Query 005412
Match_columns 697
No_of_seqs 264 out of 1806
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 23:02:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005412.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005412hhsearch_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 8.1E-14 1.8E-18 149.4 4.6 49 648-696 230-279 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 1.7E-13 3.6E-18 105.7 2.0 44 648-691 1-44 (44)
3 COG5540 RING-finger-containing 99.1 3.1E-11 6.8E-16 126.3 3.8 51 646-696 322-373 (374)
4 PF12678 zf-rbx1: RING-H2 zinc 99.1 9.2E-11 2E-15 100.4 4.1 47 645-691 17-73 (73)
5 PHA02929 N1R/p28-like protein; 99.1 1.3E-10 2.7E-15 120.0 5.5 51 645-695 172-227 (238)
6 COG5243 HRD1 HRD ubiquitin lig 99.0 1.6E-10 3.4E-15 123.7 3.6 53 642-694 282-344 (491)
7 KOG0317 Predicted E3 ubiquitin 99.0 2.2E-10 4.8E-15 119.6 3.9 50 644-696 236-285 (293)
8 PLN03208 E3 ubiquitin-protein 98.9 7.1E-10 1.5E-14 110.9 5.3 49 644-695 15-79 (193)
9 KOG0823 Predicted E3 ubiquitin 98.9 4.9E-10 1.1E-14 114.1 3.5 49 644-695 44-95 (230)
10 KOG0320 Predicted E3 ubiquitin 98.9 1.2E-09 2.6E-14 107.5 4.0 57 638-695 122-178 (187)
11 cd00162 RING RING-finger (Real 98.8 4.3E-09 9.3E-14 78.5 4.0 44 649-694 1-45 (45)
12 PF13920 zf-C3HC4_3: Zinc fing 98.8 3.1E-09 6.6E-14 84.2 2.8 46 647-695 2-48 (50)
13 PF13923 zf-C3HC4_2: Zinc fing 98.8 4.9E-09 1.1E-13 79.1 3.0 39 650-690 1-39 (39)
14 PF15227 zf-C3HC4_4: zinc fing 98.7 1.1E-08 2.5E-13 79.0 2.7 38 650-690 1-42 (42)
15 smart00504 Ubox Modified RING 98.7 2E-08 4.4E-13 81.9 4.4 45 648-695 2-46 (63)
16 KOG0802 E3 ubiquitin ligase [P 98.7 7.8E-09 1.7E-13 117.9 2.2 52 644-695 288-341 (543)
17 PHA02926 zinc finger-like prot 98.6 2.3E-08 5E-13 101.7 4.0 51 644-694 167-229 (242)
18 PF12861 zf-Apc11: Anaphase-pr 98.6 3.3E-08 7.1E-13 87.4 4.2 50 645-694 19-81 (85)
19 PF14634 zf-RING_5: zinc-RING 98.6 3.6E-08 7.7E-13 76.4 3.8 44 649-692 1-44 (44)
20 TIGR00599 rad18 DNA repair pro 98.5 4.3E-08 9.4E-13 107.8 3.8 49 644-695 23-71 (397)
21 PF00097 zf-C3HC4: Zinc finger 98.5 4.2E-08 9.1E-13 74.1 2.6 39 650-690 1-41 (41)
22 smart00184 RING Ring finger. E 98.5 9.6E-08 2.1E-12 68.7 4.0 38 650-690 1-39 (39)
23 COG5574 PEX10 RING-finger-cont 98.4 1.1E-07 2.4E-12 98.7 2.9 49 645-696 213-263 (271)
24 COG5194 APC11 Component of SCF 98.3 6.4E-07 1.4E-11 78.1 4.0 45 650-694 34-80 (88)
25 KOG0287 Postreplication repair 98.2 3.7E-07 8E-12 97.4 1.8 48 645-695 21-68 (442)
26 KOG2164 Predicted E3 ubiquitin 98.2 6.2E-07 1.4E-11 100.1 2.9 47 647-696 186-237 (513)
27 KOG0828 Predicted E3 ubiquitin 98.2 7.1E-07 1.5E-11 98.9 2.5 53 644-696 568-635 (636)
28 PF04564 U-box: U-box domain; 98.1 1.3E-06 2.7E-11 74.8 2.3 46 647-695 4-50 (73)
29 COG5432 RAD18 RING-finger-cont 98.1 1.2E-06 2.7E-11 91.9 2.6 47 644-693 22-68 (391)
30 KOG2177 Predicted E3 ubiquitin 98.1 1.1E-06 2.5E-11 87.1 1.9 45 644-691 10-54 (386)
31 KOG1734 Predicted RING-contain 98.1 9.6E-07 2.1E-11 92.0 1.0 52 643-694 220-280 (328)
32 PF13445 zf-RING_UBOX: RING-ty 98.1 1.8E-06 3.9E-11 67.4 2.1 38 650-688 1-43 (43)
33 smart00744 RINGv The RING-vari 98.0 6.6E-06 1.4E-10 65.8 4.0 42 649-691 1-49 (49)
34 KOG4265 Predicted E3 ubiquitin 98.0 3.9E-06 8.5E-11 90.5 3.0 49 645-696 288-337 (349)
35 COG5219 Uncharacterized conser 97.9 5.7E-06 1.2E-10 97.1 3.1 53 643-695 1465-1523(1525)
36 KOG1493 Anaphase-promoting com 97.8 4E-06 8.7E-11 72.7 0.1 52 643-694 16-80 (84)
37 PF11793 FANCL_C: FANCL C-term 97.8 5.5E-06 1.2E-10 70.7 -0.1 49 647-695 2-66 (70)
38 KOG2930 SCF ubiquitin ligase, 97.7 1.8E-05 3.9E-10 72.2 2.7 51 643-693 42-106 (114)
39 KOG0311 Predicted E3 ubiquitin 97.7 7.2E-06 1.6E-10 88.3 -1.1 49 645-695 41-90 (381)
40 KOG0825 PHD Zn-finger protein 97.6 1.4E-05 3E-10 92.7 -0.7 51 645-695 121-171 (1134)
41 KOG4172 Predicted E3 ubiquitin 97.6 2.1E-05 4.5E-10 64.4 0.6 45 648-695 8-54 (62)
42 KOG1039 Predicted E3 ubiquitin 97.5 4.2E-05 9.2E-10 83.2 2.4 50 645-694 159-220 (344)
43 KOG4445 Uncharacterized conser 97.4 7.5E-05 1.6E-09 79.2 2.6 53 643-695 111-186 (368)
44 KOG0978 E3 ubiquitin ligase in 97.4 6.3E-05 1.4E-09 87.8 1.3 48 646-696 642-690 (698)
45 PF14835 zf-RING_6: zf-RING of 97.3 4.3E-05 9.4E-10 64.5 -0.6 43 648-695 8-51 (65)
46 KOG0804 Cytoplasmic Zn-finger 97.2 0.00013 2.8E-09 80.9 1.7 50 644-695 172-222 (493)
47 KOG4159 Predicted E3 ubiquitin 97.1 0.00028 6E-09 78.4 3.4 49 644-695 81-129 (398)
48 KOG1785 Tyrosine kinase negati 96.8 0.00045 9.8E-09 75.7 1.5 46 648-696 370-417 (563)
49 KOG1428 Inhibitor of type V ad 96.8 0.00075 1.6E-08 82.3 3.3 52 643-694 3482-3543(3738)
50 KOG2879 Predicted E3 ubiquitin 96.8 0.0011 2.5E-08 69.8 4.2 52 643-696 235-288 (298)
51 KOG4692 Predicted E3 ubiquitin 96.8 0.00089 1.9E-08 72.5 3.2 49 644-695 419-467 (489)
52 KOG0297 TNF receptor-associate 96.8 0.0006 1.3E-08 75.6 1.9 49 644-695 18-67 (391)
53 PF11789 zf-Nse: Zinc-finger o 96.7 0.00083 1.8E-08 55.5 1.6 43 645-689 9-53 (57)
54 COG5152 Uncharacterized conser 96.6 0.00095 2.1E-08 67.5 2.1 45 646-693 195-239 (259)
55 KOG2660 Locus-specific chromos 96.6 0.00069 1.5E-08 72.9 1.1 50 644-695 12-61 (331)
56 KOG4275 Predicted E3 ubiquitin 96.6 0.00083 1.8E-08 71.3 1.6 42 647-695 300-342 (350)
57 KOG1814 Predicted E3 ubiquitin 96.4 0.0037 7.9E-08 69.1 5.0 48 646-693 183-238 (445)
58 KOG1941 Acetylcholine receptor 96.3 0.0014 3.1E-08 71.8 1.2 46 647-692 365-413 (518)
59 KOG1002 Nucleotide excision re 96.1 0.0024 5.2E-08 72.2 1.9 49 643-694 532-585 (791)
60 KOG2114 Vacuolar assembly/sort 96.0 0.0052 1.1E-07 72.8 3.9 44 645-693 838-881 (933)
61 KOG3039 Uncharacterized conser 96.0 0.0053 1.2E-07 64.0 3.3 50 646-695 220-270 (303)
62 KOG1813 Predicted E3 ubiquitin 95.9 0.0031 6.6E-08 67.2 1.4 45 647-694 241-285 (313)
63 KOG3970 Predicted E3 ubiquitin 95.8 0.0076 1.6E-07 62.2 3.4 48 648-696 51-106 (299)
64 COG5222 Uncharacterized conser 95.7 0.0061 1.3E-07 65.0 2.4 43 647-692 274-318 (427)
65 PHA03096 p28-like protein; Pro 95.4 0.008 1.7E-07 64.3 2.2 45 648-692 179-231 (284)
66 PF05883 Baculo_RING: Baculovi 95.3 0.0081 1.8E-07 57.7 1.7 36 647-682 26-67 (134)
67 COG5236 Uncharacterized conser 95.2 0.016 3.5E-07 63.0 3.7 50 641-693 55-106 (493)
68 KOG1571 Predicted E3 ubiquitin 95.0 0.012 2.6E-07 64.3 2.1 45 644-694 302-346 (355)
69 KOG2034 Vacuolar sorting prote 95.0 0.01 2.2E-07 70.8 1.4 38 644-682 814-851 (911)
70 KOG0801 Predicted E3 ubiquitin 94.9 0.0075 1.6E-07 59.5 0.1 32 643-674 173-204 (205)
71 PF10367 Vps39_2: Vacuolar sor 94.9 0.011 2.4E-07 52.7 1.1 34 644-678 75-108 (109)
72 PF14570 zf-RING_4: RING/Ubox 94.8 0.02 4.2E-07 46.2 2.3 44 650-693 1-46 (48)
73 PF04641 Rtf2: Rtf2 RING-finge 94.7 0.028 6E-07 59.2 3.8 51 644-695 110-161 (260)
74 PHA02825 LAP/PHD finger-like p 94.6 0.037 8E-07 54.7 4.2 48 643-694 4-58 (162)
75 KOG0826 Predicted E3 ubiquitin 94.4 0.035 7.5E-07 60.2 3.6 50 643-694 296-345 (357)
76 KOG0827 Predicted E3 ubiquitin 94.3 0.0029 6.3E-08 69.4 -4.7 50 646-695 195-245 (465)
77 PF12906 RINGv: RING-variant d 94.1 0.031 6.6E-07 44.5 1.8 40 650-690 1-47 (47)
78 PF14447 Prok-RING_4: Prokaryo 93.7 0.03 6.5E-07 46.3 1.1 46 646-696 6-51 (55)
79 PHA02862 5L protein; Provision 93.7 0.058 1.3E-06 52.6 3.2 48 647-694 2-52 (156)
80 KOG2932 E3 ubiquitin ligase in 93.4 0.032 6.9E-07 60.1 1.1 44 648-695 91-134 (389)
81 KOG1952 Transcription factor N 93.3 0.066 1.4E-06 63.9 3.6 48 645-692 189-244 (950)
82 KOG3268 Predicted E3 ubiquitin 93.2 0.059 1.3E-06 54.2 2.6 49 646-694 164-227 (234)
83 KOG1001 Helicase-like transcri 93.0 0.04 8.6E-07 65.4 1.2 43 648-694 455-499 (674)
84 KOG0298 DEAD box-containing he 92.5 0.038 8.1E-07 68.4 0.2 44 646-692 1152-1196(1394)
85 COG5175 MOT2 Transcriptional r 91.7 0.12 2.7E-06 56.2 2.9 50 644-693 11-62 (480)
86 PF10272 Tmpp129: Putative tra 91.3 0.45 9.7E-06 52.7 6.8 27 668-694 311-350 (358)
87 KOG1940 Zn-finger protein [Gen 91.1 0.12 2.5E-06 55.4 1.9 44 649-692 160-204 (276)
88 KOG3002 Zn finger protein [Gen 90.6 0.14 3.1E-06 55.3 2.1 45 644-695 45-91 (299)
89 KOG1829 Uncharacterized conser 89.9 0.37 8E-06 56.3 4.7 44 645-691 509-557 (580)
90 PF08746 zf-RING-like: RING-li 89.5 0.14 3E-06 40.1 0.7 41 650-690 1-43 (43)
91 PF05290 Baculo_IE-1: Baculovi 89.2 0.5 1.1E-05 45.7 4.3 48 646-696 79-133 (140)
92 PF03854 zf-P11: P-11 zinc fin 88.6 0.14 3E-06 41.4 0.1 32 664-695 14-46 (50)
93 COG5220 TFB3 Cdk activating ki 87.7 0.28 6E-06 51.5 1.6 47 646-692 9-61 (314)
94 KOG1609 Protein involved in mR 87.6 0.37 8E-06 50.7 2.6 49 646-694 77-133 (323)
95 KOG1100 Predicted E3 ubiquitin 86.8 0.29 6.2E-06 50.4 1.2 39 650-695 161-200 (207)
96 KOG4362 Transcriptional regula 85.9 0.21 4.5E-06 59.1 -0.4 44 647-693 21-67 (684)
97 KOG3053 Uncharacterized conser 85.3 0.44 9.5E-06 50.5 1.6 53 642-694 15-81 (293)
98 KOG0309 Conserved WD40 repeat- 85.2 0.45 9.7E-06 56.6 1.8 27 663-689 1043-1069(1081)
99 KOG1812 Predicted E3 ubiquitin 85.1 0.35 7.6E-06 54.0 0.9 40 645-684 144-184 (384)
100 COG5183 SSM4 Protein involved 82.8 1.1 2.3E-05 53.9 3.5 50 644-694 9-65 (1175)
101 PF14446 Prok-RING_1: Prokaryo 82.3 1.5 3.2E-05 36.4 3.2 43 646-692 4-49 (54)
102 KOG0825 PHD Zn-finger protein 82.2 0.79 1.7E-05 54.8 2.2 48 647-694 96-153 (1134)
103 KOG2817 Predicted E3 ubiquitin 81.4 1 2.2E-05 50.2 2.6 48 647-694 334-384 (394)
104 KOG3161 Predicted E3 ubiquitin 77.4 0.85 1.8E-05 53.5 0.5 40 647-688 11-51 (861)
105 KOG3899 Uncharacterized conser 76.3 1.6 3.5E-05 47.1 2.1 27 668-694 325-364 (381)
106 KOG2807 RNA polymerase II tran 74.3 2.3 5.1E-05 46.6 2.7 54 640-693 323-376 (378)
107 KOG1815 Predicted E3 ubiquitin 74.2 2.1 4.6E-05 48.5 2.5 38 644-683 67-104 (444)
108 KOG2066 Vacuolar assembly/sort 74.1 1.3 2.8E-05 53.2 0.8 44 646-690 783-830 (846)
109 PF02891 zf-MIZ: MIZ/SP-RING z 72.9 2.1 4.5E-05 34.6 1.5 43 648-693 3-50 (50)
110 KOG3579 Predicted E3 ubiquitin 72.5 1.6 3.4E-05 47.0 0.9 40 646-685 267-307 (352)
