~~e--~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDE--R--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCC--C--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 4689999998542 2 35654 6889999999997543 599999988554
No 78
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.33 E-value=0.01 Score=57.04 Aligned_cols=42 Identities=26% Similarity=0.721 Sum_probs=33.4
Q ss_pred CccccccccccccCCccEEeccCCee-ChhhHHHHHhcCCCCCccceecc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIY-HSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~F-H~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
..-|+||++.-. ....|+|||.. |..|-... +.||+||+.+.
T Consensus 300 ~~LC~ICmDaP~---DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPR---DCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCc---ceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 568999999887 88999999964 66675443 47999998764
No 79
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.89 E-value=0.044 Score=48.55 Aligned_cols=49 Identities=29% Similarity=0.737 Sum_probs=36.2
Q ss_pred CCCccccccccccccCCccEEeccC--C---eeChhhHHHHHhcCC--CCCccceeccCC
Q 018299 241 ANDTTCPVCKEEFKVGGEARELACK--H---IYHSECIVPWLRLHN--SCPVCRHEVPVS 293 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lpC~--H---~FH~~CI~~WL~~~~--sCPvCR~~l~~~ 293 (358)
..+..|-||.++.. + ..-||. . ..|..|+..|+.... +|++|+++....
T Consensus 6 ~~~~~CRIC~~~~~--~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYD--V--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCC--C--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 34789999998843 2 234654 4 569999999998654 599999987553
No 80
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.87 E-value=0.0048 Score=61.34 Aligned_cols=51 Identities=29% Similarity=0.666 Sum_probs=44.4
Q ss_pred CccccccccccccC-CccEEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVG-GEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~-~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
...|+||.+.++.. ++...+-|+|.+|.+||.+||.....||.|+.+|+..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 36899999988755 5777888999999999999999988999999998654
No 81
>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=93.81 E-value=0.023 Score=39.56 Aligned_cols=41 Identities=29% Similarity=0.783 Sum_probs=23.9
Q ss_pred ccccccccccCCccEEeccCCeeChhhHHHHHhcCC--CCCcc
Q 018299 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN--SCPVC 286 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~--sCPvC 286 (358)
|.+|.+.+..|..-..-.|.-.+|..|+..+++... .||.|
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 778888887554333334999999999999998766 69987
No 82
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.19 E-value=0.054 Score=52.41 Aligned_cols=43 Identities=28% Similarity=0.692 Sum_probs=35.5
Q ss_pred CccccccccccccCCccEEec-cCCeeChhhHHHHHh-cCCCCCccce
Q 018299 243 DTTCPVCKEEFKVGGEARELA-CKHIYHSECIVPWLR-LHNSCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~WL~-~~~sCPvCR~ 288 (358)
...|+.|..-+. .+..++ |+|.||..||..-|. ....||.|..
T Consensus 274 ~LkCplc~~Llr---np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLR---NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhh---CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 479999998887 566666 999999999997665 5668999976
No 83
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.08 E-value=0.061 Score=39.38 Aligned_cols=46 Identities=22% Similarity=0.496 Sum_probs=34.1
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
...|..|...-. +...+||+|+.+..|..-+ .-+.||+|-+++...
T Consensus 7 ~~~~~~~~~~~~---~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGFVGT---KGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred ceeEEEcccccc---ccccccccceeeccccChh--hccCCCCCCCcccCC
Confidence 345666655433 6789999999999997653 667899999887543
No 84
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.42 E-value=0.043 Score=51.62 Aligned_cols=45 Identities=20% Similarity=0.563 Sum_probs=34.8
Q ss_pred cccccccccccCCccEEeccCCeeChhhHHHHHhcCC-CCCccceeccCC
Q 018299 245 TCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN-SCPVCRHEVPVS 293 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~-sCPvCR~~l~~~ 293 (358)
.|-.|.-.-. ++....+.|.|+||..|... .+. .||+|++.+...
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~---~~~~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKA---SSPDVCPLCKKSIRII 50 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhccc---CCccccccccceeeee
Confidence 6777766544 66778888999999999766 233 799999987554
No 85
>PHA03096 p28-like protein; Provisional
Probab=92.04 E-value=0.065 Score=52.02 Aligned_cols=36 Identities=28% Similarity=0.494 Sum_probs=28.0
Q ss_pred ccccccccccccCC----ccEEec-cCCeeChhhHHHHHhc
Q 018299 244 TTCPVCKEEFKVGG----EARELA-CKHIYHSECIVPWLRL 279 (358)
Q Consensus 244 ~~C~ICle~~~~~~----~~~~lp-C~H~FH~~CI~~WL~~ 279 (358)
..|.||++...... .-..|+ |.|.||..||..|-..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence 58999999776432 334555 9999999999999865
No 86
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.97 E-value=0.1 Score=50.41 Aligned_cols=48 Identities=27% Similarity=0.644 Sum_probs=40.0
Q ss_pred CccccccccccccCC---ccEEeccCCeeChhhHHHHHhcCC-CCCccceec
Q 018299 243 DTTCPVCKEEFKVGG---EARELACKHIYHSECIVPWLRLHN-SCPVCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~~~~~---~~~~lpC~H~FH~~CI~~WL~~~~-sCPvCR~~l 290 (358)
-..|-||-++|...+ .++.|.|+|.|+..|+.+.+.... .||.||...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 358999999997653 577888999999999999887654 599999985
No 87
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.49 E-value=0.14 Score=50.53 Aligned_cols=47 Identities=26% Similarity=0.684 Sum_probs=39.0
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHH--HhcCCCCCccceecc
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPW--LRLHNSCPVCRHEVP 291 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~W--L~~~~sCPvCR~~l~ 291 (358)
+...|.||.+.+. -...+||+|..|.-|-... |-....||+||.+..
T Consensus 60 en~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 60 ENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 4578999999988 7889999999999997764 445778999998763
No 88
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=90.79 E-value=0.22 Score=44.16 Aligned_cols=34 Identities=35% Similarity=0.747 Sum_probs=23.9
Q ss_pred CCccccccccccccCCccEEec------------cCC-eeChhhHHHHHh
Q 018299 242 NDTTCPVCKEEFKVGGEARELA------------CKH-IYHSECIVPWLR 278 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lp------------C~H-~FH~~CI~~WL~ 278 (358)
++..|+||||.-. .++.|- |+. .-|..|++++-+
T Consensus 1 ed~~CpICme~PH---NAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPH---NAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCC---ceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 3678999999876 556663 333 347789998853
No 89
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=90.54 E-value=0.1 Score=37.05 Aligned_cols=44 Identities=25% Similarity=0.642 Sum_probs=25.9
Q ss_pred cccccccccccCCccEEecc-CCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 245 TCPVCKEEFKVGGEARELAC-KHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC-~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
.|.-|+-..+ ....| .|..|..|+...|.....||+|.++||.+
T Consensus 4 nCKsCWf~~k-----~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFANK-----GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S--S-----SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcCC-----CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 4666665533 34456 49999999999999999999999999874
No 90
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.37 E-value=0.11 Score=56.39 Aligned_cols=43 Identities=26% Similarity=0.743 Sum_probs=34.6
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceec
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 290 (358)
...|..|--.++. +.+...|+|.||.+|+. .....||-|+.++
T Consensus 840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 3689999887763 56777899999999998 4556799998844
No 91
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.37 E-value=0.25 Score=49.62 Aligned_cols=49 Identities=24% Similarity=0.451 Sum_probs=42.2
Q ss_pred CCCccccccccccccCCccEEeccCCeeChhhHHHHHhcCC---CCCcccee
Q 018299 241 ANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN---SCPVCRHE 289 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~---sCPvCR~~ 289 (358)
.....|||=.+.-.+.+.++.|.|||+...+-|.+..+... .||+|=.+
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 34579999999998889999999999999999999887655 59999543
No 92
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.05 E-value=0.14 Score=49.34 Aligned_cols=46 Identities=33% Similarity=0.754 Sum_probs=38.7
Q ss_pred CccccccccccccCC-ccEEeccCCeeChhhHHHHHhcCCCCCccce
Q 018299 243 DTTCPVCKEEFKVGG-EARELACKHIYHSECIVPWLRLHNSCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 288 (358)
...|+||.+.+.... .+..++|+|.-|..|.......+-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 345999999876554 6778899999999999998888888999988
No 93
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.82 E-value=0.13 Score=50.08 Aligned_cols=42 Identities=29% Similarity=0.738 Sum_probs=29.8
Q ss_pred cccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceec
Q 018299 245 TCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 290 (358)
.|.-|--.+.. --+.+||+|+||.+|-.. ...+.||.|-..|
T Consensus 92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 56667554441 346779999999999654 3456899997655
No 94
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=89.41 E-value=0.15 Score=57.68 Aligned_cols=44 Identities=23% Similarity=0.680 Sum_probs=38.2
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccce
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 288 (358)
...|.||++.+. ....+..|+|.+|..|+..|+..+..||+|+.
T Consensus 1153 ~~~c~ic~dil~--~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILR--NQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHH--hcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 459999999987 24456679999999999999999999999974
No 95
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=89.40 E-value=0.41 Score=33.41 Aligned_cols=34 Identities=24% Similarity=0.582 Sum_probs=26.9
Q ss_pred CeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 30 PLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
..|=|-.|...+.+..... .+.||+|++-++...
T Consensus 2 ~~y~C~~CG~~~~~~~~~~-~~~Cp~CG~~~~~~~ 35 (46)
T PRK00398 2 AEYKCARCGREVELDEYGT-GVRCPYCGYRILFKE 35 (46)
T ss_pred CEEECCCCCCEEEECCCCC-ceECCCCCCeEEEcc
Confidence 4688999999998765432 689999999888543
No 96
>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=89.28 E-value=0.6 Score=46.78 Aligned_cols=30 Identities=27% Similarity=0.876 Sum_probs=23.6
Q ss_pred cCCeeChhhHHHHHhcCC-------------CCCccceeccCC
Q 018299 264 CKHIYHSECIVPWLRLHN-------------SCPVCRHEVPVS 293 (358)
Q Consensus 264 C~H~FH~~CI~~WL~~~~-------------sCPvCR~~l~~~ 293 (358)
|...+|.+|+-+|+..+. .||+||+.+...
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 667789999999985432 499999987654
No 97
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=89.26 E-value=0.26 Score=41.54 Aligned_cols=36 Identities=22% Similarity=0.609 Sum_probs=27.7
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEcc
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIEI 66 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~~ 66 (358)
-....||..|++.+.... .+..||.|++..+.-+..
T Consensus 67 ~p~~~~C~~C~~~~~~e~---~~~~CP~C~s~~~~i~~G 102 (115)
T COG0375 67 EPAECWCLDCGQEVELEE---LDYRCPKCGSINLRIIGG 102 (115)
T ss_pred eccEEEeccCCCeecchh---heeECCCCCCCceEEecC
Confidence 357899999999887443 346899999998876653
No 98
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=89.12 E-value=0.15 Score=55.23 Aligned_cols=49 Identities=20% Similarity=0.527 Sum_probs=40.5
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhcCC--CCCccceeccCCCCC
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN--SCPVCRHEVPVSSAS 296 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~--sCPvCR~~l~~~~~~ 296 (358)
..|.||++ . +.+...+|+|.||..|+..-++... .||+||..+..+...
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 79999999 3 3788889999999999999987643 499999988665443
No 99
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=88.14 E-value=0.42 Score=34.93 Aligned_cols=33 Identities=33% Similarity=0.771 Sum_probs=29.0
Q ss_pred CccccccccccccCCccEEec-cCCeeChhhHHH
Q 018299 243 DTTCPVCKEEFKVGGEARELA-CKHIYHSECIVP 275 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~ 275 (358)
...|.+|-+.|+.++.+++-| |+-.||..|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 568999999999888888888 999999999544
No 100
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.01 E-value=0.88 Score=44.14 Aligned_cols=100 Identities=20% Similarity=0.436 Sum_probs=52.0
Q ss_pred CCCCCCCCccccchhHHHHHHHHHhcCCCCCCCCCHHHHHhC---CceeeeccccCCCccccccc-ccc--ccCCccEEe
Q 018299 189 LPPGVNPRDYFLGQGMQQLIEEITQNDRPGPPPVPEAAIQAI---PTVKIMESHLANDTTCPVCK-EEF--KVGGEAREL 262 (358)
Q Consensus 189 ~~~~~~~~d~~~~~~l~~li~~l~~~~~~~~ppas~~~i~~l---p~~~~~~~~~~~~~~C~ICl-e~~--~~~~~~~~l 262 (358)
+|+.+++.--|+..-.+..+++++++.-.....+++.-..-. +.+|+ +..|.-=- ..+ ..|....-.
T Consensus 251 vp~~i~~~~~~~~~~~~~f~~~ia~n~v~~~~~~sekcfac~~~e~~~ki-------~~~c~~~~~~~~~~~~ga~c~nc 323 (381)
T KOG3899|consen 251 VPPHINVPLTFMEELKEDFIQRIASNTVTHRVKASEKCFACGTEENMVKI-------ERSCDGQEQRVFFHDIGAPCENC 323 (381)
T ss_pred cCCcccccHHHHHHHHHHHHHHHhcCCCCcccchhhhhHhhccCCCchhh-------hhcccchhhcccccccCCccccc
Confidence 466666665566666677777777776433333333322221 11111 22231000 000 011111112
Q ss_pred ccCCeeChhhHHHHHh-------------cCCCCCccceeccCCCC
Q 018299 263 ACKHIYHSECIVPWLR-------------LHNSCPVCRHEVPVSSA 295 (358)
Q Consensus 263 pC~H~FH~~CI~~WL~-------------~~~sCPvCR~~l~~~~~ 295 (358)
-|...+|..|+..|+. .+-+||+||+.+...+.
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 2677889999999873 34469999999876543
No 101
>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=86.43 E-value=0.72 Score=30.10 Aligned_cols=29 Identities=28% Similarity=0.773 Sum_probs=22.0
Q ss_pred eeeeccCcceeecCCCCCCccCCCCCCCceE
Q 018299 32 YWCYQCHRAVRISSTNPSEIACPRCSGHFVS 62 (358)
Q Consensus 32 YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvE 62 (358)
|-|-.|...|.+...+ .|.||+|+...+.
T Consensus 1 Y~C~~Cg~~~~~~~~~--~irC~~CG~RIly 29 (32)
T PF03604_consen 1 YICGECGAEVELKPGD--PIRCPECGHRILY 29 (32)
T ss_dssp EBESSSSSSE-BSTSS--TSSBSSSS-SEEB
T ss_pred CCCCcCCCeeEcCCCC--cEECCcCCCeEEE
Confidence 7799999999987665 4899999986553
No 102
>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=86.19 E-value=0.63 Score=39.12 Aligned_cols=34 Identities=21% Similarity=0.408 Sum_probs=25.7
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
.....||..|...+.+... ...||.|++..++-+
T Consensus 67 ~p~~~~C~~Cg~~~~~~~~---~~~CP~Cgs~~~~i~ 100 (115)
T TIGR00100 67 EPVECECEDCSEEVSPEID---LYRCPKCHGIMLQVR 100 (115)
T ss_pred eCcEEEcccCCCEEecCCc---CccCcCCcCCCcEEe
Confidence 4678999999987775432 368999999876544
No 103
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=86.01 E-value=0.48 Score=40.85 Aligned_cols=49 Identities=31% Similarity=0.581 Sum_probs=37.9
Q ss_pred CccccccccccccCCccEEe-c---cCCeeChhhHHHHHhc---CCCCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKVGGEAREL-A---CKHIYHSECIVPWLRL---HNSCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l-p---C~H~FH~~CI~~WL~~---~~sCPvCR~~l~~~~ 294 (358)
-.+|.||.|... +.+.| | ||-..|.-|-...++. +..||+|+..++...
