Query 000596
Match_columns 1400
No_of_seqs 251 out of 1695
Neff 3.5
Searched_HMMs 46136
Date Mon Apr 1 20:23:35 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000596.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000596hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0297 TNF receptor-associate 99.6 2.3E-15 4.9E-20 173.6 5.7 141 1-160 7-150 (391)
2 COG5432 RAD18 RING-finger-cont 99.3 2.7E-12 5.9E-17 141.4 5.3 179 3-185 11-225 (391)
3 TIGR00599 rad18 DNA repair pro 99.1 1E-10 2.2E-15 135.6 8.4 63 4-68 13-75 (397)
4 KOG0287 Postreplication repair 99.0 8.3E-11 1.8E-15 132.0 1.9 65 3-69 9-73 (442)
5 smart00504 Ubox Modified RING 98.9 2.2E-09 4.8E-14 93.2 4.8 50 17-68 1-50 (63)
6 KOG3002 Zn finger protein [Gen 98.9 3E-09 6.6E-14 119.9 7.2 112 14-147 45-161 (299)
7 KOG0320 Predicted E3 ubiquitin 98.7 4.8E-09 1E-13 110.3 3.1 53 16-68 130-182 (187)
8 PLN03208 E3 ubiquitin-protein 98.7 8.3E-09 1.8E-13 110.1 4.6 55 13-69 14-84 (193)
9 PF04564 U-box: U-box domain; 98.7 1.2E-08 2.7E-13 93.1 3.5 54 14-69 1-55 (73)
10 KOG0823 Predicted E3 ubiquitin 98.6 1.3E-08 2.9E-13 110.5 3.1 53 15-69 45-100 (230)
11 PF15227 zf-C3HC4_4: zinc fing 98.5 4.9E-08 1.1E-12 81.3 2.9 38 20-59 1-42 (42)
12 PF13923 zf-C3HC4_2: Zinc fing 98.4 1.2E-07 2.6E-12 76.9 2.8 38 20-59 1-39 (39)
13 PHA02929 N1R/p28-like protein; 98.3 3.4E-07 7.3E-12 100.9 4.2 49 15-64 172-227 (238)
14 PF13920 zf-C3HC4_3: Zinc fing 98.3 3.2E-07 6.9E-12 77.9 3.1 47 16-64 1-48 (50)
15 PF14835 zf-RING_6: zf-RING of 98.3 8.5E-08 1.8E-12 87.0 -1.1 53 13-69 3-56 (65)
16 KOG2177 Predicted E3 ubiquitin 98.3 3.4E-07 7.4E-12 94.7 2.4 48 12-61 8-55 (386)
17 PF13639 zf-RING_2: Ring finge 98.3 3.2E-07 7E-12 75.9 1.8 42 19-60 2-44 (44)
18 KOG0317 Predicted E3 ubiquitin 98.2 5.3E-07 1.1E-11 100.8 2.7 50 16-67 238-287 (293)
19 KOG0825 PHD Zn-finger protein 98.1 4.1E-07 9E-12 110.4 -0.7 130 17-159 123-264 (1134)
20 cd00162 RING RING-finger (Real 98.1 2.2E-06 4.7E-11 68.1 3.5 42 19-62 1-44 (45)
21 PF00097 zf-C3HC4: Zinc finger 98.1 1.8E-06 3.8E-11 70.1 3.0 38 20-59 1-41 (41)
22 TIGR00570 cdk7 CDK-activating 98.0 5E-06 1.1E-10 94.5 4.8 54 16-69 2-59 (309)
23 KOG0311 Predicted E3 ubiquitin 98.0 4.4E-07 9.6E-12 103.5 -3.7 58 7-66 33-92 (381)
24 KOG2164 Predicted E3 ubiquitin 98.0 3.3E-06 7.1E-11 100.2 2.9 51 17-69 186-241 (513)
25 PHA02926 zinc finger-like prot 97.9 4.3E-06 9.3E-11 91.2 2.8 52 13-64 166-230 (242)
26 smart00184 RING Ring finger. E 97.9 1E-05 2.2E-10 62.0 3.4 38 20-59 1-39 (39)
27 PF13445 zf-RING_UBOX: RING-ty 97.8 1E-05 2.2E-10 68.4 2.2 35 20-57 1-43 (43)
28 PF14634 zf-RING_5: zinc-RING 97.8 1.6E-05 3.4E-10 66.5 3.1 43 19-61 1-44 (44)
29 KOG0978 E3 ubiquitin ligase in 97.7 7.2E-06 1.6E-10 100.9 -0.4 55 13-69 639-694 (698)
30 KOG2660 Locus-specific chromos 97.7 1.2E-05 2.5E-10 91.7 0.6 56 9-66 7-63 (331)
31 COG5574 PEX10 RING-finger-cont 97.6 2.6E-05 5.6E-10 86.9 2.5 50 15-66 213-264 (271)
32 COG5222 Uncharacterized conser 97.6 3.2E-05 7E-10 86.9 2.6 42 18-61 275-318 (427)
33 PF12678 zf-rbx1: RING-H2 zinc 97.4 0.00014 2.9E-09 67.2 3.8 39 20-60 22-73 (73)
34 KOG0802 E3 ubiquitin ligase [P 97.3 8.7E-05 1.9E-09 90.1 1.7 48 17-66 291-343 (543)
35 COG5152 Uncharacterized conser 97.3 0.00013 2.8E-09 78.7 2.1 45 17-63 196-240 (259)
36 COG5540 RING-finger-containing 97.0 0.00033 7.2E-09 79.4 2.7 49 15-63 321-371 (374)
37 PLN03086 PRLI-interacting fact 97.0 0.0005 1.1E-08 84.0 4.2 124 16-164 406-552 (567)
38 KOG1002 Nucleotide excision re 97.0 0.00037 7.9E-09 83.1 2.2 53 13-67 532-589 (791)
39 KOG4159 Predicted E3 ubiquitin 96.9 0.00046 9.9E-09 81.4 2.4 51 13-65 80-130 (398)
40 PLN03086 PRLI-interacting fact 96.8 0.0016 3.4E-08 79.8 5.8 89 55-161 409-513 (567)
41 COG5243 HRD1 HRD ubiquitin lig 96.8 0.00076 1.6E-08 78.1 2.9 52 15-66 285-347 (491)
42 KOG3039 Uncharacterized conser 96.7 0.00086 1.9E-08 74.5 2.7 53 15-69 219-275 (303)
43 KOG4628 Predicted E3 ubiquitin 96.7 0.00095 2.1E-08 77.6 3.2 48 18-65 230-279 (348)
44 PF03145 Sina: Seven in absent 96.7 0.00039 8.6E-09 74.0 -0.0 67 83-151 3-73 (198)
45 PF11789 zf-Nse: Zinc-finger o 96.6 0.00093 2E-08 59.7 1.7 45 12-58 6-53 (57)
46 KOG2879 Predicted E3 ubiquitin 96.5 0.0018 3.9E-08 73.0 3.4 48 15-64 237-287 (298)
47 KOG1813 Predicted E3 ubiquitin 96.4 0.00094 2E-08 75.7 0.8 45 18-64 242-286 (313)
48 KOG0824 Predicted E3 ubiquitin 96.4 0.0012 2.7E-08 75.0 1.6 49 17-67 7-56 (324)
49 KOG1785 Tyrosine kinase negati 96.4 0.0011 2.3E-08 77.4 1.0 45 19-65 371-417 (563)
50 PF12861 zf-Apc11: Anaphase-pr 96.4 0.0023 5E-08 61.6 2.8 34 32-65 46-83 (85)
51 COG5175 MOT2 Transcriptional r 96.3 0.0017 3.7E-08 74.5 2.1 56 13-69 11-69 (480)
52 KOG1814 Predicted E3 ubiquitin 96.2 0.0017 3.7E-08 76.2 1.2 103 16-122 183-301 (445)
53 PF07800 DUF1644: Protein of u 96.0 0.0051 1.1E-07 65.0 3.2 85 16-118 1-129 (162)
54 KOG4265 Predicted E3 ubiquitin 95.9 0.0049 1.1E-07 71.6 3.0 47 16-64 289-336 (349)
55 PF02176 zf-TRAF: TRAF-type zi 95.9 0.0025 5.5E-08 55.6 0.5 40 116-157 1-43 (60)
56 KOG1039 Predicted E3 ubiquitin 95.8 0.005 1.1E-07 71.8 2.3 49 15-65 159-222 (344)
57 PF04641 Rtf2: Rtf2 RING-finge 95.7 0.0092 2E-07 66.8 3.8 55 14-69 110-166 (260)
58 PF02176 zf-TRAF: TRAF-type zi 95.7 0.0048 1.1E-07 53.8 1.3 52 89-144 4-60 (60)
59 COG5219 Uncharacterized conser 95.1 0.0067 1.5E-07 76.5 0.4 51 14-64 1466-1523(1525)
60 KOG1734 Predicted RING-contain 94.6 0.011 2.3E-07 66.9 0.5 50 16-67 223-284 (328)
61 KOG0804 Cytoplasmic Zn-finger 94.6 0.012 2.5E-07 70.2 0.8 46 15-64 173-222 (493)
62 KOG4172 Predicted E3 ubiquitin 94.3 0.0099 2.1E-07 53.5 -0.5 45 18-64 8-54 (62)
63 KOG0828 Predicted E3 ubiquitin 94.3 0.022 4.8E-07 68.4 2.2 49 15-63 569-633 (636)
64 COG5236 Uncharacterized conser 94.1 0.016 3.5E-07 67.1 0.6 48 14-63 58-107 (493)
65 KOG3800 Predicted E3 ubiquitin 93.9 0.042 9.1E-07 62.8 3.2 51 19-69 2-56 (300)
66 KOG1428 Inhibitor of type V ad 93.7 0.03 6.6E-07 72.8 1.9 55 15-69 3484-3549(3738)
67 KOG4692 Predicted E3 ubiquitin 93.7 0.032 6.9E-07 65.0 1.9 48 15-64 420-467 (489)
68 PF14570 zf-RING_4: RING/Ubox 93.6 0.047 1E-06 48.0 2.3 44 20-63 1-47 (48)
69 KOG4367 Predicted Zn-finger pr 93.6 0.031 6.6E-07 66.3 1.5 37 14-52 1-37 (699)
70 KOG1812 Predicted E3 ubiquitin 93.3 0.037 7.9E-07 65.6 1.5 114 17-135 146-275 (384)
71 PF05290 Baculo_IE-1: Baculovi 93.3 0.058 1.3E-06 56.0 2.7 49 16-66 79-134 (140)
72 KOG4185 Predicted E3 ubiquitin 93.3 0.096 2.1E-06 59.0 4.7 46 18-63 4-54 (296)
