Query 005461
Match_columns 695
No_of_seqs 287 out of 1790
Neff 4.8
Searched_HMMs 46136
Date Thu Mar 28 23:48:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005461.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005461hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.4 2.4E-13 5.2E-18 145.8 5.2 49 646-694 230-279 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 2.1E-13 4.6E-18 105.1 2.1 44 646-689 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.1 1E-10 2.2E-15 120.7 5.5 51 643-693 172-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.1 9.1E-11 2E-15 100.4 4.3 47 643-689 17-73 (73)
5 COG5540 RING-finger-containing 99.1 6.4E-11 1.4E-15 123.9 3.8 51 644-694 322-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.0 1.9E-10 4.2E-15 122.9 4.1 52 641-692 283-344 (491)
7 KOG0317 Predicted E3 ubiquitin 99.0 3.1E-10 6.7E-15 118.5 3.7 51 641-694 235-285 (293)
8 PLN03208 E3 ubiquitin-protein 99.0 5.5E-10 1.2E-14 111.7 5.1 48 643-693 16-79 (193)
9 KOG0823 Predicted E3 ubiquitin 98.9 6.2E-10 1.3E-14 113.3 3.5 49 642-693 44-95 (230)
10 KOG0320 Predicted E3 ubiquitin 98.8 1.6E-09 3.5E-14 106.5 3.7 53 640-693 126-178 (187)
11 PF13920 zf-C3HC4_3: Zinc fing 98.8 2.2E-09 4.9E-14 84.9 3.3 46 645-693 2-48 (50)
12 cd00162 RING RING-finger (Real 98.8 6.2E-09 1.3E-13 77.7 3.9 44 647-692 1-45 (45)
13 PF13923 zf-C3HC4_2: Zinc fing 98.8 4.2E-09 9.2E-14 79.4 2.9 39 648-688 1-39 (39)
14 PF15227 zf-C3HC4_4: zinc fing 98.7 7.5E-09 1.6E-13 79.9 3.0 38 648-688 1-42 (42)
15 smart00504 Ubox Modified RING 98.7 1.4E-08 3.1E-13 82.8 4.7 45 646-693 2-46 (63)
16 KOG0802 E3 ubiquitin ligase [P 98.6 1.1E-08 2.3E-13 117.0 2.0 51 643-693 289-341 (543)
17 PHA02926 zinc finger-like prot 98.6 2.1E-08 4.6E-13 101.9 3.6 51 642-692 167-229 (242)
18 PF14634 zf-RING_5: zinc-RING 98.6 3.5E-08 7.5E-13 76.5 3.6 44 647-690 1-44 (44)
19 PF12861 zf-Apc11: Anaphase-pr 98.6 3.2E-08 6.9E-13 87.4 3.7 49 644-692 20-81 (85)
20 TIGR00599 rad18 DNA repair pro 98.6 3.5E-08 7.6E-13 108.5 3.8 49 642-693 23-71 (397)
21 PF00097 zf-C3HC4: Zinc finger 98.6 4E-08 8.6E-13 74.3 2.7 39 648-688 1-41 (41)
22 smart00184 RING Ring finger. E 98.5 9.2E-08 2E-12 68.9 3.8 38 648-688 1-39 (39)
23 COG5574 PEX10 RING-finger-cont 98.4 9.3E-08 2E-12 99.2 2.6 49 643-694 213-263 (271)
24 KOG2164 Predicted E3 ubiquitin 98.3 3.2E-07 6.9E-12 102.4 2.8 47 645-694 186-237 (513)
25 COG5194 APC11 Component of SCF 98.3 6E-07 1.3E-11 78.1 3.7 48 645-692 20-80 (88)
26 KOG0287 Postreplication repair 98.3 2.8E-07 6.1E-12 98.2 1.5 47 644-693 22-68 (442)
27 PF04564 U-box: U-box domain; 98.2 6.1E-07 1.3E-11 76.7 2.6 46 645-693 4-50 (73)
28 COG5432 RAD18 RING-finger-cont 98.2 7.1E-07 1.5E-11 93.6 2.5 45 644-691 24-68 (391)
29 KOG2930 SCF ubiquitin ligase, 98.2 4.1E-07 8.9E-12 82.6 0.1 52 640-691 41-106 (114)
30 KOG0828 Predicted E3 ubiquitin 98.2 8.3E-07 1.8E-11 98.3 2.3 53 642-694 568-635 (636)
31 PF13445 zf-RING_UBOX: RING-ty 98.1 1.2E-06 2.5E-11 68.4 2.3 38 648-686 1-43 (43)
32 KOG2177 Predicted E3 ubiquitin 98.1 8.3E-07 1.8E-11 88.3 1.7 45 642-689 10-54 (386)
33 KOG1734 Predicted RING-contain 98.1 7.7E-07 1.7E-11 92.6 0.9 54 640-693 219-281 (328)
34 smart00744 RINGv The RING-vari 97.9 1.1E-05 2.4E-10 64.5 3.6 42 647-689 1-49 (49)
35 KOG0978 E3 ubiquitin ligase in 97.9 7.9E-06 1.7E-10 95.0 3.5 48 644-694 642-690 (698)
36 KOG1493 Anaphase-promoting com 97.8 3.6E-06 7.8E-11 72.8 -0.3 51 642-692 17-80 (84)
37 PF11793 FANCL_C: FANCL C-term 97.8 5.1E-06 1.1E-10 70.9 0.3 49 645-693 2-66 (70)
38 COG5219 Uncharacterized conser 97.7 1.5E-05 3.3E-10 93.6 2.6 53 641-693 1465-1523(1525)
39 KOG4265 Predicted E3 ubiquitin 97.7 1.7E-05 3.7E-10 85.7 2.8 49 643-694 288-337 (349)
40 KOG0311 Predicted E3 ubiquitin 97.7 5.2E-06 1.1E-10 89.3 -1.3 48 643-693 41-90 (381)
41 KOG4172 Predicted E3 ubiquitin 97.6 1.4E-05 3.1E-10 65.3 0.2 46 645-693 7-54 (62)
42 KOG1039 Predicted E3 ubiquitin 97.5 3.6E-05 7.9E-10 83.7 2.2 50 643-692 159-220 (344)
43 PF14835 zf-RING_6: zf-RING of 97.5 2.5E-05 5.3E-10 65.9 -0.2 43 646-693 8-51 (65)
44 KOG0825 PHD Zn-finger protein 97.4 2.9E-05 6.3E-10 90.0 -0.8 50 644-693 122-171 (1134)
45 KOG4159 Predicted E3 ubiquitin 97.3 0.00016 3.4E-09 80.3 3.3 49 642-693 81-129 (398)
46 KOG0804 Cytoplasmic Zn-finger 97.3 0.00014 3E-09 80.6 2.4 52 641-694 171-223 (493)
47 KOG4692 Predicted E3 ubiquitin 97.2 0.00024 5.3E-09 76.7 3.1 50 641-693 418-467 (489)
48 KOG4445 Uncharacterized conser 97.2 0.00018 3.8E-09 76.4 2.0 53 641-693 111-186 (368)
49 PF11789 zf-Nse: Zinc-finger o 97.0 0.00038 8.3E-09 57.5 2.1 43 643-687 9-53 (57)
50 KOG1428 Inhibitor of type V ad 96.9 0.00053 1.1E-08 83.5 3.1 53 641-693 3482-3544(3738)
51 KOG2879 Predicted E3 ubiquitin 96.9 0.0011 2.3E-08 70.0 5.0 53 640-694 234-288 (298)
52 KOG1785 Tyrosine kinase negati 96.9 0.00039 8.5E-09 76.1 1.3 46 646-694 370-417 (563)
53 KOG2660 Locus-specific chromos 96.7 0.00046 9.9E-09 74.2 0.4 49 642-692 12-60 (331)
54 COG5152 Uncharacterized conser 96.7 0.00061 1.3E-08 68.8 0.9 44 645-691 196-239 (259)
55 KOG0297 TNF receptor-associate 96.7 0.00084 1.8E-08 74.5 2.1 49 642-693 18-67 (391)
56 KOG1814 Predicted E3 ubiquitin 96.6 0.001 2.2E-08 73.3 2.0 48 644-691 183-238 (445)
57 KOG4275 Predicted E3 ubiquitin 96.4 0.0015 3.2E-08 69.4 2.0 41 645-692 300-341 (350)
58 KOG1002 Nucleotide excision re 96.3 0.0015 3.2E-08 73.7 1.5 49 641-692 532-585 (791)
59 KOG1813 Predicted E3 ubiquitin 96.2 0.0015 3.4E-08 69.4 0.9 44 646-692 242-285 (313)
60 KOG3039 Uncharacterized conser 96.0 0.0056 1.2E-07 63.8 3.6 49 645-693 221-270 (303)
61 KOG1941 Acetylcholine receptor 96.0 0.0022 4.7E-08 70.3 0.7 45 646-690 366-413 (518)
62 COG5222 Uncharacterized conser 95.9 0.0041 8.8E-08 66.3 2.1 42 646-690 275-318 (427)
63 KOG1571 Predicted E3 ubiquitin 95.6 0.0066 1.4E-07 66.2 2.2 43 644-692 304-346 (355)
64 PF10367 Vps39_2: Vacuolar sor 95.5 0.0046 1E-07 55.2 0.7 34 642-676 75-108 (109)
65 COG5236 Uncharacterized conser 95.3 0.013 2.9E-07 63.5 3.4 51 638-691 54-106 (493)
66 KOG3970 Predicted E3 ubiquitin 95.2 0.015 3.2E-07 60.1 3.2 49 645-694 50-106 (299)
67 PF05883 Baculo_RING: Baculovi 95.0 0.01 2.2E-07 57.0 1.3 36 645-680 26-67 (134)
68 PHA03096 p28-like protein; Pro 94.9 0.013 2.8E-07 62.7 1.9 45 646-690 179-231 (284)
69 KOG2034 Vacuolar sorting prote 94.9 0.013 2.8E-07 70.0 1.9 38 642-680 814-851 (911)
70 PF04641 Rtf2: Rtf2 RING-finge 94.8 0.032 6.9E-07 58.7 4.4 51 642-693 110-161 (260)
71 KOG2114 Vacuolar assembly/sort 94.7 0.019 4.2E-07 68.2 2.7 44 643-691 838-881 (933)
72 KOG3268 Predicted E3 ubiquitin 94.4 0.024 5.2E-07 56.7 2.4 49 644-692 164-227 (234)
73 PF14570 zf-RING_4: RING/Ubox 94.4 0.031 6.7E-07 45.0 2.4 45 648-692 1-47 (48)
74 KOG0801 Predicted E3 ubiquitin 94.3 0.013 2.8E-07 57.9 0.2 31 642-672 174-204 (205)
75 KOG0827 Predicted E3 ubiquitin 94.1 0.0033 7.2E-08 68.9 -4.7 49 645-693 196-245 (465)
76 KOG1001 Helicase-like transcri 94.0 0.09 2E-06 62.5 6.4 43 646-692 455-499 (674)
77 PF12906 RINGv: RING-variant d 93.9 0.036 7.9E-07 44.0 2.0 40 648-688 1-47 (47)
78 PHA02825 LAP/PHD finger-like p 93.7 0.071 1.5E-06 52.7 4.0 47 642-692 5-58 (162)
79 KOG0826 Predicted E3 ubiquitin 93.5 0.063 1.4E-06 58.2 3.5 48 642-692 297-345 (357)
80 PHA02862 5L protein; Provision 93.4 0.059 1.3E-06 52.5 2.9 48 645-692 2-52 (156)
81 KOG1952 Transcription factor N 93.2 0.06 1.3E-06 64.3 3.0 47 644-690 190-244 (950)
82 PF14447 Prok-RING_4: Prokaryo 93.0 0.051 1.1E-06 44.9 1.5 47 643-694 5-51 (55)
83 KOG2932 E3 ubiquitin ligase in 92.1 0.052 1.1E-06 58.5 0.6 44 646-693 91-134 (389)
84 KOG3002 Zn finger protein [Gen 92.0 0.089 1.9E-06 56.8 2.3 45 642-693 45-91 (299)
85 KOG0298 DEAD box-containing he 91.4 0.053 1.2E-06 67.1 -0.2 44 644-690 1152-1196(1394)
86 COG5175 MOT2 Transcriptional r 91.3 0.12 2.6E-06 56.3 2.3 51 642-692 11-63 (480)
87 PF10272 Tmpp129: Putative tra 90.7 0.49 1.1E-05 52.4 6.3 26 666-691 311-349 (358)
88 KOG1940 Zn-finger protein [Gen 90.6 0.13 2.8E-06 55.0 1.7 45 646-690 159-204 (276)
89 PF08746 zf-RING-like: RING-li 90.5 0.13 2.8E-06 40.3 1.2 41 648-688 1-43 (43)
90 KOG4362 Transcriptional regula 88.7 0.11 2.3E-06 61.4 -0.7 45 645-692 21-68 (684)
91 KOG1829 Uncharacterized conser 88.4 0.53 1.2E-05 55.0 4.6 43 644-689 510-557 (580)
92 KOG0309 Conserved WD40 repeat- 87.3 0.29 6.4E-06 58.0 1.7 27 661-687 1043-1069(1081)
93 KOG1100 Predicted E3 ubiquitin 85.9 0.38 8.2E-06 49.5 1.5 39 648-693 161-200 (207)
94 KOG1609 Protein involved in mR 85.5 0.48 1E-05 49.9 2.1 49 644-692 77-133 (323)
95 PF13901 DUF4206: Domain of un 84.8 3.3 7E-05 42.4 7.6 41 645-690 152-197 (202)
96 KOG1812 Predicted E3 ubiquitin 84.6 0.39 8.4E-06 53.6 0.9 39 644-682 145-184 (384)
97 PF03854 zf-P11: P-11 zinc fin 84.3 0.38 8.2E-06 38.8 0.5 32 662-693 14-46 (50)
98 COG5220 TFB3 Cdk activating ki 84.2 0.52 1.1E-05 49.5 1.6 47 644-690 9-61 (314)
99 KOG0269 WD40 repeat-containing 84.0 2.2 4.8E-05 51.0 6.7 40 647-687 781-820 (839)
100 KOG3053 Uncharacterized conser 83.7 0.48 1E-05 50.2 1.1 52 641-692 16-81 (293)
101 KOG0825 PHD Zn-finger protein 83.7 0.58 1.3E-05 55.8 1.9 49 644-692 95-153 (1134)
102 PF05290 Baculo_IE-1: Baculovi 83.6 0.9 2E-05 43.9 2.8 47 644-693 79-132 (140)
103 PF14446 Prok-RING_1: Prokaryo 83.6 1.3 2.7E-05 36.8 3.2 34 644-677 4-38 (54)
104 COG5183 SSM4 Protein involved 82.7 0.96 2.1E-05 54.2 3.1 50 642-692 9-65 (1175)
105 KOG2817 Predicted E3 ubiquitin 82.4 1.1 2.3E-05 50.1 3.2 47 646-692 335-384 (394)
106 KOG3161 Predicted E3 ubiquitin 80.8 0.52 1.1E-05 55.1 0.1 40 645-686 11-51 (861)
107 KOG3579 Predicted E3 ubiquitin 76.0 1.2 2.5E-05 48.0 1.0 36 645-683 268-307 (352)
108 KOG3039 Uncharacterized conser 75.7 1.8 3.9E-05 45.8 2.2 36 642-680 40-75 (303)