T Consensus 80 lYeCnIC~etS~---ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 80 LYECNICKETSA---EERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred ceeccCcccccc---hhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 579999999876 44455 3 9999999988877765 456999999886543
No 104
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=84.89 E-value=0.73 Score=39.87 Aligned_cols=35 Identities=14% Similarity=0.426 Sum_probs=24.8
Q ss_pred CCCeeeeeccCcceeecC--C----------------CCCCccCCCCCCCceE
Q 018299 28 NYPLYWCYQCHRAVRISS--T----------------NPSEIACPRCSGHFVS 62 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~--~----------------~~~ei~CP~C~~gFvE 62 (358)
....|||..|...+.+.. . ......||.|++.-++
T Consensus 67 ~p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~ 119 (135)
T PRK03824 67 EEAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFE 119 (135)
T ss_pred cceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcE
Confidence 458899999998877641 0 0123579999987655
No 105
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=84.81 E-value=0.82 Score=38.39 Aligned_cols=35 Identities=23% Similarity=0.698 Sum_probs=25.0
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
.....||..|...+.+.... -..||.|++..++-+
T Consensus 67 ~p~~~~C~~Cg~~~~~~~~~--~~~CP~Cgs~~~~i~ 101 (114)
T PRK03681 67 QEAECWCETCQQYVTLLTQR--VRRCPQCHGDMLRIV 101 (114)
T ss_pred eCcEEEcccCCCeeecCCcc--CCcCcCcCCCCcEEc
Confidence 47899999999877643221 256999998765543
No 106
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=84.56 E-value=0.86 Score=38.21 Aligned_cols=34 Identities=26% Similarity=0.762 Sum_probs=25.0
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
....+||..|.....+... ...||.|++.-++-+
T Consensus 67 vp~~~~C~~Cg~~~~~~~~---~~~CP~Cgs~~~~i~ 100 (113)
T PRK12380 67 KPAQAWCWDCSQVVEIHQH---DAQCPHCHGERLRVD 100 (113)
T ss_pred eCcEEEcccCCCEEecCCc---CccCcCCCCCCcEEc
Confidence 4688999999987765432 357999998765543
No 107
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=83.48 E-value=0.6 Score=42.28 Aligned_cols=35 Identities=20% Similarity=0.593 Sum_probs=26.5
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceE
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVS 62 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvE 62 (358)
+...|.|-.|.+.+...--...++.||.|++-+++
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhhcCCcCCCCCCCCee
Confidence 34789999999877753222347999999998877
No 108
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=83.34 E-value=0.67 Score=50.43 Aligned_cols=55 Identities=22% Similarity=0.596 Sum_probs=41.5
Q ss_pred CCccccccccccccCCccEEeccC-----CeeChhhHHHHHhcCC--CCCccceeccCCCCCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACK-----HIYHSECIVPWLRLHN--SCPVCRHEVPVSSASS 297 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~-----H~FH~~CI~~WL~~~~--sCPvCR~~l~~~~~~~ 297 (358)
++..|-||..+-..++ +..-||+ ...|..|+..|+.-.. .|-+|..++.-++-..
T Consensus 11 d~~~CRICr~e~~~d~-pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~ 72 (1175)
T COG5183 11 DKRSCRICRTEDIRDD-PLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK 72 (1175)
T ss_pred cchhceeecCCCCCCC-cCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence 4689999998866444 4455776 4589999999998654 4999999987765433
No 109
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.29 E-value=0.51 Score=51.78 Aligned_cols=38 Identities=18% Similarity=0.586 Sum_probs=30.5
Q ss_pred ccCCCccccccccccccCCccEEeccCCeeChhhHHHHH
Q 018299 239 HLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWL 277 (358)
Q Consensus 239 ~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL 277 (358)
.++..+.|.+|...+-. ..-...||+|.||.+||..-.
T Consensus 813 v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 34567899999887763 366777999999999998875
No 110
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=83.17 E-value=0.7 Score=45.66 Aligned_cols=53 Identities=21% Similarity=0.505 Sum_probs=37.1
Q ss_pred CCccccccccccccCCcc-EEeccCCeeChhhHHHHHh-cCCCCCccceeccCCC
Q 018299 242 NDTTCPVCKEEFKVGGEA-RELACKHIYHSECIVPWLR-LHNSCPVCRHEVPVSS 294 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~-~~lpC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~~~ 294 (358)
+++.|+.|++.+...++- .-.+||-..|.-|...--+ .+..||-||.......
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 456699999999876643 3346888888888655433 3557999999775443
No 111
>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=83.09 E-value=0.67 Score=28.76 Aligned_cols=23 Identities=35% Similarity=0.745 Sum_probs=17.9
Q ss_pred eeccCcceeecCCCCCCccCCCCCCCce
Q 018299 34 CYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
|-.|...|.+.. .+||+|+-.|.
T Consensus 3 CP~C~~~V~~~~-----~~Cp~CG~~F~ 25 (26)
T PF10571_consen 3 CPECGAEVPESA-----KFCPHCGYDFE 25 (26)
T ss_pred CCCCcCCchhhc-----CcCCCCCCCCc
Confidence 778999886433 59999998874
No 112
>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=82.69 E-value=0.69 Score=38.71 Aligned_cols=34 Identities=24% Similarity=0.461 Sum_probs=22.6
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
.....||..|.....+... ...||.|++..++-+
T Consensus 67 ~p~~~~C~~Cg~~~~~~~~---~~~CP~Cgs~~~~i~ 100 (113)
T PF01155_consen 67 VPARARCRDCGHEFEPDEF---DFSCPRCGSPDVEII 100 (113)
T ss_dssp E--EEEETTTS-EEECHHC---CHH-SSSSSS-EEEE
T ss_pred cCCcEECCCCCCEEecCCC---CCCCcCCcCCCcEEc
Confidence 3678999999998875543 378999999977544
No 113
>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=82.37 E-value=0.96 Score=43.80 Aligned_cols=48 Identities=23% Similarity=0.571 Sum_probs=36.3
Q ss_pred cccccccccccCCccEEe--ccCCeeChhhHHHHHhcCC-CCCccceeccC
Q 018299 245 TCPVCKEEFKVGGEAREL--ACKHIYHSECIVPWLRLHN-SCPVCRHEVPV 292 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~l--pC~H~FH~~CI~~WL~~~~-sCPvCR~~l~~ 292 (358)
.|++|..+....-.++.| +|+|..|..|+..-+.... .||.|-..|-.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence 599998866544444443 6999999999999887654 69999876644
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=82.31 E-value=0.32 Score=52.24 Aligned_cols=47 Identities=28% Similarity=0.734 Sum_probs=39.3
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC---CCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN---SCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~---sCPvCR~~l~~ 292 (358)
..+|+||+..+. ....+.|.|.|+..|+..-|...+ .||+|+..+..
T Consensus 21 ~lEc~ic~~~~~---~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVK---EPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEee---ccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 679999999998 557888999999999998887655 49999965543
No 115
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=81.80 E-value=0.99 Score=44.23 Aligned_cols=44 Identities=27% Similarity=0.591 Sum_probs=33.7
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceecc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
-.+|+||.+.+.. ...+-.=||+-|..|-. +..+.||.||.++.
T Consensus 48 lleCPvC~~~l~~--Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 48 LLDCPVCFNPLSP--PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hccCchhhccCcc--cceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 4799999999882 22333347999999876 46788999999886
No 116
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=81.67 E-value=1.3 Score=30.91 Aligned_cols=33 Identities=24% Similarity=0.590 Sum_probs=26.8
Q ss_pred eeeeeccCcceeecCCCCCCccCCCCCCCceEEEc
Q 018299 31 LYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIE 65 (358)
Q Consensus 31 ~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~ 65 (358)
.|=|-.|...|.+... ..+.||+|+...+...-
T Consensus 2 ~Y~C~~Cg~~~~~~~~--~~irC~~CG~rIlyK~R 34 (44)
T smart00659 2 IYICGECGRENEIKSK--DVVRCRECGYRILYKKR 34 (44)
T ss_pred EEECCCCCCEeecCCC--CceECCCCCceEEEEeC
Confidence 4889999999997743 35999999998886654
No 117
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.33 E-value=0.45 Score=50.52 Aligned_cols=43 Identities=28% Similarity=0.598 Sum_probs=33.1
Q ss_pred CccccccccccccCC-ccEEeccCCeeChhhHHHHHhcCCCCCccce
Q 018299 243 DTTCPVCKEEFKVGG-EARELACKHIYHSECIVPWLRLHNSCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 288 (358)
-..|.||+..|.... .++.|-|+|..|..|+..- .+.+|| |++
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 468999988876443 5677789999999999875 456788 554
No 118
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=80.91 E-value=1.1 Score=38.14 Aligned_cols=36 Identities=17% Similarity=0.278 Sum_probs=24.3
Q ss_pred CCCeeeeeccCcceeecCCCC--C--CccCCCCCCCceEEE
Q 018299 28 NYPLYWCYQCHRAVRISSTNP--S--EIACPRCSGHFVSEI 64 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~--~--ei~CP~C~~gFvEEi 64 (358)
-....|| .|.....+..... - -..||.|++..++-+
T Consensus 67 vp~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~ 106 (124)
T PRK00762 67 IPVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHIL 106 (124)
T ss_pred cCeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEe
Confidence 4678999 9998766532111 0 146999998876644
No 119
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=80.80 E-value=1.3 Score=37.40 Aligned_cols=35 Identities=14% Similarity=0.266 Sum_probs=24.9
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
....+||..|...+.+... ....||.|++..++-+
T Consensus 68 vp~~~~C~~Cg~~~~~~~~--~~~~CP~Cgs~~~~i~ 102 (117)
T PRK00564 68 EKVELECKDCSHVFKPNAL--DYGVCEKCHSKNVIIT 102 (117)
T ss_pred cCCEEEhhhCCCccccCCc--cCCcCcCCCCCceEEe
Confidence 4688999999976654322 1235999999877644
No 120
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=80.20 E-value=0.99 Score=48.87 Aligned_cols=28 Identities=29% Similarity=0.782 Sum_probs=24.2
Q ss_pred ccEEeccCCeeChhhHHHHHhcCCCCCc
Q 018299 258 EARELACKHIYHSECIVPWLRLHNSCPV 285 (358)
Q Consensus 258 ~~~~lpC~H~FH~~CI~~WL~~~~sCPv 285 (358)
......|+|+.|.+|...|++....||.
T Consensus 1042 s~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1042 SNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred chhhccccccccHHHHHHHHhcCCcCCC
Confidence 3445579999999999999999999986
No 121
>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=79.95 E-value=0.76 Score=40.77 Aligned_cols=37 Identities=16% Similarity=0.450 Sum_probs=26.2
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEc
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIE 65 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~ 65 (358)
+...|.|-.|...++..--...++.||.|++- +++++
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~-L~~~d 142 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAMELNFTCPRCGAM-LDYLD 142 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHHcCCcCCCCCCE-eeecc
Confidence 35789999999877653212347999999987 44454
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=79.59 E-value=1.1 Score=27.37 Aligned_cols=22 Identities=27% Similarity=0.907 Sum_probs=15.9
Q ss_pred eeccCcceeecCCC-CCCccCCCCC
Q 018299 34 CYQCHRAVRISSTN-PSEIACPRCS 57 (358)
Q Consensus 34 Ch~C~r~V~i~~~~-~~ei~CP~C~ 57 (358)
|..|++.+. +.. ...+.||.|+
T Consensus 1 C~sC~~~i~--~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIA--PREQAVPFPCPNCG 23 (24)
T ss_pred CccCCCccc--CcccCceEeCCCCC
Confidence 788987654 333 4578999996
No 123
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.42 E-value=1.1 Score=33.49 Aligned_cols=21 Identities=29% Similarity=0.691 Sum_probs=15.8
Q ss_pred eeecCCCCCCccCCCCCCCce
Q 018299 41 VRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 41 V~i~~~~~~ei~CP~C~~gFv 61 (358)
|-+...+..|++||||+.-|.
T Consensus 39 V~L~mg~~gev~CPYC~t~y~ 59 (62)
T COG4391 39 VFLDMGDEGEVVCPYCSTRYR 59 (62)
T ss_pred EEEEcCCCCcEecCccccEEE
Confidence 445555667999999998775
No 124
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=79.18 E-value=0.85 Score=34.25 Aligned_cols=28 Identities=25% Similarity=0.583 Sum_probs=19.7
Q ss_pred eeeccCcceeecCCCCCCccCCCCCCC-ceEEEc
Q 018299 33 WCYQCHRAVRISSTNPSEIACPRCSGH-FVSEIE 65 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~~ei~CP~C~~g-FvEEi~ 65 (358)
=|+.|.+-+. .+ .-+||.|++. |.||-.
T Consensus 6 AC~~Ck~l~~---~d--~e~CP~Cgs~~~te~W~ 34 (64)
T COG2093 6 ACKNCKRLTP---ED--TEICPVCGSTDLTEEWF 34 (64)
T ss_pred HHhhccccCC---CC--CccCCCCCCcccchhhc
Confidence 4899998443 22 2479999998 777753
No 125
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=78.70 E-value=1.1 Score=43.11 Aligned_cols=51 Identities=20% Similarity=0.542 Sum_probs=37.5
Q ss_pred CccccccccccccCCc-cEEeccC-----CeeChhhHHHHHhcC--CCCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVGGE-ARELACK-----HIYHSECIVPWLRLH--NSCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~-~~~lpC~-----H~FH~~CI~~WL~~~--~sCPvCR~~l~~~ 293 (358)
+..|-||.++...... ....||. +..|..|+..|+..+ ..|.+|.......