73 KOG1001 Helicase-like transcri 93.2 0.028 6.1E-07 70.7 0.3 47 18-67 455-503 (674)
74 KOG4739 Uncharacterized protei 93.0 0.037 8.1E-07 61.8 0.9 50 17-69 3-53 (233)
75 KOG4275 Predicted E3 ubiquitin 92.9 0.017 3.7E-07 65.9 -1.8 42 16-63 299-341 (350)
76 KOG0297 TNF receptor-associate 92.8 0.085 1.8E-06 62.6 3.5 68 93-166 113-181 (391)
77 KOG1645 RING-finger-containing 92.1 0.065 1.4E-06 63.6 1.4 54 16-69 3-61 (463)
78 PF11793 FANCL_C: FANCL C-term 91.7 0.057 1.2E-06 50.0 0.4 50 17-66 2-68 (70)
79 KOG0826 Predicted E3 ubiquitin 91.4 0.1 2.2E-06 60.6 2.0 49 15-65 298-347 (357)
80 PF07535 zf-DBF: DBF zinc fing 90.7 0.098 2.1E-06 46.1 0.8 29 1329-1360 5-33 (49)
81 smart00586 ZnF_DBF Zinc finger 90.6 0.064 1.4E-06 47.3 -0.5 30 1329-1361 5-34 (49)
82 KOG2932 E3 ubiquitin ligase in 90.3 0.12 2.6E-06 59.6 1.2 43 17-63 90-133 (389)
83 KOG3161 Predicted E3 ubiquitin 90.2 0.1 2.2E-06 64.5 0.7 40 16-57 10-51 (861)
84 PF14447 Prok-RING_4: Prokaryo 90.2 0.16 3.6E-06 45.8 1.8 48 15-66 5-52 (55)
85 KOG4362 Transcriptional regula 89.8 0.076 1.6E-06 66.5 -0.9 56 11-68 15-73 (684)
86 KOG1571 Predicted E3 ubiquitin 89.8 0.17 3.7E-06 59.4 1.9 47 13-64 301-347 (355)
87 PF12874 zf-met: Zinc-finger o 89.6 0.047 1E-06 40.3 -1.8 24 1331-1354 2-25 (25)
88 KOG0298 DEAD box-containing he 89.3 0.077 1.7E-06 69.6 -1.4 54 8-63 1144-1198(1394)
89 KOG0827 Predicted E3 ubiquitin 88.7 0.22 4.7E-06 59.0 1.8 43 18-61 5-53 (465)
90 KOG2462 C2H2-type Zn-finger pr 88.6 0.41 8.9E-06 54.8 3.8 79 55-151 189-270 (279)
91 COG5194 APC11 Component of SCF 88.4 0.39 8.4E-06 46.5 2.9 31 36-66 53-83 (88)
92 COG5220 TFB3 Cdk activating ki 88.3 0.18 3.8E-06 56.7 0.7 51 17-67 10-67 (314)
93 smart00744 RINGv The RING-vari 87.3 0.58 1.3E-05 40.9 3.1 42 19-60 1-49 (49)
94 PHA03096 p28-like protein; Pro 87.1 0.37 8E-06 55.5 2.3 44 18-61 179-231 (284)
95 KOG0314 Predicted E3 ubiquitin 86.8 0.39 8.4E-06 58.2 2.4 47 11-60 213-262 (448)
96 KOG1815 Predicted E3 ubiquitin 84.7 1.2 2.5E-05 53.9 5.0 53 15-69 68-131 (444)
97 KOG3039 Uncharacterized conser 84.2 0.66 1.4E-05 52.6 2.5 38 11-50 37-74 (303)
98 KOG1941 Acetylcholine receptor 82.7 0.42 9E-06 56.8 0.2 48 17-64 365-416 (518)
99 KOG3579 Predicted E3 ubiquitin 82.3 0.87 1.9E-05 52.5 2.5 36 16-53 267-306 (352)
100 PF05883 Baculo_RING: Baculovi 81.1 0.81 1.8E-05 47.9 1.6 44 17-62 26-78 (134)
101 KOG2817 Predicted E3 ubiquitin 80.1 1.3 2.8E-05 52.9 3.0 50 15-64 332-385 (394)
102 KOG3623 Homeobox transcription 79.5 0.75 1.6E-05 58.1 0.9 67 89-159 235-316 (1007)
103 KOG1493 Anaphase-promoting com 79.0 0.61 1.3E-05 44.8 -0.0 30 36-65 50-82 (84)
104 KOG2231 Predicted E3 ubiquitin 78.3 2.2 4.7E-05 54.2 4.3 45 19-65 2-53 (669)
105 smart00451 ZnF_U1 U1-like zinc 77.7 0.69 1.5E-05 36.5 -0.1 29 1330-1358 4-32 (35)
106 PF13913 zf-C2HC_2: zinc-finge 77.3 1.5 3.3E-05 33.6 1.6 24 126-149 2-25 (25)
107 KOG3993 Transcription factor ( 76.3 0.72 1.6E-05 55.4 -0.5 46 8-64 258-306 (500)
108 KOG4445 Uncharacterized conser 75.1 0.7 1.5E-05 53.5 -0.9 51 17-67 115-189 (368)
109 smart00734 ZnF_Rad18 Rad18-lik 73.4 2.2 4.8E-05 33.2 1.6 23 127-149 2-24 (26)
110 KOG1701 Focal adhesion adaptor 71.1 2.5 5.5E-05 51.1 2.2 45 18-65 361-406 (468)
111 KOG1701 Focal adhesion adaptor 70.7 1.4 3E-05 53.2 0.0 45 18-66 303-347 (468)
112 KOG3970 Predicted E3 ubiquitin 69.3 3.5 7.6E-05 46.5 2.7 52 14-65 47-106 (299)
113 KOG2462 C2H2-type Zn-finger pr 68.0 5.6 0.00012 46.1 4.0 54 104-158 190-249 (279)
114 KOG2114 Vacuolar assembly/sort 67.6 2.7 5.8E-05 54.3 1.6 41 18-63 841-882 (933)
115 PF12171 zf-C2H2_jaz: Zinc-fin 67.4 1.3 2.8E-05 33.8 -0.7 25 1331-1355 3-27 (27)
116 PF10367 Vps39_2: Vacuolar sor 67.1 2.4 5.3E-05 40.4 0.9 34 14-48 75-109 (109)
117 PF03854 zf-P11: P-11 zinc fin 65.7 3.4 7.4E-05 36.9 1.4 44 18-64 3-46 (50)
118 PRK04023 DNA polymerase II lar 65.4 3.8 8.2E-05 54.0 2.3 45 16-65 625-675 (1121)
119 PLN02189 cellulose synthase 64.8 4.4 9.5E-05 53.7 2.7 46 19-64 36-87 (1040)
120 KOG2893 Zn finger protein [Gen 64.6 2.2E+02 0.0047 33.2 15.2 47 931-984 191-237 (341)
121 KOG3268 Predicted E3 ubiquitin 64.2 4.6 0.0001 44.2 2.3 47 18-66 166-230 (234)
122 KOG2199 Signal transducing ada 63.4 17 0.00036 44.2 6.8 10 18-27 28-37 (462)
123 PF05502 Dynactin_p62: Dynacti 63.3 4.2 9E-05 50.1 2.1 34 14-49 2-36 (483)
124 KOG1952 Transcription factor N 62.4 4.1 9E-05 52.7 1.8 48 15-62 189-245 (950)
125 PF02891 zf-MIZ: MIZ/SP-RING z 62.2 3.7 8E-05 36.2 1.0 42 17-61 2-49 (50)
126 KOG0006 E3 ubiquitin-protein l 62.2 9.6 0.00021 44.9 4.5 122 12-150 216-361 (446)
127 KOG4274 Positive cofactor 2 (P 61.6 42 0.00091 42.5 9.8 28 1030-1060 654-681 (742)
128 KOG1940 Zn-finger protein [Gen 61.4 6.8 0.00015 45.4 3.2 45 17-61 158-204 (276)
129 PF08746 zf-RING-like: RING-li 61.0 7.9 0.00017 33.3 2.7 38 20-59 1-43 (43)
130 KOG2930 SCF ubiquitin ligase, 60.8 5 0.00011 40.8 1.7 28 36-63 80-107 (114)
131 PLN02195 cellulose synthase A 59.1 7.4 0.00016 51.5 3.2 47 18-64 7-59 (977)
132 PLN02436 cellulose synthase A 56.9 6.5 0.00014 52.3 2.3 46 19-64 38-89 (1094)
133 PLN02638 cellulose synthase A 55.2 7.3 0.00016 51.9 2.3 46 19-64 19-70 (1079)
134 PF14569 zf-UDP: Zinc-binding 54.1 13 0.00027 36.3 3.1 48 18-65 10-63 (80)
135 PF10272 Tmpp129: Putative tra 53.1 14 0.00031 44.3 4.0 28 40-67 314-354 (358)
136 KOG0825 PHD Zn-finger protein 52.7 8.9 0.00019 49.4 2.4 44 18-61 97-151 (1134)
137 KOG3002 Zn finger protein [Gen 52.5 2.8 6.2E-05 48.8 -1.7 88 54-158 49-142 (299)
138 KOG2169 Zn-finger transcriptio 52.1 17 0.00038 46.3 4.8 54 13-68 302-360 (636)
139 KOG3113 Uncharacterized conser 51.1 13 0.00028 42.9 3.1 50 16-69 110-163 (293)
140 KOG1100 Predicted E3 ubiquitin 50.7 6.6 0.00014 43.7 0.8 39 20-64 161-200 (207)
141 KOG0309 Conserved WD40 repeat- 50.3 9.4 0.0002 49.1 2.1 45 16-61 1027-1073(1081)
142 PF07191 zinc-ribbons_6: zinc- 50.3 1.7 3.6E-05 41.3 -3.2 41 17-64 1-41 (70)
143 PF06906 DUF1272: Protein of u 50.2 19 0.00042 33.2 3.4 44 19-64 7-52 (57)
144 COG3813 Uncharacterized protei 49.7 15 0.00032 35.5 2.7 47 20-68 8-56 (84)
145 COG5109 Uncharacterized conser 49.4 12 0.00025 44.3 2.5 48 15-62 334-385 (396)
146 KOG2807 RNA polymerase II tran 49.0 7.4 0.00016 46.0 0.9 26 38-63 275-300 (378)
147 PLN02400 cellulose synthase 48.2 8.6 0.00019 51.4 1.4 46 19-64 38-89 (1085)
148 PF05502 Dynactin_p62: Dynacti 46.8 11 0.00023 46.7 1.9 40 16-66 25-65 (483)
149 PF07948 Nairovirus_M: Nairovi 46.0 3 6.6E-05 51.4 -2.8 41 107-151 504-544 (645)