109 KOG1815 Predicted E3 ubiquitin 75.1 1.8 3.9E-05 49.1 2.2 38 642-681 67-104 (444)
110 KOG3899 Uncharacterized conser 74.4 1.7 3.7E-05 46.9 1.7 27 666-692 325-364 (381)
111 KOG2066 Vacuolar assembly/sort 73.9 1.3 2.7E-05 53.2 0.6 44 644-688 783-830 (846)
112 PF02891 zf-MIZ: MIZ/SP-RING z 69.8 4.6 0.0001 32.5 2.8 43 646-691 3-50 (50)
113 KOG2807 RNA polymerase II tran 69.2 4.4 9.5E-05 44.5 3.4 52 640-691 325-376 (378)
114 KOG2169 Zn-finger transcriptio 69.1 5.8 0.00013 47.3 4.7 44 646-693 307-356 (636)
115 KOG1812 Predicted E3 ubiquitin 65.8 7.8 0.00017 43.5 4.7 42 646-688 307-351 (384)
116 KOG4718 Non-SMC (structural ma 64.7 3.1 6.6E-05 43.2 1.1 44 644-689 180-223 (235)
117 KOG0802 E3 ubiquitin ligase [P 62.0 3.3 7E-05 48.3 0.8 44 642-692 476-519 (543)
118 PF10235 Cript: Microtubule-as 60.1 5.2 0.00011 36.4 1.6 39 645-695 44-82 (90)
119 KOG0824 Predicted E3 ubiquitin 58.3 3.5 7.5E-05 44.8 0.2 52 640-694 100-152 (324)
120 KOG2068 MOT2 transcription fac 56.9 7.9 0.00017 42.6 2.6 48 646-693 250-298 (327)
121 KOG3005 GIY-YIG type nuclease 53.1 6.8 0.00015 42.0 1.3 47 646-692 183-242 (276)
122 COG5109 Uncharacterized conser 52.8 10 0.00022 41.6 2.6 45 646-690 337-384 (396)
123 PF07227 DUF1423: Protein of u 50.7 32 0.0007 39.4 6.2 31 646-677 129-163 (446)
124 smart00249 PHD PHD zinc finger 50.6 9.9 0.00021 28.2 1.5 32 647-678 1-32 (47)
125 TIGR00622 ssl1 transcription f 49.8 19 0.00041 34.1 3.5 46 645-690 55-111 (112)
126 PLN02189 cellulose synthase 45.4 19 0.0004 45.2 3.5 50 643-692 32-86 (1040)
127 PF06906 DUF1272: Protein of u 42.2 38 0.00082 28.5 3.8 46 647-694 7-53 (57)
128 smart00132 LIM Zinc-binding do 41.9 26 0.00057 25.0 2.6 38 647-693 1-38 (39)
129 KOG2071 mRNA cleavage and poly 41.5 16 0.00034 43.1 2.0 36 643-678 511-556 (579)
130 KOG3113 Uncharacterized conser 41.4 25 0.00054 37.7 3.3 47 645-693 111-158 (293)
131 PF04710 Pellino: Pellino; In 40.4 9.3 0.0002 43.0 0.0 28 661-691 304-337 (416)
132 KOG1814 Predicted E3 ubiquitin 39.7 14 0.00031 41.8 1.3 37 643-679 366-405 (445)
133 COG4647 AcxC Acetone carboxyla 39.2 16 0.00034 35.5 1.3 22 649-673 61-82 (165)
134 PLN02436 cellulose synthase A 38.8 27 0.00059 44.0 3.5 50 643-692 34-88 (1094)
135 PLN02638 cellulose synthase A 38.7 29 0.00063 43.8 3.8 50 643-692 15-69 (1079)
136 PF00628 PHD: PHD-finger; Int 38.2 15 0.00033 28.7 0.9 44 647-690 1-50 (51)
137 KOG4185 Predicted E3 ubiquitin 36.9 7.5 0.00016 41.3 -1.4 48 644-691 206-265 (296)
138 KOG3842 Adaptor protein Pellin 36.4 29 0.00063 38.2 2.9 51 642-692 338-413 (429)
139 PF07191 zinc-ribbons_6: zinc- 35.8 3.9 8.5E-05 35.6 -3.0 39 646-692 2-40 (70)
140 KOG2979 Protein involved in DN 35.4 20 0.00043 38.4 1.5 43 645-689 176-220 (262)
141 PF06844 DUF1244: Protein of u 34.9 22 0.00048 30.8 1.4 11 670-680 12-22 (68)
142 PLN02400 cellulose synthase 34.1 29 0.00062 43.8 2.8 49 644-692 35-88 (1085)
143 PF05605 zf-Di19: Drought indu 34.1 20 0.00043 28.9 1.0 37 645-691 2-40 (54)
144 KOG3726 Uncharacterized conser 33.7 20 0.00044 42.9 1.3 41 646-689 655-696 (717)
145 PF04216 FdhE: Protein involve 31.1 11 0.00024 40.4 -1.3 46 643-691 170-220 (290)
146 PF13717 zinc_ribbon_4: zinc-r 30.4 24 0.00052 26.7 0.8 25 647-671 4-36 (36)
147 PLN02915 cellulose synthase A 29.9 50 0.0011 41.6 3.8 51 642-692 12-67 (1044)
148 PF07975 C1_4: TFIIH C1-like d 29.4 28 0.00061 28.6 1.1 42 648-689 2-50 (51)
149 COG5574 PEX10 RING-finger-cont 29.0 79 0.0017 34.2 4.6 40 641-680 91-132 (271)
150 PF01363 FYVE: FYVE zinc finge 28.5 23 0.00049 29.6 0.5 37 643-679 7-44 (69)
151 KOG1356 Putative transcription 28.3 18 0.00038 44.3 -0.3 46 644-690 228-279 (889)
152 KOG3799 Rab3 effector RIM1 and 27.5 15 0.00033 35.9 -0.8 21 642-669 62-83 (169)
153 PF14569 zf-UDP: Zinc-binding 27.4 55 0.0012 29.3 2.6 50 643-692 7-61 (80)
154 KOG1245 Chromatin remodeling c 26.6 22 0.00049 46.1 0.2 10 70-79 30-39 (1404)
155 KOG3842 Adaptor protein Pellin 26.2 35 0.00076 37.7 1.5 29 660-691 316-350 (429)
156 PF02318 FYVE_2: FYVE-type zin 26.0 38 0.00082 31.7 1.5 46 644-690 53-102 (118)
157 smart00064 FYVE Protein presen 25.5 58 0.0013 27.0 2.4 37 644-680 9-46 (68)
158 cd00350 rubredoxin_like Rubred 23.8 42 0.00091 24.7 1.1 21 665-691 6-26 (33)
159 PF04710 Pellino: Pellino; In 23.2 27 0.00059 39.5 0.0 49 645-693 328-401 (416)
160 cd00065 FYVE FYVE domain; Zinc 22.8 58 0.0013 25.9 1.8 35 646-680 3-38 (57)
161 KOG1729 FYVE finger containing 22.5 15 0.00032 39.9 -2.1 38 645-682 214-251 (288)
162 KOG2113 Predicted RNA binding 22.3 69 0.0015 35.4 2.8 45 642-691 340-385 (394)
163 PF13719 zinc_ribbon_5: zinc-r 20.9 47 0.001 25.1 0.9 25 647-671 4-36 (37)
164 PLN02248 cellulose synthase-li 20.8 63 0.0014 41.1 2.4 49 644-692 123-176 (1135)
165 TIGR01562 FdhE formate dehydro 20.6 28 0.00061 38.2 -0.6 48 644-691 183-233 (305)
166 COG3492 Uncharacterized protei 20.6 50 0.0011 30.4 1.1 12 670-681 43-54 (104)
167 PRK04023 DNA polymerase II lar 20.6 59 0.0013 40.9 2.0 48 642-694 623-675 (1121)
168 PF00412 LIM: LIM domain; Int 20.5 71 0.0015 25.2 1.9 29 646-676 27-55 (58)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=2.4e-13 Score=145.81 Aligned_cols=49 Identities=49% Similarity=1.151 Sum_probs=45.3
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC-CCcCCCCCcCC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN-LCPICKTTGLP 694 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~-sCPvCR~~llp 694 (695)
+.|+||+|+|+++|+++.|||+|.||..||++||.+.+ .||+||+.+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 68999999999999999999999999999999999875 59999997753
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.36 E-value=2.1e-13 Score=105.05 Aligned_cols=44 Identities=50% Similarity=1.238 Sum_probs=40.5
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 689 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR 689 (695)
++|+||+++|..++.++.++|||+||.+||.+|++.+..||+||
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 46999999999999999999999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.08 E-value=1e-10 Score=120.70 Aligned_cols=51 Identities=35% Similarity=0.837 Sum_probs=42.3
Q ss_pred CCCCcccccccccCCCCc----e-EEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 643 SDEEPCCICQEEYTDGDN----L-GILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~----v-v~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
.++.+|+||++.+.+++. + +.++|+|.||..||.+|++.+.+||+||..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 456889999999876531 2 34479999999999999999999999998764
No 4
>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=99.08 E-value=9.1e-11 Score=100.45 Aligned_cols=47 Identities=43% Similarity=0.960 Sum_probs=37.5
Q ss_pred CCCCcccccccccCCC----------CceEEeCCCCcccHHHHHHHHhcCCCCcCCC
Q 005461 643 SDEEPCCICQEEYTDG----------DNLGILDCGHDFHTNCIKQWLMQKNLCPICK 689 (695)
Q Consensus 643 ~ed~~C~ICLEefed~----------e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR 689 (695)
..++.|+||++.|.+. -.+...+|||.||..||.+||+.+.+||+||
T Consensus 17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3455699999999532 2345558999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=6.4e-11 Score=123.91 Aligned_cols=51 Identities=37% Similarity=1.002 Sum_probs=47.3
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh-cCCCCcCCCCCcCC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM-QKNLCPICKTTGLP 694 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~llp 694 (695)
...+|+||++.|.+.|+++.|||.|.||..||.+|+. .+..||+||+++.|
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3478999999999999999999999999999999999 68889999999876
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.9e-10 Score=122.91 Aligned_cols=52 Identities=35% Similarity=0.880 Sum_probs=44.1
Q ss_pred CCCCCCcccccccccCCCC----------ceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 641 IPSDEEPCCICQEEYTDGD----------NLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e----------~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
...++..|.||++++..++ ....|||||+||.+|++.|++++.+||+||.++
T Consensus 283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 3567889999999954332 347899999999999999999999999999984
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=3.1e-10 Score=118.48 Aligned_cols=51 Identities=33% Similarity=0.826 Sum_probs=45.9
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcCC
Q 005461 641 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLP 694 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~llp 694 (695)
......+|.||||...++ ..+||||+||+.||..|...+..||+||....|
T Consensus 235 i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence 344557899999999888 899999999999999999999999999998766
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.96 E-value=5.5e-10 Score=111.69 Aligned_cols=48 Identities=31% Similarity=0.721 Sum_probs=41.2
Q ss_pred CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc----------------CCCCcCCCCCcC
Q 005461 643 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ----------------KNLCPICKTTGL 693 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~----------------k~sCPvCR~~ll 693 (695)
.++.+|+||++.++++ ++++|||.||+.||.+|+.. +..||+||..+.
T Consensus 16 ~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 3567899999999888 88899999999999999852 246999999874
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=6.2e-10 Score=113.32 Aligned_cols=49 Identities=33% Similarity=0.639 Sum_probs=43.0
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc---CCCCcCCCCCcC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ---KNLCPICKTTGL 693 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~---k~sCPvCR~~ll 693 (695)
.....+|.|||+.-+++ +++.|||.||+-||.+||.. ++.||+||..+.