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 4789999997653322 5667764 667999999999854 4699998866443
No 126
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.65 E-value=1.1 Score=45.28 Aligned_cols=38 Identities=18% Similarity=0.526 Sum_probs=28.8
Q ss_pred Cccccccc-cccccCCccEEeccCCeeChhhHHHHHhcC
Q 018299 243 DTTCPVCK-EEFKVGGEARELACKHIYHSECIVPWLRLH 280 (358)
Q Consensus 243 ~~~C~ICl-e~~~~~~~~~~lpC~H~FH~~CI~~WL~~~ 280 (358)
..+|.||. +..........+.|+|.||.+|+...++.+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 57999999 444433444466799999999999988754
No 127
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=78.16 E-value=1.1 Score=45.77 Aligned_cols=36 Identities=28% Similarity=0.580 Sum_probs=31.2
Q ss_pred CCCccccccccccccCCccEEeccCCeeChhhHHHHHhc
Q 018299 241 ANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL 279 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~ 279 (358)
+++..|+||..-|+ ++++|||+|..|..|-..-+.+
T Consensus 2 eeelkc~vc~~f~~---epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYR---EPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhcc---CceEeecccHHHHHHHHhhccc
Confidence 35789999999999 8999999999999998876654
No 128
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=77.99 E-value=0.89 Score=42.17 Aligned_cols=46 Identities=26% Similarity=0.542 Sum_probs=36.3
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceec
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 290 (358)
-..|.+|..-... ..+.-.|+-.||..|+...++....||.|.--+
T Consensus 181 lk~Cn~Ch~LvIq--g~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQ--GIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHhHhHHHhhe--eeccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 3689999988762 233445999999999999999988999995433
No 129
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=77.96 E-value=1 Score=42.61 Aligned_cols=48 Identities=27% Similarity=0.632 Sum_probs=37.7
Q ss_pred CccccccccccccCCccEEe--c-cCCeeChhhHHHHHhcC-CCCC--ccceec
Q 018299 243 DTTCPVCKEEFKVGGEAREL--A-CKHIYHSECIVPWLRLH-NSCP--VCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l--p-C~H~FH~~CI~~WL~~~-~sCP--vCR~~l 290 (358)
+..|+||..+-.....++.| | |-|..|-.|+..-+... ..|| -|-+-|
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 66999999887665555555 5 99999999999998765 4699 686655
No 130
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=77.79 E-value=1 Score=27.05 Aligned_cols=23 Identities=22% Similarity=0.764 Sum_probs=17.0
Q ss_pred eeeccCcceeecCCCCCCccCCCCCCCc
Q 018299 33 WCYQCHRAVRISSTNPSEIACPRCSGHF 60 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~~ei~CP~C~~gF 60 (358)
+|..|...|. ....+||+|+..|
T Consensus 1 ~Cp~CG~~~~-----~~~~fC~~CG~~l 23 (23)
T PF13240_consen 1 YCPNCGAEIE-----DDAKFCPNCGTPL 23 (23)
T ss_pred CCcccCCCCC-----CcCcchhhhCCcC
Confidence 6899998775 2246999998643
No 131
>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=77.16 E-value=2.6 Score=30.10 Aligned_cols=42 Identities=24% Similarity=0.657 Sum_probs=21.7
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhcCC-----CCCccce
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN-----SCPVCRH 288 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~-----sCPvCR~ 288 (358)
..|+|....+. -.++...|.|.-|.+ +..||+... .||+|.+
T Consensus 3 L~CPls~~~i~--~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIR--IPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-S--SEEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEE--eCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 47999888877 245555699986654 556665422 4999976
No 132
>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=76.53 E-value=2.2 Score=28.43 Aligned_cols=29 Identities=24% Similarity=0.690 Sum_probs=22.2
Q ss_pred CeeeeeccCcceeecCC--CCCCccCCCCCC
Q 018299 30 PLYWCYQCHRAVRISST--NPSEIACPRCSG 58 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~--~~~ei~CP~C~~ 58 (358)
..|-|-.|...+.+... +...+.||.|++
T Consensus 4 Y~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 4 YEYRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EEEEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 46899999998776543 244679999998
No 133
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.14 E-value=1.2 Score=42.60 Aligned_cols=51 Identities=24% Similarity=0.545 Sum_probs=35.6
Q ss_pred CCccccccccccccCCcc-EEecc-----CCeeChhhHHHHHhcCC--------CCCccceeccC
Q 018299 242 NDTTCPVCKEEFKVGGEA-RELAC-----KHIYHSECIVPWLRLHN--------SCPVCRHEVPV 292 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~-~~lpC-----~H~FH~~CI~~WL~~~~--------sCPvCR~~l~~ 292 (358)
.+..|-||+..=++.... -.-|| .|..|..||..|+..++ +||-|+.+...
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 367899998875533222 22355 48999999999996433 49999987643
No 134
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]
Probab=73.59 E-value=2.4 Score=38.63 Aligned_cols=32 Identities=28% Similarity=0.924 Sum_probs=23.2
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEccC
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIEIS 67 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~~~ 67 (358)
-+.-|||..|+-.+- .-.|+.|++ -++|+.-.
T Consensus 11 k~~iyWCe~cNlPl~-------~~~c~~cg~-~~~~l~LT 42 (202)
T COG5270 11 KFPIYWCEKCNLPLL-------GRRCSVCGS-KVEELRLT 42 (202)
T ss_pred ccceeehhhCCCccc-------cccccccCC-cceEEEeC
Confidence 468899999996443 248999994 45666544
No 135
>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=73.56 E-value=1.7 Score=33.71 Aligned_cols=33 Identities=18% Similarity=0.663 Sum_probs=16.0
Q ss_pred eeeeeccCcceeecCCCCCCccCCCCCCCceEEEccC
Q 018299 31 LYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIEIS 67 (358)
Q Consensus 31 ~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~~~ 67 (358)
-++||.|-.... +.+-.+||.|++.=+.-+...
T Consensus 9 vlrC~aCf~~t~----~~~k~FCp~CGn~TL~rvsvs 41 (73)
T PF08772_consen 9 VLRCHACFKITK----DMTKQFCPKCGNATLKRVSVS 41 (73)
T ss_dssp EEE-SSS--EES-----SS--S-SSS--S--EEEE-B
T ss_pred eEEccccccCcC----CCCceeCcccCCCcceEEEEE
Confidence 579999998655 334579999999988887643
No 136
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=73.10 E-value=2.8 Score=41.19 Aligned_cols=48 Identities=25% Similarity=0.416 Sum_probs=39.4
Q ss_pred cCCCccccccccccccCCccEEeccCCeeChhhHHHHHhcCC---CCCccc
Q 018299 240 LANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN---SCPVCR 287 (358)
Q Consensus 240 ~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~---sCPvCR 287 (358)
...-..|||-.+.-...+.++.|.|+|+.-..-+...-+... .||+|-
T Consensus 333 fHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 333 FHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 344678999999988888999999999999998888665433 499994
No 137
>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=71.50 E-value=2 Score=28.43 Aligned_cols=30 Identities=20% Similarity=0.639 Sum_probs=22.8
Q ss_pred eeeeccCcceeecCC----CCCCccCCCCCCCce
Q 018299 32 YWCYQCHRAVRISST----NPSEIACPRCSGHFV 61 (358)
Q Consensus 32 YwCh~C~r~V~i~~~----~~~ei~CP~C~~gFv 61 (358)
+=|-+|...+++... ....+.||.|+.-|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 458899999998754 223589999998775
No 138
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.07 E-value=2.9 Score=44.18 Aligned_cols=47 Identities=28% Similarity=0.786 Sum_probs=39.6
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccCCCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVSSA 295 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~ 295 (358)
....|.||+.+. ..+..+|. |..|+.+|+..+..||+|+..+..+..
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 357999999997 45677788 999999999999999999988766544
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=68.84 E-value=6.2 Score=27.86 Aligned_cols=35 Identities=20% Similarity=0.576 Sum_probs=24.7
Q ss_pred CeeeeeccCcceeecCC--CCCCccCCCCCCCceEEE
Q 018299 30 PLYWCYQCHRAVRISST--NPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~--~~~ei~CP~C~~gFvEEi 64 (358)
..|-|-.|.....+... +...+.||.|++.=++.+
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~ 40 (52)
T TIGR02605 4 YEYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRL 40 (52)
T ss_pred EEEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEE
Confidence 36899999997666532 234578999999655554
No 140
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=68.60 E-value=2.3 Score=46.37 Aligned_cols=52 Identities=19% Similarity=0.258 Sum_probs=36.8
Q ss_pred CccccccccccccC-CccEEec---cCCeeChhhHHHHHhc------CCCCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKVG-GEARELA---CKHIYHSECIVPWLRL------HNSCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~~-~~~~~lp---C~H~FH~~CI~~WL~~------~~sCPvCR~~l~~~~ 294 (358)
...|.||+-++... +..-.+| |.|.||..||..|+.+ +-.|+.|..-|....
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 45788887777642 2234445 9999999999999964 334899988775443
No 141
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=68.34 E-value=2 Score=37.44 Aligned_cols=36 Identities=22% Similarity=0.587 Sum_probs=25.2
Q ss_pred CCCeeeeeccCcceeecC-----CCCCCccCCCCCCCceEE
Q 018299 28 NYPLYWCYQCHRAVRISS-----TNPSEIACPRCSGHFVSE 63 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~-----~~~~ei~CP~C~~gFvEE 63 (358)
....|.|-.|...+...- .+...+.||+|++-.++.
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEED 136 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEEc
Confidence 346899999998887521 112238999999876653
No 142
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=67.40 E-value=3.6 Score=29.52 Aligned_cols=35 Identities=26% Similarity=0.626 Sum_probs=26.2
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
...|=|-.|.+.|.+.. ...++.||+|++-.+-..
T Consensus 4 ~~~Y~C~~Cg~~~~~~~-~~~~irCp~Cg~rIl~K~ 38 (49)
T COG1996 4 MMEYKCARCGREVELDQ-ETRGIRCPYCGSRILVKE 38 (49)
T ss_pred eEEEEhhhcCCeeehhh-ccCceeCCCCCcEEEEec
Confidence 45799999999996321 235799999999876554
No 143
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=67.40 E-value=4.3 Score=44.15 Aligned_cols=43 Identities=26% Similarity=0.590 Sum_probs=30.7
Q ss_pred ccccccccccccCCccEEec-cCCeeChhhHHHHHhcCCCCCc--cce
Q 018299 244 TTCPVCKEEFKVGGEARELA-CKHIYHSECIVPWLRLHNSCPV--CRH 288 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~WL~~~~sCPv--CR~ 288 (358)
..|.+|-..+. | ....-+ |+|.-|..|+.+|+..+..||. |-+
T Consensus 780 ~~CtVC~~vi~-G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 780 AKCTVCDLVIR-G-VDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPH 825 (839)
T ss_pred cCceeecceee-e-eEeecccccccccHHHHHHHHhcCCCCccccCCc
Confidence 46777766554 1 122223 9999999999999999888876 544
No 144
>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=66.89 E-value=3.5 Score=34.44 Aligned_cols=29 Identities=31% Similarity=0.645 Sum_probs=20.7
Q ss_pred eeeccCcceeecCCCCCCccCCCCCCCceEE
Q 018299 33 WCYQCHRAVRISSTNPSEIACPRCSGHFVSE 63 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~~ei~CP~C~~gFvEE 63 (358)
-|..|....-=- +-.-|+||+|+.-|.-+
T Consensus 11 ~Cp~CG~kFYDL--nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYDL--NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCCCcchhccC--CCCCccCCCCCCccCcc
Confidence 488998755311 22338999999999888
No 145
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.91 E-value=3.3 Score=38.43 Aligned_cols=39 Identities=28% Similarity=0.655 Sum_probs=28.8
Q ss_pred ccccccccccCCccEEeccCCe-eChhhHHHHHhcCCCCCccceecc
Q 018299 246 CPVCKEEFKVGGEARELACKHI-YHSECIVPWLRLHNSCPVCRHEVP 291 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~WL~~~~sCPvCR~~l~ 291 (358)
|-+|-+.-. .+..+||.|. +|..|=.. -..||+|+....
T Consensus 161 Cr~C~~~~~---~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREA---TVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCc---eEEeecccceEeccccccc----CccCCCCcChhh
Confidence 888887755 7899999875 56667543 345999987653
No 146
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=64.85 E-value=3.2 Score=25.47 Aligned_cols=23 Identities=26% Similarity=0.882 Sum_probs=16.3
Q ss_pred eeeeccCcceeecCCCCCCccCCCCCCC
Q 018299 32 YWCYQCHRAVRISSTNPSEIACPRCSGH 59 (358)
Q Consensus 32 YwCh~C~r~V~i~~~~~~ei~CP~C~~g 59 (358)
..|..|...+. ..+-+||+|+..
T Consensus 3 ~~Cp~Cg~~~~-----~~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCPNCGAEID-----PDAKFCPNCGAK 25 (26)
T ss_pred CCCcccCCcCC-----cccccChhhCCC
Confidence 46899998443 234699999864
No 147
>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=63.43 E-value=9.5 Score=26.10 Aligned_cols=33 Identities=21% Similarity=0.597 Sum_probs=23.0
Q ss_pred CeeeeeccCcceeecCC--CCCCccCCCCCCCceE
Q 018299 30 PLYWCYQCHRAVRISST--NPSEIACPRCSGHFVS 62 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~--~~~ei~CP~C~~gFvE 62 (358)
..|-|-.|.....+... +...+.||.|++.=++
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~ 38 (42)
T PF09723_consen 4 YEYRCEECGHEFEVLQSISEDDPVPCPECGSTEVR 38 (42)
T ss_pred EEEEeCCCCCEEEEEEEcCCCCCCcCCCCCCCceE
Confidence 46899999966555322 3456899999995444
No 148
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.95 E-value=8.2 Score=36.93 Aligned_cols=52 Identities=15% Similarity=0.266 Sum_probs=35.3
Q ss_pred ccccccccccccCCc-cEEeccCCeeChhhHHHHHhcCCCCCccceeccCCCCCC
Q 018299 244 TTCPVCKEEFKVGGE-ARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVSSASS 297 (358)
Q Consensus 244 ~~C~ICle~~~~~~~-~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~~~ 297 (358)
..|+|---+|...-. +...+|||+|-..-+... ...+|++|...+..++...
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIv 164 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIV 164 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEe
Confidence 578887655543222 344469999998877764 3567999998886655433
No 149
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.95 E-value=2.9 Score=45.56 Aligned_cols=45 Identities=22% Similarity=0.475 Sum_probs=33.5
Q ss_pred CCccccccccccccC----CccEEeccCCeeChhhHHHHHhcCCCCCccc
Q 018299 242 NDTTCPVCKEEFKVG----GEARELACKHIYHSECIVPWLRLHNSCPVCR 287 (358)
Q Consensus 242 ~~~~C~ICle~~~~~----~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR 287 (358)
.+..|.-|.+..... +.++.+.|+|.||..|+..-..+++ |-.|-
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 356899998866422 3677889999999999988776665 55553
No 150
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.49 E-value=4.9 Score=40.73 Aligned_cols=44 Identities=23% Similarity=0.563 Sum_probs=32.6
Q ss_pred CccccccccccccCCccEEe--ccCCeeChhhHHHHHhcCCCCCcc
Q 018299 243 DTTCPVCKEEFKVGGEAREL--ACKHIYHSECIVPWLRLHNSCPVC 286 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l--pC~H~FH~~CI~~WL~~~~sCPvC 286 (358)
-..|++|.-.++.......+ .|+|.||..|...|......|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 46899998877655433333 499999999999997777766554
No 151
>PLN02189 cellulose synthase
Probab=55.89 E-value=14 Score=41.96 Aligned_cols=52 Identities=19% Similarity=0.409 Sum_probs=35.9
Q ss_pred Ccccccccccccc---CCccEEec-cCCeeChhhHHHHHhc-CCCCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKV---GGEARELA-CKHIYHSECIVPWLRL-HNSCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~---~~~~~~lp-C~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~~ 294 (358)
...|.||-+++.. |+.-+... |+--.|..|..-=-+. +++||-|+.......
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 4589999999753 33333344 8888999998543332 456999999887433
No 152
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=54.98 E-value=6 Score=26.28 Aligned_cols=28 Identities=21% Similarity=0.647 Sum_probs=20.5
Q ss_pred eeeccCcceeecCC----CCCCccCCCCCCCc
Q 018299 33 WCYQCHRAVRISST----NPSEIACPRCSGHF 60 (358)
Q Consensus 33 wCh~C~r~V~i~~~----~~~ei~CP~C~~gF 60 (358)
=|..|+....|... ....+.|+.|+.-|
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 38889988887643 23468999998765
No 153
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=54.42 E-value=11 Score=37.40 Aligned_cols=52 Identities=21% Similarity=0.496 Sum_probs=38.3
Q ss_pred CccccccccccccCCccEEe--ccCCeeChhhHHHHHhcCCCCCccceeccCCCC
Q 018299 243 DTTCPVCKEEFKVGGEAREL--ACKHIYHSECIVPWLRLHNSCPVCRHEVPVSSA 295 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l--pC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~ 295 (358)
...|+||.+..... ....+ +|++..|..|+..-...+.+||.||++......