150 KOG4718 Non-SMC (structural ma 46.0 10 0.00022 42.7 1.3 44 18-63 182-226 (235)
151 PLN02915 cellulose synthase A 44.4 14 0.00029 49.5 2.3 49 16-64 14-68 (1044)
152 KOG2068 MOT2 transcription fac 43.7 17 0.00036 43.2 2.7 49 18-66 250-300 (327)
153 COG5183 SSM4 Protein involved 43.3 16 0.00034 47.6 2.4 54 15-68 10-70 (1175)
154 PF08209 Sgf11: Sgf11 (transcr 43.2 11 0.00024 31.2 0.8 26 126-151 4-29 (33)
155 PF15616 TerY-C: TerY-C metal 42.6 9.7 0.00021 40.0 0.5 47 12-66 72-118 (131)
156 KOG1812 Predicted E3 ubiquitin 42.3 12 0.00025 45.1 1.2 44 16-59 305-351 (384)
157 KOG0956 PHD finger protein AF1 41.0 17 0.00037 46.5 2.3 26 34-59 43-68 (900)
158 PRK14714 DNA polymerase II lar 40.3 13 0.00029 50.3 1.4 44 18-64 668-720 (1337)
159 PF06524 NOA36: NOA36 protein; 39.3 29 0.00062 40.4 3.5 29 18-48 52-84 (314)
160 KOG3576 Ovo and related transc 38.9 6 0.00013 44.3 -1.7 122 1-147 101-234 (267)
161 KOG3623 Homeobox transcription 38.8 22 0.00048 45.9 2.8 45 101-146 281-330 (1007)
162 KOG2231 Predicted E3 ubiquitin 38.4 11 0.00024 48.2 0.3 24 36-59 96-121 (669)
163 PF03145 Sina: Seven in absent 37.1 16 0.00034 39.6 1.0 27 131-157 23-49 (198)
164 PHA02825 LAP/PHD finger-like p 37.1 31 0.00068 37.6 3.2 51 14-67 5-62 (162)
165 PLN02248 cellulose synthase-li 36.8 22 0.00048 47.9 2.5 6 1359-1364 996-1001(1135)
166 TIGR00373 conserved hypothetic 35.5 31 0.00067 36.8 2.9 35 16-67 108-142 (158)
167 KOG3899 Uncharacterized conser 35.1 19 0.00042 42.2 1.4 32 37-68 325-369 (381)
168 TIGR01562 FdhE formate dehydro 35.0 12 0.00027 43.9 -0.1 43 17-61 184-232 (305)
169 PF03833 PolC_DP2: DNA polymer 34.7 13 0.00028 48.6 0.0 43 17-64 655-703 (900)
170 PF08894 DUF1838: Protein of u 34.6 24 0.00051 40.4 2.0 52 1284-1336 116-170 (238)
171 PF09770 PAT1: Topoisomerase I 34.3 13 0.00029 48.2 0.0 10 106-115 29-38 (808)
172 PF04216 FdhE: Protein involve 33.9 7.9 0.00017 44.4 -1.9 44 17-62 172-220 (290)
173 PHA02862 5L protein; Provision 33.1 30 0.00064 37.3 2.3 47 19-67 4-56 (156)
174 KOG2034 Vacuolar sorting prote 32.6 22 0.00048 46.7 1.5 36 15-51 815-851 (911)
175 KOG3183 Predicted Zn-finger pr 32.0 29 0.00063 39.8 2.1 46 19-66 10-68 (250)
176 PRK06266 transcription initiat 31.9 37 0.0008 37.1 2.8 35 16-67 116-150 (178)
177 PF05605 zf-Di19: Drought indu 31.6 46 0.00099 29.4 2.9 20 127-146 3-22 (54)
178 PRK03564 formate dehydrogenase 31.5 18 0.00039 42.7 0.5 44 16-61 186-234 (309)
179 KOG2789 Putative Zn-finger pro 31.4 19 0.0004 43.8 0.5 33 16-50 73-107 (482)
180 KOG2113 Predicted RNA binding 31.2 33 0.00071 40.8 2.4 45 13-61 339-384 (394)
181 COG5151 SSL1 RNA polymerase II 30.9 49 0.0011 39.3 3.7 26 38-63 307-332 (421)
182 PF12049 DUF3531: Protein of u 30.9 24 0.00053 37.8 1.2 62 1277-1364 42-111 (146)
183 smart00647 IBR In Between Ring 30.4 17 0.00036 31.8 -0.0 34 16-49 17-58 (64)
184 PF05605 zf-Di19: Drought indu 30.4 25 0.00053 31.1 1.0 48 95-147 3-51 (54)
185 KOG3896 Dynactin, subunit p62 29.5 21 0.00046 42.6 0.6 37 12-50 19-56 (449)
186 KOG2979 Protein involved in DN 29.4 35 0.00076 39.6 2.2 43 17-61 176-221 (262)
187 PF10571 UPF0547: Uncharacteri 28.8 29 0.00063 27.4 1.1 22 19-41 2-24 (26)
188 PRK10263 DNA translocase FtsK; 28.3 1.3E+02 0.0029 41.8 7.4 14 1378-1391 1335-1348(1355)
189 PF06937 EURL: EURL protein; 28.1 39 0.00084 39.4 2.3 21 6-27 5-25 (285)
190 PF09770 PAT1: Topoisomerase I 27.9 20 0.00043 46.6 0.0 6 202-207 125-130 (808)
191 PRK11088 rrmA 23S rRNA methylt 27.7 32 0.0007 38.7 1.6 24 18-41 3-27 (272)
192 PF06844 DUF1244: Protein of u 27.3 31 0.00068 32.8 1.2 12 40-51 11-22 (68)
193 PF15279 SOBP: Sine oculis-bin 27.0 86 0.0019 37.3 4.9 48 104-151 2-54 (306)
194 PRK14559 putative protein seri 25.6 28 0.0006 44.8 0.7 10 18-27 2-11 (645)
195 KOG2807 RNA polymerase II tran 25.5 57 0.0012 39.1 3.1 10 36-45 350-359 (378)
196 KOG0129 Predicted RNA-binding 25.3 32 0.0007 42.9 1.1 40 11-50 448-493 (520)
197 KOG4274 Positive cofactor 2 (P 25.1 4.5E+02 0.0097 34.1 10.4 11 107-117 31-41 (742)
198 KOG4761 Proteasome formation i 24.8 2.9E+02 0.0062 32.4 8.1 51 1116-1174 203-253 (266)
199 KOG2893 Zn finger protein [Gen 24.4 33 0.00071 39.4 0.9 19 1321-1339 2-20 (341)
200 PF02948 Amelogenin: Amelogeni 23.7 2.6E+02 0.0056 31.2 7.2 26 495-520 91-116 (174)
201 smart00064 FYVE Protein presen 22.8 52 0.0011 29.8 1.7 34 17-50 10-45 (68)
202 PF01363 FYVE: FYVE zinc finge 22.6 41 0.0009 30.5 1.0 34 16-49 8-43 (69)
203 PF01485 IBR: IBR domain; Int 22.5 18 0.00038 31.6 -1.3 32 18-49 19-58 (64)
204 PF14446 Prok-RING_1: Prokaryo 22.3 76 0.0017 29.2 2.6 33 17-49 5-39 (54)
205 KOG0801 Predicted E3 ubiquitin 22.0 21 0.00046 38.9 -1.1 12 17-28 138-149 (205)
206 PHA02335 hypothetical protein 21.6 27 0.00058 35.9 -0.4 19 1051-1069 20-38 (118)
207 PF12756 zf-C2H2_2: C2H2 type 21.6 11 0.00025 34.9 -2.8 29 1330-1358 51-79 (100)
208 PRK11595 DNA utilization prote 21.5 61 0.0013 36.1 2.2 38 19-63 7-44 (227)
209 smart00614 ZnF_BED BED zinc fi 21.3 52 0.0011 28.7 1.3 25 126-150 18-49 (50)
210 PF10235 Cript: Microtubule-as 21.3 46 0.00099 33.3 1.1 34 19-63 46-79 (90)
211 KOG4443 Putative transcription 21.3 49 0.0011 42.5 1.6 45 15-61 16-70 (694)
212 KOG2186 Cell growth-regulating 21.2 36 0.00077 39.5 0.4 31 125-155 2-32 (276)
213 KOG3608 Zn finger proteins [Ge 21.0 33 0.00071 41.4 0.1 114 15-147 205-343 (467)
214 COG0068 HypF Hydrogenase matur 20.9 82 0.0018 41.1 3.4 16 1059-1074 434-449 (750)
215 PF07975 C1_4: TFIIH C1-like d 20.8 60 0.0013 29.4 1.6 25 36-60 26-50 (51)
216 PF02892 zf-BED: BED zinc fing 20.8 46 0.001 27.9 0.9 24 125-148 15-44 (45)
217 KOG1044 Actin-binding LIM Zn-f 20.7 34 0.00073 43.4 0.1 110 15-143 89-209 (670)
218 COG0777 AccD Acetyl-CoA carbox 20.3 52 0.0011 38.7 1.4 23 91-117 25-47 (294)
219 KOG1703 Adaptor protein Enigma 20.2 98 0.0021 38.3 3.8 46 16-65 329-375 (479)
220 KOG1829 Uncharacterized conser 20.2 33 0.00072 43.6 -0.1 43 16-61 510-558 (580)
No 1
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=99.56 E-value=2.3e-15 Score=173.59 Aligned_cols=141 Identities=27% Similarity=0.625 Sum_probs=123.4
Q ss_pred CCCCchhhccccCCCCccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcCCCCCCCCcccccccchhhhcccccch
Q 000596 1 MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPL 79 (1400)
Q Consensus 1 MGFD~e~IvfVd~LeEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLkllvee~IFPl 79 (1400)
|||+.+.+. ..++++|.|+||..++ .+|+++ .|||.||..|+..|+.....||.|+..+..++..