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45678899999999998 88899999999999999985 456999998764
No 10
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.6e-09 Score=106.47 Aligned_cols=53 Identities=28% Similarity=0.541 Sum_probs=44.3
Q ss_pred CCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 640 EIPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 640 ~~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
........|+|||+.+.+... +.++|||+||..||+.-++....||+|++.|-
T Consensus 126 ~~~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 126 LRKEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cccccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 344556889999999987522 56799999999999999999999999998763
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.83 E-value=2.2e-09 Score=84.94 Aligned_cols=46 Identities=39% Similarity=0.782 Sum_probs=39.7
Q ss_pred CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHi-FH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
+..|.||++...+. +.+||||. ||..|+.+|+..+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDV---VLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSE---EEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCce---EEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 56799999997664 88899999 999999999999999999999874
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=98.77 E-value=6.2e-09 Score=77.68 Aligned_cols=44 Identities=45% Similarity=1.071 Sum_probs=36.4
Q ss_pred cccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCcCCCCCc
Q 005461 647 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ-KNLCPICKTTG 692 (695)
Q Consensus 647 ~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~-k~sCPvCR~~l 692 (695)
+|+||++.+.+. +..++|||.||..|++.|++. ...||+||..+
T Consensus 1 ~C~iC~~~~~~~--~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREP--VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCc--eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998433 344469999999999999997 67799999864
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=98.77 E-value=4.2e-09 Score=79.41 Aligned_cols=39 Identities=38% Similarity=1.022 Sum_probs=33.6
Q ss_pred ccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCC
Q 005461 648 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPIC 688 (695)
Q Consensus 648 C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvC 688 (695)
|+||++.+.++ ++.++|||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~~--~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999998884 4577999999999999999998899998
No 14
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.72 E-value=7.5e-09 Score=79.93 Aligned_cols=38 Identities=34% Similarity=0.857 Sum_probs=31.1
Q ss_pred ccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCcCC
Q 005461 648 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK----NLCPIC 688 (695)
Q Consensus 648 C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k----~sCPvC 688 (695)
|+||++.|+++ +.|+|||.||..||.+|++.. ..||+|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 999999999999999999863 369998
No 15
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.71 E-value=1.4e-08 Score=82.85 Aligned_cols=45 Identities=24% Similarity=0.411 Sum_probs=41.4
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
..|+||++.+.++ +.++|||+||+.||.+|+..+..||+|+..+.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4699999999998 88899999999999999999889999998763
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.63 E-value=1.1e-08 Score=116.96 Aligned_cols=51 Identities=39% Similarity=0.922 Sum_probs=44.8
Q ss_pred CCCCcccccccccCCCCc--eEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 643 SDEEPCCICQEEYTDGDN--LGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~--vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
..+..|+||+|++..+.. ..+|+|+|+||..|++.|++++.+||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 347889999999998654 578899999999999999999999999998543
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.62 E-value=2.1e-08 Score=101.88 Aligned_cols=51 Identities=37% Similarity=0.796 Sum_probs=39.0
Q ss_pred CCCCCcccccccccCCC-----CceEEe-CCCCcccHHHHHHHHhcC------CCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDG-----DNLGIL-DCGHDFHTNCIKQWLMQK------NLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~-----e~vv~L-pCGHiFH~~CI~qWL~~k------~sCPvCR~~l 692 (695)
..++.+|+||+|...+. .....| +|+|.||..||++|...+ ..||+||...
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 44568899999987432 123455 799999999999999853 3599999864
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.60 E-value=3.5e-08 Score=76.48 Aligned_cols=44 Identities=34% Similarity=0.835 Sum_probs=38.3
Q ss_pred cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCC
Q 005461 647 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKT 690 (695)
Q Consensus 647 ~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~ 690 (695)
.|.||++.|.+.+....++|||+||..||.++......||+||+
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 49999999965556788899999999999999966778999985
No 19
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.60 E-value=3.2e-08 Score=87.35 Aligned_cols=49 Identities=37% Similarity=0.950 Sum_probs=39.5
Q ss_pred CCCcccccccccCC--------CC--ceEEeCCCCcccHHHHHHHHhc---CCCCcCCCCCc
Q 005461 644 DEEPCCICQEEYTD--------GD--NLGILDCGHDFHTNCIKQWLMQ---KNLCPICKTTG 692 (695)
Q Consensus 644 ed~~C~ICLEefed--------~e--~vv~LpCGHiFH~~CI~qWL~~---k~sCPvCR~~l 692 (695)
+++.|.||...|.. ++ .++.-.|+|.||..||.+||.. +..||+||++.
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 47889999999983 11 3444589999999999999995 46799999864
No 20
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.56 E-value=3.5e-08 Score=108.54 Aligned_cols=49 Identities=24% Similarity=0.665 Sum_probs=43.7
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
......|.||++.|..+ +.++|||.||..||..|+.....||+||..+.
T Consensus 23 Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred cccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 44567899999999888 77899999999999999998889999998764
No 21
>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=98.55 E-value=4e-08 Score=74.27 Aligned_cols=39 Identities=41% Similarity=1.128 Sum_probs=34.0
Q ss_pred ccccccccCCCCceEEeCCCCcccHHHHHHHHh--cCCCCcCC
Q 005461 648 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM--QKNLCPIC 688 (695)
Q Consensus 648 C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~--~k~sCPvC 688 (695)
|+||++.+.++ +..++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999887 13779999999999999999 45569998
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.52 E-value=9.2e-08 Score=68.85 Aligned_cols=38 Identities=53% Similarity=1.218 Sum_probs=32.9
Q ss_pred ccccccccCCCCceEEeCCCCcccHHHHHHHHh-cCCCCcCC
Q 005461 648 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM-QKNLCPIC 688 (695)
Q Consensus 648 C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~-~k~sCPvC 688 (695)
|+||++.... .+.++|+|.||..|++.|+. .+..||+|
T Consensus 1 C~iC~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKD---PVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCC---cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 8899999444 48889999999999999999 56679998
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=9.3e-08 Score=99.21 Aligned_cols=49 Identities=31% Similarity=0.721 Sum_probs=43.9
Q ss_pred CCCCcccccccccCCCCceEEeCCCCcccHHHHHH-HHhcCCC-CcCCCCCcCC
Q 005461 643 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQ-WLMQKNL-CPICKTTGLP 694 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~q-WL~~k~s-CPvCR~~llp 694 (695)
..+..|.||++....+ ..++|||+||..||.. |-+++.. ||+||+.+.|
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence 5678899999998888 8999999999999999 9887766 9999998765
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=3.2e-07 Score=102.35 Aligned_cols=47 Identities=34% Similarity=0.596 Sum_probs=40.1
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC-----CCCcCCCCCcCC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK-----NLCPICKTTGLP 694 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k-----~sCPvCR~~llp 694 (695)
+..|+|||++...+ ..+.|||+||..||.+.|... ..||+||..+.+
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 67899999998888 677799999999999988743 359999987754
No 25
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.28 E-value=6e-07 Score=78.14 Aligned_cols=48 Identities=35% Similarity=0.783 Sum_probs=37.2
Q ss_pred CCcccccccccCC-----------CCce--EEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 645 EEPCCICQEEYTD-----------GDNL--GILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 645 d~~C~ICLEefed-----------~e~v--v~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
.+.|+||...|.+ +++. +--.|.|.||..||.+||..+..||+||++-
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 4667777766653 3332 3337999999999999999999999999864
No 26
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.26 E-value=2.8e-07 Score=98.23 Aligned_cols=47 Identities=36% Similarity=0.655 Sum_probs=43.0
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
+-..|.||.|.|..+ +++||+|.||.-||+.+|..+..||.|+.++.
T Consensus 22 ~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 446799999999999 89999999999999999999999999998753
No 27
>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=98.23 E-value=6.1e-07 Score=76.73 Aligned_cols=46 Identities=30% Similarity=0.436 Sum_probs=38.0
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCcCCCCCcC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ-KNLCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~-k~sCPvCR~~ll 693 (695)
...|+||.+-+.++ ++++|||+|++.||.+||.. ...||+|+..+.
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 56799999999999 99999999999999999998 889999998764
No 28
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.19 E-value=7.1e-07 Score=93.61 Aligned_cols=45 Identities=29% Similarity=0.696 Sum_probs=41.7
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
....|-||-+.|..+ ..++|||.||.-||+..|..+..||+||.+
T Consensus 24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~ 68 (391)
T COG5432 24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCRED 68 (391)
T ss_pred hHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCcccccc
Confidence 446799999999999 888999999999999999999999999975
No 29
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=4.1e-07 Score=82.60 Aligned_cols=52 Identities=29% Similarity=0.757 Sum_probs=39.9
Q ss_pred CCCCCCCcccccccccCC------------CCceEEe--CCCCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 640 EIPSDEEPCCICQEEYTD------------GDNLGIL--DCGHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 640 ~~~~ed~~C~ICLEefed------------~e~vv~L--pCGHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
..+...+.|+||...+.+ .++..+. .|.|.||..||.+||+.++.||+|.++
T Consensus 41 aWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 41 AWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 345667889998766552 2232222 799999999999999999999999875
No 30
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=8.3e-07 Score=98.32 Aligned_cols=53 Identities=30% Similarity=0.704 Sum_probs=41.9
Q ss_pred CCCCCcccccccccCCCC--------------ceEEeCCCCcccHHHHHHHHh-cCCCCcCCCCCcCC
Q 005461 642 PSDEEPCCICQEEYTDGD--------------NLGILDCGHDFHTNCIKQWLM-QKNLCPICKTTGLP 694 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e--------------~vv~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~llp 694 (695)
.....+|+||+.++..-. .-..+||.|+||..|+.+|+. .|-.||+||.++.|
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 345678999999877311 023459999999999999999 56689999999876
No 31
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.15 E-value=1.2e-06 Score=68.40 Aligned_cols=38 Identities=32% Similarity=0.833 Sum_probs=22.7
Q ss_pred ccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcC----CCCc
Q 005461 648 CCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQK----NLCP 686 (695)
Q Consensus 648 C~ICLEefed~e-~vv~LpCGHiFH~~CI~qWL~~k----~sCP 686 (695)
|+||.| |.+.+ .-+.|+|||+||++||.+++... ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 76643 34778999999999999999853 3477
No 32
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=8.3e-07 Score=88.32 Aligned_cols=45 Identities=31% Similarity=0.775 Sum_probs=40.4
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 689 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR 689 (695)
..+...|+||++.|.++ .+++|+|.||..||..++.....||.||
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 45678899999999999 8889999999999999998556799999
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=7.7e-07 Score=92.60 Aligned_cols=54 Identities=30% Similarity=0.661 Sum_probs=44.8
Q ss_pred CCCCCCCcccccccccCCCC-------ceEEeCCCCcccHHHHHHHHh--cCCCCcCCCCCcC
Q 005461 640 EIPSDEEPCCICQEEYTDGD-------NLGILDCGHDFHTNCIKQWLM--QKNLCPICKTTGL 693 (695)
Q Consensus 640 ~~~~ed~~C~ICLEefed~e-------~vv~LpCGHiFH~~CI~qWL~--~k~sCPvCR~~ll 693 (695)
.+..++..|+||-..+...+ ++-.|.|+|+||..||+-|.. +|.+||.||..+.
T Consensus 219 tkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 219 TKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 45567788999998887654 567889999999999999965 5778999998653
No 34
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.89 E-value=1.1e-05 Score=64.46 Aligned_cols=42 Identities=29% Similarity=0.795 Sum_probs=33.1
Q ss_pred cccccccccCCCCceEEeCCC-----CcccHHHHHHHHhcC--CCCcCCC
Q 005461 647 PCCICQEEYTDGDNLGILDCG-----HDFHTNCIKQWLMQK--NLCPICK 689 (695)
Q Consensus 647 ~C~ICLEefed~e~vv~LpCG-----HiFH~~CI~qWL~~k--~sCPvCR 689 (695)
.|.||++ ..+++...++||. |.||..|+.+|+..+ ..||+|+
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 4444455677885 899999999999754 4799996
No 35
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=7.9e-06 Score=95.01 Aligned_cols=48 Identities=25% Similarity=0.654 Sum_probs=40.3
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCcCCCCCcCC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ-KNLCPICKTTGLP 694 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~-k~sCPvCR~~llp 694 (695)
....|++|-..+++. +++.|+|+||..||..-+.. ...||.|.+..-+
T Consensus 642 ~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 346799999888776 77899999999999999984 6789999886543
No 36
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=3.6e-06 Score=72.84 Aligned_cols=51 Identities=37% Similarity=0.873 Sum_probs=38.5
Q ss_pred CCCCCcccccccccCC--------CCc--eEEeCCCCcccHHHHHHHHhc---CCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTD--------GDN--LGILDCGHDFHTNCIKQWLMQ---KNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed--------~e~--vv~LpCGHiFH~~CI~qWL~~---k~sCPvCR~~l 692 (695)
...+++|.||.-.|.. +|. ++.-.|.|.||..||.+|+.. +..||+||++-
T Consensus 17 ~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 17 DAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred cCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 4455699999999873 222 222269999999999999985 45699999864
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.80 E-value=5.1e-06 Score=70.91 Aligned_cols=49 Identities=29% Similarity=0.716 Sum_probs=23.7
Q ss_pred CCcccccccccCCCCc---eEEe--CCCCcccHHHHHHHHhc---CC--------CCcCCCCCcC
Q 005461 645 EEPCCICQEEYTDGDN---LGIL--DCGHDFHTNCIKQWLMQ---KN--------LCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefed~e~---vv~L--pCGHiFH~~CI~qWL~~---k~--------sCPvCR~~ll 693 (695)
+..|.||++.+.+.++ ++.- .|+++||..|+.+||.. .+ .||.|+++|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 4679999998773332 2222 59999999999999983 11 3999999763
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.72 E-value=1.5e-05 Score=93.63 Aligned_cols=53 Identities=26% Similarity=0.666 Sum_probs=40.3
Q ss_pred CCCCCCcccccccccCC-CC---ceEEeCCCCcccHHHHHHHHhc--CCCCcCCCCCcC
Q 005461 641 IPSDEEPCCICQEEYTD-GD---NLGILDCGHDFHTNCIKQWLMQ--KNLCPICKTTGL 693 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed-~e---~vv~LpCGHiFH~~CI~qWL~~--k~sCPvCR~~ll 693 (695)
...+.++|+||+.-+.. +. .-++-.|.|+||..|+.+|++. ...||+||..+.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 45667889999977661 11 1145569999999999999996 557999998763
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.7e-05 Score=85.66 Aligned_cols=49 Identities=33% Similarity=0.638 Sum_probs=42.9
Q ss_pred CCCCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCcCCCCCcCC
Q 005461 643 SDEEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTGLP 694 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~LpCGHi-FH~~CI~qWL~~k~sCPvCR~~llp 694 (695)
+...+|.|||.+-.+. .+|||-|. .|..|.+..--+.+.||+||+.+..