111 KOG4718 Non-SMC (structural ma 70.4 2 4.3E-05 44.6 1.0 44 646-691 180-223 (235)
112 KOG2169 Zn-finger transcriptio 65.6 7.1 0.00015 46.6 4.5 43 648-694 307-355 (636)
113 KOG3005 GIY-YIG type nuclease 64.2 3.7 8.1E-05 43.9 1.6 47 648-694 183-242 (276)
114 KOG3039 Uncharacterized conser 63.1 4.7 0.0001 42.9 2.1 34 646-682 42-75 (303)
115 PF13901 DUF4206: Domain of un 62.6 5.2 0.00011 40.9 2.3 42 646-692 151-197 (202)
116 KOG0269 WD40 repeat-containing 62.4 5.4 0.00012 48.0 2.7 41 648-689 780-820 (839)
117 KOG0802 E3 ubiquitin ligase [P 60.8 3.4 7.4E-05 48.1 0.7 44 644-694 476-519 (543)
118 PF10235 Cript: Microtubule-as 58.6 5.5 0.00012 36.3 1.5 39 647-697 44-82 (90)
119 smart00249 PHD PHD zinc finger 57.5 6.8 0.00015 29.1 1.6 32 649-680 1-32 (47)
120 KOG2068 MOT2 transcription fac 52.8 9.3 0.0002 42.1 2.3 49 647-695 249-298 (327)
121 KOG1812 Predicted E3 ubiquitin 52.8 7.3 0.00016 43.7 1.6 42 648-690 307-351 (384)
122 KOG0824 Predicted E3 ubiquitin 51.2 4.8 0.0001 43.8 -0.1 50 643-695 101-151 (324)
123 TIGR00622 ssl1 transcription f 50.3 17 0.00037 34.4 3.4 46 647-692 55-111 (112)
124 PF06906 DUF1272: Protein of u 47.1 28 0.0006 29.4 3.7 45 649-696 7-53 (57)
125 KOG3842 Adaptor protein Pellin 45.0 19 0.00042 39.6 3.2 51 644-694 338-413 (429)
126 COG5109 Uncharacterized conser 44.9 14 0.0003 40.6 2.1 45 647-691 336-383 (396)
127 smart00132 LIM Zinc-binding do 44.8 19 0.00041 25.8 2.2 38 649-695 1-38 (39)
128 KOG1814 Predicted E3 ubiquitin 39.4 14 0.0003 41.9 1.1 36 646-681 367-405 (445)
129 PF04710 Pellino: Pellino; In 38.8 10 0.00022 42.8 0.0 29 662-693 303-337 (416)
130 PLN02189 cellulose synthase 38.1 28 0.00061 43.7 3.5 49 646-694 33-86 (1040)
131 PF00628 PHD: PHD-finger; Int 37.0 13 0.00028 29.1 0.4 44 649-692 1-50 (51)
132 KOG4185 Predicted E3 ubiquitin 36.9 7 0.00015 41.5 -1.6 48 646-693 206-265 (296)
133 KOG2071 mRNA cleavage and poly 36.2 19 0.00042 42.4 1.7 36 645-680 511-556 (579)
134 PF06844 DUF1244: Protein of u 35.9 21 0.00047 30.9 1.5 11 672-682 12-22 (68)
135 KOG3799 Rab3 effector RIM1 and 34.4 9.3 0.0002 37.3 -1.0 43 644-693 62-116 (169)
136 PLN02436 cellulose synthase A 33.9 36 0.00078 43.0 3.5 49 646-694 35-88 (1094)
137 COG5574 PEX10 RING-finger-cont 33.7 58 0.0013 35.2 4.6 40 643-682 91-132 (271)
138 KOG1245 Chromatin remodeling c 32.9 16 0.00035 47.4 0.4 46 647-692 1108-1157(1404)
139 KOG3726 Uncharacterized conser 31.9 21 0.00046 42.8 1.1 42 647-691 654-696 (717)
140 PF07975 C1_4: TFIIH C1-like d 31.9 22 0.00047 29.3 0.9 42 650-691 2-50 (51)
141 COG3813 Uncharacterized protei 30.3 40 0.00086 29.9 2.2 44 650-696 8-53 (84)
142 PF14569 zf-UDP: Zinc-binding 30.2 47 0.001 29.8 2.7 50 645-694 7-61 (80)
143 COG5151 SSL1 RNA polymerase II 29.9 49 0.0011 36.5 3.3 55 639-693 354-419 (421)
144 PF13717 zinc_ribbon_4: zinc-r 29.4 23 0.00049 26.8 0.5 25 649-673 4-36 (36)
145 KOG3113 Uncharacterized conser 29.2 45 0.00097 35.9 2.8 46 647-694 111-157 (293)
146 PF07191 zinc-ribbons_6: zinc- 28.8 4.2 9.2E-05 35.4 -3.9 39 648-694 2-40 (70)
147 PF05605 zf-Di19: Drought indu 28.6 30 0.00064 28.0 1.1 38 647-694 2-41 (54)
148 PLN02638 cellulose synthase A 26.3 63 0.0014 41.0 3.8 49 646-694 16-69 (1079)
149 KOG2113 Predicted RNA binding 25.9 54 0.0012 36.3 2.8 48 642-694 338-386 (394)
150 PF04710 Pellino: Pellino; In 25.8 23 0.00049 40.1 0.0 49 647-695 328-401 (416)
151 PF02318 FYVE_2: FYVE-type zin 24.5 34 0.00075 32.0 0.9 46 646-692 53-102 (118)
152 KOG3842 Adaptor protein Pellin 24.1 38 0.00083 37.4 1.3 28 661-693 315-350 (429)
153 PLN02248 cellulose synthase-li 23.9 53 0.0011 41.7 2.6 49 646-694 123-176 (1135)
154 PLN02915 cellulose synthase A 23.7 87 0.0019 39.7 4.3 51 644-694 12-67 (1044)
155 PF04216 FdhE: Protein involve 23.6 14 0.00031 39.5 -2.1 49 645-693 170-220 (290)
156 KOG1729 FYVE finger containing 22.6 14 0.00031 40.1 -2.3 38 647-684 214-251 (288)
157 PF07649 C1_3: C1-like domain; 21.7 60 0.0013 23.2 1.5 29 649-677 2-30 (30)
158 COG3492 Uncharacterized protei 21.6 51 0.0011 30.4 1.4 11 672-682 43-53 (104)
159 KOG2979 Protein involved in DN 21.4 50 0.0011 35.5 1.5 43 647-691 176-220 (262)
160 PF01363 FYVE: FYVE zinc finge 21.3 30 0.00064 28.9 -0.2 37 645-681 7-44 (69)
161 PLN02400 cellulose synthase 21.2 61 0.0013 41.1 2.3 49 646-694 35-88 (1085)
162 COG0068 HypF Hydrogenase matur 21.2 41 0.00089 40.7 0.9 47 646-692 100-181 (750)
163 PRK04023 DNA polymerase II lar 21.1 51 0.0011 41.5 1.7 49 643-696 622-675 (1121)
164 KOG1356 Putative transcription 21.1 25 0.00055 43.0 -0.8 35 646-681 228-262 (889)
165 PF13719 zinc_ribbon_5: zinc-r 20.8 39 0.00085 25.6 0.4 25 649-673 4-36 (37)
166 PF00412 LIM: LIM domain; Int 20.6 55 0.0012 25.9 1.3 13 648-660 27-39 (58)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=8.1e-14 Score=149.37 Aligned_cols=49 Identities=49% Similarity=1.151 Sum_probs=45.3
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCC-CCcCCCCCcCC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN-LCPICKTTGLP 696 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qkn-sCPICRk~LLp 696 (697)
..|+||+|+|+.+++++.|||+|.||..||++||.+.. .||+||+.+..
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 59999997654
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=99.37 E-value=1.7e-13 Score=105.65 Aligned_cols=44 Identities=50% Similarity=1.238 Sum_probs=40.6
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 691 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICR 691 (697)
+.|+||+++|..++.++.|+|+|.||.+||.+|++.+..||+||
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
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=3.1e-11 Score=126.27 Aligned_cols=51 Identities=37% Similarity=1.002 Sum_probs=47.6
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCcCC
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM-QKNLCPICKTTGLP 696 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~LLp 696 (697)
..-+|+|||++|...++++.|||.|.||..||++|+. .++.||+||.++.|
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 4478999999999999999999999999999999999 78999999999876
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=99.07 E-value=9.2e-11 Score=100.44 Aligned_cols=47 Identities=43% Similarity=0.960 Sum_probs=37.6
Q ss_pred CCCCcccccccccCCC----------CceEEeCCCChhcHHHHHHHHhcCCCCcCCC
Q 005412 645 SDEEPCCICQEEYTDG----------DNLGILDCGHDFHTNCIKQWLMQKNLCPICK 691 (697)
Q Consensus 645 ~~~e~C~ICLEefe~g----------e~V~~LpCGH~FH~~CI~qWL~qknsCPICR 691 (697)
..++.|+||++.|.+. ..+...+|||.||..||.+||+.+.+||+||
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 3455699999999432 2355568999999999999999999999998
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.07 E-value=1.3e-10 Score=119.98 Aligned_cols=51 Identities=35% Similarity=0.837 Sum_probs=42.2
Q ss_pred CCCCcccccccccCCCCc----e-EEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 645 SDEEPCCICQEEYTDGDN----L-GILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~----V-~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
..+..|+||++.+..++. + +.++|+|.||.+||.+|++.+.+||+||..+.
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 456889999999876431 2 34479999999999999999999999998764
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.6e-10 Score=123.66 Aligned_cols=53 Identities=32% Similarity=0.896 Sum_probs=44.9
Q ss_pred CCCCCCCcccccccc-cCCCC---------ceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 642 EIPSDEEPCCICQEE-YTDGD---------NLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 642 ~~~~~~e~C~ICLEe-fe~ge---------~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
....++..|.||+|+ |+.++ .-.+|||||+||..|++.|++++.+||+||.++
T Consensus 282 ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred hhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 346678899999999 55432 247899999999999999999999999999985
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=2.2e-10 Score=119.59 Aligned_cols=50 Identities=32% Similarity=0.816 Sum_probs=45.4
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcCC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLP 696 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LLp 696 (697)
.....+|.||||....+ ..+||||+||+.||..|...+..||+||..+.|
T Consensus 236 ~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence 44567899999999888 899999999999999999999999999998765
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.95 E-value=7.1e-10 Score=110.91 Aligned_cols=49 Identities=31% Similarity=0.709 Sum_probs=41.3
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc----------------CCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ----------------KNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q----------------knsCPICRk~LL 695 (697)
..++..|+||++.++++ ++++|||.||+.||.+|+.. +..||+||+.+.
T Consensus 15 ~~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CCCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 34567899999999877 77899999999999999862 346999999874
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=4.9e-10 Score=114.09 Aligned_cols=49 Identities=33% Similarity=0.639 Sum_probs=42.4
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc---CCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ---KNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q---knsCPICRk~LL 695 (697)
.....+|.||||.-+++ +++.|||+||+.||.+||.. +..||+||..+.
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45668899999998888 88899999999999999984 456999998764
No 10
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=1.2e-09 Score=107.49 Aligned_cols=57 Identities=26% Similarity=0.509 Sum_probs=46.4
Q ss_pred CcccCCCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 638 SLEIEIPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 638 ~~e~~~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
.+..........|+|||+.|.... .+.+.|||+||+.||+..++....||+|++.+.