T Consensus 249 ~~s~p~~~~~~~~~-d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t~ 302 (327)
T KOG2068|consen 249 PPSCPICYEDLDLT-DSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERNTK 302 (327)
T ss_pred CCCCCCCCCccccc-ccccccccccccchhhhhhcccccCCCCCccCCccccCcc
Confidence 37899999987433 23344 488888888888888888899999966654443
No 154
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=54.11 E-value=6.1 Score=38.00 Aligned_cols=48 Identities=21% Similarity=0.529 Sum_probs=33.6
Q ss_pred ccccccccccc-cCCccEEec---cCCeeChhhHHHHHhc---------CCCCCccceecc
Q 018299 244 TTCPVCKEEFK-VGGEARELA---CKHIYHSECIVPWLRL---------HNSCPVCRHEVP 291 (358)
Q Consensus 244 ~~C~ICle~~~-~~~~~~~lp---C~H~FH~~CI~~WL~~---------~~sCPvCR~~l~ 291 (358)
.+|-+|.+++. .+......+ |.-++|..|+..-+.. ...||.|++-+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 58999999994 333332222 9999999999995432 224999998653
No 155
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=54.05 E-value=15 Score=28.94 Aligned_cols=53 Identities=15% Similarity=0.367 Sum_probs=21.3
Q ss_pred CccccccccccccCC--ccE--EeccCCeeChhhHHHHHhc-CCCCCccceeccCCCC
Q 018299 243 DTTCPVCKEEFKVGG--EAR--ELACKHIYHSECIVPWLRL-HNSCPVCRHEVPVSSA 295 (358)
Q Consensus 243 ~~~C~ICle~~~~~~--~~~--~lpC~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~~~ 295 (358)
...|-||-+++.... .+. ..-|+--.|..|..-=.+. +..||-|+.......-
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kg 66 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKG 66 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccC
Confidence 568999999886433 222 2248888899998776655 4569999987765443
No 156
>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=53.42 E-value=8.4 Score=26.33 Aligned_cols=32 Identities=25% Similarity=0.593 Sum_probs=19.7
Q ss_pred eeeeccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 32 YWCYQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 32 YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
|-|-.|....-+.-....+++|+.| |--|+|.
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~C-G~Vl~e~ 32 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNC-GLVLEEN 32 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT--BBEE-T
T ss_pred CCCcCCcCCceEEcCCCCeEECCCC-CCEeecc
Confidence 5688898866323234568999999 3344443
No 157
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=52.93 E-value=8.7 Score=37.82 Aligned_cols=29 Identities=24% Similarity=0.524 Sum_probs=21.8
Q ss_pred CCCCCeeeeeccCcceeecCCCCCCccCCCCCCCce
Q 018299 26 NRNYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 26 ~~t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
|.+..+-+||.|+.. ..+.+||+|+--..
T Consensus 2 ~pts~~~~C~ic~vq-------~~~YtCPRCn~~YC 30 (383)
T KOG4317|consen 2 MPTSSFLACGICGVQ-------KREYTCPRCNLLYC 30 (383)
T ss_pred CCCCceeeccccccc-------cccccCCCCCccce
Confidence 566788899999953 34689999986543
No 158
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=52.70 E-value=8.9 Score=32.93 Aligned_cols=30 Identities=17% Similarity=0.139 Sum_probs=21.0
Q ss_pred eeeeccCcceeecCCCCCCccCCCCCCCceEE
Q 018299 32 YWCYQCHRAVRISSTNPSEIACPRCSGHFVSE 63 (358)
Q Consensus 32 YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEE 63 (358)
.-|..|....-=- +..-++||+|+.-|..+
T Consensus 10 r~Cp~cg~kFYDL--nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL--NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc--CCCCccCCCcCCccCcc
Confidence 4599998755422 23348999999988666
No 159
>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=52.56 E-value=13 Score=23.72 Aligned_cols=37 Identities=24% Similarity=0.603 Sum_probs=23.5
Q ss_pred cccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceec
Q 018299 245 TCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l 290 (358)
.|..|...+...+.. ...=+..||..| ..|..|...|
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccC--------CCCcccCCcC
Confidence 377888877644222 222367788776 5678887765
No 160
>PLN02436 cellulose synthase A
Probab=52.40 E-value=16 Score=41.50 Aligned_cols=51 Identities=22% Similarity=0.446 Sum_probs=35.5
Q ss_pred Cccccccccccc---cCCccEEec-cCCeeChhhHHHHHhc-CCCCCccceeccCC
Q 018299 243 DTTCPVCKEEFK---VGGEARELA-CKHIYHSECIVPWLRL-HNSCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~---~~~~~~~lp-C~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~ 293 (358)
...|-||-|++. .|+.-+-.. |+--.|..|..-=-+. +++||-|+......
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~ 91 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRI 91 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence 459999999974 344334444 8888999998543333 45699999988643
No 161
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=51.81 E-value=7 Score=27.24 Aligned_cols=44 Identities=34% Similarity=0.710 Sum_probs=28.1
Q ss_pred cccccccccccCCccEEeccCCeeChhhHHHHHhc------CCCCCccce
Q 018299 245 TCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL------HNSCPVCRH 288 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~------~~sCPvCR~ 288 (358)
.|.||......++.+.--.|...||..|+..=+.. .-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 48899884333333333359999999998876542 224887753
No 162
>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 COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=50.89 E-value=10 Score=34.38 Aligned_cols=27 Identities=22% Similarity=0.477 Sum_probs=20.2
Q ss_pred CeeeeeccCcceeecCCCCCCccCCCCCCCce
Q 018299 30 PLYWCYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
-.|=||-|.+.+. .+ .=+||.|++..+
T Consensus 138 w~~rC~GC~~~f~-~~----~~~Cp~CG~~~~ 164 (177)
T COG1439 138 WRLRCHGCKRIFP-EP----KDFCPICGSPLK 164 (177)
T ss_pred eeEEEecCceecC-CC----CCcCCCCCCceE
Confidence 4688999999775 11 239999999843
No 164
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=50.70 E-value=13 Score=36.92 Aligned_cols=46 Identities=28% Similarity=0.616 Sum_probs=32.2
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccce
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 288 (358)
...|-.|.++.......+.-.|++.||.+|=.--=+.-.-||-|.+
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 3459999777665544555569999999996654344445999974
No 165
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=50.11 E-value=5.3 Score=42.56 Aligned_cols=43 Identities=23% Similarity=0.714 Sum_probs=27.5
Q ss_pred Ccccccccc-----ccccCCccEEeccCCeeChhhHHHHHhcCCCCCccce
Q 018299 243 DTTCPVCKE-----EFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle-----~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~ 288 (358)
...|.||.. .|+.....+...|+++||..|+.. ...-||-|-.
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 567888833 233223344446999999999654 3344999954
No 166
>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=49.50 E-value=24 Score=26.00 Aligned_cols=48 Identities=21% Similarity=0.519 Sum_probs=35.0
Q ss_pred ccccccccccccCC-ccEEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 244 TTCPVCKEEFKVGG-EARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 244 ~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
..|-.|-.++..+. .+.+-.=...||.+|....| ++.||-|-.+|...
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 46777877776655 44444444679999999976 78899998887543
No 167
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=49.12 E-value=9.2 Score=25.88 Aligned_cols=25 Identities=28% Similarity=0.802 Sum_probs=19.3
Q ss_pred eeccCcceeecCCCCCCccCCCCCCCceEE
Q 018299 34 CYQCHRAVRISSTNPSEIACPRCSGHFVSE 63 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~ei~CP~C~~gFvEE 63 (358)
|+.|++.+.+. -++|.+|+.-|-.+
T Consensus 1 C~~C~~~~~l~-----~f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVGLT-----GFKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCccccc-----CeECCccCCccccc
Confidence 78899866543 26899999998654
No 168
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=49.03 E-value=11 Score=34.70 Aligned_cols=40 Identities=28% Similarity=0.884 Sum_probs=27.6
Q ss_pred Cccccccccc-----cccCCccEEe-ccCCeeChhhHHHHHhcCCCCCccce
Q 018299 243 DTTCPVCKEE-----FKVGGEAREL-ACKHIYHSECIVPWLRLHNSCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle~-----~~~~~~~~~l-pC~H~FH~~CI~~WL~~~~sCPvCR~ 288 (358)
...|-||-+. |+.. .+..- .|+.+||..|... ..||-|-.
T Consensus 152 GfiCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 5788888752 3322 33444 4999999999762 67999954
No 169
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=48.90 E-value=8.3 Score=25.67 Aligned_cols=28 Identities=25% Similarity=0.802 Sum_probs=20.5
Q ss_pred eeccCcceeecCC----CCCCccCCCCCCCce
Q 018299 34 CYQCHRAVRISST----NPSEIACPRCSGHFV 61 (358)
Q Consensus 34 Ch~C~r~V~i~~~----~~~ei~CP~C~~gFv 61 (358)
|-.|+...+|... ....+.||.|+.-|.
T Consensus 5 CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 5 CPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred CCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 7788888887654 234689999987774
No 170
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.57 E-value=8.3 Score=39.72 Aligned_cols=36 Identities=28% Similarity=0.644 Sum_probs=30.8
Q ss_pred CCccccccccccccCCccEEeccCCeeChhhHHHHHhc
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL 279 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~ 279 (358)
...+|-||.+.+.. ....+.|+|.||..|+...|..
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 46799999999874 5677789999999999999865
No 171
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=45.06 E-value=6.9 Score=28.26 Aligned_cols=32 Identities=25% Similarity=0.485 Sum_probs=21.9
Q ss_pred CeeeeeccCcceeecCC-CCCCccCCCCCCCce
Q 018299 30 PLYWCYQCHRAVRISST-NPSEIACPRCSGHFV 61 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~-~~~ei~CP~C~~gFv 61 (358)
+.+=|-.|++-+--... ..-+|+||.|..-+.
T Consensus 3 ~eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~ 35 (51)
T PF10122_consen 3 KEIRCGHCNKLLAKAGEVIELEIKCPRCKTINH 35 (51)
T ss_pred cceeccchhHHHhhhcCccEEEEECCCCCccce
Confidence 45679999996654322 234799999987543
No 172
>PRK12496 hypothetical protein; Provisional
Probab=44.85 E-value=15 Score=32.75 Aligned_cols=27 Identities=15% Similarity=0.399 Sum_probs=19.0
Q ss_pred eeeeeccCcceeecCCCCCCccCCCCCCCc
Q 018299 31 LYWCYQCHRAVRISSTNPSEIACPRCSGHF 60 (358)
Q Consensus 31 ~YwCh~C~r~V~i~~~~~~ei~CP~C~~gF 60 (358)
.|.|.-|.+... .+...-+||.|++-.
T Consensus 127 ~~~C~gC~~~~~---~~~~~~~C~~CG~~~ 153 (164)
T PRK12496 127 RKVCKGCKKKYP---EDYPDDVCEICGSPV 153 (164)
T ss_pred eEECCCCCcccc---CCCCCCcCCCCCChh
Confidence 488999998664 222234899999754
No 173
>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=42.56 E-value=14 Score=27.44 Aligned_cols=35 Identities=17% Similarity=0.498 Sum_probs=18.0
Q ss_pred CccccccccccccCCccEEe-ccCCeeChhhHHHHH
Q 018299 243 DTTCPVCKEEFKVGGEAREL-ACKHIYHSECIVPWL 277 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~WL 277 (358)
...|.+|...|..-..-..- .||++||..|....+
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 57999999999754333333 399999999976544
No 174
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=42.13 E-value=31 Score=39.38 Aligned_cols=52 Identities=15% Similarity=0.342 Sum_probs=35.1
Q ss_pred CccccccccccccC---CccEEec-cCCeeChhhHHHHHh-cCCCCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKVG---GEARELA-CKHIYHSECIVPWLR-LHNSCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~~---~~~~~lp-C~H~FH~~CI~~WL~-~~~sCPvCR~~l~~~~ 294 (358)
...|-||-|++... +.-+... |+--.|..|..==-+ .+..||-|+...+-..
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhc
Confidence 45999999987543 3333333 888899999843222 2456999999886433
No 175
>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=41.77 E-value=16 Score=26.36 Aligned_cols=42 Identities=26% Similarity=0.577 Sum_probs=19.7
Q ss_pred ccccccccccCC------ccEEec-cCCeeChhhHHHHHhcCCCCCccc
Q 018299 246 CPVCKEEFKVGG------EARELA-CKHIYHSECIVPWLRLHNSCPVCR 287 (358)
Q Consensus 246 C~ICle~~~~~~------~~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR 287 (358)
|--|+..|.... ....-+ |++.|+.+|=.--=+.-..||-|-
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 555666666432 233344 999999999543222334598883
No 176
>PLN02400 cellulose synthase
Probab=41.60 E-value=26 Score=40.08 Aligned_cols=52 Identities=15% Similarity=0.351 Sum_probs=34.6
Q ss_pred CccccccccccccC---CccEEe-ccCCeeChhhHHHHHh-cCCCCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKVG---GEAREL-ACKHIYHSECIVPWLR-LHNSCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~~---~~~~~l-pC~H~FH~~CI~~WL~-~~~sCPvCR~~l~~~~ 294 (358)
...|-||-|++... +.-+.. -|+--.|..|..==-+ .++.||-|+...+-..
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~K 92 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRHK 92 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccccc
Confidence 45999999987543 322222 3888899999843222 2446999999886443
No 177
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=41.58 E-value=19 Score=25.83 Aligned_cols=33 Identities=27% Similarity=0.788 Sum_probs=23.9
Q ss_pred Ceeeee--ccCcceeecC-CCCCCccCCCCCCCceE
Q 018299 30 PLYWCY--QCHRAVRISS-TNPSEIACPRCSGHFVS 62 (358)
Q Consensus 30 ~~YwCh--~C~r~V~i~~-~~~~ei~CP~C~~gFvE 62 (358)
..=||- .|...|.... .....+.||.|+-.|--
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~ 52 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCF 52 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECC
Confidence 445999 9998887652 23346899999987753
No 178
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.67 E-value=6.9 Score=30.35 Aligned_cols=35 Identities=20% Similarity=0.558 Sum_probs=24.3
Q ss_pred CCCcCCCCCCeeeeeccCcceeecCCCCCCccCCCCCCCceE
Q 018299 21 NGNGANRNYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVS 62 (358)
Q Consensus 21 ~~~~~~~t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvE 62 (358)
++.|..=||.--||-.|...+- +-.||.|+|+||-
T Consensus 19 s~dA~ICtfEcTFCadCae~~l-------~g~CPnCGGelv~ 53 (84)
T COG3813 19 STDARICTFECTFCADCAENRL-------HGLCPNCGGELVA 53 (84)
T ss_pred CCceeEEEEeeehhHhHHHHhh-------cCcCCCCCchhhc
Confidence 3445555777778888875332 2489999999985
No 179
>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=40.65 E-value=19 Score=23.95 Aligned_cols=32 Identities=31% Similarity=0.625 Sum_probs=24.1
Q ss_pred eeeeeccCcceeecCCCC-CCccCCCCCCCceE
Q 018299 31 LYWCYQCHRAVRISSTNP-SEIACPRCSGHFVS 62 (358)
Q Consensus 31 ~YwCh~C~r~V~i~~~~~-~ei~CP~C~~gFvE 62 (358)
++-|-.|.+...+....+ .+-+|..|++.+|+
T Consensus 1 Rr~C~~Cg~~Yh~~~~pP~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 1 RRICPKCGRIYHIEFNPPKVEGVCDNCGGELVQ 33 (36)
T ss_dssp EEEETTTTEEEETTTB--SSTTBCTTTTEBEBE
T ss_pred CcCcCCCCCccccccCCCCCCCccCCCCCeeEe
Confidence 456899999998865533 56799999997765
No 180
>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=40.59 E-value=4.4 Score=31.25 Aligned_cols=41 Identities=29% Similarity=0.675 Sum_probs=21.8
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
..|++|..+++... +|.+|..|-.. ++....||.|..+|..