T Consensus 7 ~~~~~~~~~--~~~~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~---------- 72 (391)
T KOG0297|consen 7 MGFDLKHLG--RPLDENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL---------- 72 (391)
T ss_pred ccccccccC--CCCcccccCccccccc--cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc----------
Confidence 899999987 4689999999999999 999995 9999999999999999988999999877665422
Q ss_pred hhhhhHHHhhhcceeeecccCCCCCceeecccccccccCCCCCCCccccCCc-ccchhchhhHHHHHh-hCCCCCCCCCC
Q 000596 80 VESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNR-CAIQIVHRQVQEHAQ-NCPGVQPQASQ 157 (1400)
Q Consensus 80 IesNK~LereIekLkVkCpn~k~GCqw~gkLkdLkkHl~tC~y~~RpV~Cp~-CgqqI~RkdLqeHLq-~CPk~pVqCPn 157 (1400)
..+..+++++.++.++|.+...||.|.+++..++.|+..| . .+.|+. |+..+.+.++.+|++ .|++....|..
T Consensus 73 -~~~~~~~~~~~~l~i~c~~~~~GC~~~~~l~~~~~Hl~~c--~--~~~C~~~C~~~~~~~d~~~hl~~~C~~~~~~c~~ 147 (391)
T KOG0297|consen 73 -PVPRALRRELLKLPIRCIFASRGCRADLELEALQGHLSTC--D--PLKCPHRCGVQVPRDDLEDHLEAECPRRSLKCSL 147 (391)
T ss_pred -CchHHHHHHHHhcccccccCCCCccccccHHHHHhHhccC--C--cccCccccccccchHHHHHHHhcccccccccchh
Confidence 1356788899999999999999999999999999999999 2 689964 999999999999985 79988888876
Q ss_pred CCC
Q 000596 158 PEG 160 (1400)
Q Consensus 158 ~cg 160 (1400)
+..
T Consensus 148 ~~~ 150 (391)
T KOG0297|consen 148 CQS 150 (391)
T ss_pred hcC
Confidence 643
No 2
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.28 E-value=2.7e-12 Score=141.37 Aligned_cols=179 Identities=16% Similarity=0.307 Sum_probs=110.4
Q ss_pred CCchhhccccCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccccchh-hhcccccchhh
Q 000596 3 FDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKV-VLSSAVVPLVE 81 (1400)
Q Consensus 3 FD~e~IvfVd~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLkl-lvee~IFPlIe 81 (1400)
|..+.|..+..|+..+.|-||.+.| ..|++|+|||+||.-||++.+.+...||+||....+..+.- ...+.|.....
T Consensus 11 ~~~T~IPSL~~LDs~lrC~IC~~~i--~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~~ei~es~~ 88 (391)
T COG5432 11 WNQTKIPSLKGLDSMLRCRICDCRI--SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSREINESHA 88 (391)
T ss_pred cccccCcchhcchhHHHhhhhhhee--ecceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccchhHHHHHHhhh
Confidence 5566777888899999999999999 89999999999999999999999999999998876654430 00000000000
Q ss_pred hhhHHHhhhcceeeecc-----cCCCCCceeeccccccccc----------CCCCC--------------CCccccCCcc
Q 000596 82 SNKALAETIGKITVHCL-----FHRSGCTWQGPLSECTSHC----------SGCAF--------------GNSPVVCNRC 132 (1400)
Q Consensus 82 sNK~LereIekLkVkCp-----n~k~GCqw~gkLkdLkkHl----------~tC~y--------------~~RpV~Cp~C 132 (1400)
.++.+ ..+-|++.|+ +.+.-|.|+.....-.+-. +.-+- .+.++.|+.|
T Consensus 89 ~~r~~--l~~~L~~~~~~p~p~~ee~p~~~E~v~~~dS~S~~~~~eD~~~~~sS~~~iAKkt~~D~~KrK~E~l~~CP~C 166 (391)
T COG5432 89 RNRDL--LRKVLESLCRLPRPIKEERPCRWETVIAQDSASGDEEWEDDLASNSSPASIAKKTSRDSKKRKREDLVHCPAC 166 (391)
T ss_pred hccHH--HHHHHhcccCCCCchhhcCCCchhheeccccccccchhhhhhhhccChHHHHhhhhhHHHHhHHHhhhcCchh
Confidence 01111 1122344442 2234566643321100000 00000 0357899999
Q ss_pred cchhchhhHHHHHhhCCCCCCCCCCC------CCccccccccccccCCccchhhccCCC
Q 000596 133 AIQIVHRQVQEHAQNCPGVQPQASQP------EGVHDAAAIGTAATGDQSQVATQAGLT 185 (1400)
Q Consensus 133 gqqI~RkdLqeHLq~CPk~pVqCPn~------cg~tkiastt~~aa~dqSq~Ass~~~t 185 (1400)
...+..+.|+.|++.|-..+..-+.. ....+..+...+.+.|.+....+...+
T Consensus 167 ~~~~P~~~i~~HLD~CL~~~S~~~~~Ss~~~~~~N~~~~S~~~FK~~~~~i~K~~~~~~ 225 (391)
T COG5432 167 SNLVPHNQINQHLDSCLNSPSSPSSSSSPYKNKDNSKSNSLLSFKTDDDSITKRRLRSF 225 (391)
T ss_pred hccCchHHHHHHHHHHhcCCCCCcccCCCCCCCCCcccccccceecCCchhhhhhhccc
Confidence 99999999999999998775542211 234455555666666655555443333
No 3
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.12 E-value=1e-10 Score=135.62 Aligned_cols=63 Identities=17% Similarity=0.431 Sum_probs=54.2
Q ss_pred CchhhccccCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccccc
Q 000596 4 DNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADS 68 (1400)
Q Consensus 4 D~e~IvfVd~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdL 68 (1400)
-.+.+..++.++..|+|+||+++| .+|+++.|+|+||..||..|+.....||+|+..+....+
T Consensus 13 ~~t~~~~l~~Le~~l~C~IC~d~~--~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L 75 (397)
T TIGR00599 13 LTTPIPSLYPLDTSLRCHICKDFF--DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL 75 (397)
T ss_pred ccCCcccccccccccCCCcCchhh--hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccC
Confidence 334455678899999999999999 899999999999999999999887889999998765443
No 4
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.01 E-value=8.3e-11 Score=131.95 Aligned_cols=65 Identities=23% Similarity=0.521 Sum_probs=58.3
Q ss_pred CCchhhccccCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccccch
Q 000596 3 FDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1400)
Q Consensus 3 FD~e~IvfVd~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLk 69 (1400)
|..+.|..+..|++.|.|-||.++| +.|++++|+|+||.-||++++.....||.|+..+++.+++
T Consensus 9 w~~tsipslk~lD~lLRC~IC~eyf--~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 9 WPPTSIPSLKTLDDLLRCGICFEYF--NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred CCCccCchhhhhHHHHHHhHHHHHh--cCceeccccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 4445566778888999999999999 9999999999999999999999999999999999887765
No 5
>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=98.87 E-value=2.2e-09 Score=93.20 Aligned_cols=50 Identities=16% Similarity=0.337 Sum_probs=45.3
Q ss_pred ccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccccc
Q 000596 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADS 68 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdL 68 (1400)
+|.|+||++++ ++|+.+.|||+||+.||.+|+.....||+|+..++..++
T Consensus 1 ~~~Cpi~~~~~--~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l 50 (63)
T smart00504 1 EFLCPISLEVM--KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDL 50 (63)
T ss_pred CcCCcCCCCcC--CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhc
Confidence 47899999999 999999999999999999999888899999998866543
No 6
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=98.86 E-value=3e-09 Score=119.90 Aligned_cols=112 Identities=24% Similarity=0.456 Sum_probs=95.3
Q ss_pred CCCccccccCccCCCCCCC-EEcCCCCccchhhHHHHHhcCCCCCCCCcccccccchhhhcccccchhhhhhHHHhhhcc
Q 000596 14 LAGEYFCPVCRLLVYPNEA-LQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGK 92 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDP-VQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLkllvee~IFPlIesNK~LereIek 92 (1400)
+.+.|.||||.+.+ ..| ++|.-||+.|..|..+.. .+||.||..+... + +.+++++++.
T Consensus 45 ~~~lleCPvC~~~l--~~Pi~QC~nGHlaCssC~~~~~---~~CP~Cr~~~g~~--R-------------~~amEkV~e~ 104 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPL--SPPIFQCDNGHLACSSCRTKVS---NKCPTCRLPIGNI--R-------------CRAMEKVAEA 104 (299)
T ss_pred chhhccCchhhccC--cccceecCCCcEehhhhhhhhc---ccCCccccccccH--H-------------HHHHHHHHHh
Confidence 34567899999999 444 668999999999997653 5899999988632 2 4678889999
Q ss_pred eeeecccCCCCCceeecccccccccCCCCCCCccccCC----cccchhchhhHHHHHhh
Q 000596 93 ITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCN----RCAIQIVHRQVQEHAQN 147 (1400)
Q Consensus 93 LkVkCpn~k~GCqw~gkLkdLkkHl~tC~y~~RpV~Cp----~CgqqI~RkdLqeHLq~ 147 (1400)
+.|.|+|.+.||+|.+.+.+..+|++.|.|. +..|+ .|+..-..+++..|+..
T Consensus 105 ~~vpC~~~~~GC~~~~~Y~~~~~HE~~C~f~--~~~CP~p~~~C~~~G~~~~l~~H~~~ 161 (299)
T KOG3002|consen 105 VLVPCKNAKLGCTKSFPYGEKSKHEKVCEFR--PCSCPVPGAECKYTGSYKDLYAHLND 161 (299)
T ss_pred ceecccccccCCceeeccccccccccccccC--CcCCCCCcccCCccCcHHHHHHHHHh
Confidence 9999999999999999999999999999995 88884 79999999999999863
No 7
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=4.8e-09 Score=110.28 Aligned_cols=53 Identities=26% Similarity=0.664 Sum_probs=46.3
Q ss_pred CccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADS 68 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdL 68 (1400)
..|.|+||++-+..+.++.+.|||+||+.||++.++...+||+|++.|+.+.+
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 45899999999865667779999999999999999999999999998876643
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.73 E-value=8.3e-09 Score=110.13 Aligned_cols=55 Identities=27% Similarity=0.594 Sum_probs=46.9
Q ss_pred CCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhc----------------CCCCCCCCcccccccch
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT----------------TQACPYDGYLVTEADSK 69 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLks----------------s~kCPvCRq~It~kdLk 69 (1400)
++.+++.|+||++.+ ++|+++.|||.||..||.+|+.. ...||+||..++...+.
T Consensus 14 ~~~~~~~CpICld~~--~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 14 DSGGDFDCNICLDQV--RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred cCCCccCCccCCCcC--CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 456789999999999 99999999999999999999742 24799999998776544
No 9
>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=98.68 E-value=1.2e-08 Score=93.10 Aligned_cols=54 Identities=17% Similarity=0.394 Sum_probs=43.7
Q ss_pred CCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhc-CCCCCCCCcccccccch
Q 000596 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLVTEADSK 69 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLks-s~kCPvCRq~It~kdLk 69 (1400)
++++|+|+||.++| +|||++.|||+||+.||++|+.. ...||.|+..++..++.