T Consensus 122 ~v~~~~~~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 122 DVDPLRKEGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cccccccccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 344445566689999999998652 245799999999999999999999999998653
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.81 E-value=4.3e-09 Score=78.50 Aligned_cols=44 Identities=45% Similarity=1.077 Sum_probs=36.7
Q ss_pred cccccccccCCCCceEEeCCCChhcHHHHHHHHhc-CCCCcCCCCCc
Q 005412 649 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ-KNLCPICKTTG 694 (697)
Q Consensus 649 ~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q-knsCPICRk~L 694 (697)
.|+||++.+.. .+..++|+|.||..|++.|++. ...||+||+.+
T Consensus 1 ~C~iC~~~~~~--~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 59999999833 3445569999999999999997 77899999864
No 12
>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=98.79 E-value=3.1e-09 Score=84.18 Aligned_cols=46 Identities=39% Similarity=0.819 Sum_probs=39.6
Q ss_pred CCcccccccccCCCCceEEeCCCCh-hcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~-FH~~CI~qWL~qknsCPICRk~LL 695 (697)
+..|.||++.... +..+||||. ||..|+.+|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4679999998665 588899999 999999999999999999999874
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=98.76 E-value=4.9e-09 Score=79.10 Aligned_cols=39 Identities=38% Similarity=1.022 Sum_probs=33.7
Q ss_pred ccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCC
Q 005412 650 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPIC 690 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPIC 690 (697)
|+||++.+.+. ++.++|||.||+.||.+|++.+..||+|
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 89999998873 5678999999999999999998899998
No 14
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.67 E-value=1.1e-08 Score=78.99 Aligned_cols=38 Identities=34% Similarity=0.857 Sum_probs=30.9
Q ss_pred ccccccccCCCCceEEeCCCChhcHHHHHHHHhcC----CCCcCC
Q 005412 650 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK----NLCPIC 690 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qk----nsCPIC 690 (697)
|+||++.|+++ +.|+|||.||+.||.+|++.. ..||+|
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 999999999999999999853 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=98.67 E-value=2e-08 Score=81.87 Aligned_cols=45 Identities=24% Similarity=0.411 Sum_probs=41.2
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
..|+||++.+.++ +.++|||+|++.||.+|++.+..||+|++.+.
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 4699999999988 78899999999999999999899999998763
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=7.8e-09 Score=117.87 Aligned_cols=52 Identities=38% Similarity=0.906 Sum_probs=45.5
Q ss_pred CCCCCcccccccccCCCCc--eEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDN--LGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~--V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
...+..|+||+|++..+.. ..+|+|+|+||..|++.||+++.+||+||..+.
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 3457889999999998654 588999999999999999999999999998543
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.62 E-value=2.3e-08 Score=101.72 Aligned_cols=51 Identities=37% Similarity=0.796 Sum_probs=39.0
Q ss_pred CCCCCcccccccccCCC-----CceEEe-CCCChhcHHHHHHHHhcC------CCCcCCCCCc
Q 005412 644 PSDEEPCCICQEEYTDG-----DNLGIL-DCGHDFHTNCIKQWLMQK------NLCPICKTTG 694 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~g-----e~V~~L-pCGH~FH~~CI~qWL~qk------nsCPICRk~L 694 (697)
...+.+|.||+|..-.. ...+.| +|+|.||..||++|...+ ..||+||..+
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 44568899999986432 123455 799999999999999853 4599999865
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.61 E-value=3.3e-08 Score=87.35 Aligned_cols=50 Identities=36% Similarity=0.938 Sum_probs=40.1
Q ss_pred CCCCcccccccccCC--------CC--ceEEeCCCChhcHHHHHHHHhc---CCCCcCCCCCc
Q 005412 645 SDEEPCCICQEEYTD--------GD--NLGILDCGHDFHTNCIKQWLMQ---KNLCPICKTTG 694 (697)
Q Consensus 645 ~~~e~C~ICLEefe~--------ge--~V~~LpCGH~FH~~CI~qWL~q---knsCPICRk~L 694 (697)
..++.|.||...|+. ++ .++.-.|+|.||..||.+||.. +..||+||++.
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 347889999999982 11 3455589999999999999995 56899999864
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.60 E-value=3.6e-08 Score=76.45 Aligned_cols=44 Identities=34% Similarity=0.835 Sum_probs=38.5
Q ss_pred cccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCC
Q 005412 649 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKT 692 (697)
Q Consensus 649 ~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk 692 (697)
.|.||++.|........|.|||+||..||.++......||+||+
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 49999999965566788899999999999999866778999986
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=98.54 E-value=4.3e-08 Score=107.85 Aligned_cols=49 Identities=24% Similarity=0.665 Sum_probs=43.4
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
......|.||++.|..+ ++++|||.||..||..||.....||+||..+.
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 44567899999999887 67899999999999999998889999998764
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=98.54 E-value=4.2e-08 Score=74.15 Aligned_cols=39 Identities=41% Similarity=1.128 Sum_probs=34.1
Q ss_pred ccccccccCCCCceEEeCCCChhcHHHHHHHHh--cCCCCcCC
Q 005412 650 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM--QKNLCPIC 690 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~--qknsCPIC 690 (697)
|+||++.+... +..++|||.||.+||.+|++ ....||+|
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 89999999877 24789999999999999999 45669998
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=98.53 E-value=9.6e-08 Score=68.73 Aligned_cols=38 Identities=50% Similarity=1.196 Sum_probs=32.9
Q ss_pred ccccccccCCCCceEEeCCCChhcHHHHHHHHh-cCCCCcCC
Q 005412 650 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM-QKNLCPIC 690 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~-qknsCPIC 690 (697)
|+||++... .+..++|+|.||..||+.|++ .+..||+|
T Consensus 1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 889999843 458889999999999999999 56779998
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=1.1e-07 Score=98.67 Aligned_cols=49 Identities=31% Similarity=0.721 Sum_probs=43.7
Q ss_pred CCCCcccccccccCCCCceEEeCCCChhcHHHHHH-HHhcCCC-CcCCCCCcCC
Q 005412 645 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQ-WLMQKNL-CPICKTTGLP 696 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~q-WL~qkns-CPICRk~LLp 696 (697)
..+.+|.||++..... ..++|||+||+.||.. |-+++.. ||+||+.+.+
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 4578899999998887 8999999999999999 9888776 9999998765
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.29 E-value=6.4e-07 Score=78.14 Aligned_cols=45 Identities=40% Similarity=0.782 Sum_probs=33.4
Q ss_pred ccccccccCCCCc--eEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 650 CCICQEEYTDGDN--LGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 650 C~ICLEefe~ge~--V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
|+-|+.....+++ ++.-.|.|.||..||.+||..++.||+||++.
T Consensus 34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 3334443333443 34447999999999999999999999999874
No 25
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.24 E-value=3.7e-07 Score=97.41 Aligned_cols=48 Identities=35% Similarity=0.645 Sum_probs=43.5
Q ss_pred CCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 645 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
+....|-||.|.|..+ .++||+|.||.-||+..|..+..||.|+.++.
T Consensus 21 D~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 3456799999999999 88899999999999999999999999998753
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=6.2e-07 Score=100.12 Aligned_cols=47 Identities=34% Similarity=0.596 Sum_probs=39.6
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcC-----CCCcCCCCCcCC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK-----NLCPICKTTGLP 696 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qk-----nsCPICRk~LLp 696 (697)
+..|+||+++.... ..+.|||+||..||.+.|... ..||+||..+.+
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 67899999998877 666799999999999998743 459999987654
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=7.1e-07 Score=98.88 Aligned_cols=53 Identities=28% Similarity=0.684 Sum_probs=42.1
Q ss_pred CCCCCcccccccccCCCCc--------------eEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCcCC
Q 005412 644 PSDEEPCCICQEEYTDGDN--------------LGILDCGHDFHTNCIKQWLM-QKNLCPICKTTGLP 696 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~--------------V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~LLp 696 (697)
.....+|+|||.++..-.. -..+||.|+||..|+.+|+. .|-.||+||.++.+
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 3455789999999873211 22459999999999999999 67799999998865
No 28
>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=98.12 E-value=1.3e-06 Score=74.81 Aligned_cols=46 Identities=30% Similarity=0.436 Sum_probs=37.8
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc-CCCCcCCCCCcC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ-KNLCPICKTTGL 695 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q-knsCPICRk~LL 695 (697)
...|+||.+-+.++ ++++|||.|.+.||.+||+. ...||+|+..+.
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 46799999999999 89999999999999999998 889999998764
No 29
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.12 E-value=1.2e-06 Score=91.92 Aligned_cols=47 Identities=28% Similarity=0.653 Sum_probs=42.5
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 693 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~ 693 (697)
.+....|-||.+.|..+ ..++|||.||.-||+..|..+..||+||.+
T Consensus 22 LDs~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~ 68 (391)
T COG5432 22 LDSMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCRED 68 (391)
T ss_pred chhHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCcccccc
Confidence 34456799999999998 788999999999999999999999999975
No 30
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.1e-06 Score=87.08 Aligned_cols=45 Identities=31% Similarity=0.775 Sum_probs=40.3
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 691 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICR 691 (697)
..+...|+||++.|..+ ..++|+|.||..||..++.....||.||
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 44667899999999998 8889999999999999998556799999
No 31
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=9.6e-07 Score=91.98 Aligned_cols=52 Identities=31% Similarity=0.713 Sum_probs=43.8
Q ss_pred CCCCCCcccccccccCCCC-------ceEEeCCCChhcHHHHHHHHh--cCCCCcCCCCCc
Q 005412 643 IPSDEEPCCICQEEYTDGD-------NLGILDCGHDFHTNCIKQWLM--QKNLCPICKTTG 694 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge-------~V~~LpCGH~FH~~CI~qWL~--qknsCPICRk~L 694 (697)
...++..|+||-..+.... .+.+|.|+|.||..||+-|-. +|.+||.||+.+
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 4456788999999887655 578899999999999999955 688999999865
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.07 E-value=1.8e-06 Score=67.40 Aligned_cols=38 Identities=32% Similarity=0.833 Sum_probs=22.6
Q ss_pred ccccccccCCCC-ceEEeCCCChhcHHHHHHHHhcC----CCCc
Q 005412 650 CCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQK----NLCP 688 (697)
Q Consensus 650 C~ICLEefe~ge-~V~~LpCGH~FH~~CI~qWL~qk----nsCP 688 (697)
|+||.| |..++ .-+.|+|||+||++||.+|+... ..||
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 76644 34778999999999999999843 3476
No 33
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.99 E-value=6.6e-06 Score=65.78 Aligned_cols=42 Identities=29% Similarity=0.795 Sum_probs=33.3
Q ss_pred cccccccccCCCCceEEeCCC-----ChhcHHHHHHHHhcC--CCCcCCC
Q 005412 649 PCCICQEEYTDGDNLGILDCG-----HDFHTNCIKQWLMQK--NLCPICK 691 (697)
Q Consensus 649 ~C~ICLEefe~ge~V~~LpCG-----H~FH~~CI~qWL~qk--nsCPICR 691 (697)
.|.||++ +.+++....+||. |.||..|+.+|+..+ ..||+|+
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 4444455578885 899999999999754 4899996
No 34
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=3.9e-06 Score=90.54 Aligned_cols=49 Identities=33% Similarity=0.638 Sum_probs=43.4
Q ss_pred CCCCcccccccccCCCCceEEeCCCCh-hcHHHHHHHHhcCCCCcCCCCCcCC
Q 005412 645 SDEEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTGLP 696 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~LpCGH~-FH~~CI~qWL~qknsCPICRk~LLp 696 (697)
+..++|.|||.+-++. .+|||.|. .|..|.+...-+++.|||||+.+..
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 4468899999997776 99999999 9999999988889999999998754
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.91 E-value=5.7e-06 Score=97.08 Aligned_cols=53 Identities=28% Similarity=0.676 Sum_probs=40.9
Q ss_pred CCCCCCcccccccccCCCC----ceEEeCCCChhcHHHHHHHHhc--CCCCcCCCCCcC
Q 005412 643 IPSDEEPCCICQEEYTDGD----NLGILDCGHDFHTNCIKQWLMQ--KNLCPICKTTGL 695 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge----~V~~LpCGH~FH~~CI~qWL~q--knsCPICRk~LL 695 (697)
...+.++|+||+..+..-+ .-++-.|+|+||..|+.+|++. ..+||+||.++.
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 4567789999998876211 1244569999999999999995 567999998764
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=4e-06 Score=72.69 Aligned_cols=52 Identities=37% Similarity=0.845 Sum_probs=39.3
Q ss_pred CCCCCCcccccccccCC--------CCc--eEEeCCCChhcHHHHHHHHhc---CCCCcCCCCCc
Q 005412 643 IPSDEEPCCICQEEYTD--------GDN--LGILDCGHDFHTNCIKQWLMQ---KNLCPICKTTG 694 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~--------ge~--V~~LpCGH~FH~~CI~qWL~q---knsCPICRk~L 694 (697)
-...++.|.||.-.|.. +|. ++.-.|.|.||..||.+|+.. +..||+||++.
T Consensus 16 W~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 16 WDAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred EcCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 34556699999999883 222 222269999999999999984 45699999864
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.76 E-value=5.5e-06 Score=70.74 Aligned_cols=49 Identities=29% Similarity=0.741 Sum_probs=23.3
Q ss_pred CCcccccccccCCCCce---EEe--CCCChhcHHHHHHHHhc----C-------CCCcCCCCCcC
Q 005412 647 EEPCCICQEEYTDGDNL---GIL--DCGHDFHTNCIKQWLMQ----K-------NLCPICKTTGL 695 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V---~~L--pCGH~FH~~CI~qWL~q----k-------nsCPICRk~LL 695 (697)
+..|.||++.+.+.+++ +.- .|+..||..||.+||.. + ..||.|++++.
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 45799999987633322 222 59999999999999982 1 13999998763
No 38
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=1.8e-05 Score=72.24 Aligned_cols=51 Identities=27% Similarity=0.713 Sum_probs=37.2
Q ss_pred CCCCCCcccccccccC-------------CCC-ceEEeCCCChhcHHHHHHHHhcCCCCcCCCCC
Q 005412 643 IPSDEEPCCICQEEYT-------------DGD-NLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 693 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe-------------~ge-~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~ 693 (697)
.+...+.|+||...+- .++ .|.--.|.|.||..||.+||+.++.||+|.++
T Consensus 42 WDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 42 WDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 3455677887754332 111 23333799999999999999999999999875
No 39
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=7.2e-06 Score=88.34 Aligned_cols=49 Identities=27% Similarity=0.530 Sum_probs=40.1
Q ss_pred CCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc-CCCCcCCCCCcC
Q 005412 645 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ-KNLCPICKTTGL 695 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q-knsCPICRk~LL 695 (697)
..+..|+|||+-++.. +....|.|.||.+||.+-|+. .+.||.||+.+.