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHHH
Confidence 47999988877433 56666666554 2345569999888754
No 181
>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=40.00 E-value=12 Score=25.62 Aligned_cols=12 Identities=33% Similarity=1.107 Sum_probs=10.1
Q ss_pred CccCCCCCCCce
Q 018299 50 EIACPRCSGHFV 61 (358)
Q Consensus 50 ei~CP~C~~gFv 61 (358)
.+.||||+--||
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 182
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=39.91 E-value=18 Score=25.32 Aligned_cols=31 Identities=19% Similarity=0.608 Sum_probs=20.2
Q ss_pred eeeccCcceeecCCCC-CCccCCCCCCCceEEEc
Q 018299 33 WCYQCHRAVRISSTNP-SEIACPRCSGHFVSEIE 65 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~-~ei~CP~C~~gFvEEi~ 65 (358)
||-.|...+-+..... .-.+||.|+ +++.+.
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg--~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCG--YEEPIE 33 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCC--CeEECC
Confidence 7999998776543322 257899998 444443
No 183
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.17 E-value=11 Score=36.87 Aligned_cols=49 Identities=22% Similarity=0.609 Sum_probs=39.4
Q ss_pred CCCccccccccccccCCccEEe-ccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 241 ANDTTCPVCKEEFKVGGEAREL-ACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 241 ~~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
.....|-||...+.. +... .|.|.|+..|...|....+-||.|+.....
T Consensus 103 ~~~~~~~~~~g~l~v---pt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTV---PTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEe---cccccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 346789999998873 3333 399999999999999999999999886644
No 184
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=38.85 E-value=25 Score=25.46 Aligned_cols=18 Identities=33% Similarity=0.580 Sum_probs=15.2
Q ss_pred ccCCCCCCCceEEEccCC
Q 018299 51 IACPRCSGHFVSEIEISR 68 (358)
Q Consensus 51 i~CP~C~~gFvEEi~~~~ 68 (358)
|.||||+..|--.|+...
T Consensus 1 i~CPyCge~~~~~iD~s~ 18 (52)
T PF14255_consen 1 IQCPYCGEPIEILIDPSA 18 (52)
T ss_pred CCCCCCCCeeEEEEecCC
Confidence 579999999988888654
No 185
>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=38.19 E-value=18 Score=27.61 Aligned_cols=13 Identities=23% Similarity=0.738 Sum_probs=9.2
Q ss_pred eeChhhHHHHHhc
Q 018299 267 IYHSECIVPWLRL 279 (358)
Q Consensus 267 ~FH~~CI~~WL~~ 279 (358)
-||..|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999853
No 186
>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=38.14 E-value=17 Score=26.04 Aligned_cols=10 Identities=40% Similarity=1.175 Sum_probs=6.3
Q ss_pred ccCCCCCCCc
Q 018299 51 IACPRCSGHF 60 (358)
Q Consensus 51 i~CP~C~~gF 60 (358)
+.||+|+.+|
T Consensus 3 f~CP~C~~~~ 12 (54)
T PF05605_consen 3 FTCPYCGKGF 12 (54)
T ss_pred cCCCCCCCcc
Confidence 5677776643
No 187
>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=37.99 E-value=17 Score=26.04 Aligned_cols=28 Identities=29% Similarity=0.851 Sum_probs=16.1
Q ss_pred eeec--cCcceeecCCCCC-CccCCCCCCCc
Q 018299 33 WCYQ--CHRAVRISSTNPS-EIACPRCSGHF 60 (358)
Q Consensus 33 wCh~--C~r~V~i~~~~~~-ei~CP~C~~gF 60 (358)
||-. |...+........ .+.|+.|+..|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~f 50 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEF 50 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEE
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcC
Confidence 9988 9998887665443 38999998766
No 188
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=37.94 E-value=12 Score=25.24 Aligned_cols=13 Identities=31% Similarity=0.986 Sum_probs=5.3
Q ss_pred CCeeeeeccCcce
Q 018299 29 YPLYWCYQCHRAV 41 (358)
Q Consensus 29 ~~~YwCh~C~r~V 41 (358)
+++|||-.|+..+
T Consensus 1 m~ryyCdyC~~~~ 13 (38)
T PF06220_consen 1 MPRYYCDYCKKYL 13 (38)
T ss_dssp --S-B-TTT--B-
T ss_pred CcCeeccccccee
Confidence 3689999999766
No 189
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=37.71 E-value=9.4 Score=34.63 Aligned_cols=38 Identities=21% Similarity=0.579 Sum_probs=27.2
Q ss_pred CCCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEc
Q 018299 27 RNYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIE 65 (358)
Q Consensus 27 ~t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~ 65 (358)
.....|-|-.|.-.++.-.....+++||.|++.. +|.+
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA~~~~F~Cp~Cg~~L-~~~d 146 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEAMELGFTCPKCGEDL-EEYD 146 (176)
T ss_pred ccCCceeCCCCCCcccHHHHHHhCCCCCCCCchh-hhcc
Confidence 3457899999997776544445679999998764 4444
No 190
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=37.25 E-value=19 Score=23.79 Aligned_cols=25 Identities=24% Similarity=0.765 Sum_probs=11.5
Q ss_pred eeeccCcceeecCC--CC-CCccCCCCC
Q 018299 33 WCYQCHRAVRISST--NP-SEIACPRCS 57 (358)
Q Consensus 33 wCh~C~r~V~i~~~--~~-~ei~CP~C~ 57 (358)
||-+|...+..... +. .=.+||.|+
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 68888887766433 21 235888875
No 191
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=37.13 E-value=12 Score=25.32 Aligned_cols=29 Identities=28% Similarity=0.721 Sum_probs=16.3
Q ss_pred eeccCcceeecCCCCCCc-cCCCCCCCceE
Q 018299 34 CYQCHRAVRISSTNPSEI-ACPRCSGHFVS 62 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~ei-~CP~C~~gFvE 62 (358)
|-.|+..+.......-.+ .||.|+|-|+.
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 556665444322222122 79999888874
No 192
>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=36.99 E-value=15 Score=24.51 Aligned_cols=11 Identities=36% Similarity=1.111 Sum_probs=9.0
Q ss_pred CccCCCCCCCc
Q 018299 50 EIACPRCSGHF 60 (358)
Q Consensus 50 ei~CP~C~~gF 60 (358)
+|.||+|++.=
T Consensus 5 ~v~CP~C~s~~ 15 (36)
T PF03811_consen 5 DVHCPRCQSTE 15 (36)
T ss_pred eeeCCCCCCCC
Confidence 58999999864
No 193
>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=36.93 E-value=5.5 Score=38.57 Aligned_cols=47 Identities=21% Similarity=0.400 Sum_probs=20.2
Q ss_pred CccccccccccccCCccEEe--ccCCeeChhhHHHHHhcCCCCCcccee
Q 018299 243 DTTCPVCKEEFKVGGEAREL--ACKHIYHSECIVPWLRLHNSCPVCRHE 289 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l--pC~H~FH~~CI~~WL~~~~sCPvCR~~ 289 (358)
...||||-..-..+.....- .=.|.+|.-|-..|--....||.|-..
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 36999997654321100000 124667778888898788899999654
No 194
>PF14353 CpXC: CpXC protein
Probab=36.80 E-value=21 Score=30.05 Aligned_cols=17 Identities=41% Similarity=0.841 Sum_probs=15.0
Q ss_pred CccCCCCCCCceEEEcc
Q 018299 50 EIACPRCSGHFVSEIEI 66 (358)
Q Consensus 50 ei~CP~C~~gFvEEi~~ 66 (358)
+++||.|+.-|.-|+..
T Consensus 1 ~itCP~C~~~~~~~v~~ 17 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWT 17 (128)
T ss_pred CcCCCCCCCeeEEEEEe
Confidence 48999999999999874
No 195
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.31 E-value=21 Score=28.17 Aligned_cols=30 Identities=33% Similarity=0.739 Sum_probs=19.1
Q ss_pred eeeccCcceeecCCCCCCc-cCCCCCCCceE
Q 018299 33 WCYQCHRAVRISSTNPSEI-ACPRCSGHFVS 62 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~~ei-~CP~C~~gFvE 62 (358)
-|-.|+..+.....-.-|| .||.|.|-.+.
T Consensus 3 lCP~C~v~l~~~~rs~vEiD~CPrCrGVWLD 33 (88)
T COG3809 3 LCPICGVELVMSVRSGVEIDYCPRCRGVWLD 33 (88)
T ss_pred ccCcCCceeeeeeecCceeeeCCccccEeec
Confidence 3888886555433323344 89999987654
No 196
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.17 E-value=22 Score=33.99 Aligned_cols=34 Identities=9% Similarity=0.208 Sum_probs=30.1
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRL 279 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~ 279 (358)
-..|..||..+. .+++.+=||+|+..||...+..
T Consensus 43 FdcCsLtLqPc~---dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 43 FDCCSLTLQPCR---DPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred cceeeeeccccc---CCccCCCCeeeeHHHHHHHHHH
Confidence 368999999999 8899999999999999998754
No 197
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=36.14 E-value=33 Score=37.13 Aligned_cols=48 Identities=29% Similarity=0.616 Sum_probs=27.1
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC------CCCccceeccCCC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN------SCPVCRHEVPVSS 294 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~------sCPvCR~~l~~~~ 294 (358)
...|+|+.-.+.. .++-+.|+|+=|.+- .|+..-+ .||||.+....+.
T Consensus 306 SL~CPl~~~Rm~~--P~r~~~CkHlQcFD~--~~~lq~n~~~pTW~CPVC~~~~~~e~ 359 (636)
T KOG2169|consen 306 SLNCPLSKMRMSL--PARGHTCKHLQCFDA--LSYLQMNEQKPTWRCPVCQKAAPFEG 359 (636)
T ss_pred EecCCcccceeec--CCcccccccceecch--hhhHHhccCCCeeeCccCCccccccc
Confidence 4678888766552 344445666544432 2332211 3999998775543
No 198
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=36.13 E-value=23 Score=25.89 Aligned_cols=31 Identities=13% Similarity=0.522 Sum_probs=23.0
Q ss_pred eeeeccCcceeecCCCC-CCccCCCCCCCceE
Q 018299 32 YWCYQCHRAVRISSTNP-SEIACPRCSGHFVS 62 (358)
Q Consensus 32 YwCh~C~r~V~i~~~~~-~ei~CP~C~~gFvE 62 (358)
+=|-.|...|.+..... ..+.||.|+-.|-.
T Consensus 3 ~~CP~CG~~iev~~~~~GeiV~Cp~CGaeleV 34 (54)
T TIGR01206 3 FECPDCGAEIELENPELGELVICDECGAELEV 34 (54)
T ss_pred cCCCCCCCEEecCCCccCCEEeCCCCCCEEEE
Confidence 45899999999865433 45799999876644
No 199
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.01 E-value=22 Score=34.66 Aligned_cols=38 Identities=13% Similarity=0.296 Sum_probs=29.7
Q ss_pred CccccccccccccCCccEEec--cCCeeChhhHHHHHhcCC
Q 018299 243 DTTCPVCKEEFKVGGEARELA--CKHIYHSECIVPWLRLHN 281 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lp--C~H~FH~~CI~~WL~~~~ 281 (358)
-..|.+|.|.+++. ..++.| =.|.||..|-..-++.+.
T Consensus 268 pLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 268 PLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred ceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHhhc
Confidence 47899999999843 344444 479999999999998754
No 200
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=35.21 E-value=24 Score=38.80 Aligned_cols=32 Identities=16% Similarity=0.394 Sum_probs=23.3
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEcc
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIEI 66 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~~ 66 (358)
.+...||+|...-. . -..||.|++--+.....
T Consensus 460 ~~~L~CH~Cg~~~~---~---p~~Cp~Cgs~~L~~~G~ 491 (730)
T COG1198 460 TGQLRCHYCGYQEP---I---PQSCPECGSEHLRAVGP 491 (730)
T ss_pred CCeeEeCCCCCCCC---C---CCCCCCCCCCeeEEecc
Confidence 37889999998532 1 15999999986666643
No 201
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=35.20 E-value=38 Score=29.79 Aligned_cols=35 Identities=17% Similarity=0.364 Sum_probs=26.1
Q ss_pred CCCCCCeeeeeccCcceeecCCCCCCccCCCCCCCc
Q 018299 25 ANRNYPLYWCYQCHRAVRISSTNPSEIACPRCSGHF 60 (358)
Q Consensus 25 ~~~t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gF 60 (358)
.......|-|-+|...+.+... ..-..||.|++.-
T Consensus 106 E~~g~G~l~C~~Cg~~~~~~~~-~~l~~Cp~C~~~~ 140 (146)
T PF07295_consen 106 EVVGPGTLVCENCGHEVELTHP-ERLPPCPKCGHTE 140 (146)
T ss_pred cEecCceEecccCCCEEEecCC-CcCCCCCCCCCCe
Confidence 3445688999999999998643 1235999999753
No 202
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=34.59 E-value=25 Score=37.23 Aligned_cols=57 Identities=14% Similarity=0.222 Sum_probs=46.2
Q ss_pred CCccccccccccccCCccEEec-cCCeeChhhHHHHHhcCCCCCccceeccCCCCCCC
Q 018299 242 NDTTCPVCKEEFKVGGEARELA-CKHIYHSECIVPWLRLHNSCPVCRHEVPVSSASSS 298 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~WL~~~~sCPvCR~~l~~~~~~~~ 298 (358)
....|.+|+......++...+. |.+.++..|+..|-.....|+.|+..+........
T Consensus 259 ~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~~~e~r 316 (553)
T KOG4430|consen 259 NKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTISKEAR 316 (553)
T ss_pred cccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccccccccccc
Confidence 3578999999887666666665 89999999999998888999999998877655443
No 203
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=33.50 E-value=9.2 Score=41.59 Aligned_cols=29 Identities=24% Similarity=0.748 Sum_probs=20.5
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCc
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHF 60 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gF 60 (358)
...--||+.|-+ -++.+.. =+||.|+..|
T Consensus 660 kC~H~FC~~Cvq-~r~etRq---RKCP~Cn~aF 688 (698)
T KOG0978|consen 660 KCGHVFCEECVQ-TRYETRQ---RKCPKCNAAF 688 (698)
T ss_pred hcchHHHHHHHH-HHHHHhc---CCCCCCCCCC
Confidence 345568999987 3344443 4999999988
No 204
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.26 E-value=48 Score=27.88 Aligned_cols=44 Identities=23% Similarity=0.454 Sum_probs=32.0
Q ss_pred ccccccccccccCC----------ccEEe-ccCCeeChhhHHHHHhcCCCCCccc
Q 018299 244 TTCPVCKEEFKVGG----------EAREL-ACKHIYHSECIVPWLRLHNSCPVCR 287 (358)
Q Consensus 244 ~~C~ICle~~~~~~----------~~~~l-pC~H~FH~~CI~~WL~~~~sCPvCR 287 (358)
..|--|+..|.... ....- .|++.||.+|=.-+-+.-..||-|-
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 46888988876321 11223 4999999999888877777799995
No 205
>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=33.21 E-value=25 Score=35.91 Aligned_cols=29 Identities=31% Similarity=0.763 Sum_probs=22.4
Q ss_pred eeeccCcceeecCCCC-CCccCCCCCCCce
Q 018299 33 WCYQCHRAVRISSTNP-SEIACPRCSGHFV 61 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~-~ei~CP~C~~gFv 61 (358)
=||.|..-+++.+... ....||+|+.-..