T Consensus 1 iP~~f~CpIt~~lM--~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 1 IPDEFLCPITGELM--RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI 55 (73)
T ss_dssp SSGGGB-TTTSSB---SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE
T ss_pred CCcccCCcCcCcHh--hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce
Confidence 35789999999999 99999999999999999999998 78999999988776543
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=1.3e-08 Score=110.48 Aligned_cols=53 Identities=28% Similarity=0.606 Sum_probs=46.8
Q ss_pred CCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcC---CCCCCCCcccccccch
Q 000596 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT---QACPYDGYLVTEADSK 69 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss---~kCPvCRq~It~kdLk 69 (1400)
...|.|.||++.- +|||+|.|||+||..||.+|+... ..||+|+..++.+.+.
T Consensus 45 ~~~FdCNICLd~a--kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 45 GGFFDCNICLDLA--KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred CCceeeeeecccc--CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEE
Confidence 4578999999999 999999999999999999999763 5799999998877544
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.53 E-value=4.9e-08 Score=81.32 Aligned_cols=38 Identities=29% Similarity=0.836 Sum_probs=30.8
Q ss_pred cccCccCCCCCCCEEcCCCCccchhhHHHHHhcC----CCCCCC
Q 000596 20 CPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT----QACPYD 59 (1400)
Q Consensus 20 CPICleVL~pkDPVQT~CGHtFCssCIeKwLkss----~kCPvC 59 (1400)
|+||+++| ++||.+.|||+||..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~--~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF--KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB---SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh--CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 999999999999999999999764 369987
No 12
>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=98.43 E-value=1.2e-07 Score=76.92 Aligned_cols=38 Identities=26% Similarity=0.823 Sum_probs=33.3
Q ss_pred cccCccCCCCCCC-EEcCCCCccchhhHHHHHhcCCCCCCC
Q 000596 20 CPVCRLLVYPNEA-LQSQCTHLYCKPCLTYIVNTTQACPYD 59 (1400)
Q Consensus 20 CPICleVL~pkDP-VQT~CGHtFCssCIeKwLkss~kCPvC 59 (1400)
|+||++.+ .++ +.+.|||+||+.||.+|++.+.+||+|
T Consensus 1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999 889 468999999999999999998899987
No 13
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.33 E-value=3.4e-07 Score=100.87 Aligned_cols=49 Identities=22% Similarity=0.618 Sum_probs=40.4
Q ss_pred CCccccccCccCCCCCC-------CEEcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 15 AGEYFCPVCRLLVYPNE-------ALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 15 eEeLiCPICleVL~pkD-------PVQT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
.++..|+||++.+. .+ ++.+.|+|.||..||.+|+.....||+||..+.
T Consensus 172 ~~~~eC~ICle~~~-~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVY-DKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccc-cCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 45688999999872 22 244689999999999999998899999998764
No 14
>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=98.33 E-value=3.2e-07 Score=77.93 Aligned_cols=47 Identities=21% Similarity=0.602 Sum_probs=40.4
Q ss_pred CccccccCccCCCCCCCEEcCCCCc-cchhhHHHHHhcCCCCCCCCcccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTHL-YCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGHt-FCssCIeKwLkss~kCPvCRq~It 64 (1400)
++..|.||++.. .+.+...|||. ||..|+.+|+.....||+||..|+
T Consensus 1 ~~~~C~iC~~~~--~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENP--RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSB--SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CcCCCccCCccC--CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 357899999998 78888899999 999999999998899999998774
No 15
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.30 E-value=8.5e-08 Score=86.99 Aligned_cols=53 Identities=21% Similarity=0.506 Sum_probs=29.9
Q ss_pred CCCCccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcCCCCCCCCcccccccch
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLk 69 (1400)
.+++.|.|++|.++| ++||.+ .|.|+||+.||.+.+. ..||+|+++.+..+++
T Consensus 3 ~le~lLrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 3 RLEELLRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp HHHHTTS-SSS-S----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred HHHHhcCCcHHHHHh--cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence 355678999999999 999874 9999999999988655 4599999998877655
No 16
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=3.4e-07 Score=94.73 Aligned_cols=48 Identities=29% Similarity=0.632 Sum_probs=42.6
Q ss_pred cCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCc
Q 000596 12 QSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGY 61 (1400)
Q Consensus 12 d~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq 61 (1400)
..+.+++.|+||++.| ++|+++.|+|+||..||..++.....||.||.
T Consensus 8 ~~~~~~~~C~iC~~~~--~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYF--REPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred hhccccccChhhHHHh--hcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 4567889999999999 89977899999999999999884468999994
No 17
>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=98.27 E-value=3.2e-07 Score=75.89 Aligned_cols=42 Identities=19% Similarity=0.599 Sum_probs=34.9
Q ss_pred ccccCccCCCC-CCCEEcCCCCccchhhHHHHHhcCCCCCCCC
Q 000596 19 FCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTTQACPYDG 60 (1400)
Q Consensus 19 iCPICleVL~p-kDPVQT~CGHtFCssCIeKwLkss~kCPvCR 60 (1400)
.|+||++.+.. +..+.+.|+|+||..||.+|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 59999998843 3345579999999999999999999999997
No 18
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=5.3e-07 Score=100.80 Aligned_cols=50 Identities=16% Similarity=0.433 Sum_probs=45.0
Q ss_pred CccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCccccccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEAD 67 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kd 67 (1400)
....|.+|++.. .+|--|+|||+||-.||..|..+...||.||..+...+
T Consensus 238 a~~kC~LCLe~~--~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 238 ATRKCSLCLENR--SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCceEEEecCC--CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 348999999999 89999999999999999999999899999998876543
No 19
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.13 E-value=4.1e-07 Score=110.43 Aligned_cols=130 Identities=18% Similarity=0.307 Sum_probs=74.4
Q ss_pred ccccccCccCCCCCCCEE---cCCCCccchhhHHHHHhcCCCCCCCCcccccccchhhh-cccccchhhhhhHHHhhhcc
Q 000596 17 EYFCPVCRLLVYPNEALQ---SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVL-SSAVVPLVESNKALAETIGK 92 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQ---T~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLkllv-ee~IFPlIesNK~LereIek 92 (1400)
.-.|++|+.-+ .+-++ ..|+|.||..||..|.+...+||+||..|....+.... .+.++.++.++..- +.++
T Consensus 123 ~~~CP~Ci~s~--~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~~~~vR~lP~EEs~-~~~e- 198 (1134)
T KOG0825|consen 123 ENQCPNCLKSC--NDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGIEANVRCLPSEESE-NILE- 198 (1134)
T ss_pred hhhhhHHHHHH--HHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeeeccccccceeEecchhhhh-hhhh-
Confidence 34699999877 55544 39999999999999999999999999987654322111 11222222111110 0000
Q ss_pred eeeecccCCCCCceee-ccccc---ccccCCCCCC---CccccCCcccch-hchhhHHHHHhhCCCCCCCCCCCC
Q 000596 93 ITVHCLFHRSGCTWQG-PLSEC---TSHCSGCAFG---NSPVVCNRCAIQ-IVHRQVQEHAQNCPGVQPQASQPE 159 (1400)
Q Consensus 93 LkVkCpn~k~GCqw~g-kLkdL---kkHl~tC~y~---~RpV~Cp~Cgqq-I~RkdLqeHLq~CPk~pVqCPn~c 159 (1400)
+ +-+... .+... ..-|..|... +.++.|..|+.. |...+|+--+.+-+...+.|+||-
T Consensus 199 ~---------~~d~~~d~~~~~~~E~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 199 K---------GGDEKQDQISGLSQEEVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCS 264 (1134)
T ss_pred h---------ccccccccccCcccccccceeeccCChHHhheeecccccceeeccccCcccccccccceecCcch
Confidence 0 000000 00000 1122233221 457888888876 666677776666777788888774
No 20
>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=98.12 E-value=2.2e-06 Score=68.06 Aligned_cols=42 Identities=24% Similarity=0.705 Sum_probs=36.7
Q ss_pred ccccCccCCCCCCCEEc-CCCCccchhhHHHHHhc-CCCCCCCCcc
Q 000596 19 FCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT-TQACPYDGYL 62 (1400)
Q Consensus 19 iCPICleVL~pkDPVQT-~CGHtFCssCIeKwLks-s~kCPvCRq~ 62 (1400)
.|+||++.+ .+++.+ .|+|.||..|+.+|+.. ...||.|+..
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 499999998 777776 59999999999999987 6789999864
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=98.12 E-value=1.8e-06 Score=70.09 Aligned_cols=38 Identities=26% Similarity=0.787 Sum_probs=34.1
Q ss_pred cccCccCCCCCCCE-EcCCCCccchhhHHHHHh--cCCCCCCC
Q 000596 20 CPVCRLLVYPNEAL-QSQCTHLYCKPCLTYIVN--TTQACPYD 59 (1400)
Q Consensus 20 CPICleVL~pkDPV-QT~CGHtFCssCIeKwLk--ss~kCPvC 59 (1400)
|+||.+++ .+++ .+.|+|.||..||.+|++ ....||.|
T Consensus 1 C~iC~~~~--~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF--EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC--SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc--cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999 8888 679999999999999998 34689987
No 22
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.00 E-value=5e-06 Score=94.52 Aligned_cols=54 Identities=22% Similarity=0.564 Sum_probs=40.2
Q ss_pred CccccccCccCCCCCCCE--E-cCCCCccchhhHHHHHhcC-CCCCCCCcccccccch
Q 000596 16 GEYFCPVCRLLVYPNEAL--Q-SQCTHLYCKPCLTYIVNTT-QACPYDGYLVTEADSK 69 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPV--Q-T~CGHtFCssCIeKwLkss-~kCPvCRq~It~kdLk 69 (1400)
+++.||||+...+.+.-+ . ..|||.||..||..++... ..||.|+..++...+.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 457899999843223222 2 3799999999999987654 5899999988877654
No 23
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=4.4e-07 Score=103.47 Aligned_cols=58 Identities=17% Similarity=0.560 Sum_probs=48.5
Q ss_pred hhccccCCCCccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcC-CCCCCCCcccccc
Q 000596 7 CILNIQSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT-QACPYDGYLVTEA 66 (1400)
Q Consensus 7 ~IvfVd~LeEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss-~kCPvCRq~It~k 66 (1400)
+.+.+..+...++|+||+.+| +..+.+ .|.|.||..||.+.++.+ ..||+||+.+...