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 4457799999998766 233369999999999999985 578999999764
No 40
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.56 E-value=1.4e-05 Score=92.65 Aligned_cols=51 Identities=20% Similarity=0.349 Sum_probs=45.1
Q ss_pred CCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 645 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
.....|++|+..|.+.......+|+|+||..||..|-+.-.+||+||..+.
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 345789999999998876677789999999999999999999999998764
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.56 E-value=2.1e-05 Score=64.43 Aligned_cols=45 Identities=29% Similarity=0.617 Sum_probs=38.0
Q ss_pred CcccccccccCCCCceEEeCCCCh-hcHHHHHHHHh-cCCCCcCCCCCcC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLM-QKNLCPICKTTGL 695 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~-FH~~CI~qWL~-qknsCPICRk~LL 695 (697)
++|.||+|.-.+. +...|||. .|.+|-.+.++ .+..||+||.++.
T Consensus 8 dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 7899999987776 55689999 89999877766 7889999998764
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=4.2e-05 Score=83.21 Aligned_cols=50 Identities=40% Similarity=0.990 Sum_probs=38.7
Q ss_pred CCCCcccccccccCCCC----ceEEe-CCCChhcHHHHHHHH--hc-----CCCCcCCCCCc
Q 005412 645 SDEEPCCICQEEYTDGD----NLGIL-DCGHDFHTNCIKQWL--MQ-----KNLCPICKTTG 694 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge----~V~~L-pCGH~FH~~CI~qWL--~q-----knsCPICRk~L 694 (697)
..+++|.||++...+.- ..++| +|.|.||..||++|- .+ .+.||.||...
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 56788999999977642 13344 599999999999998 34 46799999753
No 43
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.42 E-value=7.5e-05 Score=79.18 Aligned_cols=53 Identities=21% Similarity=0.621 Sum_probs=43.9
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHh-----------------------cCCCCcCCCCCcC
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM-----------------------QKNLCPICKTTGL 695 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~-----------------------qknsCPICRk~LL 695 (697)
.....-.|.|||--|..++...++.|-|.||..|+.++|. .+..||+||..+.
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 3445567999999999999999999999999999988773 1235999998764
No 44
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=6.3e-05 Score=87.76 Aligned_cols=48 Identities=25% Similarity=0.664 Sum_probs=40.3
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCcCC
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM-QKNLCPICKTTGLP 696 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~LLp 696 (697)
....|++|-..+++. +++.|+|.||..||..-+. +...||.|.+.+-+
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 346799999877665 7778999999999999998 56889999987654
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.30 E-value=4.3e-05 Score=64.53 Aligned_cols=43 Identities=30% Similarity=0.736 Sum_probs=23.4
Q ss_pred CcccccccccCCCCceEEe-CCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 648 EPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~L-pCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
..|.+|.+.++.+ +.| .|.|.||..||.+-+. ..||+|+.++.
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw 51 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW 51 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence 5699999999887 554 7999999999988554 34999998763
No 46
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.22 E-value=0.00013 Score=80.89 Aligned_cols=50 Identities=24% Similarity=0.745 Sum_probs=39.2
Q ss_pred CCCCCcccccccccCCCCc-eEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDN-LGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~-V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
..+.-+|+||||.+..... +..+.|.|.||-.|+.+|. ..+||+||....
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 3455689999999876532 3455799999999999994 568999998654
No 47
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00028 Score=78.36 Aligned_cols=49 Identities=29% Similarity=0.732 Sum_probs=43.7
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
...+..|.||+..+..+ +.++|||.||..||.+-+-+...||+||.++.
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 35678899999999888 78899999999999998888889999998775
No 48
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.83 E-value=0.00045 Score=75.68 Aligned_cols=46 Identities=33% Similarity=0.763 Sum_probs=37.6
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhc--CCCCcCCCCCcCC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--KNLCPICKTTGLP 696 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q--knsCPICRk~LLp 696 (697)
+.|.||-|. ++.|.+-||||..|..|+..|-.. ...||.||.++.-
T Consensus 370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 569999986 334567799999999999999863 5789999998764
No 49
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.82 E-value=0.00075 Score=82.25 Aligned_cols=52 Identities=33% Similarity=0.625 Sum_probs=42.2
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCC----------CCcCCCCCc
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN----------LCPICKTTG 694 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qkn----------sCPICRk~L 694 (697)
..+.++.|.||+.+--..-....|.|+|+||..|.+.-|++.- .||+|+.++
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 3456788999998876666678999999999999998887432 499999876
No 50
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.81 E-value=0.0011 Score=69.79 Aligned_cols=52 Identities=27% Similarity=0.490 Sum_probs=41.8
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc--CCCCcCCCCCcCC
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--KNLCPICKTTGLP 696 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q--knsCPICRk~LLp 696 (697)
....+.+|++|-+.-..+ ....+|+|+||..||..-+.- ..+||.|..++.+
T Consensus 235 ~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred cccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 455678899999998877 244479999999999998764 4789999987763
No 51
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.77 E-value=0.00089 Score=72.51 Aligned_cols=49 Identities=33% Similarity=0.571 Sum_probs=42.7
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
..++..|+||+..-... +..||+|.-|++||.+-|...+.|=.||+++.
T Consensus 419 ~sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceecccchh---hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 46778899999875554 77799999999999999999999999999765
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.76 E-value=0.0006 Score=75.59 Aligned_cols=49 Identities=27% Similarity=0.602 Sum_probs=43.3
Q ss_pred CCCCCcccccccccCCCCceEE-eCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGI-LDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~-LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
.+.+..|+||+..+.++ .. +.|||.||..||..|+..+..||.|+..+.
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 45668899999999988 44 589999999999999999999999988764
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.66 E-value=0.00083 Score=55.51 Aligned_cols=43 Identities=26% Similarity=0.600 Sum_probs=29.2
Q ss_pred CCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc--CCCCcC
Q 005412 645 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--KNLCPI 689 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q--knsCPI 689 (697)
.....|+|.+..|+++ |+...|+|+|-++.|.+||.. ...||+
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 3457899999999877 555689999999999999943 445999
No 54
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.64 E-value=0.00095 Score=67.53 Aligned_cols=45 Identities=24% Similarity=0.637 Sum_probs=40.2
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCC
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 693 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~ 693 (697)
-...|.||.++|+.+ +++.|||.||..|.-.-++....|-+|-+.
T Consensus 195 IPF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 195 IPFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred Cceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 345799999999998 888999999999999988888999999764
No 55
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.62 E-value=0.00069 Score=72.90 Aligned_cols=50 Identities=26% Similarity=0.598 Sum_probs=41.7
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
......|.+|-..|.+. ..+..|-|.||+.||.+.|+..+.||+|...+.
T Consensus 12 ~n~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred cccceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 44567899999999887 233369999999999999999999999987553
No 56
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.00083 Score=71.29 Aligned_cols=42 Identities=38% Similarity=0.765 Sum_probs=34.8
Q ss_pred CCcccccccccCCCCceEEeCCCCh-hcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~-FH~~CI~qWL~qknsCPICRk~LL 695 (697)
...|.||++...+. +.|+|||. -|.+|-+. -+.|||||+.++
T Consensus 300 ~~LC~ICmDaP~DC---vfLeCGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC---VFLECGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcce---EEeecCcEEeehhhccc----cccCchHHHHHH
Confidence 67899999998777 89999997 78888655 348999998653
No 57
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.0037 Score=69.14 Aligned_cols=48 Identities=31% Similarity=0.600 Sum_probs=39.7
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc--------CCCCcCCCCC
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--------KNLCPICKTT 693 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q--------knsCPICRk~ 693 (697)
....|.||+++....+-+..|||+|+||+.|++.++.. .-.||-|+..
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 44679999999888788999999999999999999872 2349877653
No 58
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.32 E-value=0.0014 Score=71.78 Aligned_cols=46 Identities=33% Similarity=0.725 Sum_probs=38.9
Q ss_pred CCcccccccccCCC-CceEEeCCCChhcHHHHHHHHhcC--CCCcCCCC
Q 005412 647 EEPCCICQEEYTDG-DNLGILDCGHDFHTNCIKQWLMQK--NLCPICKT 692 (697)
Q Consensus 647 ~e~C~ICLEefe~g-e~V~~LpCGH~FH~~CI~qWL~qk--nsCPICRk 692 (697)
+..|..|-+.+... +.+-.|||.|+||..|+...|++. .+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 45699999998754 467889999999999999999864 57999994
No 59
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.15 E-value=0.0024 Score=72.20 Aligned_cols=49 Identities=27% Similarity=0.573 Sum_probs=39.5
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHh-----cCCCCcCCCCCc
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM-----QKNLCPICKTTG 694 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~-----qknsCPICRk~L 694 (697)
.......|.+|.+.-++. ....|.|+||+-||+.++. ..-+||+|-..+
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 344567899999987766 7788999999999999886 245799998754
No 60
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.02 E-value=0.0052 Score=72.82 Aligned_cols=44 Identities=23% Similarity=0.655 Sum_probs=36.1
Q ss_pred CCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCC
Q 005412 645 SDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 693 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~ 693 (697)
....+|..|--.++.+ ++...|||.||.+|+. .....||.|+.+
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 3446899999998877 5677899999999998 455779999874
No 61
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.97 E-value=0.0053 Score=64.04 Aligned_cols=50 Identities=14% Similarity=0.334 Sum_probs=44.7
Q ss_pred CCCcccccccccCCCCceEEe-CCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 646 DEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~L-pCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
..+.|+||.+.+...-....| +|||+|+++|+.+.+.....||+|-+++.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 457899999999988777777 89999999999999999999999988764
No 62
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.93 E-value=0.0031 Score=67.24 Aligned_cols=45 Identities=22% Similarity=0.530 Sum_probs=40.4
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
...|-||..+|..+ +++.|+|.||..|...-++....|.+|-+..
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccc
Confidence 45699999999999 8999999999999999888889999997753
No 63
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.0076 Score=62.19 Aligned_cols=48 Identities=29% Similarity=0.662 Sum_probs=39.3
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhc--------CCCCcCCCCCcCC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ--------KNLCPICKTTGLP 696 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q--------knsCPICRk~LLp 696 (697)
--|.+|--.+..+| ...|.|-|+||++|+..|-.. ...||-|..++.|
T Consensus 51 pNC~LC~t~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 51 PNCRLCNTPLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCceeCCccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 45899988888764 457889999999999999763 2359999999876
No 64
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.69 E-value=0.0061 Score=65.05 Aligned_cols=43 Identities=28% Similarity=0.620 Sum_probs=35.7
Q ss_pred CCcccccccccCCCCceEEeC-CCChhcHHHHHHHHhc-CCCCcCCCC
Q 005412 647 EEPCCICQEEYTDGDNLGILD-CGHDFHTNCIKQWLMQ-KNLCPICKT 692 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~Lp-CGH~FH~~CI~qWL~q-knsCPICRk 692 (697)
...|+.|..-+... ..++ |+|.||..||..-|.. ...||.|-+
T Consensus 274 ~LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 37899999988877 5554 9999999999988775 578999954
No 65
>PHA03096 p28-like protein; Provisional
Probab=95.41 E-value=0.008 Score=64.32 Aligned_cols=45 Identities=33% Similarity=0.683 Sum_probs=33.4
Q ss_pred CcccccccccCCC----CceEEe-CCCChhcHHHHHHHHhc---CCCCcCCCC
Q 005412 648 EPCCICQEEYTDG----DNLGIL-DCGHDFHTNCIKQWLMQ---KNLCPICKT 692 (697)
Q Consensus 648 e~C~ICLEefe~g----e~V~~L-pCGH~FH~~CI~qWL~q---knsCPICRk 692 (697)
..|.||++..... ..-..| .|.|.||..||+.|-.. +.+||.||.
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 7799999987743 234566 59999999999999874 344555553
No 66
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=95.31 E-value=0.0081 Score=57.70 Aligned_cols=36 Identities=25% Similarity=0.569 Sum_probs=30.0
Q ss_pred CCcccccccccCCCCceEEeCCC------ChhcHHHHHHHHh
Q 005412 647 EEPCCICQEEYTDGDNLGILDCG------HDFHTNCIKQWLM 682 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCG------H~FH~~CI~qWL~ 682 (697)
..+|.||++.+...+-++.++|+ |.||.+|+++|-.
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 46799999999985557777777 8999999999943
No 67
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.23 E-value=0.016 Score=63.02 Aligned_cols=50 Identities=26% Similarity=0.607 Sum_probs=40.3
Q ss_pred cCCCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHH--HhcCCCCcCCCCC
Q 005412 641 IEIPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQW--LMQKNLCPICKTT 693 (697)
Q Consensus 641 ~~~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qW--L~qknsCPICRk~ 693 (697)
.+.+++...|.||-+.+.-. ..+||+|..|--|.... |-.++.||+||++
T Consensus 55 ddtDEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 55 DDTDEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred cccccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34566678899999986544 78899999999998764 4578899999985
No 68
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.04 E-value=0.012 Score=64.34 Aligned_cols=45 Identities=22% Similarity=0.537 Sum_probs=32.9
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
......|.||+++.... ..+||||.-| |+.--.. -..||+||+.+
T Consensus 302 ~~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI 346 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCSKH-LPQCPVCRQRI 346 (355)
T ss_pred cCCCCceEEecCCccce---eeecCCcEEE--chHHHhh-CCCCchhHHHH
Confidence 33456799999998775 8899999966 6554322 34499999865
No 69
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.95 E-value=0.01 Score=70.81 Aligned_cols=38 Identities=21% Similarity=0.590 Sum_probs=30.5
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHh
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM 682 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~ 682 (697)
.+..+.|.+|.-.+-.. ...+.+|||.||++||.+-..