T Consensus 15 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~ 44 (403)
T TIGR00155 15 LCSQCDMLVALPRIESGQKAACPRCGTTLT 44 (403)
T ss_pred eCCCCCCcccccCCCCCCeeECCCCCCCCc
Confidence 3999999888776543 3579999998774
No 206
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=32.66 E-value=28 Score=29.92 Aligned_cols=35 Identities=26% Similarity=0.594 Sum_probs=24.7
Q ss_pred CCCeeeeeccCcceeecCC-CCCCccCCCCCCCceE
Q 018299 28 NYPLYWCYQCHRAVRISST-NPSEIACPRCSGHFVS 62 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~-~~~ei~CP~C~~gFvE 62 (358)
....|.|-.|...+..... ......|+.|++-|+.
T Consensus 120 ~~~~~~C~~C~~~~~r~~~~~~~~~~C~~C~~~l~~ 155 (157)
T PF10263_consen 120 KKYVYRCPSCGREYKRHRRSKRKRYRCGRCGGPLVQ 155 (157)
T ss_pred cceEEEcCCCCCEeeeecccchhhEECCCCCCEEEE
Confidence 3467889999987754332 3345789999987764
No 207
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=32.35 E-value=12 Score=22.71 Aligned_cols=13 Identities=31% Similarity=1.012 Sum_probs=10.3
Q ss_pred ccCCCCCCCceEE
Q 018299 51 IACPRCSGHFVSE 63 (358)
Q Consensus 51 i~CP~C~~gFvEE 63 (358)
+.||.|+-.|..+
T Consensus 3 ~~C~~CgR~F~~~ 15 (25)
T PF13913_consen 3 VPCPICGRKFNPD 15 (25)
T ss_pred CcCCCCCCEECHH
Confidence 5799999988543
No 208
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=31.99 E-value=55 Score=37.39 Aligned_cols=51 Identities=22% Similarity=0.361 Sum_probs=35.1
Q ss_pred CccccccccccccC---CccEEec-cCCeeChhhHHHHHhc-CCCCCccceeccCC
Q 018299 243 DTTCPVCKEEFKVG---GEARELA-CKHIYHSECIVPWLRL-HNSCPVCRHEVPVS 293 (358)
Q Consensus 243 ~~~C~ICle~~~~~---~~~~~lp-C~H~FH~~CI~~WL~~-~~sCPvCR~~l~~~ 293 (358)
...|-||-|++... +.-+... |+--.|..|..-=.+. +..||.|+......
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~ 70 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRH 70 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhh
Confidence 56899999987543 3333333 8888999999543333 45699999988643
No 209
>PRK13794 hypothetical protein; Provisional
Probab=31.88 E-value=29 Score=36.21 Aligned_cols=24 Identities=29% Similarity=0.776 Sum_probs=19.0
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCC
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGH 59 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~g 59 (358)
.+.|||-.||-+|- . -.|..|+..
T Consensus 8 ~~~~wc~~cn~p~~----~---~~c~~cg~~ 31 (479)
T PRK13794 8 IHLKWCDNCNVPVL----G---KKCAICGSE 31 (479)
T ss_pred eEEEEcCCCCCeec----C---CchhHhCCC
Confidence 46899999997664 2 379999996
No 210
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=31.82 E-value=23 Score=36.28 Aligned_cols=24 Identities=33% Similarity=0.780 Sum_probs=18.8
Q ss_pred eccCcceeecCCCCCCccCCCCCCCceEEE
Q 018299 35 YQCHRAVRISSTNPSEIACPRCSGHFVSEI 64 (358)
Q Consensus 35 h~C~r~V~i~~~~~~ei~CP~C~~gFvEEi 64 (358)
|.|.|.|++ |..||.|..-|-.=-
T Consensus 286 HrC~RIV~v------EYrCPEC~KVFsCPA 309 (500)
T KOG3993|consen 286 HRCPRIVHV------EYRCPECDKVFSCPA 309 (500)
T ss_pred ccCCeeEEe------eecCCcccccccCch
Confidence 778887773 479999999997643
No 211
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=31.65 E-value=72 Score=31.66 Aligned_cols=44 Identities=5% Similarity=-0.054 Sum_probs=32.5
Q ss_pred CCccccccccccccCCccEEeccCC-eeChhhHHHHHhcCCCCCccceec
Q 018299 242 NDTTCPVCKEEFKVGGEARELACKH-IYHSECIVPWLRLHNSCPVCRHEV 290 (358)
Q Consensus 242 ~~~~C~ICle~~~~~~~~~~lpC~H-~FH~~CI~~WL~~~~sCPvCR~~l 290 (358)
...+|.+|-+... ..+..+|+| .|+..|-. +....+||+|-+.+
T Consensus 342 s~~~~~~~~~~~~---st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLL---STIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCcee---eeEeecCCcccChhhhhh--cccCCccccccccc
Confidence 4578999987766 556678997 57777876 55667899997654
No 212
>PHA02776 E7 protein; Provisional
Probab=31.22 E-value=24 Score=29.14 Aligned_cols=26 Identities=31% Similarity=0.783 Sum_probs=19.1
Q ss_pred eeeccCcceeecCC--------------CCCCccCCCCCC
Q 018299 33 WCYQCHRAVRISST--------------NPSEIACPRCSG 58 (358)
Q Consensus 33 wCh~C~r~V~i~~~--------------~~~ei~CP~C~~ 58 (358)
-|+.|.+.||+... ..-.++||.|..
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 49999999998532 122579999975
No 213
>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=30.90 E-value=39 Score=23.76 Aligned_cols=39 Identities=21% Similarity=0.435 Sum_probs=23.7
Q ss_pred ccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccCC
Q 018299 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPVS 293 (358)
Q Consensus 246 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~~ 293 (358)
|..|...+...+ .....-+..||..| ..|-.|+..|...
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~C--------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPEC--------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTT--------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEccc--------cccCCCCCccCCC
Confidence 566777666333 22224667788766 5677887777443
No 214
>COG1813 Predicted transcription factor, homolog of eukaryotic MBF1 [Transcription]
Probab=30.75 E-value=14 Score=33.06 Aligned_cols=27 Identities=26% Similarity=0.679 Sum_probs=20.4
Q ss_pred eeeccCcceeecCC----CCCCc-cCCCCCCCce
Q 018299 33 WCYQCHRAVRISST----NPSEI-ACPRCSGHFV 61 (358)
Q Consensus 33 wCh~C~r~V~i~~~----~~~ei-~CP~C~~gFv 61 (358)
||-.|.+.++ .+. +.+++ +|+.|. -|=
T Consensus 5 ~CEiCG~~i~-~~~~v~vegsel~VC~~Ca-k~G 36 (165)
T COG1813 5 GCELCGREID-KPIKVKVEGAELTVCDDCA-KFG 36 (165)
T ss_pred ceeccccccC-CCeeEEeecceeehhHHHH-Hhc
Confidence 5999999988 543 34555 999999 664
No 215
>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=30.38 E-value=38 Score=21.88 Aligned_cols=25 Identities=20% Similarity=0.514 Sum_probs=18.8
Q ss_pred eeeeccCcceeecCCCCCCccCCCCC
Q 018299 32 YWCYQCHRAVRISSTNPSEIACPRCS 57 (358)
Q Consensus 32 YwCh~C~r~V~i~~~~~~ei~CP~C~ 57 (358)
-+|+.|+..+..... ...+.|..|+
T Consensus 2 ~~C~~C~t~L~yP~g-A~~vrCs~C~ 26 (31)
T TIGR01053 2 VVCGGCRTLLMYPRG-ASSVRCALCQ 26 (31)
T ss_pred cCcCCCCcEeecCCC-CCeEECCCCC
Confidence 379999987776544 3468999996
No 216
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=30.29 E-value=41 Score=33.34 Aligned_cols=50 Identities=22% Similarity=0.650 Sum_probs=33.6
Q ss_pred Cccccccccccc-----cCC-----------ccEEeccCCeeChhhHHHHHhc---------CCCCCccceeccC
Q 018299 243 DTTCPVCKEEFK-----VGG-----------EARELACKHIYHSECIVPWLRL---------HNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~-----~~~-----------~~~~lpC~H~FH~~CI~~WL~~---------~~sCPvCR~~l~~ 292 (358)
+.+|++|+..-. .|. .-..-||+|+--..-..-|.+. +..||.|-..|..
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 578999987431 111 1133489999888888888764 3359999887744
No 217
>PF11261 IRF-2BP1_2: Interferon regulatory factor 2-binding protein zinc finger; InterPro: IPR022750 IRF-2BP1 and IRF-2BP2 are nuclear transcriptional repressor proteins and can inhibit both enhancer-activated and basal transcription. They both contain N-terminal zinc finger and C-terminal RING finger domains []. This entry represents the N-terminal zinc finger domain of IRF-2BP1 and IRF-2BP2.
Probab=30.18 E-value=20 Score=25.95 Aligned_cols=28 Identities=25% Similarity=0.393 Sum_probs=20.0
Q ss_pred CeeeeeccCcceeecCC--CCCCccCCCCC
Q 018299 30 PLYWCYQCHRAVRISST--NPSEIACPRCS 57 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~--~~~ei~CP~C~ 57 (358)
++-|||-|.-+--.++. +-+|.+|--|=
T Consensus 2 ~Rq~CyLCdlPr~PWami~df~EpVCRgCv 31 (54)
T PF11261_consen 2 RRQQCYLCDLPRMPWAMIWDFSEPVCRGCV 31 (54)
T ss_pred CceeEEeccCCCCchHHHhhccchhhhhhc
Confidence 46799999976665543 44678888773
No 218
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=29.48 E-value=34 Score=35.16 Aligned_cols=27 Identities=33% Similarity=0.789 Sum_probs=21.3
Q ss_pred eeccCcceeecCCCCC-CccCCCCCCCc
Q 018299 34 CYQCHRAVRISSTNPS-EIACPRCSGHF 60 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~-ei~CP~C~~gF 60 (358)
||.|..-++..+.++. ...||+|+.-.
T Consensus 13 C~~Cd~l~~~~~l~~g~~a~CpRCg~~L 40 (419)
T PRK15103 13 CPQCDMLVALPRLEHGQKAACPRCGTTL 40 (419)
T ss_pred CCCCCceeecCCCCCCCeeECCCCCCCC
Confidence 9999998877665443 46899999876
No 219
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=28.98 E-value=26 Score=33.24 Aligned_cols=47 Identities=19% Similarity=0.350 Sum_probs=32.8
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC--CCCc--cceecc
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN--SCPV--CRHEVP 291 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~--sCPv--CR~~l~ 291 (358)
+..|+|-+..+.. ......|.|.|-.+-|...|+..- .||. |-+.+.
T Consensus 189 ~nrCpitl~p~~~--pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~ 239 (275)
T COG5627 189 SNRCPITLNPDFY--PILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEV 239 (275)
T ss_pred cccCCcccCcchh--HHHHhhhcccccHHHHHHHhcCCceeecchhhcchhee
Confidence 5799996555441 444456999999999999998554 4775 644443
No 220
>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=28.57 E-value=47 Score=26.70 Aligned_cols=38 Identities=24% Similarity=0.603 Sum_probs=30.2
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCCCCCccceeccC
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~sCPvCR~~l~~ 292 (358)
-..|.-|...+..-+ .+| |..||..+..|..|+++++.
T Consensus 33 rS~C~~C~~~L~~~~---lIP---------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWD---LIP---------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCcccc---cch---------HHHHHHhCCCCcccCCCCCh
Confidence 579999998887333 333 77899999999999998864
No 221
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=28.33 E-value=38 Score=23.99 Aligned_cols=35 Identities=20% Similarity=0.534 Sum_probs=24.4
Q ss_pred ccccccccccccCCccEEe-ccCCeeChhhHHHHHh
Q 018299 244 TTCPVCKEEFKVGGEAREL-ACKHIYHSECIVPWLR 278 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~WL~ 278 (358)
..|.+|...|..-..-... .|+++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 5799998888754322233 4999999999776543
No 222
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=28.27 E-value=12 Score=36.47 Aligned_cols=38 Identities=24% Similarity=0.627 Sum_probs=29.5
Q ss_pred ccccccccccccCCccEEeccCCeeChhhHHHHHhcCC
Q 018299 244 TTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN 281 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~ 281 (358)
..|.+|+++|..+.....+-|..+||..|+-.|+....
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 48999999998655566666666999999999987654
No 223
>PRK12495 hypothetical protein; Provisional
Probab=27.95 E-value=33 Score=32.18 Aligned_cols=31 Identities=16% Similarity=0.440 Sum_probs=23.8
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCce
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
++..|+|-.|...|- --+..++||.|+.-+-
T Consensus 39 tmsa~hC~~CG~PIp---a~pG~~~Cp~CQ~~~~ 69 (226)
T PRK12495 39 TMTNAHCDECGDPIF---RHDGQEFCPTCQQPVT 69 (226)
T ss_pred ccchhhcccccCccc---CCCCeeECCCCCCccc
Confidence 567899999998776 2256789999996544
No 224
>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=27.74 E-value=19 Score=29.13 Aligned_cols=25 Identities=24% Similarity=0.777 Sum_probs=14.2
Q ss_pred eeeccCcceeecCCC--------------CCCccCCCCC
Q 018299 33 WCYQCHRAVRISSTN--------------PSEIACPRCS 57 (358)
Q Consensus 33 wCh~C~r~V~i~~~~--------------~~ei~CP~C~ 57 (358)
.|+.|++.||+.... .-.++||.|.
T Consensus 54 ~C~~C~~~lrl~V~as~~~Ir~lq~LLl~~L~lvCp~Ca 92 (92)
T PF00527_consen 54 CCGRCGKRLRLVVVASHEGIRTLQQLLLGDLSLVCPPCA 92 (92)
T ss_dssp EBTTT--EEEEEEEC-HHHHHHHHHHHHCT-EE--CCCH
T ss_pred ECCCCCCEEEEEEEeChhhHHHHHHHhhcCceEeCCCCC
Confidence 599999999985321 2257999983
No 225
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.10 E-value=44 Score=36.37 Aligned_cols=47 Identities=32% Similarity=0.605 Sum_probs=36.4
Q ss_pred cccccccccccCCccEEeccCC-eeChhhHHHHHhc------CCCCCccceeccCCC
Q 018299 245 TCPVCKEEFKVGGEARELACKH-IYHSECIVPWLRL------HNSCPVCRHEVPVSS 294 (358)
Q Consensus 245 ~C~ICle~~~~~~~~~~lpC~H-~FH~~CI~~WL~~------~~sCPvCR~~l~~~~ 294 (358)
.|+||-.... .+..-.|+| ..|..|....... ++.||+||.++....