T Consensus 33 i~~~l~~~~~~v~c~icl~ll--k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 33 IMVDLAMFDIQVICPICLSLL--KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred heecHHHhhhhhccHHHHHHH--HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 444556677889999999999 788877 999999999999998875 6899999876543
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=3.3e-06 Score=100.21 Aligned_cols=51 Identities=25% Similarity=0.625 Sum_probs=45.4
Q ss_pred ccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcC-----CCCCCCCcccccccch
Q 000596 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT-----QACPYDGYLVTEADSK 69 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss-----~kCPvCRq~It~kdLk 69 (1400)
++.||||++.. ..|+.+.|||+||-.||..+|..+ ..||+|+..|+..+++
T Consensus 186 ~~~CPICL~~~--~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPP--SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCC--CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 78899999988 789999999999999999988654 4899999999888776
No 25
>PHA02926 zinc finger-like protein; Provisional
Probab=97.94 E-value=4.3e-06 Score=91.22 Aligned_cols=52 Identities=25% Similarity=0.632 Sum_probs=39.8
Q ss_pred CCCCccccccCccCCCCC----C---CEEcCCCCccchhhHHHHHhcC------CCCCCCCcccc
Q 000596 13 SLAGEYFCPVCRLLVYPN----E---ALQSQCTHLYCKPCLTYIVNTT------QACPYDGYLVT 64 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pk----D---PVQT~CGHtFCssCIeKwLkss------~kCPvCRq~It 64 (1400)
...++..|+||+++++.+ + .+...|+|.||..||.+|.+.. ..||.||..+.
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 445689999999886321 1 2345999999999999999752 36999998764
No 26
>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=97.89 E-value=1e-05 Score=61.99 Aligned_cols=38 Identities=24% Similarity=0.815 Sum_probs=34.0
Q ss_pred cccCccCCCCCCCEEcCCCCccchhhHHHHHh-cCCCCCCC
Q 000596 20 CPVCRLLVYPNEALQSQCTHLYCKPCLTYIVN-TTQACPYD 59 (1400)
Q Consensus 20 CPICleVL~pkDPVQT~CGHtFCssCIeKwLk-ss~kCPvC 59 (1400)
|+||++.. ++++.+.|+|.||..|+.+|+. ....||+|
T Consensus 1 C~iC~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL--KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC--CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 89999998 7888899999999999999998 45679987
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.80 E-value=1e-05 Score=68.39 Aligned_cols=35 Identities=31% Similarity=0.997 Sum_probs=22.4
Q ss_pred cccCccCCCCCC----CEEcCCCCccchhhHHHHHhcC----CCCC
Q 000596 20 CPVCRLLVYPNE----ALQSQCTHLYCKPCLTYIVNTT----QACP 57 (1400)
Q Consensus 20 CPICleVL~pkD----PVQT~CGHtFCssCIeKwLkss----~kCP 57 (1400)
|+||++ + .+ |+.+.|||+||++||.++++.+ .+||
T Consensus 1 CpIc~e-~--~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-F--STEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-------TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-c--cCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 999999 7 56 8999999999999999999853 2565
No 28
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.79 E-value=1.6e-05 Score=66.45 Aligned_cols=43 Identities=21% Similarity=0.586 Sum_probs=35.3
Q ss_pred ccccCccCCCC-CCCEEcCCCCccchhhHHHHHhcCCCCCCCCc
Q 000596 19 FCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTTQACPYDGY 61 (1400)
Q Consensus 19 iCPICleVL~p-kDPVQT~CGHtFCssCIeKwLkss~kCPvCRq 61 (1400)
.|+||.+.+.. ..++++.|||+||..||.++......||+|++
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 49999988822 34677899999999999999855679999984
No 29
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=7.2e-06 Score=100.88 Aligned_cols=55 Identities=22% Similarity=0.512 Sum_probs=47.5
Q ss_pred CCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhc-CCCCCCCCcccccccch
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLVTEADSK 69 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLks-s~kCPvCRq~It~kdLk 69 (1400)
.....|.|++|..-+ +|.+++.|+|+||..|+.+.+.. ..+||.|.+.|...++.
T Consensus 639 ~yK~~LkCs~Cn~R~--Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 639 EYKELLKCSVCNTRW--KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred HHHhceeCCCccCch--hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 345678999999888 99999999999999999998765 57999999999877654
No 30
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.67 E-value=1.2e-05 Score=91.69 Aligned_cols=56 Identities=20% Similarity=0.593 Sum_probs=48.0
Q ss_pred ccccCCCCccccccCccCCCCCCCEE-cCCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 9 LNIQSLAGEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 9 vfVd~LeEeLiCPICleVL~pkDPVQ-T~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
+.+..+..-.+|.+|..+| .|+.+ +.|-|+||+.||.+.+.....||.|...+...
T Consensus 7 vk~~~~n~~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 7 VKLTELNPHITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred hhhhhcccceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 3456777889999999999 78876 49999999999999999999999999876543
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.62 E-value=2.6e-05 Score=86.86 Aligned_cols=50 Identities=24% Similarity=0.462 Sum_probs=42.8
Q ss_pred CCccccccCccCCCCCCCEEcCCCCccchhhHHH-HHhcCC-CCCCCCcccccc
Q 000596 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTY-IVNTTQ-ACPYDGYLVTEA 66 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT~CGHtFCssCIeK-wLkss~-kCPvCRq~It~k 66 (1400)
..+|.|.||++.. .++..+.|||+||-.||.- |..... .||.||..+..+
T Consensus 213 ~~d~kC~lC~e~~--~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEP--EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeeccc--CCcccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 4579999999999 8999999999999999999 776654 699999866443
No 32
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.58 E-value=3.2e-05 Score=86.91 Aligned_cols=42 Identities=24% Similarity=0.714 Sum_probs=37.9
Q ss_pred cccccCccCCCCCCCEEc-CCCCccchhhHHHHHhc-CCCCCCCCc
Q 000596 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT-TQACPYDGY 61 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLks-s~kCPvCRq 61 (1400)
|.|++|..++ ++|+.+ +|+|.||..||...+-. ...||.|..
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 8999999999 899998 99999999999987755 579999975
No 33
>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=97.40 E-value=0.00014 Score=67.22 Aligned_cols=39 Identities=21% Similarity=0.713 Sum_probs=32.5
Q ss_pred cccCccCCCCCCC------------EE-cCCCCccchhhHHHHHhcCCCCCCCC
Q 000596 20 CPVCRLLVYPNEA------------LQ-SQCTHLYCKPCLTYIVNTTQACPYDG 60 (1400)
Q Consensus 20 CPICleVL~pkDP------------VQ-T~CGHtFCssCIeKwLkss~kCPvCR 60 (1400)
|.||++.| .++ +. ..|+|.|...||.+|++....||+||
T Consensus 22 C~IC~~~l--~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 22 CAICREPL--EDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp ETTTTSBT--TSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred ccccChhh--hChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 99999988 222 22 38999999999999999989999997
No 34
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=8.7e-05 Score=90.06 Aligned_cols=48 Identities=19% Similarity=0.495 Sum_probs=42.1
Q ss_pred ccccccCccCCCCCC-----CEEcCCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 17 EYFCPVCRLLVYPNE-----ALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 17 eLiCPICleVL~pkD-----PVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
+..|.||.+.+ .. +..+.|+|+||..|+..|++....||.||..+...
T Consensus 291 ~~~C~IC~e~l--~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 291 DELCIICLEEL--HSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred CCeeeeechhh--ccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 56899999999 56 67789999999999999999999999999854443
No 35
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.25 E-value=0.00013 Score=78.66 Aligned_cols=45 Identities=18% Similarity=0.552 Sum_probs=41.4
Q ss_pred ccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
.|.|-||..-+ +.||.+.|||.||..|..+-...+..|-+|....
T Consensus 196 PF~C~iCKkdy--~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDY--ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhc--cchhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 37899999999 8999999999999999999988899999998754
No 36
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.00033 Score=79.43 Aligned_cols=49 Identities=18% Similarity=0.401 Sum_probs=40.6
Q ss_pred CCccccccCccCCCCCCCEE-cCCCCccchhhHHHHHhc-CCCCCCCCccc
Q 000596 15 AGEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNT-TQACPYDGYLV 63 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQ-T~CGHtFCssCIeKwLks-s~kCPvCRq~I 63 (1400)
..-..|.||++-|.+.|-+. ++|.|.|-..|+++|+.. ...||+||+.+
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 34478999998876655555 699999999999999984 57999999876
No 37
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.02 E-value=0.0005 Score=83.98 Aligned_cols=124 Identities=15% Similarity=0.353 Sum_probs=75.5
Q ss_pred CccccccCccCCCCCCCEE---cCCCC--ccch--hhHHHHH----hcCCCCCCCCcccccccchhhhcccccchhhhhh
Q 000596 16 GEYFCPVCRLLVYPNEALQ---SQCTH--LYCK--PCLTYIV----NTTQACPYDGYLVTEADSKVVLSSAVVPLVESNK 84 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQ---T~CGH--tFCs--sCIeKwL----kss~kCPvCRq~It~kdLkllvee~IFPlIesNK 84 (1400)
+...|+-|...+. ..-+. ..|.. +.|. .|-..+. .+...|+.|...+.... ..+
T Consensus 406 ~~V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~s~--------------Lek 470 (567)
T PLN03086 406 DTVECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQGE--------------MEK 470 (567)
T ss_pred CeEECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccchHH--------------HHH
Confidence 3457998886551 11111 13322 2333 2333322 22347999977664221 123
Q ss_pred HHHhhhcceeeecccCCCCCceeecccccccccC-CCCCCCccccCCcccchhc-----------hhhHHHHHhhCCCCC
Q 000596 85 ALAETIGKITVHCLFHRSGCTWQGPLSECTSHCS-GCAFGNSPVVCNRCAIQIV-----------HRQVQEHAQNCPGVQ 152 (1400)
Q Consensus 85 ~LereIekLkVkCpn~k~GCqw~gkLkdLkkHl~-tC~y~~RpV~Cp~CgqqI~-----------RkdLqeHLq~CPk~p 152 (1400)
+.+. + ...+.|+ |.......+|..|.. .|+. +++.|.+|+..+. ...|..|+..|..+.