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 45678899999988764 456779999999999988654
No 70
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.88 E-value=0.0075 Score=59.53 Aligned_cols=32 Identities=31% Similarity=0.706 Sum_probs=28.5
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCChhcH
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHT 674 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~ 674 (697)
..++.-+|.||||+++.++.+..|||-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 34556789999999999999999999999996
No 71
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=94.86 E-value=0.011 Score=52.73 Aligned_cols=34 Identities=26% Similarity=0.730 Sum_probs=28.2
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHH
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIK 678 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~ 678 (697)
......|.||-..+.. ......||||+||..|++
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 466777999999999985
No 72
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.81 E-value=0.02 Score=46.17 Aligned_cols=44 Identities=27% Similarity=0.692 Sum_probs=23.0
Q ss_pred ccccccccCCCC-ceEEeCCCChhcHHHHHHHHh-cCCCCcCCCCC
Q 005412 650 CCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLM-QKNLCPICKTT 693 (697)
Q Consensus 650 C~ICLEefe~ge-~V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~ 693 (697)
|++|.+++...+ .+.--+|++..|..|..+-++ ....||-||++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999994432 233336999999999888876 47789999986
No 73
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.73 E-value=0.028 Score=59.19 Aligned_cols=51 Identities=20% Similarity=0.462 Sum_probs=40.2
Q ss_pred CCCCCcccccccccCCCCceEEe-CCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~L-pCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
......|+|+..+|......+.| +|||+|...||++- .....||+|-+++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 45567899999999665555555 89999999999997 33567999988754
No 74
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.65 E-value=0.037 Score=54.66 Aligned_cols=48 Identities=25% Similarity=0.686 Sum_probs=35.0
Q ss_pred CCCCCCcccccccccCCCCceEEeCCC--C---hhcHHHHHHHHhcC--CCCcCCCCCc
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCG--H---DFHTNCIKQWLMQK--NLCPICKTTG 694 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCG--H---~FH~~CI~qWL~qk--nsCPICRk~L 694 (697)
....+..|-||.++... . .-||. . .-|..|+.+|+..+ ..|++|+++.
T Consensus 4 ~s~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 4 VSLMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred cCCCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 34566789999998542 2 24655 4 56999999999854 5699999764
No 75
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.38 E-value=0.035 Score=60.19 Aligned_cols=50 Identities=22% Similarity=0.491 Sum_probs=40.4
Q ss_pred CCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
...+...|+||+.....+ .++..-|-+||..||.+.+...+.||+--.++
T Consensus 296 l~~~~~~CpvClk~r~Np--tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKRQNP--TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CCCccccChhHHhccCCC--ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 344567899999998877 23335799999999999999999999976654
No 76
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.30 E-value=0.0029 Score=69.43 Aligned_cols=50 Identities=26% Similarity=0.545 Sum_probs=43.6
Q ss_pred CCCcccccccccCCC-CceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 646 DEEPCCICQEEYTDG-DNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 646 ~~e~C~ICLEefe~g-e~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
....|.||.+.|+.. +.+..+-|||.+|.+||.+||..+..||.|++++.
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 346799999999876 56777889999999999999999999999998763
No 77
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.07 E-value=0.031 Score=44.48 Aligned_cols=40 Identities=30% Similarity=0.798 Sum_probs=27.4
Q ss_pred ccccccccCCCCceEEeCCC--C---hhcHHHHHHHHhc--CCCCcCC
Q 005412 650 CCICQEEYTDGDNLGILDCG--H---DFHTNCIKQWLMQ--KNLCPIC 690 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpCG--H---~FH~~CI~qWL~q--knsCPIC 690 (697)
|-||++.....+ ..+.||. = ..|..|+.+|+.. +..|++|
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 2344655 3 6799999999984 4669998
No 78
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.67 E-value=0.03 Score=46.30 Aligned_cols=46 Identities=37% Similarity=0.673 Sum_probs=35.6
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcCC
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLP 696 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LLp 696 (697)
....|..|...-..+ .+++|||+.|..|..- ++-+-||+|-+++..
T Consensus 6 ~~~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKG---TVLPCGHLICDNCFPG--ERYNGCPFCGTPFEF 51 (55)
T ss_pred cceeEEEcccccccc---ccccccceeeccccCh--hhccCCCCCCCcccC
Confidence 456688887775555 7889999999999654 366789999887643
No 79
>PHA02862 5L protein; Provisional
Probab=93.66 E-value=0.058 Score=52.60 Aligned_cols=48 Identities=27% Similarity=0.676 Sum_probs=31.6
Q ss_pred CCcccccccccCCCCce-EEeCCCChhcHHHHHHHHh--cCCCCcCCCCCc
Q 005412 647 EEPCCICQEEYTDGDNL-GILDCGHDFHTNCIKQWLM--QKNLCPICKTTG 694 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V-~~LpCGH~FH~~CI~qWL~--qknsCPICRk~L 694 (697)
.+.|-||+++-++.... .+.---..-|.+|+.+|+. ++..|++||.+.
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 35799999985433000 0000024689999999998 456799999864
No 80
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.38 E-value=0.032 Score=60.06 Aligned_cols=44 Identities=20% Similarity=0.488 Sum_probs=31.1
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
-.|.-|--.+..- -+.++|+|+||.+|.+. ...+.||.|-..+.
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 4566676555443 14559999999999765 34678999987653
No 81
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=93.32 E-value=0.066 Score=63.93 Aligned_cols=48 Identities=33% Similarity=0.791 Sum_probs=36.3
Q ss_pred CCCCcccccccccCCCCce-EEeCCCChhcHHHHHHHHhcC--C-----CCcCCCC
Q 005412 645 SDEEPCCICQEEYTDGDNL-GILDCGHDFHTNCIKQWLMQK--N-----LCPICKT 692 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V-~~LpCGH~FH~~CI~qWL~qk--n-----sCPICRk 692 (697)
...++|.||++.+.....+ ..-.|-|+||..||++|-+.. . .||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 3456799999999876543 233588999999999998731 1 3999984
No 82
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.21 E-value=0.059 Score=54.15 Aligned_cols=49 Identities=31% Similarity=0.725 Sum_probs=35.0
Q ss_pred CCCcccccccccCCCCce----EEeCCCChhcHHHHHHHHhc------C-----CCCcCCCCCc
Q 005412 646 DEEPCCICQEEYTDGDNL----GILDCGHDFHTNCIKQWLMQ------K-----NLCPICKTTG 694 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V----~~LpCGH~FH~~CI~qWL~q------k-----nsCPICRk~L 694 (697)
..-.|.||+..--++... --..||.-||.-|+..||+. . ..||.|-+++
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 345688888765554322 22379999999999999982 1 2499999876
No 83
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.99 E-value=0.04 Score=65.36 Aligned_cols=43 Identities=37% Similarity=0.864 Sum_probs=35.1
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhcC--CCCcCCCCCc
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK--NLCPICKTTG 694 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qk--nsCPICRk~L 694 (697)
..|.||++ . +......|+|.||..|+.+-+... ..||+||..+
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 345788999999999999988853 3599999743
No 84
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.53 E-value=0.038 Score=68.38 Aligned_cols=44 Identities=39% Similarity=0.899 Sum_probs=39.1
Q ss_pred CCCcccccccccC-CCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCC
Q 005412 646 DEEPCCICQEEYT-DGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKT 692 (697)
Q Consensus 646 ~~e~C~ICLEefe-~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk 692 (697)
....|.||++.+. .+ .+..|||.||..|+..|+..+..||+|+.
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 4457999999998 45 67789999999999999999999999984
No 85
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.69 E-value=0.12 Score=56.24 Aligned_cols=50 Identities=22% Similarity=0.485 Sum_probs=35.4
Q ss_pred CCCCCcccccccccCCCCc-eEEeCCCChhcHHHHHHHHh-cCCCCcCCCCC
Q 005412 644 PSDEEPCCICQEEYTDGDN-LGILDCGHDFHTNCIKQWLM-QKNLCPICKTT 693 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~-V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~ 693 (697)
.++++-|++|+|++...++ ..-.+||-..|.-|...--+ -...||.||+.
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence 3445559999999987664 34448998888777554322 35679999974
No 86
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=91.33 E-value=0.45 Score=52.75 Aligned_cols=27 Identities=26% Similarity=0.811 Sum_probs=21.0
Q ss_pred CCChhcHHHHHHHHhc-------------CCCCcCCCCCc
Q 005412 668 CGHDFHTNCIKQWLMQ-------------KNLCPICKTTG 694 (697)
Q Consensus 668 CGH~FH~~CI~qWL~q-------------knsCPICRk~L 694 (697)
|.-.+|.+|+-+|+.. +-.||+||++.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 5567899999999862 33599999864
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=91.07 E-value=0.12 Score=55.39 Aligned_cols=44 Identities=34% Similarity=0.833 Sum_probs=37.9
Q ss_pred cccccccccCCCC-ceEEeCCCChhcHHHHHHHHhcCCCCcCCCC
Q 005412 649 PCCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQKNLCPICKT 692 (697)
Q Consensus 649 ~C~ICLEefe~ge-~V~~LpCGH~FH~~CI~qWL~qknsCPICRk 692 (697)
-|+||.+.+.... .+..++|||..|..|........-.||+|.+
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3999999988765 4567799999999999998887788999988
No 88
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.60 E-value=0.14 Score=55.28 Aligned_cols=45 Identities=27% Similarity=0.535 Sum_probs=36.6
Q ss_pred CCCCCcccccccccCCCCceEEeCC--CChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDC--GHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpC--GH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
..+..+|+||.+.+..+ ++.| ||+-|..|-. +..+.||.||.++.
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 44567899999999987 6777 6999999965 45788999998764
No 89
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=89.85 E-value=0.37 Score=56.28 Aligned_cols=44 Identities=23% Similarity=0.645 Sum_probs=29.8
Q ss_pred CCCCcccccccc-----cCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCC
Q 005412 645 SDEEPCCICQEE-----YTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 691 (697)
Q Consensus 645 ~~~e~C~ICLEe-----fe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICR 691 (697)
.....|.||... |+.....++..|+++||++|++. .+..||.|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 445778888442 32333356668999999999554 455599993
No 90
>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=89.48 E-value=0.14 Score=40.12 Aligned_cols=41 Identities=32% Similarity=0.831 Sum_probs=23.7
Q ss_pred ccccccccCCCCceEEeCCCChhcHHHHHHHHhcCC--CCcCC
Q 005412 650 CCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN--LCPIC 690 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qkn--sCPIC 690 (697)
|.+|.+....+..-....|+=.+|..|+..+++... .||.|
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 778888888772211224999999999999999655 69998
No 91
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=89.17 E-value=0.5 Score=45.67 Aligned_cols=48 Identities=27% Similarity=0.603 Sum_probs=39.2
Q ss_pred CCCcccccccccCCCCceEEe---C-CCChhcHHHHHHHHhc---CCCCcCCCCCcCC
Q 005412 646 DEEPCCICQEEYTDGDNLGIL---D-CGHDFHTNCIKQWLMQ---KNLCPICKTTGLP 696 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~L---p-CGH~FH~~CI~qWL~q---knsCPICRk~LLp 696 (697)
...+|.||.|.-.+. +.| . ||-..|..|.-..|+. ...||+||+....
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 668899999998877 455 2 9999999999888874 5679999987653
No 92
>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=88.65 E-value=0.14 Score=41.35 Aligned_cols=32 Identities=31% Similarity=0.771 Sum_probs=24.0
Q ss_pred EEeCCC-ChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 664 GILDCG-HDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 664 ~~LpCG-H~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
....|. |..|..|+...|.....||+|++++.
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 93
>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=87.69 E-value=0.28 Score=51.52 Aligned_cols=47 Identities=21% Similarity=0.630 Sum_probs=36.6
Q ss_pred CCCcccccccccCCCCceEEe--C-CCChhcHHHHHHHHhcC-CCCc--CCCC
Q 005412 646 DEEPCCICQEEYTDGDNLGIL--D-CGHDFHTNCIKQWLMQK-NLCP--ICKT 692 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~L--p-CGH~FH~~CI~qWL~qk-nsCP--ICRk 692 (697)
.+..|+||..+.-..-.+..| | |-|..|..|++.-|... ..|| -|.+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 456899999887655555555 5 99999999999999865 4699 6643
No 94
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.59 E-value=0.37 Score=50.75 Aligned_cols=49 Identities=31% Similarity=0.679 Sum_probs=36.0
Q ss_pred CCCcccccccccCCCCc-eEEeCCC-----ChhcHHHHHHHHh--cCCCCcCCCCCc
Q 005412 646 DEEPCCICQEEYTDGDN-LGILDCG-----HDFHTNCIKQWLM--QKNLCPICKTTG 694 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~-V~~LpCG-----H~FH~~CI~qWL~--qknsCPICRk~L 694 (697)
....|-||+++...... ....+|. +..|..|+..|+. .+..|-+|....
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 35789999998765422 2344655 5689999999999 456799998754
No 95
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.81 E-value=0.29 Score=50.40 Aligned_cols=39 Identities=28% Similarity=0.688 Sum_probs=29.4
Q ss_pred ccccccccCCCCceEEeCCCCh-hcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 650 CCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpCGH~-FH~~CI~qWL~qknsCPICRk~LL 695 (697)
|.+|-+. +-.|..+||.|. +|..|=.. ...||+|+....
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 8888775 334677799998 99999554 456999997643
No 96
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=85.95 E-value=0.21 Score=59.08 Aligned_cols=44 Identities=30% Similarity=0.707 Sum_probs=37.6
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCC---CCcCCCCC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN---LCPICKTT 693 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qkn---sCPICRk~ 693 (697)
..+|+||+..|..+ ..+.|-|.||..|+..-|..++ .||+|+..