T Consensus 2 ~c~ic~~s~~---~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s 55 (669)
T KOG2231|consen 2 SCAICAFSPD---FVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKS 55 (669)
T ss_pred CcceeecCcc---ccccccccccccchhhhhhhhhhcccccccccCcccccceeeec
Confidence 5999988877 555666999 9999999887643 345899999776543
No 226
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=26.99 E-value=32 Score=26.09 Aligned_cols=19 Identities=32% Similarity=0.779 Sum_probs=14.2
Q ss_pred eeccCcceeecCCCCCCccCCCCCCC
Q 018299 34 CYQCHRAVRISSTNPSEIACPRCSGH 59 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~ei~CP~C~~g 59 (358)
|..|++-+. +-+||.|++.
T Consensus 8 C~~C~~i~~-------~~~Cp~Cgs~ 26 (64)
T PRK06393 8 CKKCKRLTP-------EKTCPVHGDE 26 (64)
T ss_pred HhhCCcccC-------CCcCCCCCCC
Confidence 888998552 2399999993
No 227
>COG3043 NapB Nitrate reductase cytochrome c-type subunit [Energy production and conversion]
Probab=26.79 E-value=37 Score=29.95 Aligned_cols=17 Identities=35% Similarity=0.624 Sum_probs=14.2
Q ss_pred CcCCCCCCeeeeeccCc
Q 018299 23 NGANRNYPLYWCYQCHR 39 (358)
Q Consensus 23 ~~~~~t~~~YwCh~C~r 39 (358)
...+.+..+|||-||.-
T Consensus 118 v~a~vSPRRYFClQCHV 134 (155)
T COG3043 118 VLADVSPRRYFCLQCHV 134 (155)
T ss_pred cccccCccceeeeeccc
Confidence 55677899999999994
No 228
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=26.75 E-value=39 Score=22.05 Aligned_cols=29 Identities=21% Similarity=0.425 Sum_probs=19.5
Q ss_pred eeeeeccCcceeecCCCCCCccCCCCCCCc
Q 018299 31 LYWCYQCHRAVRISSTNPSEIACPRCSGHF 60 (358)
Q Consensus 31 ~YwCh~C~r~V~i~~~~~~ei~CP~C~~gF 60 (358)
.+=|..|+..+-+.. +.+..+|+.|+.-|
T Consensus 3 ~~~C~~C~~~~i~~~-~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNGIVNK-EDDYEVCIFCGSSF 31 (33)
T ss_pred ceEcCCCCCCeEEEe-cCCeEEcccCCcEe
Confidence 345788888776522 23457999998755
No 229
>PRK14873 primosome assembly protein PriA; Provisional
Probab=26.42 E-value=39 Score=36.82 Aligned_cols=30 Identities=27% Similarity=0.629 Sum_probs=20.0
Q ss_pred CeeeeeccCcceeecCCCCCCccCCCCCCCceEEEcc
Q 018299 30 PLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIEI 66 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~~ 66 (358)
+..-||.|.... . ...||.|++.-+..+..
T Consensus 409 ~~l~Ch~CG~~~---~----p~~Cp~Cgs~~l~~~g~ 438 (665)
T PRK14873 409 GTPRCRWCGRAA---P----DWRCPRCGSDRLRAVVV 438 (665)
T ss_pred CeeECCCCcCCC---c----CccCCCCcCCcceeeec
Confidence 467788888632 1 14889998877666653
No 230
>COG4260 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]
Probab=26.06 E-value=31 Score=33.77 Aligned_cols=32 Identities=28% Similarity=0.627 Sum_probs=18.5
Q ss_pred CeeeeeccCcceeecCCCCCCccCCCCCCCce
Q 018299 30 PLYWCYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
+.-||-.|.-.-..-..+..--+||.|.++||
T Consensus 314 k~nfc~ncG~~~t~~~~ng~a~fcp~cgq~~~ 345 (345)
T COG4260 314 KLNFCLNCGCGTTADFDNGKAKFCPECGQGFV 345 (345)
T ss_pred ccccccccCcccccCCccchhhhChhhcCCCC
Confidence 45678887732221112223358999998886
No 231
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=25.37 E-value=39 Score=25.35 Aligned_cols=19 Identities=37% Similarity=0.887 Sum_probs=13.8
Q ss_pred eeeccCcceeecCCCCCCccCCCCCC
Q 018299 33 WCYQCHRAVRISSTNPSEIACPRCSG 58 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~~ei~CP~C~~ 58 (358)
=|-.|++-+. +-.||.|++
T Consensus 5 AC~~C~~i~~-------~~~CP~Cgs 23 (61)
T PRK08351 5 ACRHCHYITT-------EDRCPVCGS 23 (61)
T ss_pred hhhhCCcccC-------CCcCCCCcC
Confidence 3888988441 128999998
No 232
>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=25.33 E-value=39 Score=34.48 Aligned_cols=24 Identities=38% Similarity=0.873 Sum_probs=18.1
Q ss_pred eeeccCcceeecCCCCCCccCCCCCCCc
Q 018299 33 WCYQCHRAVRISSTNPSEIACPRCSGHF 60 (358)
Q Consensus 33 wCh~C~r~V~i~~~~~~ei~CP~C~~gF 60 (358)
=||.|...+. ......||+|+.-.
T Consensus 217 ~C~~Cd~~~~----~~~~a~CpRC~~~L 240 (403)
T TIGR00155 217 SCSACHTTIL----PAQEPVCPRCSTPL 240 (403)
T ss_pred cCCCCCCccC----CCCCcCCcCCCCcc
Confidence 4999998653 23357999999876
No 233
>PRK13795 hypothetical protein; Provisional
Probab=25.28 E-value=51 Score=35.71 Aligned_cols=31 Identities=19% Similarity=0.631 Sum_probs=22.6
Q ss_pred CCCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEcc
Q 018299 28 NYPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIEI 66 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~~ 66 (358)
...-|||..||-+|- . -.|..|+... .++..
T Consensus 9 ~~~~~wc~~cn~p~~----~---~~c~~c~~~~-~~~~~ 39 (636)
T PRK13795 9 KDHIYWCEKCNVPLL----G---KKCGICGKEG-FKVRL 39 (636)
T ss_pred ceeEEEcccCCCeec----c---ccccccCCCc-eEeec
Confidence 457899999997664 2 3799999864 44543
No 234
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.03 E-value=25 Score=36.17 Aligned_cols=38 Identities=24% Similarity=0.552 Sum_probs=27.8
Q ss_pred ccccccccccccCCccE-----EeccCCeeChhhHHHHHhcCC
Q 018299 244 TTCPVCKEEFKVGGEAR-----ELACKHIYHSECIVPWLRLHN 281 (358)
Q Consensus 244 ~~C~ICle~~~~~~~~~-----~lpC~H~FH~~CI~~WL~~~~ 281 (358)
..|+.|+...+...... ..+|+|.||..|+..|.....
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~~ 269 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHGS 269 (444)
T ss_pred ccCCCcccchhccCCccccccccCCcCCeeceeeecccccccc
Confidence 45999998887655222 224999999999999876643
No 235
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=24.95 E-value=39 Score=32.47 Aligned_cols=44 Identities=23% Similarity=0.415 Sum_probs=32.7
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC--CCCccce
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN--SCPVCRH 288 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~--sCPvCR~ 288 (358)
...|+|-+..+. ..++-..|+|+|-.+-|...+.... .||+=-.
T Consensus 176 s~rdPis~~~I~--nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 176 SNRDPISKKPIV--NPVISKKCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred cccCchhhhhhh--chhhhcCcCcchhhhhHHHHhccCceeecccccC
Confidence 468998766655 2555667999999999999987744 4888433
No 236
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=24.60 E-value=28 Score=24.88 Aligned_cols=10 Identities=30% Similarity=1.089 Sum_probs=5.3
Q ss_pred CCCccceecc
Q 018299 282 SCPVCRHEVP 291 (358)
Q Consensus 282 sCPvCR~~l~ 291 (358)
.||+|..+|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 7999999884
No 237
>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 COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.99 E-value=69 Score=26.21 Aligned_cols=35 Identities=26% Similarity=0.345 Sum_probs=30.0
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHh
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLR 278 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~ 278 (358)
...|.||-..+..|+.-..++ +-..|.+|+..=..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 468999999999999888888 77899999987543
No 239
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.91 E-value=15 Score=35.41 Aligned_cols=47 Identities=23% Similarity=0.504 Sum_probs=37.9
Q ss_pred CccccccccccccC---CccEEec--------cCCeeChhhHHHHHhcCC-CCCcccee
Q 018299 243 DTTCPVCKEEFKVG---GEARELA--------CKHIYHSECIVPWLRLHN-SCPVCRHE 289 (358)
Q Consensus 243 ~~~C~ICle~~~~~---~~~~~lp--------C~H~FH~~CI~~WL~~~~-sCPvCR~~ 289 (358)
...|.||...|... ..++.+. |+|..|..|+..-+.... .||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 36799999988732 3566666 999999999999987765 79999875
No 240
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=23.84 E-value=42 Score=34.23 Aligned_cols=31 Identities=32% Similarity=0.862 Sum_probs=22.8
Q ss_pred CccccccccccccCCccEEe--ccCCeeChhhHHHH
Q 018299 243 DTTCPVCKEEFKVGGEAREL--ACKHIYHSECIVPW 276 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~l--pC~H~FH~~CI~~W 276 (358)
..+|+||+-.+- ....+ -|....|..|+.+.
T Consensus 74 ~~ecpicflyyp---s~~n~~rcC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 74 KTECPICFLYYP---SAKNLVRCCSETICGECFAPF 106 (482)
T ss_pred cccCceeeeecc---cccchhhhhccchhhhheecc
Confidence 369999999876 32333 38888888888775
No 241
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.77 E-value=53 Score=34.75 Aligned_cols=65 Identities=15% Similarity=0.144 Sum_probs=43.8
Q ss_pred CCCHHHHHhCCceeeeccccCCCccccccccccccCCccEEeccCCeeChhhHHHHHhcCC-----CCCccce
Q 018299 221 PVPEAAIQAIPTVKIMESHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN-----SCPVCRH 288 (358)
Q Consensus 221 pas~~~i~~lp~~~~~~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~-----sCPvCR~ 288 (358)
..++-.-..++...+.......+..|.-|--..+ .++.+-|.-.||..|+.+=.+..+ .||+|+.
T Consensus 38 ~~skq~~~~~d~~~~~~~~~N~d~~cfechlpg~---vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~s 107 (588)
T KOG3612|consen 38 GRSKQLALAFDQKVSRLPSSNIDPFCFECHLPGA---VLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPYS 107 (588)
T ss_pred cccchhhhccCcccccccccCCCcccccccCCcc---eeeeehhhccccccccCcchhhccccccccCCcccc
Confidence 3444433444444443334445678888876665 778888999999999999877654 3999865
No 242
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=23.72 E-value=28 Score=21.77 Aligned_cols=7 Identities=57% Similarity=1.597 Sum_probs=3.3
Q ss_pred ccCCCCC
Q 018299 51 IACPRCS 57 (358)
Q Consensus 51 i~CP~C~ 57 (358)
.+||.|+
T Consensus 22 ~~C~rCq 28 (30)
T PF06827_consen 22 YLCPRCQ 28 (30)
T ss_dssp EE-TTTC
T ss_pred eECcCCc
Confidence 4555554
No 243
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=23.25 E-value=57 Score=35.93 Aligned_cols=38 Identities=24% Similarity=0.522 Sum_probs=29.8
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEccCCCcc
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIEISRPRL 71 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~~~~p~~ 71 (358)
...-=|++|...| ++.++.||.|++-|=.=|...+|..
T Consensus 1115 ~~~vdc~~cg~~i-----~~~~~~c~ec~~kfP~CiasG~pIt 1152 (1189)
T KOG2041|consen 1115 SAKVDCSVCGAKI-----DPYDLQCSECQTKFPVCIASGRPIT 1152 (1189)
T ss_pred ccceeeeecCCcC-----CccCCCChhhcCcCceeeccCCccc
Confidence 3567799999755 4567899999999998888776644
No 244
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=23.03 E-value=66 Score=33.27 Aligned_cols=34 Identities=21% Similarity=0.463 Sum_probs=25.4
Q ss_pred CeeeeeccCcceeecCCCCCCccCCCCC--CCceEEEccCC
Q 018299 30 PLYWCYQCHRAVRISSTNPSEIACPRCS--GHFVSEIEISR 68 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~~~~ei~CP~C~--~gFvEEi~~~~ 68 (358)
..|-|..|.-.-.-+. =+||.|+ +-|+||.....
T Consensus 6 t~f~C~~CG~~s~KW~-----GkCp~Cg~Wns~vE~~~~~~ 41 (456)
T COG1066 6 TAFVCQECGYVSPKWL-----GKCPACGAWNTLVEEVLAAS 41 (456)
T ss_pred cEEEcccCCCCCcccc-----ccCCCCCCccceEEeecccc
Confidence 6799999996332222 2999999 79999997653
No 245
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=22.94 E-value=65 Score=32.61 Aligned_cols=31 Identities=26% Similarity=0.653 Sum_probs=20.9
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCCce
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
-.-|+|+.|...-.... ...-.||+|++-++
T Consensus 242 g~~~~C~~c~~~~~~~~--~~~~~C~~c~~~~~ 272 (382)
T PRK04338 242 GYVYYCPKCLYREEVEG--LPPEECPVCGGKFG 272 (382)
T ss_pred eeEEECCCCCcEEEecC--CCCCCCCCCCCcce
Confidence 35789999998554332 22348999987554
No 246
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=22.84 E-value=45 Score=32.05 Aligned_cols=27 Identities=19% Similarity=0.490 Sum_probs=19.5
Q ss_pred eeccCcceeecCCC-CCCccCCCCCCCc
Q 018299 34 CYQCHRAVRISSTN-PSEIACPRCSGHF 60 (358)
Q Consensus 34 Ch~C~r~V~i~~~~-~~ei~CP~C~~gF 60 (358)
|..|..+|.-.... -+-..||.|+..+
T Consensus 238 C~~Cg~~I~~~~~~gR~ty~Cp~CQ~~~ 265 (269)
T PRK14811 238 CPRCGTPIEKIVVGGRGTHFCPQCQPLR 265 (269)
T ss_pred CCcCCCeeEEEEECCCCcEECCCCcCCC
Confidence 99999888754332 2458999998654
No 247
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=22.79 E-value=56 Score=34.92 Aligned_cols=36 Identities=33% Similarity=0.736 Sum_probs=24.8
Q ss_pred CCccccccccccccC---C-------ccEEeccCCeeChhhHHHHH
Q 018299 242 NDTTCPVCKEEFKVG---G-------EARELACKHIYHSECIVPWL 277 (358)
Q Consensus 242 ~~~~C~ICle~~~~~---~-------~~~~lpC~H~FH~~CI~~WL 277 (358)
....|+||.|.|+.- + ..+.+.=|-+||..|+..--
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred cccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 357899999999631 0 22333368899999987653
No 248
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.75 E-value=61 Score=34.04 Aligned_cols=31 Identities=19% Similarity=0.334 Sum_probs=19.9
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEc
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIE 65 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~ 65 (358)
.+..-||.|.....+ .-.||.|++.-+....