T Consensus 288 ~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 3467899999998877 99999999 8999999987788999999998754
No 40
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=5.2e-06 Score=89.34 Aligned_cols=48 Identities=27% Similarity=0.510 Sum_probs=40.7
Q ss_pred CCCCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhc-CCCCcCCCCCcC
Q 005461 643 SDEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQ-KNLCPICKTTGL 693 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~qWL~~-k~sCPvCR~~ll 693 (695)
..+..|+|||+-++.. +.+ .|.|-||..||.+-|+. .+.||.||+.+.
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 3457899999999887 555 59999999999999986 678999999764
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=1.4e-05 Score=65.26 Aligned_cols=46 Identities=28% Similarity=0.605 Sum_probs=38.4
Q ss_pred CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHh-cCCCCcCCCCCcC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLM-QKNLCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHi-FH~~CI~qWL~-~k~sCPvCR~~ll 693 (695)
.++|.||+|.-.+. +...|||. .|.+|-.+.++ .+..||+||.++.
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 47899999998776 56689998 89999877666 6889999999764
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.54 E-value=3.6e-05 Score=83.73 Aligned_cols=50 Identities=40% Similarity=0.990 Sum_probs=39.0
Q ss_pred CCCCcccccccccCCCC----ceEEe-CCCCcccHHHHHHHH--hc-----CCCCcCCCCCc
Q 005461 643 SDEEPCCICQEEYTDGD----NLGIL-DCGHDFHTNCIKQWL--MQ-----KNLCPICKTTG 692 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e----~vv~L-pCGHiFH~~CI~qWL--~~-----k~sCPvCR~~l 692 (695)
..+.+|.||++...+.- ...+| +|.|.||..||++|- ++ .+.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 45788999999987753 12344 599999999999998 34 46799999753
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.47 E-value=2.5e-05 Score=65.88 Aligned_cols=43 Identities=30% Similarity=0.730 Sum_probs=23.7
Q ss_pred CcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 646 EPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
..|.+|.+.+.++ +.| .|.|+||..||.+-+.. .||+|+.++-
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw 51 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAW 51 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcCC--CCCCcCChHH
Confidence 4699999999988 665 79999999999886553 4999998763
No 44
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.39 E-value=2.9e-05 Score=89.98 Aligned_cols=50 Identities=20% Similarity=0.357 Sum_probs=43.8
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
....|+||+..|.+.......+|+|.||..||..|-+.-.+||+||....
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 45679999999998866666789999999999999999999999998654
No 45
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=0.00016 Score=80.27 Aligned_cols=49 Identities=29% Similarity=0.732 Sum_probs=43.9
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
...+..|+||+..+..+ +.++|||.||..||.+-+.+...||.||..+.
T Consensus 81 ~~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred ccchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence 35678899999999998 88899999999999998888889999998764
No 46
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.25 E-value=0.00014 Score=80.62 Aligned_cols=52 Identities=25% Similarity=0.736 Sum_probs=40.1
Q ss_pred CCCCCCcccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcCC
Q 005461 641 IPSDEEPCCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLP 694 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e-~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~llp 694 (695)
...+--+|+||||.+...- -++.+.|.|.||..|+.+|. ..+||+||....|
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~p 223 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQSP 223 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcCc
Confidence 3455678999999987653 23455799999999999995 4579999986543
No 47
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00024 Score=76.66 Aligned_cols=50 Identities=32% Similarity=0.543 Sum_probs=44.0
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 641 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
...++..|+||+..-... +..||+|.-|..||.+.|...+.|=.||+++.
T Consensus 418 p~sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CCcccccCcceecccchh---hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 346788999998876665 78899999999999999999999999999764
No 48
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.16 E-value=0.00018 Score=76.36 Aligned_cols=53 Identities=21% Similarity=0.638 Sum_probs=43.3
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh------------------c-----CCCCcCCCCCcC
Q 005461 641 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM------------------Q-----KNLCPICKTTGL 693 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~------------------~-----k~sCPvCR~~ll 693 (695)
.......|.|||--|.+.+...++.|-|.||..|+.++|. . +..||+||..|.
T Consensus 111 nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 111 NNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 3445678999999999999999999999999999986552 1 235999998774
No 49
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.00 E-value=0.00038 Score=57.45 Aligned_cols=43 Identities=26% Similarity=0.600 Sum_probs=29.1
Q ss_pred CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--CCCCcC
Q 005461 643 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--KNLCPI 687 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~--k~sCPv 687 (695)
.-...|+|.+..|+++ ++...|||+|-++.|.+||.. ...||+
T Consensus 9 ~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3457899999999988 444589999999999999954 446999
No 50
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.92 E-value=0.00053 Score=83.47 Aligned_cols=53 Identities=32% Similarity=0.594 Sum_probs=42.4
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC----------CCcCCCCCcC
Q 005461 641 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN----------LCPICKTTGL 693 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~----------sCPvCR~~ll 693 (695)
..+.++.|.||+.+--..-..+.|.|+|+||..|.+.-|+++- .||+|+.++.
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 4456788999998877766779999999999999997666421 4999998763
No 51
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.0011 Score=69.97 Aligned_cols=53 Identities=26% Similarity=0.482 Sum_probs=42.3
Q ss_pred CCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--CCCCcCCCCCcCC
Q 005461 640 EIPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--KNLCPICKTTGLP 694 (695)
Q Consensus 640 ~~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~--k~sCPvCR~~llp 694 (695)
.....+.+|++|-+.-+.+ -...+|+|+||..||..-+.- ..+||.|-..+.+
T Consensus 234 s~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 4455678899999998888 233479999999999987764 4789999887763
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.86 E-value=0.00039 Score=76.07 Aligned_cols=46 Identities=35% Similarity=0.757 Sum_probs=37.0
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--CCCCcCCCCCcCC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--KNLCPICKTTGLP 694 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~--k~sCPvCR~~llp 694 (695)
+.|.||-|.-++ +.+-||||..|..|+..|-.. ..+||.||.+|.-
T Consensus 370 eLCKICaendKd---vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKD---VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCC---cccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 459999887333 455599999999999999864 5689999998764
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.70 E-value=0.00046 Score=74.21 Aligned_cols=49 Identities=27% Similarity=0.632 Sum_probs=41.5
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
......|.+|-..|.+.. .+..|-|.||+.||.+.|...+.||+|...+
T Consensus 12 ~n~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred cccceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 455688999999999871 2336999999999999999999999998755
No 54
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.66 E-value=0.00061 Score=68.78 Aligned_cols=44 Identities=25% Similarity=0.681 Sum_probs=40.0
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
-..|.||.++|+.+ +++.|||.||..|...-++....|-+|-+.
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 35799999999999 889999999999999988888999999764
No 55
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.66 E-value=0.00084 Score=74.49 Aligned_cols=49 Identities=27% Similarity=0.602 Sum_probs=43.0
Q ss_pred CCCCCcccccccccCCCCceEE-eCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGI-LDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~-LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
..++..|+||...+.++ .. +.|||.||..||..|+..+..||.|+..+.
T Consensus 18 ~~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT 67 (391)
T ss_pred CcccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccc
Confidence 45668899999999998 55 589999999999999999999999988654
No 56
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.001 Score=73.30 Aligned_cols=48 Identities=31% Similarity=0.630 Sum_probs=39.2
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC--------CCCcCCCCC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK--------NLCPICKTT 691 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k--------~sCPvCR~~ 691 (695)
....|.||+++....+-+..+||+|+||+.|++..+... -.||-|+..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 346799999999887888899999999999999998731 248877653
No 57
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.0015 Score=69.37 Aligned_cols=41 Identities=39% Similarity=0.769 Sum_probs=33.6
Q ss_pred CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCcCCCCCc
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHi-FH~~CI~qWL~~k~sCPvCR~~l 692 (695)
...|.||++...+. +.|+|||. -|.+|-+. -+.||+||+.+
T Consensus 300 ~~LC~ICmDaP~DC---vfLeCGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC---VFLECGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcce---EEeecCcEEeehhhccc----cccCchHHHHH
Confidence 56799999998887 99999997 68888654 33899999865
No 58
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.34 E-value=0.0015 Score=73.73 Aligned_cols=49 Identities=27% Similarity=0.570 Sum_probs=40.0
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-----CCCCcCCCCCc
Q 005461 641 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ-----KNLCPICKTTG 692 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~-----k~sCPvCR~~l 692 (695)
....+..|.+|.+.-++. +...|.|+||+-||+.++.. .-+||+|-..+
T Consensus 532 enk~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cccCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 445667899999998777 88899999999999998763 34799997654
No 59
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.23 E-value=0.0015 Score=69.37 Aligned_cols=44 Identities=23% Similarity=0.546 Sum_probs=40.4
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
+.|-||...|..+ +++.|+|.||..|...-+.....|++|-+..
T Consensus 242 f~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred ccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccc
Confidence 5699999999999 9999999999999999998889999997754
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.00 E-value=0.0056 Score=63.85 Aligned_cols=49 Identities=14% Similarity=0.337 Sum_probs=44.4
Q ss_pred CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 645 EEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
-..|+||.+.+...-.+..| +|||+|+.+|+.+.++....||+|-.++.
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 46799999999998888888 89999999999999999999999988764
No 61
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.00 E-value=0.0022 Score=70.32 Aligned_cols=45 Identities=31% Similarity=0.714 Sum_probs=38.3
Q ss_pred CcccccccccCCC-CceEEeCCCCcccHHHHHHHHhcC--CCCcCCCC
Q 005461 646 EPCCICQEEYTDG-DNLGILDCGHDFHTNCIKQWLMQK--NLCPICKT 690 (695)
Q Consensus 646 ~~C~ICLEefed~-e~vv~LpCGHiFH~~CI~qWL~~k--~sCPvCR~ 690 (695)
..|..|-|.+-.. +.+-.|||.|+||..|+...|.++ .+||.||+
T Consensus 366 L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 4699999998754 567788999999999999999864 47999995
No 62
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.90 E-value=0.0041 Score=66.26 Aligned_cols=42 Identities=29% Similarity=0.627 Sum_probs=35.4
Q ss_pred CcccccccccCCCCceEEeC-CCCcccHHHHHHHHh-cCCCCcCCCC
Q 005461 646 EPCCICQEEYTDGDNLGILD-CGHDFHTNCIKQWLM-QKNLCPICKT 690 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~Lp-CGHiFH~~CI~qWL~-~k~sCPvCR~ 690 (695)
..|+.|...+..+ +.++ |+|.||.+||..-|. ....||.|-+
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799999999888 6665 899999999997766 5678999944
No 63
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.56 E-value=0.0066 Score=66.22 Aligned_cols=43 Identities=23% Similarity=0.576 Sum_probs=32.2
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
....|.||+++..+. +.+||||+-| |+.--.. -..||+||..+
T Consensus 304 ~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI 346 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCSKH-LPQCPVCRQRI 346 (355)
T ss_pred CCCceEEecCCccce---eeecCCcEEE--chHHHhh-CCCCchhHHHH
Confidence 346699999998876 8899999977 6554322 33499999865
No 64
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=95.51 E-value=0.0046 Score=55.16 Aligned_cols=34 Identities=26% Similarity=0.730 Sum_probs=27.9
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHH
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIK 676 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~ 676 (695)
..++..|.||...+.. ......||||+||..|++
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 3456779999999987 456677999999999975
No 65
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.28 E-value=0.013 Score=63.50 Aligned_cols=51 Identities=25% Similarity=0.595 Sum_probs=41.0
Q ss_pred ccCCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHH--HhcCCCCcCCCCC
Q 005461 638 EIEIPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQW--LMQKNLCPICKTT 691 (695)
Q Consensus 638 ~~~~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qW--L~~k~sCPvCR~~ 691 (695)
+.+.+++...|-||-+.++-. ..+||+|..|-.|.... |-.++.||+||+.
T Consensus 54 addtDEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 54 ADDTDEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 345566677899999987765 78899999999998754 5578889999985
No 66
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.19 E-value=0.015 Score=60.06 Aligned_cols=49 Identities=29% Similarity=0.667 Sum_probs=40.5
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--------CCCCcCCCCCcCC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--------KNLCPICKTTGLP 694 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~--------k~sCPvCR~~llp 694 (695)
.-.|.+|--.+..+|. +.|.|-|+||++|+..|-.. ...||-|..+|+|
T Consensus 50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 4569999999888754 67789999999999999764 2259999999886
No 67
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=94.99 E-value=0.01 Score=57.03 Aligned_cols=36 Identities=25% Similarity=0.569 Sum_probs=29.5
Q ss_pred CCcccccccccCCCCceEEeCCC------CcccHHHHHHHHh
Q 005461 645 EEPCCICQEEYTDGDNLGILDCG------HDFHTNCIKQWLM 680 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCG------HiFH~~CI~qWL~ 680 (695)
..+|.||++.+.+.+-++.++|| |.||..|+++|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 46799999999984446666776 9999999999943
No 68
>PHA03096 p28-like protein; Provisional
Probab=94.89 E-value=0.013 Score=62.73 Aligned_cols=45 Identities=33% Similarity=0.659 Sum_probs=33.0
Q ss_pred CcccccccccCCCC----ceEEe-CCCCcccHHHHHHHHhc---CCCCcCCCC
Q 005461 646 EPCCICQEEYTDGD----NLGIL-DCGHDFHTNCIKQWLMQ---KNLCPICKT 690 (695)
Q Consensus 646 ~~C~ICLEefed~e----~vv~L-pCGHiFH~~CI~qWL~~---k~sCPvCR~ 690 (695)
..|.||++...... .-..| .|.|.||..||+.|-.. +.+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 67999999877532 23456 59999999999999874 334555543
No 69
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.86 E-value=0.013 Score=70.00 Aligned_cols=38 Identities=21% Similarity=0.590 Sum_probs=29.5
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM 680 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~ 680 (695)
....+.|.+|...+-.. .-.+.+|||.||+.||.+-..