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~ 67 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD 67 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence 35699999999988 7889999999999988877654 59999954
No 97
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.26 E-value=0.44 Score=50.49 Aligned_cols=53 Identities=26% Similarity=0.559 Sum_probs=37.1
Q ss_pred CCCCCCCcccccccccCCCCceEE-eCCC-----ChhcHHHHHHHHhcCC--------CCcCCCCCc
Q 005412 642 EIPSDEEPCCICQEEYTDGDNLGI-LDCG-----HDFHTNCIKQWLMQKN--------LCPICKTTG 694 (697)
Q Consensus 642 ~~~~~~e~C~ICLEefe~ge~V~~-LpCG-----H~FH~~CI~qWL~qkn--------sCPICRk~L 694 (697)
+..+.+..|-||+..=++.-.... -||. |..|..||..|+-.|. .||-|+++-
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 344566779999998655422111 1554 8899999999997544 499999864
No 98
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=85.21 E-value=0.45 Score=56.56 Aligned_cols=27 Identities=33% Similarity=0.749 Sum_probs=24.3
Q ss_pred eEEeCCCChhcHHHHHHHHhcCCCCcC
Q 005412 663 LGILDCGHDFHTNCIKQWLMQKNLCPI 689 (697)
Q Consensus 663 V~~LpCGH~FH~~CI~qWL~qknsCPI 689 (697)
..+..|+|..|..|.+.|++....||.
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 456789999999999999999999985
No 99
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.11 E-value=0.35 Score=53.96 Aligned_cols=40 Identities=38% Similarity=0.772 Sum_probs=29.9
Q ss_pred CCCCcccccccccCCC-CceEEeCCCChhcHHHHHHHHhcC
Q 005412 645 SDEEPCCICQEEYTDG-DNLGILDCGHDFHTNCIKQWLMQK 684 (697)
Q Consensus 645 ~~~e~C~ICLEefe~g-e~V~~LpCGH~FH~~CI~qWL~qk 684 (697)
...+.|.||+.++... +....+.|+|.||.+|+++.++.+
T Consensus 144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 3467899999554444 333456899999999999998844
No 100
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.77 E-value=1.1 Score=53.86 Aligned_cols=50 Identities=28% Similarity=0.675 Sum_probs=36.9
Q ss_pred CCCCCcccccccccCCCCceEEeCCC-----ChhcHHHHHHHHhc--CCCCcCCCCCc
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCG-----HDFHTNCIKQWLMQ--KNLCPICKTTG 694 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCG-----H~FH~~CI~qWL~q--knsCPICRk~L 694 (697)
.+++..|.||..+=..++.+ .-||+ -..|.+|+..|+.. +..|-+|+.+.
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 44568899999886655432 23666 35899999999994 45699998764
No 101
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=82.30 E-value=1.5 Score=36.41 Aligned_cols=43 Identities=28% Similarity=0.826 Sum_probs=31.7
Q ss_pred CCCcccccccccCCCCceEEe-CCCChhcHHHHHHHHhcCCCCcC--CCC
Q 005412 646 DEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPI--CKT 692 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~L-pCGH~FH~~CI~qWL~qknsCPI--CRk 692 (697)
....|.+|-+.|.+++++++- .||-.||++|... ...|-+ |..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~ 49 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGT 49 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCC
Confidence 456799999999876666665 5999999999543 445554 544
No 102
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=82.19 E-value=0.79 Score=54.78 Aligned_cols=48 Identities=17% Similarity=0.242 Sum_probs=33.5
Q ss_pred CCcccccccccCCCC-ceEEeC---CCChhcHHHHHHHHhc------CCCCcCCCCCc
Q 005412 647 EEPCCICQEEYTDGD-NLGILD---CGHDFHTNCIKQWLMQ------KNLCPICKTTG 694 (697)
Q Consensus 647 ~e~C~ICLEefe~ge-~V~~Lp---CGH~FH~~CI~qWL~q------knsCPICRk~L 694 (697)
...|.||.-++..++ ....++ |+|.||..||..|+.+ +-.|+.|+..+
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 355777766666532 233444 9999999999999862 44589998754
No 103
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.43 E-value=1 Score=50.24 Aligned_cols=48 Identities=21% Similarity=0.407 Sum_probs=39.5
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcC---CCCcCCCCCc
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK---NLCPICKTTG 694 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qk---nsCPICRk~L 694 (697)
...|+|=.+.-.+.+.-..|.|||+.+++-|.+..+.. ..||.|=...
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 35799988888888888999999999999999987743 4699995543
No 104
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.40 E-value=0.85 Score=53.51 Aligned_cols=40 Identities=25% Similarity=0.501 Sum_probs=30.0
Q ss_pred CCcccccccccCCCCc-eEEeCCCChhcHHHHHHHHhcCCCCc
Q 005412 647 EEPCCICQEEYTDGDN-LGILDCGHDFHTNCIKQWLMQKNLCP 688 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~-V~~LpCGH~FH~~CI~qWL~qknsCP 688 (697)
...|.||+..|..... -+.|.|||..|+.|+..... .+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 3569999888876532 35668999999999988644 4566
No 105
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.31 E-value=1.6 Score=47.12 Aligned_cols=27 Identities=22% Similarity=0.655 Sum_probs=22.2
Q ss_pred CCChhcHHHHHHHHh-------------cCCCCcCCCCCc
Q 005412 668 CGHDFHTNCIKQWLM-------------QKNLCPICKTTG 694 (697)
Q Consensus 668 CGH~FH~~CI~qWL~-------------qknsCPICRk~L 694 (697)
|...+|..|+-+|+. .+-.||+||+..
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 778899999999874 455799999864
No 106
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=74.29 E-value=2.3 Score=46.57 Aligned_cols=54 Identities=19% Similarity=0.295 Sum_probs=39.8
Q ss_pred ccCCCCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCC
Q 005412 640 EIEIPSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 693 (697)
Q Consensus 640 e~~~~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~ 693 (697)
..........|-.|.++.......++-.|++.||.+|=.---+.-..||-|...
T Consensus 323 p~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 323 PETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred cccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 333444556699998888887777777899999999955444445679999753
No 107
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.16 E-value=2.1 Score=48.51 Aligned_cols=38 Identities=32% Similarity=0.666 Sum_probs=32.1
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ 683 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q 683 (697)
......|-||.+.+.. .+..+.|+|.||..|+...+..
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 3456789999999876 5678899999999999999874
No 108
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.14 E-value=1.3 Score=53.21 Aligned_cols=44 Identities=30% Similarity=0.659 Sum_probs=34.0
Q ss_pred CCCcccccccccCCC----CceEEeCCCChhcHHHHHHHHhcCCCCcCC
Q 005412 646 DEEPCCICQEEYTDG----DNLGILDCGHDFHTNCIKQWLMQKNLCPIC 690 (697)
Q Consensus 646 ~~e~C~ICLEefe~g----e~V~~LpCGH~FH~~CI~qWL~qknsCPIC 690 (697)
-+..|.-|.+..... +.++.+.|+|.||+.|+..-+.+.. |-+|
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 445799999987632 3578889999999999988776554 6555
No 109
>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=72.86 E-value=2.1 Score=34.59 Aligned_cols=43 Identities=19% Similarity=0.376 Sum_probs=21.6
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhc---CC--CCcCCCCC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ---KN--LCPICKTT 693 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q---kn--sCPICRk~ 693 (697)
..|+|....+..+ ++-..|.|.-|.| ++.||.. +. .||+|.++
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 3689988888776 4555799986654 4556652 22 49999874
No 110
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.49 E-value=1.6 Score=47.04 Aligned_cols=40 Identities=20% Similarity=0.354 Sum_probs=30.7
Q ss_pred CCCcccccccccCCCCceEEe-CCCChhcHHHHHHHHhcCC
Q 005412 646 DEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKN 685 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~L-pCGH~FH~~CI~qWL~qkn 685 (697)
....|.+|.|.+++.+.|.+- .=.|+||.-|-++-++++.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhc
Confidence 347799999999998544333 2469999999999999654
No 111
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=70.44 E-value=2 Score=44.63 Aligned_cols=44 Identities=25% Similarity=0.789 Sum_probs=37.5
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCC
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICK 691 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICR 691 (697)
....|.+|.+-...+ +++-.|+-.||..|+.+.+.....||.|.
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 457799999987766 45567999999999999999999999994
No 112
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=65.65 E-value=7.1 Score=46.56 Aligned_cols=43 Identities=16% Similarity=0.335 Sum_probs=24.9
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHh--c--CC--CCcCCCCCc
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM--Q--KN--LCPICKTTG 694 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~--q--kn--sCPICRk~L 694 (697)
..|+||.-.+..+ .+...|+|+=|.+-. |+. + +. .||+|.+.+
T Consensus 307 L~CPl~~~Rm~~P--~r~~~CkHlQcFD~~--~~lq~n~~~pTW~CPVC~~~~ 355 (636)
T KOG2169|consen 307 LNCPLSKMRMSLP--ARGHTCKHLQCFDAL--SYLQMNEQKPTWRCPVCQKAA 355 (636)
T ss_pred ecCCcccceeecC--Ccccccccceecchh--hhHHhccCCCeeeCccCCccc
Confidence 5688887765544 244456665444432 332 2 22 399998765
No 113
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=64.19 E-value=3.7 Score=43.95 Aligned_cols=47 Identities=26% Similarity=0.573 Sum_probs=34.9
Q ss_pred CcccccccccCCCCceEEe----CCCChhcHHHHHHHHh---------cCCCCcCCCCCc
Q 005412 648 EPCCICQEEYTDGDNLGIL----DCGHDFHTNCIKQWLM---------QKNLCPICKTTG 694 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~L----pCGH~FH~~CI~qWL~---------qknsCPICRk~L 694 (697)
..|-||.+++...+..+.+ .|.-++|..|+-.-+. ....||.|++-+
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 5899999999554544443 4999999999998443 234599999844
No 114
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.12 E-value=4.7 Score=42.85 Aligned_cols=34 Identities=18% Similarity=0.283 Sum_probs=30.3
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHHh
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM 682 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~ 682 (697)
.-+.|++||..+.++ ++.+=||+|+++||.+.+.
T Consensus 42 ~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP---VITPDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCC---ccCCCCeeeeHHHHHHHHH
Confidence 446799999999999 8899999999999999875
No 115
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=62.62 E-value=5.2 Score=40.90 Aligned_cols=42 Identities=26% Similarity=0.690 Sum_probs=29.8
Q ss_pred CCCcccccccc-----cCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCC
Q 005412 646 DEEPCCICQEE-----YTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKT 692 (697)
Q Consensus 646 ~~e~C~ICLEe-----fe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk 692 (697)
....|-||-++ |+....+..-.|+-+||+.|.. +..||-|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 45789999863 3333334555799999999966 267999954
No 116
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=62.44 E-value=5.4 Score=47.97 Aligned_cols=41 Identities=22% Similarity=0.569 Sum_probs=30.4
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcC
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPI 689 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPI 689 (697)
..|++|-..+.. ..+-+-.|+|.-|..|+++|+....-||.
T Consensus 780 ~~CtVC~~vi~G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG-VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee-eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 468888766542 22333369999999999999998877766
No 117
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.76 E-value=3.4 Score=48.06 Aligned_cols=44 Identities=32% Similarity=0.892 Sum_probs=36.3
Q ss_pred CCCCCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 644 PSDEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
......|.||+++. ..+..+|. |.-|+.+|+..+..||+|++..
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred hcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhh
Confidence 34567799999998 33677888 8999999999999999997654
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=58.56 E-value=5.5 Score=36.32 Aligned_cols=39 Identities=26% Similarity=0.665 Sum_probs=31.4
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcCCC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGLPT 697 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LLpT 697 (697)
...|.||-...... ||.||..|..+ +..|.+|-+.+++|
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 45799998876653 68899999665 78999999988764
No 119
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=52.82 E-value=9.3 Score=42.06 Aligned_cols=49 Identities=27% Similarity=0.434 Sum_probs=37.7
Q ss_pred CCcccccccccCCCC-ceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 647 EEPCCICQEEYTDGD-NLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 647 ~e~C~ICLEefe~ge-~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
...|+||.+.....+ ...-.+|++..|..|+..-...+..||.||++..
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 367999999874433 2233379999999999988888999999998654
No 121
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.75 E-value=7.3 Score=43.74 Aligned_cols=42 Identities=24% Similarity=0.581 Sum_probs=30.5
Q ss_pred CcccccccccCCCC---ceEEeCCCChhcHHHHHHHHhcCCCCcCC
Q 005412 648 EPCCICQEEYTDGD---NLGILDCGHDFHTNCIKQWLMQKNLCPIC 690 (697)
Q Consensus 648 e~C~ICLEefe~ge---~V~~LpCGH~FH~~CI~qWL~qknsCPIC 690 (697)
..|++|.-.++..+ .+... |||.||+.|...|......|..|
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 45777776665433 34444 99999999999998887777555
No 122
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.22 E-value=4.8 Score=43.81 Aligned_cols=50 Identities=28% Similarity=0.497 Sum_probs=40.8
Q ss_pred CCCCCCcccccccccCCCCceEEe-CCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~L-pCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
.......|-||...+... .+. -|.|.|+..|...|....+.||.||..+.
T Consensus 101 ~~~~~~~~~~~~g~l~vp---t~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 101 FQQDHDICYICYGKLTVP---TRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred ccCCccceeeeeeeEEec---ccccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 345567899999998876 233 39999999999999999999999987654
No 123
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.33 E-value=17 Score=34.40 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=34.7
Q ss_pred CCcccccccccCCCC-----------ceEEeCCCChhcHHHHHHHHhcCCCCcCCCC
Q 005412 647 EEPCCICQEEYTDGD-----------NLGILDCGHDFHTNCIKQWLMQKNLCPICKT 692 (697)
Q Consensus 647 ~e~C~ICLEefe~ge-----------~V~~LpCGH~FH~~CI~qWL~qknsCPICRk 692 (697)
...|--|+..|.... ....-.|++.||.+|=.-+-+.-..||-|..