T Consensus 238 ~~~l~Ch~Cg~~~~~------~~~Cp~C~s~~l~~~g 268 (505)
T TIGR00595 238 EGKLRCHYCGYQEPI------PKTCPQCGSEDLVYKG 268 (505)
T ss_pred CCeEEcCCCcCcCCC------CCCCCCCCCCeeEeec
Confidence 345678888864331 1389999987666553
No 249
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 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 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 []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=22.45 E-value=73 Score=19.65 Aligned_cols=24 Identities=17% Similarity=0.541 Sum_probs=16.7
Q ss_pred eeccCcceeecCCCCCCccCCCCCC
Q 018299 34 CYQCHRAVRISSTNPSEIACPRCSG 58 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~ei~CP~C~~ 58 (358)
|..|+..+..... ...+.|..|+.
T Consensus 1 C~~Cr~~L~yp~G-A~sVrCa~C~~ 24 (25)
T PF06943_consen 1 CGGCRTLLMYPRG-APSVRCACCHT 24 (25)
T ss_pred CCCCCceEEcCCC-CCCeECCccCc
Confidence 7788886665433 34689999973
No 250
>KOG2463 consensus Predicted RNA-binding protein Nob1p involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=22.38 E-value=38 Score=33.73 Aligned_cols=31 Identities=16% Similarity=0.473 Sum_probs=22.1
Q ss_pred eeeeeccCcceeecCCCCCCccCCCCCCCceEEEc
Q 018299 31 LYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIE 65 (358)
Q Consensus 31 ~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~ 65 (358)
-.=||-|=..+. . ..-.+||.|+++=+-.+.
T Consensus 242 iLRCh~Cfsit~---~-m~k~FCp~CG~~TL~K~a 272 (376)
T KOG2463|consen 242 ILRCHGCFSITS---E-MPKDFCPSCGHKTLTKCA 272 (376)
T ss_pred eeEeeeeeEecC---c-cchhcccccCCCeeeEEE
Confidence 346999987542 2 234799999999776664
No 251
>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase. This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.
Probab=22.26 E-value=63 Score=32.66 Aligned_cols=33 Identities=18% Similarity=0.513 Sum_probs=20.0
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCCce
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
-.-|+|+.|...-.+.......-.||+|++-++
T Consensus 231 g~v~~C~~c~~~~~~~~~~~~~~~C~~c~~~~~ 263 (374)
T TIGR00308 231 GYTYHCSRCLHNKPVNGISQRKGRCKECGGEYH 263 (374)
T ss_pred eeEEECCCcccccccccccCCCCCCCCCCCcce
Confidence 347889999653222211222358999998554
No 252
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.13 E-value=21 Score=31.03 Aligned_cols=51 Identities=24% Similarity=0.529 Sum_probs=27.8
Q ss_pred cCCCcccccccc-ccccCCccEEeccCCeeChhhHHHHHhcCC----CCCccceec
Q 018299 240 LANDTTCPVCKE-EFKVGGEARELACKHIYHSECIVPWLRLHN----SCPVCRHEV 290 (358)
Q Consensus 240 ~~~~~~C~ICle-~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~----sCPvCR~~l 290 (358)
...+..|-||+. .|.+|-.-...-|.-.||..|--..-...+ .|-+|+...
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 445789999986 454432222223455555555443322222 288888754
No 253
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=21.86 E-value=44 Score=32.03 Aligned_cols=30 Identities=23% Similarity=0.658 Sum_probs=20.4
Q ss_pred eeccCcceeecCCC----CCCccCCCCCCCceEE
Q 018299 34 CYQCHRAVRISSTN----PSEIACPRCSGHFVSE 63 (358)
Q Consensus 34 Ch~C~r~V~i~~~~----~~ei~CP~C~~gFvEE 63 (358)
|+.|++..-..+.+ .+|+.||.|...|---
T Consensus 135 Cr~C~~rYDPVP~dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 135 CRKCRKRYDPVPCDKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred ccccccccCCCccccccceeeeecccccccchhh
Confidence 66777655544443 2588999999888644
No 254
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=21.53 E-value=67 Score=23.95 Aligned_cols=37 Identities=24% Similarity=0.459 Sum_probs=23.8
Q ss_pred CCeeeeec--cCcceeecCCCCCCccCCCCCCCceEEEc
Q 018299 29 YPLYWCYQ--CHRAVRISSTNPSEIACPRCSGHFVSEIE 65 (358)
Q Consensus 29 ~~~YwCh~--C~r~V~i~~~~~~ei~CP~C~~gFvEEi~ 65 (358)
..-|=|-. |+-=+|---.-....+||.|++..+++.-
T Consensus 16 t~VW~Ct~e~C~gWmR~nFs~~~~p~CPlC~s~M~~~~r 54 (59)
T PF14169_consen 16 TKVWECTSEDCNGWMRDNFSFEEEPVCPLCKSPMVSGTR 54 (59)
T ss_pred eeeEEeCCCCCCcccccccccCCCccCCCcCCcccccee
Confidence 34455665 77656532222335799999999888764
No 255
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=21.51 E-value=54 Score=22.04 Aligned_cols=14 Identities=36% Similarity=0.890 Sum_probs=9.4
Q ss_pred ccCCCCCCCceEEE
Q 018299 51 IACPRCSGHFVSEI 64 (358)
Q Consensus 51 i~CP~C~~gFvEEi 64 (358)
..||.|++-.|+-.
T Consensus 2 ~~CP~Cg~~lv~r~ 15 (39)
T PF01396_consen 2 EKCPKCGGPLVLRR 15 (39)
T ss_pred cCCCCCCceeEEEE
Confidence 58999995444433
No 256
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.21 E-value=72 Score=34.81 Aligned_cols=31 Identities=23% Similarity=0.461 Sum_probs=20.4
Q ss_pred CCeeeeeccCcceeecCCCCCCccCCCCCCCceEEEc
Q 018299 29 YPLYWCYQCHRAVRISSTNPSEIACPRCSGHFVSEIE 65 (358)
Q Consensus 29 ~~~YwCh~C~r~V~i~~~~~~ei~CP~C~~gFvEEi~ 65 (358)
.+...||.|.....+ .-.||.|++..+....
T Consensus 406 ~~~l~Ch~Cg~~~~~------~~~Cp~Cg~~~l~~~g 436 (679)
T PRK05580 406 QRRLRCHHCGYQEPI------PKACPECGSTDLVPVG 436 (679)
T ss_pred CCeEECCCCcCCCCC------CCCCCCCcCCeeEEee
Confidence 455678888864331 1389999887666553
No 257
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=21.01 E-value=72 Score=23.79 Aligned_cols=27 Identities=19% Similarity=0.525 Sum_probs=14.6
Q ss_pred CeeeeeccCcceeecCCC-CCCccCCCCCC
Q 018299 30 PLYWCYQCHRAVRISSTN-PSEIACPRCSG 58 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~~-~~ei~CP~C~~ 58 (358)
..+-|-.|++.+. +.+ ...+.||.|+.
T Consensus 6 ~~~~CtSCg~~i~--~~~~~~~F~CPnCG~ 33 (59)
T PRK14890 6 EPPKCTSCGIEIA--PREKAVKFLCPNCGE 33 (59)
T ss_pred cCccccCCCCccc--CCCccCEeeCCCCCC
Confidence 3445667775443 222 34567777754
No 258
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=20.94 E-value=25 Score=36.53 Aligned_cols=48 Identities=25% Similarity=0.608 Sum_probs=31.3
Q ss_pred Ccccccccccc-ccCCccEEe-ccCCeeChhhHHHHHhcC---C-----CCCccceec
Q 018299 243 DTTCPVCKEEF-KVGGEAREL-ACKHIYHSECIVPWLRLH---N-----SCPVCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~-~~~~~~~~l-pC~H~FH~~CI~~WL~~~---~-----sCPvCR~~l 290 (358)
+..|.+|+.-. ...+..++. .|...||..|..+..+.. . -|-+|....
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 46799999543 333333333 399999999988765321 1 298987644
No 259
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=20.82 E-value=33 Score=34.96 Aligned_cols=50 Identities=24% Similarity=0.630 Sum_probs=0.0
Q ss_pred Cccccccccccc-----cCC-----------ccEEeccCCeeChhhHHHHHhc---------CCCCCccceeccC
Q 018299 243 DTTCPVCKEEFK-----VGG-----------EARELACKHIYHSECIVPWLRL---------HNSCPVCRHEVPV 292 (358)
Q Consensus 243 ~~~C~ICle~~~-----~~~-----------~~~~lpC~H~FH~~CI~~WL~~---------~~sCPvCR~~l~~ 292 (358)
..+|++|+..-. .|. ....-||+|+--.....-|-+. +..||.|-..|..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 568999986421 111 2234489999888888889754 2359999888853
No 260
>PRK10220 hypothetical protein; Provisional
Probab=20.77 E-value=62 Score=27.12 Aligned_cols=28 Identities=18% Similarity=0.617 Sum_probs=17.0
Q ss_pred eeccCcceeecCCCCCCccCCCCCCCceEE
Q 018299 34 CYQCHRAVRISSTNPSEIACPRCSGHFVSE 63 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~ei~CP~C~~gFvEE 63 (358)
|-+|+....-+ +...++||.|..-+-.+
T Consensus 6 CP~C~seytY~--d~~~~vCpeC~hEW~~~ 33 (111)
T PRK10220 6 CPKCNSEYTYE--DNGMYICPECAHEWNDA 33 (111)
T ss_pred CCCCCCcceEc--CCCeEECCcccCcCCcc
Confidence 77777655433 23346788887766544
No 261
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=20.76 E-value=43 Score=33.10 Aligned_cols=19 Identities=16% Similarity=0.415 Sum_probs=11.3
Q ss_pred CCCeeeeeccCcceeecCC
Q 018299 28 NYPLYWCYQCHRAVRISST 46 (358)
Q Consensus 28 t~~~YwCh~C~r~V~i~~~ 46 (358)
+..-+||-+|...|-|-..
T Consensus 87 ~p~VHfCd~Cd~PI~IYGR 105 (389)
T KOG2932|consen 87 GPRVHFCDRCDFPIAIYGR 105 (389)
T ss_pred CcceEeecccCCcceeeec
Confidence 3445677777766666443
No 262
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=20.75 E-value=50 Score=21.62 Aligned_cols=25 Identities=24% Similarity=0.612 Sum_probs=11.0
Q ss_pred eeeeccCcceeecCCCCCCccCCCCCCCce
Q 018299 32 YWCYQCHRAVRISSTNPSEIACPRCSGHFV 61 (358)
Q Consensus 32 YwCh~C~r~V~i~~~~~~ei~CP~C~~gFv 61 (358)
--|-.|.+.+- .+. ..||.|++.=+
T Consensus 12 ~rC~~Cg~~~~-pPr----~~Cp~C~s~~l 36 (37)
T PF12172_consen 12 QRCRDCGRVQF-PPR----PVCPHCGSDEL 36 (37)
T ss_dssp EE-TTT--EEE-S------SEETTTT----
T ss_pred EEcCCCCCEec-CCC----cCCCCcCcccc
Confidence 34778887433 333 59999987533
No 263
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=20.61 E-value=57 Score=22.52 Aligned_cols=16 Identities=19% Similarity=0.609 Sum_probs=11.2
Q ss_pred CccCCCCCCCceEEEc
Q 018299 50 EIACPRCSGHFVSEIE 65 (358)
Q Consensus 50 ei~CP~C~~gFvEEi~ 65 (358)
.++||.|++-=+..|.
T Consensus 18 g~~CP~Cg~~~~~~~~ 33 (46)
T PF12760_consen 18 GFVCPHCGSTKHYRLK 33 (46)
T ss_pred CCCCCCCCCeeeEEeC
Confidence 4899999987444443
No 264
>PF13397 DUF4109: Domain of unknown function (DUF4109)
Probab=20.47 E-value=1.2e+02 Score=25.24 Aligned_cols=43 Identities=26% Similarity=0.468 Sum_probs=27.5
Q ss_pred CCCCCCCcCCCCCCeeeeeccCcceeecCC---CCCCccCCCCCCC
Q 018299 17 NGDGNGNGANRNYPLYWCYQCHRAVRISST---NPSEIACPRCSGH 59 (358)
Q Consensus 17 ~~~~~~~~~~~t~~~YwCh~C~r~V~i~~~---~~~ei~CP~C~~g 59 (358)
-.+-|+.-..|..-.|||-.=..++-.=+. -|...-||.|+.-
T Consensus 14 E~e~~~~~apR~~v~Y~C~~Gh~~~v~Fa~eAevP~~WeC~~cG~~ 59 (105)
T PF13397_consen 14 ESERGVEFAPRQRVSYWCPNGHETEVPFAAEAEVPATWECPRCGLP 59 (105)
T ss_pred ccCCCCCccCceEEEEECCCCCEEeccccccCCCCCceeCCCCCCc
Confidence 334455666778889999996654432222 2344599999864
No 265
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=20.36 E-value=36 Score=32.39 Aligned_cols=31 Identities=19% Similarity=0.415 Sum_probs=18.4
Q ss_pred CeeeeeccCcceeecCC-----CCCCccCCCCCCCc
Q 018299 30 PLYWCYQCHRAVRISST-----NPSEIACPRCSGHF 60 (358)
Q Consensus 30 ~~YwCh~C~r~V~i~~~-----~~~ei~CP~C~~gF 60 (358)
.-.=|.-|+-.+..... ...-++||+|+--.
T Consensus 196 ~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRIL 231 (239)
T COG1579 196 EGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRIL 231 (239)
T ss_pred cCCcccCCeeeecHHHHHHHhcCCCCccCCccchHH
Confidence 34458888855443211 22347999998543
No 266
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.29 E-value=52 Score=24.38 Aligned_cols=23 Identities=22% Similarity=0.697 Sum_probs=14.2
Q ss_pred eeccCcceeecCCCCCCccCCCCC
Q 018299 34 CYQCHRAVRISSTNPSEIACPRCS 57 (358)
Q Consensus 34 Ch~C~r~V~i~~~~~~ei~CP~C~ 57 (358)
|+.|...+.- .......+||.|+
T Consensus 31 C~~CG~~~~~-~~~~r~~~C~~Cg 53 (69)
T PF07282_consen 31 CPRCGHRNKK-RRSGRVFTCPNCG 53 (69)
T ss_pred ccCccccccc-ccccceEEcCCCC
Confidence 7888876654 1223357888874
No 267
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=20.22 E-value=32 Score=40.71 Aligned_cols=48 Identities=27% Similarity=0.505 Sum_probs=38.1
Q ss_pred CccccccccccccCCccEEeccCCeeChhhHHHHHhcCC----CCCccceec
Q 018299 243 DTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHN----SCPVCRHEV 290 (358)
Q Consensus 243 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~WL~~~~----sCPvCR~~l 290 (358)
...|.||.........+...-|.-.||..|+.+-+..-. .||-||.+-
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 568999999887544444455999999999999887644 499999876
No 268
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=20.07 E-value=69 Score=27.58 Aligned_cols=23 Identities=17% Similarity=0.417 Sum_probs=16.5
Q ss_pred CcCCCCCCeeeeeccCcceeecC
Q 018299 23 NGANRNYPLYWCYQCHRAVRISS 45 (358)
Q Consensus 23 ~~~~~t~~~YwCh~C~r~V~i~~ 45 (358)
.|...+...|+||.|.-.+.+-+
T Consensus 20 ~a~~~~~~~~tC~~Cg~~L~lh~ 42 (128)
T PF11682_consen 20 TAASAPYDHWTCHSCGCPLILHP 42 (128)
T ss_pred hhhhCCCCeEEEecCCceEEEec
Confidence 34444778999999998776554
Done!