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcC-cceeeeccchHHHHHHHHHHH
Confidence 34567899999887654 446679999999999997653
No 70
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.75 E-value=0.032 Score=58.74 Aligned_cols=51 Identities=20% Similarity=0.458 Sum_probs=40.1
Q ss_pred CCCCCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
......|+|+..+|......+.| +|||+|...||++-- ....||+|-.+..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence 34567899999999665555666 999999999999973 3557999987653
No 71
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.66 E-value=0.019 Score=68.20 Aligned_cols=44 Identities=23% Similarity=0.655 Sum_probs=35.7
Q ss_pred CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 643 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
....+|..|--.+..+ .+...|||.||..|+. .....||.|+..
T Consensus 838 ~q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 838 FQVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence 3446899999888877 5666899999999988 455679999874
No 72
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.42 E-value=0.024 Score=56.74 Aligned_cols=49 Identities=31% Similarity=0.714 Sum_probs=34.8
Q ss_pred CCCcccccccccCCCC----ceEEeCCCCcccHHHHHHHHhcCC-----------CCcCCCCCc
Q 005461 644 DEEPCCICQEEYTDGD----NLGILDCGHDFHTNCIKQWLMQKN-----------LCPICKTTG 692 (695)
Q Consensus 644 ed~~C~ICLEefed~e----~vv~LpCGHiFH~~CI~qWL~~k~-----------sCPvCR~~l 692 (695)
+...|.||+..-.++. ..-...||.-||.-|+..||+.-. .||.|-+++
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 3445888877655442 123447999999999999998311 399998876
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.37 E-value=0.031 Score=44.97 Aligned_cols=45 Identities=27% Similarity=0.647 Sum_probs=23.1
Q ss_pred ccccccccCCCC-ceEEeCCCCcccHHHHHHHHh-cCCCCcCCCCCc
Q 005461 648 CCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 692 (695)
Q Consensus 648 C~ICLEefed~e-~vv~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~l 692 (695)
|++|.+++...+ .+.--+||+..|..|...-++ ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999994433 233336999999999988887 477899999863
No 74
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.013 Score=57.86 Aligned_cols=31 Identities=32% Similarity=0.699 Sum_probs=27.7
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccH
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHT 672 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~ 672 (695)
.++..+|.||||+++.++.+..|||-.+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 3455679999999999999999999999996
No 75
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.10 E-value=0.0033 Score=68.94 Aligned_cols=49 Identities=27% Similarity=0.584 Sum_probs=43.3
Q ss_pred CCcccccccccCCC-CceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 645 EEPCCICQEEYTDG-DNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefed~-e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
...|.||.+.|+.. +.+..+-|||.+|.+||.+||..+..||.|+.++.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 46699999999876 66777889999999999999999989999998764
No 76
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.03 E-value=0.09 Score=62.45 Aligned_cols=43 Identities=37% Similarity=0.864 Sum_probs=35.1
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC--CCCcCCCCCc
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK--NLCPICKTTG 692 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k--~sCPvCR~~l 692 (695)
..|.||++ . +..+.+.|+|.||..|+.+-+... ..||+||..+
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 78999999 3 334788999999999999988853 3599999754
No 77
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=93.93 E-value=0.036 Score=44.02 Aligned_cols=40 Identities=30% Similarity=0.798 Sum_probs=27.6
Q ss_pred ccccccccCCCCceEEeCCC--C---cccHHHHHHHHhc--CCCCcCC
Q 005461 648 CCICQEEYTDGDNLGILDCG--H---DFHTNCIKQWLMQ--KNLCPIC 688 (695)
Q Consensus 648 C~ICLEefed~e~vv~LpCG--H---iFH~~CI~qWL~~--k~sCPvC 688 (695)
|-||++.-.+.+ ..+.||. = ..|..|+.+|+.. +..|++|
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 789999977765 2345665 2 6799999999994 4569998
No 78
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.73 E-value=0.071 Score=52.66 Aligned_cols=47 Identities=26% Similarity=0.661 Sum_probs=34.2
Q ss_pred CCCCCcccccccccCCCCceEEeCCCC-----cccHHHHHHHHhcC--CCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGH-----DFHTNCIKQWLMQK--NLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGH-----iFH~~CI~qWL~~k--~sCPvCR~~l 692 (695)
...+..|-||.++..+ . .-||.. .-|.+|+.+|+..+ ..|++|+++.
T Consensus 5 s~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 4556789999988532 1 246553 45999999999864 4699998753
No 79
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.51 E-value=0.063 Score=58.23 Aligned_cols=48 Identities=25% Similarity=0.566 Sum_probs=39.6
Q ss_pred CCCCCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
..+...|+||+.....+ ..+ .-|-+||..||.+.+...+.||+--.++
T Consensus 297 ~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 34557799999998887 444 5799999999999999999999976654
No 80
>PHA02862 5L protein; Provisional
Probab=93.42 E-value=0.059 Score=52.47 Aligned_cols=48 Identities=27% Similarity=0.630 Sum_probs=31.5
Q ss_pred CCcccccccccCCCCc-eEEeCCCCcccHHHHHHHHhc--CCCCcCCCCCc
Q 005461 645 EEPCCICQEEYTDGDN-LGILDCGHDFHTNCIKQWLMQ--KNLCPICKTTG 692 (695)
Q Consensus 645 d~~C~ICLEefed~e~-vv~LpCGHiFH~~CI~qWL~~--k~sCPvCR~~l 692 (695)
.+.|-||+++-.+... ..+..--..-|++|+.+|+.. +..|++||.+.
T Consensus 2 ~diCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 2 SDICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CCEEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 3579999998543300 000000256899999999984 56799999853
No 81
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=93.21 E-value=0.06 Score=64.25 Aligned_cols=47 Identities=34% Similarity=0.766 Sum_probs=36.2
Q ss_pred CCCcccccccccCCCCceEE-eCCCCcccHHHHHHHHhcC--C-----CCcCCCC
Q 005461 644 DEEPCCICQEEYTDGDNLGI-LDCGHDFHTNCIKQWLMQK--N-----LCPICKT 690 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~-LpCGHiFH~~CI~qWL~~k--~-----sCPvCR~ 690 (695)
+..+|.||++.+.....+-. -.|-|+||..||++|-+.. . .||.|+.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 34679999999987654433 2588999999999998741 1 3999984
No 82
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.03 E-value=0.051 Score=44.88 Aligned_cols=47 Identities=36% Similarity=0.661 Sum_probs=35.9
Q ss_pred CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcCC
Q 005461 643 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLP 694 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~llp 694 (695)
.....|..|...-..+ .+++|||+.|..|..- ++-+.||+|-+++..
T Consensus 5 ~~~~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 5 QPEQPCVFCGFVGTKG---TVLPCGHLICDNCFPG--ERYNGCPFCGTPFEF 51 (55)
T ss_pred ccceeEEEcccccccc---ccccccceeeccccCh--hhccCCCCCCCcccC
Confidence 3456788887776666 8889999999999543 355679999988754
No 83
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.11 E-value=0.052 Score=58.46 Aligned_cols=44 Identities=20% Similarity=0.488 Sum_probs=30.3
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
-.|.-|--.+..- -+.++|+|+||.+|.+. ...+.||.|-..++
T Consensus 91 HfCd~Cd~PI~IY--GRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIAIY--GRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCcceee--ecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 3466665554442 14559999999999764 34678999977653
No 84
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.05 E-value=0.089 Score=56.85 Aligned_cols=45 Identities=27% Similarity=0.535 Sum_probs=36.6
Q ss_pred CCCCCcccccccccCCCCceEEeCC--CCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDC--GHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpC--GHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
..+-.+|+||.+.+..+ +..| ||+-|..|-. +..+.||.||.++-
T Consensus 45 ~~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 44567899999999997 6677 7999999965 45778999998764
No 85
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=91.43 E-value=0.053 Score=67.11 Aligned_cols=44 Identities=39% Similarity=0.899 Sum_probs=39.1
Q ss_pred CCCcccccccccC-CCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCC
Q 005461 644 DEEPCCICQEEYT-DGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKT 690 (695)
Q Consensus 644 ed~~C~ICLEefe-d~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~ 690 (695)
+...|.||++.+. .+ .+..|||.||..|+..|+..+..||+|+.
T Consensus 1152 ~~~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 4468999999998 45 67789999999999999999999999985
No 86
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.34 E-value=0.12 Score=56.29 Aligned_cols=51 Identities=22% Similarity=0.417 Sum_probs=35.6
Q ss_pred CCCCCcccccccccCCCCce-EEeCCCCcccHHHHHHHHh-cCCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDGDNL-GILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~v-v~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~l 692 (695)
.++++.|++|+|++...|+- .-.+||-..|+-|...--. -...||.||+..
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 34556699999999877653 3448998777777554322 256799999854
No 87
>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=90.70 E-value=0.49 Score=52.43 Aligned_cols=26 Identities=27% Similarity=0.908 Sum_probs=20.3
Q ss_pred CCCcccHHHHHHHHhc-------------CCCCcCCCCC
Q 005461 666 CGHDFHTNCIKQWLMQ-------------KNLCPICKTT 691 (695)
Q Consensus 666 CGHiFH~~CI~qWL~~-------------k~sCPvCR~~ 691 (695)
|.-.+|.+|+-+||.. +-.||+||++
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~ 349 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAK 349 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccc
Confidence 5567799999999863 2359999986
No 88
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.59 E-value=0.13 Score=55.01 Aligned_cols=45 Identities=33% Similarity=0.786 Sum_probs=38.6
Q ss_pred CcccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcCCCCcCCCC
Q 005461 646 EPCCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQKNLCPICKT 690 (695)
Q Consensus 646 ~~C~ICLEefed~e-~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~ 690 (695)
..|+||.+.+.... .+..++|||..|..|........-.||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 34999999998765 4567799999999999998887788999988
No 89
>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=90.45 E-value=0.13 Score=40.26 Aligned_cols=41 Identities=32% Similarity=0.831 Sum_probs=24.4
Q ss_pred ccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC--CCcCC
Q 005461 648 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN--LCPIC 688 (695)
Q Consensus 648 C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~--sCPvC 688 (695)
|.+|.+....+..-....|+=.+|..|+..+++... .||.|
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 778988888883322225999999999999999755 69998
No 90
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.74 E-value=0.11 Score=61.40 Aligned_cols=45 Identities=29% Similarity=0.658 Sum_probs=38.2
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC---CCcCCCCCc
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN---LCPICKTTG 692 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~---sCPvCR~~l 692 (695)
..+|+||+..+.++ ..++|-|.||..|+..-|..++ .||+|+..+
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 46699999999998 7889999999999998777544 699999654
No 91
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=88.38 E-value=0.53 Score=55.00 Aligned_cols=43 Identities=23% Similarity=0.657 Sum_probs=27.8
Q ss_pred CCCcccccccc-----cCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCC
Q 005461 644 DEEPCCICQEE-----YTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 689 (695)
Q Consensus 644 ed~~C~ICLEe-----fed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR 689 (695)
....|.||... |+......+..|+++||.+|.+. .+..||.|-
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 45678888532 22222235558999999999543 444599993
No 92
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.32 E-value=0.29 Score=57.96 Aligned_cols=27 Identities=33% Similarity=0.749 Sum_probs=24.2
Q ss_pred eEEeCCCCcccHHHHHHHHhcCCCCcC
Q 005461 661 LGILDCGHDFHTNCIKQWLMQKNLCPI 687 (695)
Q Consensus 661 vv~LpCGHiFH~~CI~qWL~~k~sCPv 687 (695)
.++..|+|+.|..|.+.||+....||.
T Consensus 1043 ~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1043 NFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhhccccccccHHHHHHHHhcCCcCCC
Confidence 356689999999999999999999985
No 93
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.90 E-value=0.38 Score=49.53 Aligned_cols=39 Identities=28% Similarity=0.688 Sum_probs=28.8
Q ss_pred ccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 648 CCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 648 C~ICLEefed~e~vv~LpCGHi-FH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
|.+|-+. .-.|..+||.|. +|..|-.. ...||+|+....
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 8888776 334677799986 89999654 456999998653
No 94
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.48 E-value=0.48 Score=49.94 Aligned_cols=49 Identities=31% Similarity=0.673 Sum_probs=36.1
Q ss_pred CCCcccccccccCCCCc-eEEeCCC-----CcccHHHHHHHHhc--CCCCcCCCCCc
Q 005461 644 DEEPCCICQEEYTDGDN-LGILDCG-----HDFHTNCIKQWLMQ--KNLCPICKTTG 692 (695)
Q Consensus 644 ed~~C~ICLEefed~e~-vv~LpCG-----HiFH~~CI~qWL~~--k~sCPvCR~~l 692 (695)
+...|-||+++...... ....+|. +..|..|+..|+.. +..|.+|....
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 35789999998765421 3455654 56799999999994 56799998754
No 95
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=84.84 E-value=3.3 Score=42.38 Aligned_cols=41 Identities=27% Similarity=0.703 Sum_probs=28.1
Q ss_pred CCcccccccc-----cCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCC
Q 005461 645 EEPCCICQEE-----YTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKT 690 (695)
Q Consensus 645 d~~C~ICLEe-----fed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~ 690 (695)
...|-||..+ |.....+..-.|+-+||..|.. +..||.|..
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 5789999853 2222223444799999999966 266999954
No 96
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.57 E-value=0.39 Score=53.64 Aligned_cols=39 Identities=38% Similarity=0.809 Sum_probs=29.6
Q ss_pred CCCcccccccccCCC-CceEEeCCCCcccHHHHHHHHhcC
Q 005461 644 DEEPCCICQEEYTDG-DNLGILDCGHDFHTNCIKQWLMQK 682 (695)
Q Consensus 644 ed~~C~ICLEefed~-e~vv~LpCGHiFH~~CI~qWL~~k 682 (695)
...+|.||..+.... +....+.|+|.||..|+++.+..+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 467899999555544 333456899999999999998854
No 97
>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=84.32 E-value=0.38 Score=38.84 Aligned_cols=32 Identities=31% Similarity=0.771 Sum_probs=23.9
Q ss_pred EEeCCC-CcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 662 GILDCG-HDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 662 v~LpCG-HiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
..+.|. |..|..|+..-|.....||+|++++.