T Consensus 471 H~~~-~-Hkpv~Cp-----Cg~~~~R~~L~~H~~thCp~--Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt 541 (567)
T PLN03086 471 HMKV-F-HEPLQCP-----CGVVLEKEQMVQHQASTCPL--RLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRT 541 (567)
T ss_pred HHHh-c-CCCccCC-----CCCCcchhHHHhhhhccCCC--CceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcc
Confidence 3322 2 3567775 666666678888974 6998 4999999999885 347999999999999
Q ss_pred CCCCCCCCcccc
Q 000596 153 PQASQPEGVHDA 164 (1400)
Q Consensus 153 VqCPn~cg~tki 164 (1400)
+.|. .|+...+
T Consensus 542 ~~C~-~Cgk~Vr 552 (567)
T PLN03086 542 APCD-SCGRSVM 552 (567)
T ss_pred eEcc-ccCCeee
Confidence 9995 5544433
No 38
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.95 E-value=0.00037 Score=83.14 Aligned_cols=53 Identities=23% Similarity=0.510 Sum_probs=44.8
Q ss_pred CCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhc-----CCCCCCCCccccccc
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT-----TQACPYDGYLVTEAD 67 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLks-----s~kCPvCRq~It~kd 67 (1400)
+-..+.+|.+|.++- .|++.+.|.|.||+-||.+++.. +-+||+|...++...
T Consensus 532 enk~~~~C~lc~d~a--ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPA--EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred cccCceeecccCChh--hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 344668899999999 89999999999999999998754 358999998877653
No 39
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.00046 Score=81.44 Aligned_cols=51 Identities=24% Similarity=0.575 Sum_probs=45.4
Q ss_pred CCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCccccc
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~ 65 (1400)
.+..+|.|-||..+| ..|+.++|||.||..||.+.+.....||.||..+..
T Consensus 80 ~~~sef~c~vc~~~l--~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRAL--YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhc--CCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 346789999999999 789999999999999999988878899999987753
No 40
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.79 E-value=0.0016 Score=79.82 Aligned_cols=89 Identities=17% Similarity=0.341 Sum_probs=62.7
Q ss_pred CCCCCCcccccccchhhhcccccchhhhhhHHHhhhcceeeecccCCCCCceeeccccccccc--CCCCCC---------
Q 000596 55 ACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHC--SGCAFG--------- 123 (1400)
Q Consensus 55 kCPvCRq~It~kdLkllvee~IFPlIesNK~LereIekLkVkCpn~k~GCqw~gkLkdLkkHl--~tC~y~--------- 123 (1400)
.|+.|...+....+. .+ ...|....|.|++ .+|...+..+++++|+ ..|...
T Consensus 409 ~C~NC~~~i~l~~l~--------------lH-e~~C~r~~V~Cp~--~~Cg~v~~r~el~~H~~C~~Cgk~f~~s~LekH 471 (567)
T PLN03086 409 ECRNCKHYIPSRSIA--------------LH-EAYCSRHNVVCPH--DGCGIVLRVEEAKNHVHCEKCGQAFQQGEMEKH 471 (567)
T ss_pred ECCCCCCccchhHHH--------------HH-HhhCCCcceeCCc--ccccceeeccccccCccCCCCCCccchHHHHHH
Confidence 588888766543221 12 2467778888886 3777777777777764 445321
Q ss_pred ----CccccCCcccchhchhhHHHHHh-hCCCCCCCCCCCCCc
Q 000596 124 ----NSPVVCNRCAIQIVHRQVQEHAQ-NCPGVQPQASQPEGV 161 (1400)
Q Consensus 124 ----~RpV~Cp~CgqqI~RkdLqeHLq-~CPk~pVqCPn~cg~ 161 (1400)
..++.|+ |+..+.+.+|..|+. .|+.+++.|+.|...
T Consensus 472 ~~~~Hkpv~Cp-Cg~~~~R~~L~~H~~thCp~Kpi~C~fC~~~ 513 (567)
T PLN03086 472 MKVFHEPLQCP-CGVVLEKEQMVQHQASTCPLRLITCRFCGDM 513 (567)
T ss_pred HHhcCCCccCC-CCCCcchhHHHhhhhccCCCCceeCCCCCCc
Confidence 1357899 999899999999976 799999999985543
No 41
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.78 E-value=0.00076 Score=78.14 Aligned_cols=52 Identities=21% Similarity=0.434 Sum_probs=41.8
Q ss_pred CCccccccCccCCC-C----------CCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 15 AGEYFCPVCRLLVY-P----------NEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 15 eEeLiCPICleVL~-p----------kDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
.++-+|.||++-+. + ..|+.++|||++--.|++.|++...+||+||.++-..
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd 347 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFD 347 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccc
Confidence 35678999997631 1 1347789999999999999999999999999985443
No 42
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.73 E-value=0.00086 Score=74.48 Aligned_cols=53 Identities=19% Similarity=0.385 Sum_probs=45.9
Q ss_pred CCccccccCccCCCCCCCEEc----CCCCccchhhHHHHHhcCCCCCCCCcccccccch
Q 000596 15 AGEYFCPVCRLLVYPNEALQS----QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT----~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLk 69 (1400)
++.|+|+||++.| .+.+-| .|||+||..|.+++++....||+|...+.+.+|.
T Consensus 219 s~ryiCpvtrd~L--tNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 219 SKRYICPVTRDTL--TNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII 275 (303)
T ss_pred ccceecccchhhh--cCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence 3679999999999 665553 9999999999999999999999999998877653
No 43
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.73 E-value=0.00095 Score=77.56 Aligned_cols=48 Identities=19% Similarity=0.391 Sum_probs=39.7
Q ss_pred cccccCccCCCCCCCEE-cCCCCccchhhHHHHHhcCC-CCCCCCccccc
Q 000596 18 YFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQ-ACPYDGYLVTE 65 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQ-T~CGHtFCssCIeKwLkss~-kCPvCRq~It~ 65 (1400)
..|.||++-+...|-+. ++|.|.|=..||..|+.... .||+|+..+..
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 48999999985545444 69999999999999998875 59999986643
No 44
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=96.70 E-value=0.00039 Score=74.02 Aligned_cols=67 Identities=28% Similarity=0.459 Sum_probs=40.3
Q ss_pred hhHHHhhhcceeeecccCCCCCceeecccccccccCCCCCCCccccCCc----ccchhchhhHHHHHhhCCCC
Q 000596 83 NKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNR----CAIQIVHRQVQEHAQNCPGV 151 (1400)
Q Consensus 83 NK~LereIekLkVkCpn~k~GCqw~gkLkdLkkHl~tC~y~~RpV~Cp~----CgqqI~RkdLqeHLq~CPk~ 151 (1400)
+..+++.++.+.+-|.|...||.+...+.++.+|++.|.|. ++.|+. |++.-...+|.+|+......
T Consensus 3 ~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~--p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 3 NRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFR--PCSCPFPGSGCDWQGSYKELLDHLRDKHSW 73 (198)
T ss_dssp ------------EE-CCGGGT---EE-GGGHHHHHHT-TTS--EEE-SSSSTT---EEECCCHHHHHHHHTTT
T ss_pred cHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCc--CCcCCCCCCCccccCCHHHHHHHHHHHCCC
Confidence 45677888899999999999999999999999999999995 999965 99999999999999875554
No 45
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.62 E-value=0.00093 Score=59.68 Aligned_cols=45 Identities=18% Similarity=0.451 Sum_probs=31.4
Q ss_pred cCCCCccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhc--CCCCCC
Q 000596 12 QSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT--TQACPY 58 (1400)
Q Consensus 12 d~LeEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLks--s~kCPv 58 (1400)
+.-.-.+.|||.+.+| ++||.. .|+|+|.+..|..++.. ...||+
T Consensus 6 ~~~~~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 6 EGGTISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SSB--SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccEeccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3445568999999999 999996 99999999999999944 358998
No 46
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.0018 Score=73.00 Aligned_cols=48 Identities=27% Similarity=0.504 Sum_probs=40.8
Q ss_pred CCccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcC--CCCCCCCcccc
Q 000596 15 AGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT--QACPYDGYLVT 64 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss--~kCPvCRq~It 64 (1400)
..+.+|++|.+.- ..|.+. +|+|+||..||.+..... ..||.|...+.
T Consensus 237 t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4567899999988 899887 699999999999987654 68999997654
No 47
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.00094 Score=75.75 Aligned_cols=45 Identities=18% Similarity=0.496 Sum_probs=41.0
Q ss_pred cccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
+.|-||+..| .+||.+.|+|+||..|..+-+..+..|.+|...+.
T Consensus 242 f~c~icr~~f--~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYF--YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred cccccccccc--ccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 4599999999 89999999999999999999998899999987653
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.43 E-value=0.0012 Score=75.04 Aligned_cols=49 Identities=16% Similarity=0.374 Sum_probs=42.2
Q ss_pred ccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCC-CCCCCCccccccc
Q 000596 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQ-ACPYDGYLVTEAD 67 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~-kCPvCRq~It~kd 67 (1400)
.-+|.||++.. +-|+.+.|+|.||.-||+-...... .|++||..|....
T Consensus 7 ~~eC~IC~nt~--n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTG--NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccC--CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 34699999999 8899999999999999999887765 5999999887643
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.42 E-value=0.0011 Score=77.39 Aligned_cols=45 Identities=24% Similarity=0.636 Sum_probs=39.3
Q ss_pred ccccCccCCCCCCCEEcCCCCccchhhHHHHHhc--CCCCCCCCccccc
Q 000596 19 FCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT--TQACPYDGYLVTE 65 (1400)
Q Consensus 19 iCPICleVL~pkDPVQT~CGHtFCssCIeKwLks--s~kCPvCRq~It~ 65 (1400)
+|.||-+-- +|..+-+|||..|..|+..|..+ +..||.||++|.-
T Consensus 371 LCKICaend--KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 371 LCKICAEND--KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHhhccC--CCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 599999988 78888899999999999999855 4699999998753
No 50
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.37 E-value=0.0023 Score=61.60 Aligned_cols=34 Identities=21% Similarity=0.351 Sum_probs=27.9
Q ss_pred CEEc-CCCCccchhhHHHHHhcC---CCCCCCCccccc
Q 000596 32 ALQS-QCTHLYCKPCLTYIVNTT---QACPYDGYLVTE 65 (1400)
Q Consensus 32 PVQT-~CGHtFCssCIeKwLkss---~kCPvCRq~It~ 65 (1400)
|+.. .|+|.|-..||.+|+... ..||.||.....
T Consensus 46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 4443 899999999999999863 689999987654
No 51
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.34 E-value=0.0017 Score=74.54 Aligned_cols=56 Identities=18% Similarity=0.419 Sum_probs=42.1
Q ss_pred CCCCccccccCccCCCC--CCCEEcCCCCccchhhHHHHHhc-CCCCCCCCcccccccch
Q 000596 13 SLAGEYFCPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLVTEADSK 69 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~p--kDPVQT~CGHtFCssCIeKwLks-s~kCPvCRq~It~kdLk 69 (1400)
+-++++ |++|.+.+-. ++=+-|.||...|..|+..+..+ +.+||.||...+++.+.