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 1224579999999998877777788999964
No 124
>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=47.15 E-value=28 Score=29.36 Aligned_cols=45 Identities=20% Similarity=0.560 Sum_probs=30.3
Q ss_pred cccccccccCCCCceEEeCCC--ChhcHHHHHHHHhcCCCCcCCCCCcCC
Q 005412 649 PCCICQEEYTDGDNLGILDCG--HDFHTNCIKQWLMQKNLCPICKTTGLP 696 (697)
Q Consensus 649 ~C~ICLEefe~ge~V~~LpCG--H~FH~~CI~qWL~qknsCPICRk~LLp 696 (697)
.|-.|-.++..+.. ...-|. ..||.+|.+.-| ++.||.|.-.+++
T Consensus 7 nCE~C~~dLp~~s~-~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSP-EAYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCC-cceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 36667777665431 112233 249999999976 7899999887764
No 125
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=44.98 E-value=19 Score=39.61 Aligned_cols=51 Identities=25% Similarity=0.494 Sum_probs=34.3
Q ss_pred CCCCCcccccccccCC-----CC----------c-eEEeCCCChhcHHHHHHHHh---------cCCCCcCCCCCc
Q 005412 644 PSDEEPCCICQEEYTD-----GD----------N-LGILDCGHDFHTNCIKQWLM---------QKNLCPICKTTG 694 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~-----ge----------~-V~~LpCGH~FH~~CI~qWL~---------qknsCPICRk~L 694 (697)
...+.+|++|+..=.. +. . -...||||+--.+-.+-|-. .+..||.|-+.|
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 3446789999875320 00 0 12338999999999999976 244699998754
No 126
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=44.85 E-value=14 Score=40.63 Aligned_cols=45 Identities=24% Similarity=0.444 Sum_probs=36.2
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhc---CCCCcCCC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQ---KNLCPICK 691 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~q---knsCPICR 691 (697)
...|++-.+...++..-..|.|||+.-++-+++.-+. ...||.|=
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 3579998888777777789999999999999987553 34599994
No 127
>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=44.83 E-value=19 Score=25.78 Aligned_cols=38 Identities=21% Similarity=0.501 Sum_probs=25.0
Q ss_pred cccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCcC
Q 005412 649 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTGL 695 (697)
Q Consensus 649 ~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~LL 695 (697)
.|..|-+.+...+.+ ...=+..||.+| ..|..|++.|.
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccC--------CCCcccCCcCc
Confidence 378888887765222 222367788877 56888887663
No 128
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.37 E-value=14 Score=41.90 Aligned_cols=36 Identities=17% Similarity=0.413 Sum_probs=27.8
Q ss_pred CCCcccccccccCCCC---ceEEeCCCChhcHHHHHHHH
Q 005412 646 DEEPCCICQEEYTDGD---NLGILDCGHDFHTNCIKQWL 681 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge---~V~~LpCGH~FH~~CI~qWL 681 (697)
....|+-|.-.++..+ ++.++.|+|.||+-|-....
T Consensus 367 N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 367 NSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred cCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 4567888877776544 78888999999999977654
No 129
>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=38.83 E-value=10 Score=42.78 Aligned_cols=29 Identities=28% Similarity=0.756 Sum_probs=0.0
Q ss_pred ceEEeCCCChhcHHHHHHHHh------cCCCCcCCCCC
Q 005412 662 NLGILDCGHDFHTNCIKQWLM------QKNLCPICKTT 693 (697)
Q Consensus 662 ~V~~LpCGH~FH~~CI~qWL~------qknsCPICRk~ 693 (697)
.-+-|.|||++... .|-. ....||+||+.
T Consensus 303 P~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 303 PWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp --------------------------------------
T ss_pred ceeeccccceeeec---ccccccccccccccCCCcccc
Confidence 34677999987643 5654 24579999974
No 130
>PLN02189 cellulose synthase
Probab=38.11 E-value=28 Score=43.73 Aligned_cols=49 Identities=29% Similarity=0.497 Sum_probs=35.0
Q ss_pred CCCcccccccccCCC---Cc-eEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCc
Q 005412 646 DEEPCCICQEEYTDG---DN-LGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 694 (697)
Q Consensus 646 ~~e~C~ICLEefe~g---e~-V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~L 694 (697)
..+.|.||-+++... +. |.+-.|+--.|+.|.+-=-+ .+..||-||+..
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y 86 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRY 86 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 456899999998743 22 44446999999999854333 356799999864
No 131
>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=37.05 E-value=13 Score=29.08 Aligned_cols=44 Identities=25% Similarity=0.598 Sum_probs=30.5
Q ss_pred cccccccccCCCCceEEeCCCChhcHHHHHHHHh------cCCCCcCCCC
Q 005412 649 PCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM------QKNLCPICKT 692 (697)
Q Consensus 649 ~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~------qknsCPICRk 692 (697)
.|.||......++.|..-.|+-.||..|+..=.. ..-.||.|+.
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 3889999555554444457999999999887544 1345888753
No 132
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.89 E-value=7 Score=41.48 Aligned_cols=48 Identities=31% Similarity=0.705 Sum_probs=36.6
Q ss_pred CCCcccccccccCCC-Cc--eEEeC--------CCChhcHHHHHHHHhcCC-CCcCCCCC
Q 005412 646 DEEPCCICQEEYTDG-DN--LGILD--------CGHDFHTNCIKQWLMQKN-LCPICKTT 693 (697)
Q Consensus 646 ~~e~C~ICLEefe~g-e~--V~~Lp--------CGH~FH~~CI~qWL~qkn-sCPICRk~ 693 (697)
....|.||...|... .. -..+. |+|..|..|+..-+.+.. .||.|+..
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 446799999999942 22 23335 999999999999988654 79999863
No 133
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=36.22 E-value=19 Score=42.42 Aligned_cols=36 Identities=28% Similarity=0.661 Sum_probs=26.1
Q ss_pred CCCCcccccccccCC---CC-------ceEEeCCCChhcHHHHHHH
Q 005412 645 SDEEPCCICQEEYTD---GD-------NLGILDCGHDFHTNCIKQW 680 (697)
Q Consensus 645 ~~~e~C~ICLEefe~---ge-------~V~~LpCGH~FH~~CI~qW 680 (697)
+....|+||.|.|+. .+ ..+.+.-|-+||..|+..-
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 667889999999983 11 1233446889999998764
No 134
>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=35.87 E-value=21 Score=30.92 Aligned_cols=11 Identities=36% Similarity=1.141 Sum_probs=8.5
Q ss_pred hcHHHHHHHHh
Q 005412 672 FHTNCIKQWLM 682 (697)
Q Consensus 672 FH~~CI~qWL~ 682 (697)
||+.|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 135
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.44 E-value=9.3 Score=37.34 Aligned_cols=43 Identities=33% Similarity=0.958 Sum_probs=25.0
Q ss_pred CCCCCcccccccc-cCCCCceEEeCCCCh-------hcHHHHHHHHhcCC----CCcCCCCC
Q 005412 644 PSDEEPCCICQEE-YTDGDNLGILDCGHD-------FHTNCIKQWLMQKN----LCPICKTT 693 (697)
Q Consensus 644 ~~~~e~C~ICLEe-fe~ge~V~~LpCGH~-------FH~~CI~qWL~qkn----sCPICRk~ 693 (697)
..++.+|-||+.. |.++ |||. ||..|--+--.+.+ .|-+|++.
T Consensus 62 v~ddatC~IC~KTKFADG-------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADG-------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cCcCcchhhhhhcccccc-------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 4567789999975 4444 6663 55555443322222 38888763
No 136
>PLN02436 cellulose synthase A
Probab=33.85 E-value=36 Score=42.99 Aligned_cols=49 Identities=24% Similarity=0.521 Sum_probs=35.2
Q ss_pred CCCcccccccccCC---CCc-eEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCc
Q 005412 646 DEEPCCICQEEYTD---GDN-LGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 694 (697)
Q Consensus 646 ~~e~C~ICLEefe~---ge~-V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~L 694 (697)
....|-||-+++.. ++. |.+-.|+--.|+.|.+-=-+ .+..||-||+..
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 45689999999753 332 44447999999999854333 346799999864
No 137
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.73 E-value=58 Score=35.17 Aligned_cols=40 Identities=23% Similarity=0.267 Sum_probs=30.1
Q ss_pred CCCCCCccccccc-ccCCCCceE-EeCCCChhcHHHHHHHHh
Q 005412 643 IPSDEEPCCICQE-EYTDGDNLG-ILDCGHDFHTNCIKQWLM 682 (697)
Q Consensus 643 ~~~~~e~C~ICLE-efe~ge~V~-~LpCGH~FH~~CI~qWL~ 682 (697)
.....+.|.+|+. ++....+.. ...|+|.|+..|..-|..
T Consensus 91 ~~~~~~~ls~~~s~e~~~~~e~~~~y~~~~~f~i~~~~i~~~ 132 (271)
T COG5574 91 RFNREETLSIEYSRETNIDKEGEVLYPCGIFFCIGCDYIWSI 132 (271)
T ss_pred ccccccccccccCcccccccccceeeecccccchhhhHHHHH
Confidence 3456678999988 555444433 448999999999999987
No 138
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=32.94 E-value=16 Score=47.37 Aligned_cols=46 Identities=26% Similarity=0.621 Sum_probs=24.3
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCC----CCcCCCC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN----LCPICKT 692 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qkn----sCPICRk 692 (697)
...|-||.....+.+.+.+..|--.||..|++.-+.... .||-||.
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~ 1157 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRK 1157 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccch
Confidence 344666666555544444445555566666665554321 3666654
No 139
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.91 E-value=21 Score=42.77 Aligned_cols=42 Identities=17% Similarity=0.382 Sum_probs=30.3
Q ss_pred CCcccccccccCCCCce-EEeCCCChhcHHHHHHHHhcCCCCcCCC
Q 005412 647 EEPCCICQEEYTDGDNL-GILDCGHDFHTNCIKQWLMQKNLCPICK 691 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V-~~LpCGH~FH~~CI~qWL~qknsCPICR 691 (697)
...|.+|+..-...-.+ +.+.|+-.||..| |+--...||+|-
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccC
Confidence 46799998764422223 4557999999998 666678899995
No 140
>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=31.88 E-value=22 Score=29.30 Aligned_cols=42 Identities=26% Similarity=0.585 Sum_probs=19.9
Q ss_pred ccccccccCCCC-------ceEEeCCCChhcHHHHHHHHhcCCCCcCCC
Q 005412 650 CCICQEEYTDGD-------NLGILDCGHDFHTNCIKQWLMQKNLCPICK 691 (697)
Q Consensus 650 C~ICLEefe~ge-------~V~~LpCGH~FH~~CI~qWL~qknsCPICR 691 (697)
|--|+..|.... ....-.|++.||.+|=.---+.-..||-|-
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 455666666542 122236999999999332222345699884
No 141
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.35 E-value=40 Score=29.89 Aligned_cols=44 Identities=23% Similarity=0.572 Sum_probs=27.1
Q ss_pred ccccccccCCCCceEEeCC--CChhcHHHHHHHHhcCCCCcCCCCCcCC
Q 005412 650 CCICQEEYTDGDNLGILDC--GHDFHTNCIKQWLMQKNLCPICKTTGLP 696 (697)
Q Consensus 650 C~ICLEefe~ge~V~~LpC--GH~FH~~CI~qWL~qknsCPICRk~LLp 696 (697)
|--|-.++.. +....+-| .|.||.+|...- -+..||.|.-.++.
T Consensus 8 CECCDrDLpp-~s~dA~ICtfEcTFCadCae~~--l~g~CPnCGGelv~ 53 (84)
T COG3813 8 CECCDRDLPP-DSTDARICTFECTFCADCAENR--LHGLCPNCGGELVA 53 (84)
T ss_pred CcccCCCCCC-CCCceeEEEEeeehhHhHHHHh--hcCcCCCCCchhhc
Confidence 4445555443 22222333 367999999874 46789999877653
No 142
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=30.18 E-value=47 Score=29.78 Aligned_cols=50 Identities=20% Similarity=0.456 Sum_probs=21.8
Q ss_pred CCCCcccccccccCCCC----ceEEeCCCChhcHHHHHHHHhc-CCCCcCCCCCc
Q 005412 645 SDEEPCCICQEEYTDGD----NLGILDCGHDFHTNCIKQWLMQ-KNLCPICKTTG 694 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge----~V~~LpCGH~FH~~CI~qWL~q-knsCPICRk~L 694 (697)
.....|-||=+++.... .+....|+--.|+.|..-=.+. ...||-||+..
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 34678999999987433 1344479999999998876654 56799999754
No 143
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=29.92 E-value=49 Score=36.54 Aligned_cols=55 Identities=15% Similarity=0.293 Sum_probs=37.0
Q ss_pred cccCCCCCCCcccccccccCCCC-----------ceEEeCCCChhcHHHHHHHHhcCCCCcCCCCC
Q 005412 639 LEIEIPSDEEPCCICQEEYTDGD-----------NLGILDCGHDFHTNCIKQWLMQKNLCPICKTT 693 (697)
Q Consensus 639 ~e~~~~~~~e~C~ICLEefe~ge-----------~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~ 693 (697)
+.+...-....|-+|+..|.... ...+-.|+-.||.+|=.---+.-..|+-|.-+
T Consensus 354 ~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~~ 419 (421)
T COG5151 354 KPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCELP 419 (421)
T ss_pred ccCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcCC
Confidence 33344455677999999887432 12233699999999965554555679999643
No 144
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=29.42 E-value=23 Score=26.83 Aligned_cols=25 Identities=36% Similarity=0.759 Sum_probs=17.4
Q ss_pred cccccccccCCCCc--------eEEeCCCChhc
Q 005412 649 PCCICQEEYTDGDN--------LGILDCGHDFH 673 (697)
Q Consensus 649 ~C~ICLEefe~ge~--------V~~LpCGH~FH 673 (697)
.|+=|...|..+++ +..-.|+|+|+
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 58888888886553 44446888774
No 145
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.20 E-value=45 Score=35.88 Aligned_cols=46 Identities=20% Similarity=0.390 Sum_probs=33.7
Q ss_pred CCcccccccccCCCCceEEe-CCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 647 EEPCCICQEEYTDGDNLGIL-DCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~L-pCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
...|+|---++........| .|||+|-..-+++. ....|++|....