T Consensus 14 ~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred CeeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 355676 99999999999999999999998764
No 98
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=84.23 E-value=0.52 Score=49.49 Aligned_cols=47 Identities=19% Similarity=0.587 Sum_probs=34.5
Q ss_pred CCCcccccccccC-CCCceEEe-C-CCCcccHHHHHHHHhcC-CCCc--CCCC
Q 005461 644 DEEPCCICQEEYT-DGDNLGIL-D-CGHDFHTNCIKQWLMQK-NLCP--ICKT 690 (695)
Q Consensus 644 ed~~C~ICLEefe-d~e~vv~L-p-CGHiFH~~CI~qWL~~k-~sCP--vCR~ 690 (695)
.+..|+||..+.- .++....+ | |-|..|..|++.-|... ..|| -|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 4568999997644 44433333 5 99999999999999874 5799 6643
No 99
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=83.99 E-value=2.2 Score=51.03 Aligned_cols=40 Identities=23% Similarity=0.583 Sum_probs=28.9
Q ss_pred cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcC
Q 005461 647 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPI 687 (695)
Q Consensus 647 ~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPv 687 (695)
.|++|-..+.. ..+-+-.|||.-|..|+++|+....-||.
T Consensus 781 ~CtVC~~vi~G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRG-VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeee-eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 57777555432 12222359999999999999998887876
No 100
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.70 E-value=0.48 Score=50.15 Aligned_cols=52 Identities=27% Similarity=0.555 Sum_probs=36.3
Q ss_pred CCCCCCcccccccccCCCCce-EEeCCC-----CcccHHHHHHHHhcCC--------CCcCCCCCc
Q 005461 641 IPSDEEPCCICQEEYTDGDNL-GILDCG-----HDFHTNCIKQWLMQKN--------LCPICKTTG 692 (695)
Q Consensus 641 ~~~ed~~C~ICLEefed~e~v-v~LpCG-----HiFH~~CI~qWL~~k~--------sCPvCR~~l 692 (695)
..+.+..|-||+..=++.-.. -+-||- |-.|..|+..|+..|. .||-|+++.
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 345567789999886654221 122653 7899999999998544 399999863
No 101
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=83.67 E-value=0.58 Score=55.81 Aligned_cols=49 Identities=16% Similarity=0.255 Sum_probs=35.3
Q ss_pred CCCcccccccccCCCC-ceEEeC---CCCcccHHHHHHHHhc------CCCCcCCCCCc
Q 005461 644 DEEPCCICQEEYTDGD-NLGILD---CGHDFHTNCIKQWLMQ------KNLCPICKTTG 692 (695)
Q Consensus 644 ed~~C~ICLEefed~e-~vv~Lp---CGHiFH~~CI~qWL~~------k~sCPvCR~~l 692 (695)
+...|.||.-++..++ -...++ |+|-||..||..|+.+ +..|++|...+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4466888877777643 233444 9999999999999863 34589998754
No 102
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=83.64 E-value=0.9 Score=43.92 Aligned_cols=47 Identities=28% Similarity=0.589 Sum_probs=37.5
Q ss_pred CCCcccccccccCCCCceEEe-C---CCCcccHHHHHHHHhc---CCCCcCCCCCcC
Q 005461 644 DEEPCCICQEEYTDGDNLGIL-D---CGHDFHTNCIKQWLMQ---KNLCPICKTTGL 693 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~L-p---CGHiFH~~CI~qWL~~---k~sCPvCR~~ll 693 (695)
...+|.||.|.-.+. ..| | ||-..|..|.-..|+. ...||+||+...
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 457899999998877 555 2 9999999998887774 567999998653
No 103
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=83.63 E-value=1.3 Score=36.75 Aligned_cols=34 Identities=26% Similarity=0.901 Sum_probs=27.1
Q ss_pred CCCcccccccccCCCCceEEe-CCCCcccHHHHHH
Q 005461 644 DEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQ 677 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~q 677 (695)
....|.+|-+.|++++.+++- .||-.||+.|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 346799999999977666666 5999999999543
No 104
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.68 E-value=0.96 Score=54.21 Aligned_cols=50 Identities=28% Similarity=0.675 Sum_probs=37.1
Q ss_pred CCCCCcccccccccCCCCceEEeCCC-----CcccHHHHHHHHhc--CCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCG-----HDFHTNCIKQWLMQ--KNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCG-----HiFH~~CI~qWL~~--k~sCPvCR~~l 692 (695)
..++..|.||..+=..++.+ .-||+ ...|++|+..|+.. +..|-+|+.+.
T Consensus 9 N~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred CccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 34557899999887766543 22565 34899999999995 45699999765
No 105
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.38 E-value=1.1 Score=50.10 Aligned_cols=47 Identities=21% Similarity=0.429 Sum_probs=39.5
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC---CCCcCCCCCc
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK---NLCPICKTTG 692 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k---~sCPvCR~~l 692 (695)
+.|+|=.+.-.+......|.|||+.+++-|.+.-+.. ..||.|=...
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 6799988888888888999999999999999987753 4699995543
No 106
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.75 E-value=0.52 Score=55.15 Aligned_cols=40 Identities=25% Similarity=0.534 Sum_probs=30.3
Q ss_pred CCcccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcCCCCc
Q 005461 645 EEPCCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQKNLCP 686 (695)
Q Consensus 645 d~~C~ICLEefed~e-~vv~LpCGHiFH~~CI~qWL~~k~sCP 686 (695)
...|.||+..|.... .-+.|.|||+.|..|+.....+ +||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~--scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA--SCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc--cCC
Confidence 356899988887653 2367789999999999987654 455
No 107
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.00 E-value=1.2 Score=47.95 Aligned_cols=36 Identities=25% Similarity=0.644 Sum_probs=29.2
Q ss_pred CCcccccccccCCCCceEEeCC----CCcccHHHHHHHHhcCC
Q 005461 645 EEPCCICQEEYTDGDNLGILDC----GHDFHTNCIKQWLMQKN 683 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpC----GHiFH~~CI~qWL~~k~ 683 (695)
-..|.+|.|.+++.. ...| .|+||.-|-++-++++.
T Consensus 268 pLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred ceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhhc
Confidence 367999999999983 3445 69999999999998643
No 108
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.67 E-value=1.8 Score=45.79 Aligned_cols=36 Identities=17% Similarity=0.244 Sum_probs=31.2
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM 680 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~ 680 (695)
...-+-|++||..+.++ ++.+=||+||++||.+.+.
T Consensus 40 iK~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDP---VITPDGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccccCC---ccCCCCeeeeHHHHHHHHH
Confidence 34456689999999999 8999999999999998875
No 109
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.06 E-value=1.8 Score=49.13 Aligned_cols=38 Identities=32% Similarity=0.666 Sum_probs=32.2
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ 681 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~ 681 (695)
......|.||.+.+.. .+..+.|||.||..|+...+..
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 3456789999999877 5577899999999999999875
No 110
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.42 E-value=1.7 Score=46.92 Aligned_cols=27 Identities=22% Similarity=0.655 Sum_probs=21.6
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCcCCCCCc
Q 005461 666 CGHDFHTNCIKQWLM-------------QKNLCPICKTTG 692 (695)
Q Consensus 666 CGHiFH~~CI~qWL~-------------~k~sCPvCR~~l 692 (695)
|.-.+|..|+.+|+. ++.+||+||+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 677899999998874 345799999853
No 111
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.93 E-value=1.3 Score=53.24 Aligned_cols=44 Identities=30% Similarity=0.659 Sum_probs=33.2
Q ss_pred CCCcccccccccCCC----CceEEeCCCCcccHHHHHHHHhcCCCCcCC
Q 005461 644 DEEPCCICQEEYTDG----DNLGILDCGHDFHTNCIKQWLMQKNLCPIC 688 (695)
Q Consensus 644 ed~~C~ICLEefed~----e~vv~LpCGHiFH~~CI~qWL~~k~sCPvC 688 (695)
.+..|.-|++..... +.++++.|||.||+.|+..-..+.+ |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 345799999987632 4578889999999999997766554 5544
No 112
>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=69.80 E-value=4.6 Score=32.55 Aligned_cols=43 Identities=19% Similarity=0.376 Sum_probs=20.8
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc---CC--CCcCCCCC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ---KN--LCPICKTT 691 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~---k~--sCPvCR~~ 691 (695)
..|+|....+..+ ++...|.|.-|.+ +..||.. +. .||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3589999888887 3444799986544 4455542 22 49999874
No 113
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=69.24 E-value=4.4 Score=44.49 Aligned_cols=52 Identities=19% Similarity=0.327 Sum_probs=38.0
Q ss_pred CCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 640 EIPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 640 ~~~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
........|-.|.++.......++-.|.|.||.+|-.--=..-..||-|...
T Consensus 325 ~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 325 TEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred cccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 3334556699998888877666777899999999955433344569999754
No 114
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=69.06 E-value=5.8 Score=47.28 Aligned_cols=44 Identities=18% Similarity=0.292 Sum_probs=24.5
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc----CC--CCcCCCCCcC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ----KN--LCPICKTTGL 693 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~----k~--sCPvCR~~ll 693 (695)
..|+||.-.+..+ ++...|+|+=|.+- .|+.. +. .||+|.+.+.
T Consensus 307 L~CPl~~~Rm~~P--~r~~~CkHlQcFD~--~~~lq~n~~~pTW~CPVC~~~~~ 356 (636)
T KOG2169|consen 307 LNCPLSKMRMSLP--ARGHTCKHLQCFDA--LSYLQMNEQKPTWRCPVCQKAAP 356 (636)
T ss_pred ecCCcccceeecC--Ccccccccceecch--hhhHHhccCCCeeeCccCCcccc
Confidence 4688887775544 23334665444432 33332 22 3999988653
No 115
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.84 E-value=7.8 Score=43.48 Aligned_cols=42 Identities=24% Similarity=0.581 Sum_probs=30.3
Q ss_pred CcccccccccCCCC---ceEEeCCCCcccHHHHHHHHhcCCCCcCC
Q 005461 646 EPCCICQEEYTDGD---NLGILDCGHDFHTNCIKQWLMQKNLCPIC 688 (695)
Q Consensus 646 ~~C~ICLEefed~e---~vv~LpCGHiFH~~CI~qWL~~k~sCPvC 688 (695)
..|++|.-.++..+ .+.+. |||.||..|...|......|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 45777766655433 34444 99999999999999888877554
No 116
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=64.74 E-value=3.1 Score=43.23 Aligned_cols=44 Identities=25% Similarity=0.789 Sum_probs=36.7
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 689 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR 689 (695)
....|.+|.+-...+ +++-.|+-.||..|+...+.+...||.|.
T Consensus 180 nlk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 446799999988776 23447999999999999999999999993
No 117
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.95 E-value=3.3 Score=48.26 Aligned_cols=44 Identities=32% Similarity=0.892 Sum_probs=36.3
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
......|.||+++. ..+..+|. |..|+.+|+..+..||+|++.+
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred hcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhh
Confidence 34567899999998 33667788 8999999999999999998754
No 118
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=60.08 E-value=5.2 Score=36.43 Aligned_cols=39 Identities=26% Similarity=0.665 Sum_probs=30.9
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcCCC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLPT 695 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~llpT 695 (695)
...|-||-..+... ||.||..|..+ +..|.+|-+.+++|
T Consensus 44 ~~~C~~CK~~v~q~--------g~~YCq~CAYk----kGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVHQP--------GAKYCQTCAYK----KGICAMCGKKILDT 82 (90)
T ss_pred CccccccccccccC--------CCccChhhhcc----cCcccccCCeeccc
Confidence 45799998876663 68899999654 77899999888764
No 119
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.25 E-value=3.5 Score=44.83 Aligned_cols=52 Identities=29% Similarity=0.521 Sum_probs=42.5
Q ss_pred CCCCCCCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCcCCCCCcCC
Q 005461 640 EIPSDEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGLP 694 (695)
Q Consensus 640 ~~~~ed~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~qWL~~k~sCPvCR~~llp 694 (695)
....+...|-||...+..+ ... .|.|.||..|...|....+.||.||..+.+
T Consensus 100 ~~~~~~~~~~~~~g~l~vp---t~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 100 GFQQDHDICYICYGKLTVP---TRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred cccCCccceeeeeeeEEec---ccccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 3455667899999998877 333 499999999999999999999999986643
No 120
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=56.86 E-value=7.9 Score=42.60 Aligned_cols=48 Identities=25% Similarity=0.426 Sum_probs=37.2
Q ss_pred CcccccccccCCCCc-eEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 646 EPCCICQEEYTDGDN-LGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 646 ~~C~ICLEefed~e~-vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
..|+||.+.....+. ..-.+|++..|..|...-......||.||++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 579999998744332 233478998899998888888999999998654
No 121
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=53.11 E-value=6.8 Score=42.02 Aligned_cols=47 Identities=26% Similarity=0.596 Sum_probs=34.2
Q ss_pred CcccccccccCCCCceEEe----CCCCcccHHHHHHHHhc---------CCCCcCCCCCc
Q 005461 646 EPCCICQEEYTDGDNLGIL----DCGHDFHTNCIKQWLMQ---------KNLCPICKTTG 692 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~L----pCGHiFH~~CI~qWL~~---------k~sCPvCR~~l 692 (695)
..|-||.+++.+.+..+.+ .|.-++|..|+..-+.. ...||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5799999999655443333 49999999999984331 33599999844
No 122
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=52.78 E-value=10 Score=41.63 Aligned_cols=45 Identities=24% Similarity=0.464 Sum_probs=36.3
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc---CCCCcCCCC
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ---KNLCPICKT 690 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~---k~sCPvCR~ 690 (695)
..|++-.|..++....+.|.|||+.-.+-+.+.-+. ...||.|=.