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y 157 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAY 157 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcc
Confidence 35699877666655544444 89999999888774 357799998754
No 146
>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=28.81 E-value=4.2 Score=35.43 Aligned_cols=39 Identities=28% Similarity=0.571 Sum_probs=20.0
Q ss_pred CcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 648 EPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 648 e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
..|+.|..+++... +|.+|..|-.. +.....||-|.++|
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHH
Confidence 46888888765432 66666667554 33456688888765
No 147
>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=28.57 E-value=30 Score=27.95 Aligned_cols=38 Identities=18% Similarity=0.572 Sum_probs=20.6
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHh--cCCCCcCCCCCc
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLM--QKNLCPICKTTG 694 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~--qknsCPICRk~L 694 (697)
...|+.|-++|... . +...|.+.-.. ..-.||+|...+
T Consensus 2 ~f~CP~C~~~~~~~----~------L~~H~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----S------LVEHCEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHH----H------HHHHHHhHCcCCCCCccCCCchhhh
Confidence 46799999965543 1 12223332222 234599997643
No 148
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=26.32 E-value=63 Score=40.96 Aligned_cols=49 Identities=20% Similarity=0.371 Sum_probs=35.5
Q ss_pred CCCcccccccccCCCC---c-eEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCc
Q 005412 646 DEEPCCICQEEYTDGD---N-LGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 694 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge---~-V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~L 694 (697)
....|-||=++..... . |.+-.|+-=.|+.|.+-=-+ ....||-||+..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 4568999999987533 2 55558999999999853222 245799999854
No 149
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=25.88 E-value=54 Score=36.31 Aligned_cols=48 Identities=2% Similarity=-0.201 Sum_probs=36.1
Q ss_pred CCCCCCCcccccccccCCCCceEEeCCCCh-hcHHHHHHHHhcCCCCcCCCCCc
Q 005412 642 EIPSDEEPCCICQEEYTDGDNLGILDCGHD-FHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 642 ~~~~~~e~C~ICLEefe~ge~V~~LpCGH~-FH~~CI~qWL~qknsCPICRk~L 694 (697)
+......+|.+|-+..... ...+|+|. ||..|.. +....+||+|..-.
T Consensus 338 ~~~~s~~~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 338 NGLMSSLKGTSAGFGLLST---IWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred ccchhhcccccccCceeee---EeecCCcccChhhhhh--cccCCccccccccc
Confidence 3444567799988776554 55589997 9999988 66788999998643
No 150
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=25.78 E-value=23 Score=40.12 Aligned_cols=49 Identities=24% Similarity=0.526 Sum_probs=0.0
Q ss_pred CCcccccccccC--------------CCC--ceEEeCCCChhcHHHHHHHHhc---------CCCCcCCCCCcC
Q 005412 647 EEPCCICQEEYT--------------DGD--NLGILDCGHDFHTNCIKQWLMQ---------KNLCPICKTTGL 695 (697)
Q Consensus 647 ~e~C~ICLEefe--------------~ge--~V~~LpCGH~FH~~CI~qWL~q---------knsCPICRk~LL 695 (697)
..+|++|+..-. +.. ....-||||+-=.++.+-|-.. +..||.|-..|-
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 678999986532 110 1123489999999999999762 346999987653
No 151
>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=24.49 E-value=34 Score=31.99 Aligned_cols=46 Identities=22% Similarity=0.526 Sum_probs=29.3
Q ss_pred CCCcccccccccCC--CCceEEeCCCChhcHHHHHHHHhcCC--CCcCCCC
Q 005412 646 DEEPCCICQEEYTD--GDNLGILDCGHDFHTNCIKQWLMQKN--LCPICKT 692 (697)
Q Consensus 646 ~~e~C~ICLEefe~--ge~V~~LpCGH~FH~~CI~qWL~qkn--sCPICRk 692 (697)
....|.+|...|.. .-......|+|.+|..|-.. ..... .|-+|.+
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 33456678999999999655 11112 3777754
No 152
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.15 E-value=38 Score=37.42 Aligned_cols=28 Identities=32% Similarity=0.974 Sum_probs=19.2
Q ss_pred CceEEeCCCCh--hcHHHHHHHHhc------CCCCcCCCCC
Q 005412 661 DNLGILDCGHD--FHTNCIKQWLMQ------KNLCPICKTT 693 (697)
Q Consensus 661 e~V~~LpCGH~--FH~~CI~qWL~q------knsCPICRk~ 693 (697)
+..+-|.|||+ || .|=.+ ...||+||..
T Consensus 315 QP~vYl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 315 QPWVYLNCGHVHGYH-----NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred CCeEEEecccccccc-----ccccccccCcccCcCCeeeee
Confidence 34678899997 45 46543 3459999963
No 153
>PLN02248 cellulose synthase-like protein
Probab=23.85 E-value=53 Score=41.74 Aligned_cols=49 Identities=22% Similarity=0.609 Sum_probs=35.1
Q ss_pred CCCcccc--cccccCC---CCceEEeCCCChhcHHHHHHHHhcCCCCcCCCCCc
Q 005412 646 DEEPCCI--CQEEYTD---GDNLGILDCGHDFHTNCIKQWLMQKNLCPICKTTG 694 (697)
Q Consensus 646 ~~e~C~I--CLEefe~---ge~V~~LpCGH~FH~~CI~qWL~qknsCPICRk~L 694 (697)
....|.+ |-...-. ++++....|+++.|++|...-++....||-||.+.
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 (1135)
T PLN02248 123 KGSSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAVKSGGICPGCKEPY 176 (1135)
T ss_pred CCCcccccCcccccccccccccCCcccccchhHHhHhhhhhhcCCCCCCCcccc
Confidence 4456665 4433332 23344446999999999999999999999999764
No 154
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=23.68 E-value=87 Score=39.68 Aligned_cols=51 Identities=22% Similarity=0.479 Sum_probs=37.0
Q ss_pred CCCCCcccccccccCCCC---c-eEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCc
Q 005412 644 PSDEEPCCICQEEYTDGD---N-LGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 694 (697)
Q Consensus 644 ~~~~e~C~ICLEefe~ge---~-V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~L 694 (697)
....+.|-||=++..... . |.+-.|+--.|+.|.+-=.+ ....||-||+..
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 446788999999987533 2 45557999999999954333 245799999854
No 155
>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=23.55 E-value=14 Score=39.50 Aligned_cols=49 Identities=18% Similarity=0.260 Sum_probs=21.5
Q ss_pred CCCCcccccccccCCCCceEEe--CCCChhcHHHHHHHHhcCCCCcCCCCC
Q 005412 645 SDEEPCCICQEEYTDGDNLGIL--DCGHDFHTNCIKQWLMQKNLCPICKTT 693 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~V~~L--pCGH~FH~~CI~qWL~qknsCPICRk~ 693 (697)
.....|+||=...........- --.|.+|.-|-..|-.....||.|-..
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 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 3446899998875533100000 024667888888997788889999653
No 156
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=22.57 E-value=14 Score=40.10 Aligned_cols=38 Identities=32% Similarity=0.512 Sum_probs=30.9
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQK 684 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qk 684 (697)
...|.+|+++|..+.....+.|--+||..|+..|+...
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 34899999999876556677666699999999999853
No 157
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=21.70 E-value=60 Score=23.23 Aligned_cols=29 Identities=24% Similarity=0.572 Sum_probs=11.3
Q ss_pred cccccccccCCCCceEEeCCCChhcHHHH
Q 005412 649 PCCICQEEYTDGDNLGILDCGHDFHTNCI 677 (697)
Q Consensus 649 ~C~ICLEefe~ge~V~~LpCGH~FH~~CI 677 (697)
.|.+|.+.....-.-....|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 58888888766333455689999999996
No 158
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.57 E-value=51 Score=30.40 Aligned_cols=11 Identities=36% Similarity=1.117 Sum_probs=10.5
Q ss_pred hcHHHHHHHHh
Q 005412 672 FHTNCIKQWLM 682 (697)
Q Consensus 672 FH~~CI~qWL~ 682 (697)
||+.|+..|+.
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999997
No 159
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=21.42 E-value=50 Score=35.54 Aligned_cols=43 Identities=21% Similarity=0.359 Sum_probs=32.6
Q ss_pred CCcccccccccCCCCceEEeCCCChhcHHHHHHHHhcCC--CCcCCC
Q 005412 647 EEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWLMQKN--LCPICK 691 (697)
Q Consensus 647 ~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL~qkn--sCPICR 691 (697)
...|+|=...+..+ ++-..|||+|-++-|...+.... .||+=-
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 46799877777665 45557999999999999988643 488743
No 160
>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=21.26 E-value=30 Score=28.88 Aligned_cols=37 Identities=22% Similarity=0.500 Sum_probs=19.0
Q ss_pred CCCCcccccccccCCCCc-eEEeCCCChhcHHHHHHHH
Q 005412 645 SDEEPCCICQEEYTDGDN-LGILDCGHDFHTNCIKQWL 681 (697)
Q Consensus 645 ~~~e~C~ICLEefe~ge~-V~~LpCGH~FH~~CI~qWL 681 (697)
.+...|.+|...|..-.. -..-.||++||.+|....+
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 345779999999975422 2223699999999987654
No 161
>PLN02400 cellulose synthase
Probab=21.18 E-value=61 Score=41.12 Aligned_cols=49 Identities=20% Similarity=0.434 Sum_probs=35.1
Q ss_pred CCCcccccccccCCCC----ceEEeCCCChhcHHHHHHHHh-cCCCCcCCCCCc
Q 005412 646 DEEPCCICQEEYTDGD----NLGILDCGHDFHTNCIKQWLM-QKNLCPICKTTG 694 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge----~V~~LpCGH~FH~~CI~qWL~-qknsCPICRk~L 694 (697)
....|-||=++..... -|.+-.|+--.|+.|.+-=-+ -...||-||+..
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrY 88 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRY 88 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcc
Confidence 4568999999987533 255668999999999843111 245699999864
No 162
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=21.17 E-value=41 Score=40.74 Aligned_cols=47 Identities=32% Similarity=0.635 Sum_probs=32.7
Q ss_pred CCCcccccccccCCCCc-------eEEeCCCChh--------------------cHHHHHHHHh--------cCCCCcCC
Q 005412 646 DEEPCCICQEEYTDGDN-------LGILDCGHDF--------------------HTNCIKQWLM--------QKNLCPIC 690 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~-------V~~LpCGH~F--------------------H~~CI~qWL~--------qknsCPIC 690 (697)
+...|.-|++++-++.. +.++.||-.| |..|-+.+-- +-..||.|
T Consensus 100 D~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~C 179 (750)
T COG0068 100 DAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPKC 179 (750)
T ss_pred chhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCccc
Confidence 44679999999988764 4566777655 7888877643 22359999
Q ss_pred CC
Q 005412 691 KT 692 (697)
Q Consensus 691 Rk 692 (697)
.=
T Consensus 180 GP 181 (750)
T COG0068 180 GP 181 (750)
T ss_pred CC
Confidence 63
No 163
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.14 E-value=51 Score=41.48 Aligned_cols=49 Identities=18% Similarity=0.334 Sum_probs=33.3
Q ss_pred CCCCCCcccccccccCCCCceEEeCCC-----ChhcHHHHHHHHhcCCCCcCCCCCcCC
Q 005412 643 IPSDEEPCCICQEEYTDGDNLGILDCG-----HDFHTNCIKQWLMQKNLCPICKTTGLP 696 (697)
Q Consensus 643 ~~~~~e~C~ICLEefe~ge~V~~LpCG-----H~FH~~CI~qWL~qknsCPICRk~LLp 696 (697)
.......|+-|=...... .+-.|| ..||.+| .+......||-|..++.+
T Consensus 622 VEVg~RfCpsCG~~t~~f---rCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 622 VEIGRRKCPSCGKETFYR---RCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTP 675 (1121)
T ss_pred ecccCccCCCCCCcCCcc---cCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCc
Confidence 344567899998874322 444598 4699999 333445679999987764
No 164
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=21.11 E-value=25 Score=43.03 Aligned_cols=35 Identities=20% Similarity=0.525 Sum_probs=25.8
Q ss_pred CCCcccccccccCCCCceEEeCCCChhcHHHHHHHH
Q 005412 646 DEEPCCICQEEYTDGDNLGILDCGHDFHTNCIKQWL 681 (697)
Q Consensus 646 ~~e~C~ICLEefe~ge~V~~LpCGH~FH~~CI~qWL 681 (697)
....|-.|......- ..++-.|+|.||.+|++.|.
T Consensus 228 ~~~mC~~C~~tlfn~-hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 228 IREMCDRCETTLFNI-HWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cchhhhhhcccccce-eEEccccCCeeeecchhhcc
Confidence 446788888764421 23555799999999999995
No 165
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=20.78 E-value=39 Score=25.57 Aligned_cols=25 Identities=32% Similarity=0.723 Sum_probs=17.2
Q ss_pred cccccccccCCCCc--------eEEeCCCChhc
Q 005412 649 PCCICQEEYTDGDN--------LGILDCGHDFH 673 (697)
Q Consensus 649 ~C~ICLEefe~ge~--------V~~LpCGH~FH 673 (697)
.|+-|...|..+++ ++.-.|+|+|.
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 33446888774
No 166
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=20.59 E-value=55 Score=25.87 Aligned_cols=13 Identities=31% Similarity=0.718 Sum_probs=6.0
Q ss_pred CcccccccccCCC
Q 005412 648 EPCCICQEEYTDG 660 (697)
Q Consensus 648 e~C~ICLEefe~g 660 (697)
..|.+|...+...
T Consensus 27 f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 27 FKCSKCGKPLNDG 39 (58)
T ss_dssp SBETTTTCBTTTS
T ss_pred cccCCCCCccCCC
Confidence 3455555444443
Done!