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 579998888888777789999999999998886553 345999943
No 123
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=50.74 E-value=32 Score=39.43 Aligned_cols=31 Identities=39% Similarity=0.919 Sum_probs=18.8
Q ss_pred CcccccccccCCCCc----eEEeCCCCcccHHHHHH
Q 005461 646 EPCCICQEEYTDGDN----LGILDCGHDFHTNCIKQ 677 (695)
Q Consensus 646 ~~C~ICLEefed~e~----vv~LpCGHiFH~~CI~q 677 (695)
-.|+||.. |..... +++=-|||.-|.+|..+
T Consensus 129 C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 129 CMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred CCccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 34778855 543221 12225999999999654
No 124
>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 TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=49.84 E-value=19 Score=34.12 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=34.4
Q ss_pred CCcccccccccCCCC-----------ceEEeCCCCcccHHHHHHHHhcCCCCcCCCC
Q 005461 645 EEPCCICQEEYTDGD-----------NLGILDCGHDFHTNCIKQWLMQKNLCPICKT 690 (695)
Q Consensus 645 d~~C~ICLEefed~e-----------~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~ 690 (695)
...|--|+..|.+.. .-....|++.||.+|=.-+-+.-..||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 356999999887531 1124479999999998877777777999964
No 126
>PLN02189 cellulose synthase
Probab=45.43 E-value=19 Score=45.22 Aligned_cols=50 Identities=30% Similarity=0.524 Sum_probs=34.6
Q ss_pred CCCCcccccccccCC---CCc-eEEeCCCCcccHHHHHHHHh-cCCCCcCCCCCc
Q 005461 643 SDEEPCCICQEEYTD---GDN-LGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 692 (695)
Q Consensus 643 ~ed~~C~ICLEefed---~e~-vv~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~l 692 (695)
...+.|.||-+++.. ++. +.+-.|+--.|+.|.+-=-+ .+..||-||+..
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y 86 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRY 86 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 345689999999874 332 23336998899999953222 356799999864
No 127
>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=42.25 E-value=38 Score=28.53 Aligned_cols=46 Identities=20% Similarity=0.486 Sum_probs=31.3
Q ss_pred cccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcCC
Q 005461 647 PCCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLP 694 (695)
Q Consensus 647 ~C~ICLEefed~e-~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~llp 694 (695)
.|-.|-.++..+. +..+-.=...||.+|...-| +..||.|--.+++
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 3667777776553 22222222459999999977 7889999887764
No 128
>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=41.90 E-value=26 Score=25.01 Aligned_cols=38 Identities=21% Similarity=0.436 Sum_probs=24.9
Q ss_pred cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 647 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 647 ~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
.|..|.+.+...+.... .=+..||..| ..|..|+..+.
T Consensus 1 ~C~~C~~~i~~~~~~~~-~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLR-ALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEE-eCCccccccC--------CCCcccCCcCc
Confidence 37888888877533222 2467788877 35788887663
No 129
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=41.54 E-value=16 Score=43.14 Aligned_cols=36 Identities=28% Similarity=0.661 Sum_probs=26.3
Q ss_pred CCCCcccccccccCC---CC-------ceEEeCCCCcccHHHHHHH
Q 005461 643 SDEEPCCICQEEYTD---GD-------NLGILDCGHDFHTNCIKQW 678 (695)
Q Consensus 643 ~ed~~C~ICLEefed---~e-------~vv~LpCGHiFH~~CI~qW 678 (695)
.....|+||.|.|+. .+ ..+.+.-|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 566789999999984 11 1344457999999998743
No 130
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.42 E-value=25 Score=37.70 Aligned_cols=47 Identities=19% Similarity=0.371 Sum_probs=34.0
Q ss_pred CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCcCCCCCcC
Q 005461 645 EEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~L-pCGHiFH~~CI~qWL~~k~sCPvCR~~ll 693 (695)
...|+|---++........| .|||+|-..-+++. ....|++|.....
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 35699877666655444444 89999999887774 2567999988654
No 131
>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=40.41 E-value=9.3 Score=43.05 Aligned_cols=28 Identities=29% Similarity=0.787 Sum_probs=0.0
Q ss_pred eEEeCCCCcccHHHHHHHHhc------CCCCcCCCCC
Q 005461 661 LGILDCGHDFHTNCIKQWLMQ------KNLCPICKTT 691 (695)
Q Consensus 661 vv~LpCGHiFH~~CI~qWL~~------k~sCPvCR~~ 691 (695)
-+-|.|||++... .|-.. ...||+||..
T Consensus 304 ~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 304 WVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -------------------------------------
T ss_pred eeeccccceeeec---ccccccccccccccCCCcccc
Confidence 4677899987754 46542 4469999974
No 132
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.67 E-value=14 Score=41.80 Aligned_cols=37 Identities=19% Similarity=0.422 Sum_probs=28.3
Q ss_pred CCCCcccccccccCCCC---ceEEeCCCCcccHHHHHHHH
Q 005461 643 SDEEPCCICQEEYTDGD---NLGILDCGHDFHTNCIKQWL 679 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e---~vv~LpCGHiFH~~CI~qWL 679 (695)
.....|+-|.-.++..+ ++.++.|+|.||+-|-....
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 34567888887777544 77888999999999987544
No 133
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=39.24 E-value=16 Score=35.54 Aligned_cols=22 Identities=32% Similarity=0.641 Sum_probs=15.1
Q ss_pred cccccccCCCCceEEeCCCCcccHH
Q 005461 649 CICQEEYTDGDNLGILDCGHDFHTN 673 (695)
Q Consensus 649 ~ICLEefed~e~vv~LpCGHiFH~~ 673 (695)
-||+.. .+.+....|||.||..
T Consensus 61 fi~qs~---~~rv~rcecghsf~d~ 82 (165)
T COG4647 61 FICQSA---QKRVIRCECGHSFGDY 82 (165)
T ss_pred EEEecc---cccEEEEeccccccCh
Confidence 466655 2346777899999963
No 134
>PLN02436 cellulose synthase A
Probab=38.77 E-value=27 Score=43.99 Aligned_cols=50 Identities=24% Similarity=0.498 Sum_probs=34.6
Q ss_pred CCCCcccccccccCC---CCce-EEeCCCCcccHHHHHHHHh-cCCCCcCCCCCc
Q 005461 643 SDEEPCCICQEEYTD---GDNL-GILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 692 (695)
Q Consensus 643 ~ed~~C~ICLEefed---~e~v-v~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~l 692 (695)
.....|-||-+++.. +|.- .+-.|+--.|+.|.+-=-+ .+..||-||+..
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 345689999999753 3332 3336998899999953222 356799999864
No 135
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=38.65 E-value=29 Score=43.75 Aligned_cols=50 Identities=20% Similarity=0.411 Sum_probs=35.0
Q ss_pred CCCCcccccccccCCC---Cc-eEEeCCCCcccHHHHHH-HHhcCCCCcCCCCCc
Q 005461 643 SDEEPCCICQEEYTDG---DN-LGILDCGHDFHTNCIKQ-WLMQKNLCPICKTTG 692 (695)
Q Consensus 643 ~ed~~C~ICLEefed~---e~-vv~LpCGHiFH~~CI~q-WL~~k~sCPvCR~~l 692 (695)
.....|-||=+++... +. |.+-.|+--.|+.|.+= .-+.+..||-||+..
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 3456899999997743 32 33447998899999952 222356799999853
No 136
>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=38.21 E-value=15 Score=28.68 Aligned_cols=44 Identities=25% Similarity=0.598 Sum_probs=29.6
Q ss_pred cccccccccCCCCceEEeCCCCcccHHHHHHHHh------cCCCCcCCCC
Q 005461 647 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM------QKNLCPICKT 690 (695)
Q Consensus 647 ~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~------~k~sCPvCR~ 690 (695)
.|.||...-...+.+..-.|+..||..|+..-.. ..-.||.|+.
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 3889999444443444447999999999985433 1345888863
No 137
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.87 E-value=7.5 Score=41.29 Aligned_cols=48 Identities=31% Similarity=0.683 Sum_probs=36.5
Q ss_pred CCCcccccccccCCC-Cc--eEEeC--------CCCcccHHHHHHHHhcC-CCCcCCCCC
Q 005461 644 DEEPCCICQEEYTDG-DN--LGILD--------CGHDFHTNCIKQWLMQK-NLCPICKTT 691 (695)
Q Consensus 644 ed~~C~ICLEefed~-e~--vv~Lp--------CGHiFH~~CI~qWL~~k-~sCPvCR~~ 691 (695)
....|.||...|... .. -.++. |||..|..|+..-+.+. ..||.|+..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 346699999999943 22 13345 99999999999988765 479999863
No 138
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=36.36 E-value=29 Score=38.25 Aligned_cols=51 Identities=25% Similarity=0.529 Sum_probs=33.4
Q ss_pred CCCCCcccccccccC--------------CCCc--eEEeCCCCcccHHHHHHHHhc---------CCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYT--------------DGDN--LGILDCGHDFHTNCIKQWLMQ---------KNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefe--------------d~e~--vv~LpCGHiFH~~CI~qWL~~---------k~sCPvCR~~l 692 (695)
...+.+|++|+..=. +.-. -...||||+--.+-.+-|-.. +..||.|-+.+
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 344678999986522 0000 123489998888888888652 33599998755
No 139
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=35.79 E-value=3.9 Score=35.58 Aligned_cols=39 Identities=28% Similarity=0.553 Sum_probs=21.0
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
..|+.|..++.-. =+|.+|..|-.. +.....||-|..++
T Consensus 2 ~~CP~C~~~L~~~-------~~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQ-------GGHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEE-------TTEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEe-------CCEEECcccccc-ceecccCCCcccHH
Confidence 4689998885443 167777777664 44556699998765
No 140
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=35.40 E-value=20 Score=38.38 Aligned_cols=43 Identities=21% Similarity=0.359 Sum_probs=33.2
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC--CCcCCC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN--LCPICK 689 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k~--sCPvCR 689 (695)
...|+|=...+..+ ++...|||+|-++-|...+.... .||+--
T Consensus 176 s~rdPis~~~I~nP--viSkkC~HvydrDsI~~~l~~~~~i~CPv~g 220 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VISKKCGHVYDRDSIMQILCDEITIRCPVLG 220 (262)
T ss_pred cccCchhhhhhhch--hhhcCcCcchhhhhHHHHhccCceeeccccc
Confidence 35799987777777 45558999999999999988643 488743
No 141
>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=34.95 E-value=22 Score=30.78 Aligned_cols=11 Identities=36% Similarity=1.141 Sum_probs=8.5
Q ss_pred ccHHHHHHHHh
Q 005461 670 FHTNCIKQWLM 680 (695)
Q Consensus 670 FH~~CI~qWL~ 680 (695)
||+.|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 142
>PLN02400 cellulose synthase
Probab=34.13 E-value=29 Score=43.82 Aligned_cols=49 Identities=20% Similarity=0.448 Sum_probs=34.3
Q ss_pred CCCcccccccccCCCC---c-eEEeCCCCcccHHHHHH-HHhcCCCCcCCCCCc
Q 005461 644 DEEPCCICQEEYTDGD---N-LGILDCGHDFHTNCIKQ-WLMQKNLCPICKTTG 692 (695)
Q Consensus 644 ed~~C~ICLEefed~e---~-vv~LpCGHiFH~~CI~q-WL~~k~sCPvCR~~l 692 (695)
..+.|-||=+++.... . |.+-.|+--.|+.|.+= .-+....||-||+..
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrY 88 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRY 88 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcc
Confidence 4568999999987533 2 34447998899999852 112355799999854
No 143
>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=34.07 E-value=20 Score=28.92 Aligned_cols=37 Identities=19% Similarity=0.619 Sum_probs=21.6
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--CCCCcCCCCC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--KNLCPICKTT 691 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~--k~sCPvCR~~ 691 (695)
...|+.|-+.|... . +...|....... .-.||+|...
T Consensus 2 ~f~CP~C~~~~~~~----~------L~~H~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----S------LVEHCEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCHH----H------HHHHHHhHCcCCCCCccCCCchhh
Confidence 46799999865443 1 223344444332 3469999764
No 144
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.65 E-value=20 Score=42.92 Aligned_cols=41 Identities=20% Similarity=0.404 Sum_probs=29.7
Q ss_pred CcccccccccC-CCCceEEeCCCCcccHHHHHHHHhcCCCCcCCC
Q 005461 646 EPCCICQEEYT-DGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 689 (695)
Q Consensus 646 ~~C~ICLEefe-d~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR 689 (695)
..|.+|+..-. +.+-.+.+.|+-.||..| |+.-...||+|-
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccC
Confidence 56999987644 223335557999999998 666788899994
No 145
>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=31.06 E-value=11 Score=40.35 Aligned_cols=46 Identities=17% Similarity=0.321 Sum_probs=22.5
Q ss_pred CCCCcccccccccCCCCceEEeC-----CCCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 643 SDEEPCCICQEEYTDGDNLGILD-----CGHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv~Lp-----CGHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
.....|+||=...... .+.. -.|.+|.-|-..|-.....||.|-..
T Consensus 170 w~~g~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEE---EEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 3446899998775543 1111 24678889999998888899999653
No 146
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=30.41 E-value=24 Score=26.66 Aligned_cols=25 Identities=36% Similarity=0.759 Sum_probs=17.3
Q ss_pred cccccccccCCCCc--------eEEeCCCCccc
Q 005461 647 PCCICQEEYTDGDN--------LGILDCGHDFH 671 (695)
Q Consensus 647 ~C~ICLEefed~e~--------vv~LpCGHiFH 671 (695)
.|+=|.-.|..+++ +....|+|+|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 58888888886653 34446888874
No 147
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=29.85 E-value=50 Score=41.63 Aligned_cols=51 Identities=22% Similarity=0.468 Sum_probs=36.0
Q ss_pred CCCCCcccccccccCCC---Cc-eEEeCCCCcccHHHHHHHHh-cCCCCcCCCCCc
Q 005461 642 PSDEEPCCICQEEYTDG---DN-LGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 692 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~---e~-vv~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~l 692 (695)
....+.|-||=+++... +. |.+-.|+--.|+.|.+-=.+ .+..||-||+..
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y 67 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRY 67 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 34567899999997743 32 33447998999999953222 356799999853
No 148
>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=29.37 E-value=28 Score=28.62 Aligned_cols=42 Identities=26% Similarity=0.590 Sum_probs=19.3
Q ss_pred ccccccccCCCCc-------eEEeCCCCcccHHHHHHHHhcCCCCcCCC
Q 005461 648 CCICQEEYTDGDN-------LGILDCGHDFHTNCIKQWLMQKNLCPICK 689 (695)
Q Consensus 648 C~ICLEefed~e~-------vv~LpCGHiFH~~CI~qWL~~k~sCPvCR 689 (695)
|--|+..|..... ...-.|++.||.+|=.--=+.-..||-|-
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 4456666665421 12226999999999432112234699884
No 149
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.03 E-value=79 Score=34.16 Aligned_cols=40 Identities=23% Similarity=0.246 Sum_probs=29.6
Q ss_pred CCCCCCccccccc-ccCCCCce-EEeCCCCcccHHHHHHHHh
Q 005461 641 IPSDEEPCCICQE-EYTDGDNL-GILDCGHDFHTNCIKQWLM 680 (695)
Q Consensus 641 ~~~ed~~C~ICLE-efed~e~v-v~LpCGHiFH~~CI~qWL~ 680 (695)
.....+.|.+|.. ++....+. +...|+|.|+..|..-|..
T Consensus 91 ~~~~~~~ls~~~s~e~~~~~e~~~~y~~~~~f~i~~~~i~~~ 132 (271)
T COG5574 91 RFNREETLSIEYSRETNIDKEGEVLYPCGIFFCIGCDYIWSI 132 (271)
T ss_pred ccccccccccccCcccccccccceeeecccccchhhhHHHHH
Confidence 3455678999888 55444333 4448999999999999987
No 150
>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=28.49 E-value=23 Score=29.55 Aligned_cols=37 Identities=22% Similarity=0.497 Sum_probs=19.1
Q ss_pred CCCCcccccccccCCCCceE-EeCCCCcccHHHHHHHH
Q 005461 643 SDEEPCCICQEEYTDGDNLG-ILDCGHDFHTNCIKQWL 679 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e~vv-~LpCGHiFH~~CI~qWL 679 (695)
.+...|.+|...|..-..-. .-.||++||..|....+
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34577999999997643222 22699999999987554
No 151
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=28.34 E-value=18 Score=44.26 Aligned_cols=46 Identities=17% Similarity=0.434 Sum_probs=31.1
Q ss_pred CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc------CCCCcCCCC
Q 005461 644 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ------KNLCPICKT 690 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~------k~sCPvCR~ 690 (695)
....|-.|......- ..++-.|+|.||..|++.|.-+ -..|++|+.
T Consensus 228 ~~~mC~~C~~tlfn~-hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 228 IREMCDRCETTLFNI-HWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred cchhhhhhcccccce-eEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 345688887765442 2345579999999999999621 123777764
No 152
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.51 E-value=15 Score=35.87 Aligned_cols=21 Identities=43% Similarity=1.216 Sum_probs=14.8
Q ss_pred CCCCCcccccccc-cCCCCceEEeCCCCc
Q 005461 642 PSDEEPCCICQEE-YTDGDNLGILDCGHD 669 (695)
Q Consensus 642 ~~ed~~C~ICLEe-fed~e~vv~LpCGHi 669 (695)
..++.+|-||+.. |.++ |||.
T Consensus 62 v~ddatC~IC~KTKFADG-------~GH~ 83 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADG-------CGHN 83 (169)
T ss_pred cCcCcchhhhhhcccccc-------cCcc
Confidence 4567889999865 4455 7774
No 153
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=27.39 E-value=55 Score=29.29 Aligned_cols=50 Identities=20% Similarity=0.426 Sum_probs=21.2
Q ss_pred CCCCcccccccccCCCC--ceE--EeCCCCcccHHHHHHHHh-cCCCCcCCCCCc
Q 005461 643 SDEEPCCICQEEYTDGD--NLG--ILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 692 (695)
Q Consensus 643 ~ed~~C~ICLEefed~e--~vv--~LpCGHiFH~~CI~qWL~-~k~sCPvCR~~l 692 (695)
.....|-||-+++.... ++. ...|+--.|+.|..-=.+ ....||-||+..
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 34678999999887432 222 337998899999885555 466799999753
No 154
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=26.62 E-value=22 Score=46.13 Aligned_cols=10 Identities=30% Similarity=0.547 Sum_probs=4.4
Q ss_pred CccCCCCCcc
Q 005461 70 TWNSGEPSCR 79 (695)
Q Consensus 70 ~w~~ge~ss~ 79 (695)
-|..-|.+..
T Consensus 30 ~~~~~et~e~ 39 (1404)
T KOG1245|consen 30 VWTCKETSES 39 (1404)
T ss_pred hhhhhhccCc
Confidence 3444444443
No 155
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=26.25 E-value=35 Score=37.66 Aligned_cols=29 Identities=28% Similarity=0.771 Sum_probs=18.7
Q ss_pred ceEEeCCCCcccHHHHHHHHhc------CCCCcCCCCC
Q 005461 660 NLGILDCGHDFHTNCIKQWLMQ------KNLCPICKTT 691 (695)
Q Consensus 660 ~vv~LpCGHiFH~~CI~qWL~~------k~sCPvCR~~ 691 (695)
..+-|.|||+-.. ..|=.+ ...||+||..
T Consensus 316 P~vYl~CGHV~G~---H~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 316 PWVYLNCGHVHGY---HNWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred CeEEEeccccccc---cccccccccCcccCcCCeeeee
Confidence 4578899987332 246443 3459999963
No 156
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=25.98 E-value=38 Score=31.69 Aligned_cols=46 Identities=22% Similarity=0.526 Sum_probs=29.4
Q ss_pred CCCcccccccccCC--CCceEEeCCCCcccHHHHHHHHhcCC--CCcCCCC
Q 005461 644 DEEPCCICQEEYTD--GDNLGILDCGHDFHTNCIKQWLMQKN--LCPICKT 690 (695)
Q Consensus 644 ed~~C~ICLEefed--~e~vv~LpCGHiFH~~CI~qWL~~k~--sCPvCR~ 690 (695)
.+..|.+|...|.. +-......|+|.+|..|-.. ..... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 56789999998753 23456668999999999655 11112 3877754
No 157
>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 cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=23.78 E-value=42 Score=24.69 Aligned_cols=21 Identities=24% Similarity=0.670 Sum_probs=12.8
Q ss_pred CCCCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 665 DCGHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 665 pCGHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
.|||+|-... ....||+|...
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCCc
Confidence 4666655432 34479999764
No 159
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=23.20 E-value=27 Score=39.48 Aligned_cols=49 Identities=24% Similarity=0.526 Sum_probs=0.0
Q ss_pred CCcccccccccC--------------CCC--ceEEeCCCCcccHHHHHHHHhc---------CCCCcCCCCCcC
Q 005461 645 EEPCCICQEEYT--------------DGD--NLGILDCGHDFHTNCIKQWLMQ---------KNLCPICKTTGL 693 (695)
Q Consensus 645 d~~C~ICLEefe--------------d~e--~vv~LpCGHiFH~~CI~qWL~~---------k~sCPvCR~~ll 693 (695)
..+|++|+..-. +.. .-..-||||+-=.++.+-|-.. +..||.|-..|.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp --------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 678999985422 111 1133499999999999999652 235999987764
No 160
>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=22.83 E-value=58 Score=25.94 Aligned_cols=35 Identities=20% Similarity=0.460 Sum_probs=25.8
Q ss_pred CcccccccccCCCCc-eEEeCCCCcccHHHHHHHHh
Q 005461 646 EPCCICQEEYTDGDN-LGILDCGHDFHTNCIKQWLM 680 (695)
Q Consensus 646 ~~C~ICLEefed~e~-vv~LpCGHiFH~~CI~qWL~ 680 (695)
..|.+|...|..-.. -..-.||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 568999888876432 22336999999999987655
No 161
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=22.53 E-value=15 Score=39.93 Aligned_cols=38 Identities=32% Similarity=0.512 Sum_probs=30.6
Q ss_pred CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC
Q 005461 645 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK 682 (695)
Q Consensus 645 d~~C~ICLEefed~e~vv~LpCGHiFH~~CI~qWL~~k 682 (695)
...|.+|+++|..+.....+.|--+||..|+..|++..
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 34899999999875555666666699999999999853
No 162
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=22.32 E-value=69 Score=35.45 Aligned_cols=45 Identities=2% Similarity=-0.189 Sum_probs=34.0
Q ss_pred CCCCCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCcCCCCC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGHi-FH~~CI~qWL~~k~sCPvCR~~ 691 (695)
.-...+|-+|-+..... +..+|+|- ||..|.. +....+||+|..-
T Consensus 340 ~~s~~~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 340 LMSSLKGTSAGFGLLST---IWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred chhhcccccccCceeee---EeecCCcccChhhhhh--cccCCcccccccc
Confidence 33456788887776554 55589985 9999988 6678899999764
No 163
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=20.95 E-value=47 Score=25.12 Aligned_cols=25 Identities=32% Similarity=0.723 Sum_probs=17.2
Q ss_pred cccccccccCCCCc--------eEEeCCCCccc
Q 005461 647 PCCICQEEYTDGDN--------LGILDCGHDFH 671 (695)
Q Consensus 647 ~C~ICLEefed~e~--------vv~LpCGHiFH 671 (695)
.|+-|...|..+++ +..-.|+|+|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 58888888886553 33446888875
No 164
>PLN02248 cellulose synthase-like protein
Probab=20.84 E-value=63 Score=41.07 Aligned_cols=49 Identities=22% Similarity=0.609 Sum_probs=35.2
Q ss_pred CCCcccc--cccccCC---CCceEEeCCCCcccHHHHHHHHhcCCCCcCCCCCc
Q 005461 644 DEEPCCI--CQEEYTD---GDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 692 (695)
Q Consensus 644 ed~~C~I--CLEefed---~e~vv~LpCGHiFH~~CI~qWL~~k~sCPvCR~~l 692 (695)
....|.+ |-..... ++++.-..|++..|++|...-++....||-||.+.
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 (1135)
T PLN02248 123 KGSSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAVKSGGICPGCKEPY 176 (1135)
T ss_pred CCCcccccCcccccccccccccCCcccccchhHHhHhhhhhhcCCCCCCCcccc
Confidence 4455665 4444332 23344456899999999999999999999999864
No 165
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=20.64 E-value=28 Score=38.16 Aligned_cols=48 Identities=13% Similarity=0.231 Sum_probs=30.3
Q ss_pred CCCcccccccccCCCCceEE-eCC--CCcccHHHHHHHHhcCCCCcCCCCC
Q 005461 644 DEEPCCICQEEYTDGDNLGI-LDC--GHDFHTNCIKQWLMQKNLCPICKTT 691 (695)
Q Consensus 644 ed~~C~ICLEefed~e~vv~-LpC--GHiFH~~CI~qWL~~k~sCPvCR~~ 691 (695)
....|+||=..-........ ..= .+.+|.-|-..|-.....||.|-..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 34589999887543210000 011 2557777888898888889999653
No 166
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.61 E-value=50 Score=30.41 Aligned_cols=12 Identities=33% Similarity=1.071 Sum_probs=10.9
Q ss_pred ccHHHHHHHHhc
Q 005461 670 FHTNCIKQWLMQ 681 (695)
Q Consensus 670 FH~~CI~qWL~~ 681 (695)
||+.|+..|++.
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999973
No 167
>PRK04023 DNA polymerase II large subunit; Validated
Probab=20.61 E-value=59 Score=40.92 Aligned_cols=48 Identities=19% Similarity=0.305 Sum_probs=32.2
Q ss_pred CCCCCcccccccccCCCCceEEeCCCC-----cccHHHHHHHHhcCCCCcCCCCCcCC
Q 005461 642 PSDEEPCCICQEEYTDGDNLGILDCGH-----DFHTNCIKQWLMQKNLCPICKTTGLP 694 (695)
Q Consensus 642 ~~ed~~C~ICLEefed~e~vv~LpCGH-----iFH~~CI~qWL~~k~sCPvCR~~llp 694 (695)
......|+=|=...... .+-.||. .||.+|-. ......||-|...+.+
T Consensus 623 EVg~RfCpsCG~~t~~f---rCP~CG~~Te~i~fCP~CG~--~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 623 EIGRRKCPSCGKETFYR---RCPFCGTHTEPVYRCPRCGI--EVEEDECEKCGREPTP 675 (1121)
T ss_pred cccCccCCCCCCcCCcc---cCCCCCCCCCcceeCccccC--cCCCCcCCCCCCCCCc
Confidence 34556799998775332 4445984 59999933 3344569999987764
No 168
>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=20.50 E-value=71 Score=25.19 Aligned_cols=29 Identities=24% Similarity=0.532 Sum_probs=12.6
Q ss_pred CcccccccccCCCCceEEeCCCCcccHHHHH
Q 005461 646 EPCCICQEEYTDGDNLGILDCGHDFHTNCIK 676 (695)
Q Consensus 646 ~~C~ICLEefed~e~vv~LpCGHiFH~~CI~ 676 (695)
..|.+|...+.... ....=+..||..|..
T Consensus 27 f~C~~C~~~l~~~~--~~~~~~~~~C~~c~~ 55 (58)
T PF00412_consen 27 FKCSKCGKPLNDGD--FYEKDGKPYCKDCYQ 55 (58)
T ss_dssp SBETTTTCBTTTSS--EEEETTEEEEHHHHH
T ss_pred cccCCCCCccCCCe--eEeECCEEECHHHHh
Confidence 44555555554443 111223445555543
Done!