T Consensus 11 edeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 11 EDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred cccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 445556 9999988711 12233899999999999998765 56999999988777655
No 52
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.21 E-value=0.0017 Score=76.25 Aligned_cols=103 Identities=20% Similarity=0.392 Sum_probs=59.5
Q ss_pred CccccccCccCCCCCC-CEEcCCCCccchhhHHHHHhcC--------CCCCCCCc--ccccccchhhhcccccchhhhhh
Q 000596 16 GEYFCPVCRLLVYPNE-ALQSQCTHLYCKPCLTYIVNTT--------QACPYDGY--LVTEADSKVVLSSAVVPLVESNK 84 (1400)
Q Consensus 16 EeLiCPICleVL~pkD-PVQT~CGHtFCssCIeKwLkss--------~kCPvCRq--~It~kdLkllvee~IFPlIesNK 84 (1400)
..|.|.||.+-..-.+ -+.++|+|+||+.|+..+.... .+||.|.+ ......++-++...+|...+ .-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe-~l 261 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYE-KL 261 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHH-HH
Confidence 5688999998661112 2336999999999999987531 47987554 33333344344444443322 12
Q ss_pred HHHhhhcce--eeecccCCCCCceeeccccccc---ccCCCCC
Q 000596 85 ALAETIGKI--TVHCLFHRSGCTWQGPLSECTS---HCSGCAF 122 (1400)
Q Consensus 85 ~LereIekL--kVkCpn~k~GCqw~gkLkdLkk---Hl~tC~y 122 (1400)
++++.++.+ .++|++. .|+... ..+... -|..|.|
T Consensus 262 ~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnF 301 (445)
T KOG1814|consen 262 MLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNF 301 (445)
T ss_pred HHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCcc
Confidence 233444444 4999986 675554 333333 3445555
No 53
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.97 E-value=0.0051 Score=64.98 Aligned_cols=85 Identities=22% Similarity=0.448 Sum_probs=58.8
Q ss_pred CccccccCccCCCCCCCEEcCCCC-------ccc------hhhHHHHHhc------------------------------
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTH-------LYC------KPCLTYIVNT------------------------------ 52 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGH-------tFC------ssCIeKwLks------------------------------ 52 (1400)
++..|+||++.- -++|.+.|.- ..| +.||+.+.+.
T Consensus 1 ed~~CpICme~P--HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 1 EDVTCPICMEHP--HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CCccCceeccCC--CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 457899999988 8999875542 245 3788887532
Q ss_pred -CCCCCCCCcccccccchhhhcccccchhhhhhHHHhhhcceeeecccCCCCCceeecccccccccC
Q 000596 53 -TQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCS 118 (1400)
Q Consensus 53 -s~kCPvCRq~It~kdLkllvee~IFPlIesNK~LereIekLkVkCpn~k~GCqw~gkLkdLkkHl~ 118 (1400)
...||.||-.|.-- .++ +.+++.++...-.|.. ++|.+.|.+.+|++|..
T Consensus 79 ~~L~CPLCRG~V~GW-----------tvv---e~AR~~LN~K~RsC~~--e~C~F~GtY~eLrKHar 129 (162)
T PF07800_consen 79 PELACPLCRGEVKGW-----------TVV---EPARRFLNAKKRSCSQ--ESCSFSGTYSELRKHAR 129 (162)
T ss_pred ccccCccccCceece-----------EEc---hHHHHHhccCCccCcc--cccccccCHHHHHHHHH
Confidence 02699999766321 111 2355667766777775 49999999999999873
No 54
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0049 Score=71.58 Aligned_cols=47 Identities=19% Similarity=0.435 Sum_probs=41.4
Q ss_pred CccccccCccCCCCCCCEEcCCCC-ccchhhHHHHHhcCCCCCCCCcccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGH-tFCssCIeKwLkss~kCPvCRq~It 64 (1400)
.-..|-||+.-. +|.++++|.| ..|+.|.+...-..+.||+||..|.
T Consensus 289 ~gkeCVIClse~--rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSES--RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCC--cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 357899999999 8999999999 5999999998866789999998764
No 55
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.89 E-value=0.0025 Score=55.58 Aligned_cols=40 Identities=28% Similarity=0.674 Sum_probs=21.6
Q ss_pred ccCCCCCCCccccCCc--ccchhchhhHHHHHh-hCCCCCCCCCC
Q 000596 116 HCSGCAFGNSPVVCNR--CAIQIVHRQVQEHAQ-NCPGVQPQASQ 157 (1400)
Q Consensus 116 Hl~tC~y~~RpV~Cp~--CgqqI~RkdLqeHLq-~CPk~pVqCPn 157 (1400)
|+..|++. .+.|++ |...|.|.+|.+|+. .|+++.|.|++
T Consensus 1 H~~~C~~~--~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 1 HEEECPFR--PVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp HHTTSTTS--EEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS
T ss_pred CcccCCCC--EeeCCCCCcccceeHHHHHHHHHccCCCCcEECCC
Confidence 44456653 566654 445566666666666 56666666665
No 56
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.005 Score=71.81 Aligned_cols=49 Identities=22% Similarity=0.551 Sum_probs=38.3
Q ss_pred CCccccccCccCCCCCCCE-----E---cCCCCccchhhHHHHHh--c-----CCCCCCCCccccc
Q 000596 15 AGEYFCPVCRLLVYPNEAL-----Q---SQCTHLYCKPCLTYIVN--T-----TQACPYDGYLVTE 65 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPV-----Q---T~CGHtFCssCIeKwLk--s-----s~kCPvCRq~It~ 65 (1400)
.++..|.||++.+ .+.. . ..|.|.||..||.+|.. . ...||.||...+.
T Consensus 159 s~~k~CGICme~i--~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETI--NEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhc--cccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 4578899999988 4444 2 37999999999999983 3 3689999976543
No 57
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.66 E-value=0.0092 Score=66.79 Aligned_cols=55 Identities=22% Similarity=0.423 Sum_probs=43.0
Q ss_pred CCCccccccCccCCCCCCCEE-c-CCCCccchhhHHHHHhcCCCCCCCCcccccccch
Q 000596 14 LAGEYFCPVCRLLVYPNEALQ-S-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQ-T-~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLk 69 (1400)
-...|+|||+...|.....+. + +|||+||..||..+- ....||+|...+...++-
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence 456799999999993222333 2 999999999999995 456899999999877643
No 58
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.66 E-value=0.0048 Score=53.81 Aligned_cols=52 Identities=25% Similarity=0.402 Sum_probs=39.7
Q ss_pred hhcceeeecccCCCCCceeecccccccccC-CCCCCCccccCCc----ccchhchhhHHHH
Q 000596 89 TIGKITVHCLFHRSGCTWQGPLSECTSHCS-GCAFGNSPVVCNR----CAIQIVHRQVQEH 144 (1400)
Q Consensus 89 eIekLkVkCpn~k~GCqw~gkLkdLkkHl~-tC~y~~RpV~Cp~----CgqqI~RkdLqeH 144 (1400)
.+....|.|++. +|...+..++|.+|+. .|++. .+.|.+ |++.+.+.+|.+|
T Consensus 4 ~C~~~~v~C~~~--cc~~~i~r~~l~~H~~~~C~~~--~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 4 ECPFRPVPCPNG--CCNEMIPRKELDDHLENECPKR--PVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp TSTTSEEE-TT----S-BEEECCCHHHHHHTTSTTS--EEE-SS----S--EEEHHHHHHC
T ss_pred cCCCCEeeCCCC--CcccceeHHHHHHHHHccCCCC--cEECCCCCCCCCCccchhHHhCC
Confidence 366778999974 6778889999999997 99995 999998 9999999999987
No 59
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.06 E-value=0.0067 Score=76.49 Aligned_cols=51 Identities=18% Similarity=0.451 Sum_probs=38.6
Q ss_pred CCCccccccCccCCC---CC-CCEEc-CCCCccchhhHHHHHhcC--CCCCCCCcccc
Q 000596 14 LAGEYFCPVCRLLVY---PN-EALQS-QCTHLYCKPCLTYIVNTT--QACPYDGYLVT 64 (1400)
Q Consensus 14 LeEeLiCPICleVL~---pk-DPVQT-~CGHtFCssCIeKwLkss--~kCPvCRq~It 64 (1400)
.+..-+|+||..++. .+ ....| +|.|-|-..|+.+|.+++ ..||.||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 345567999999881 00 12336 899999999999999875 58999997664
No 60
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.64 E-value=0.011 Score=66.87 Aligned_cols=50 Identities=22% Similarity=0.493 Sum_probs=38.4
Q ss_pred CccccccCccCCCCCC----------CEEcCCCCccchhhHHHHHhcC--CCCCCCCccccccc
Q 000596 16 GEYFCPVCRLLVYPNE----------ALQSQCTHLYCKPCLTYIVNTT--QACPYDGYLVTEAD 67 (1400)
Q Consensus 16 EeLiCPICleVL~pkD----------PVQT~CGHtFCssCIeKwLkss--~kCPvCRq~It~kd 67 (1400)
++-.|.||..-+ .. ...+.|+|+|-..||+-|...+ .+||.|++.++.+.
T Consensus 223 ~d~vCaVCg~~~--~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 223 SDSVCAVCGQQI--DVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CcchhHhhcchh--eeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 345699999755 22 2346999999999999998654 58999998876543
No 61
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=94.63 E-value=0.012 Score=70.20 Aligned_cols=46 Identities=24% Similarity=0.495 Sum_probs=36.4
Q ss_pred CCccccccCccCCCCCCCE----EcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 15 AGEYFCPVCRLLVYPNEAL----QSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPV----QT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
.+.-+|+||++-| +..+ .+-|-|.|=-.|+.+|+. .+||+||....
T Consensus 173 tELPTCpVCLERM--D~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERM--DSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhc--CccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 3456799999998 4443 259999999999999975 68999996543
No 62
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.34 E-value=0.0099 Score=53.47 Aligned_cols=45 Identities=18% Similarity=0.388 Sum_probs=37.5
Q ss_pred cccccCccCCCCCCCEEcCCCC-ccchhhHHHHHh-cCCCCCCCCcccc
Q 000596 18 YFCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVN-TTQACPYDGYLVT 64 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT~CGH-tFCssCIeKwLk-ss~kCPvCRq~It 64 (1400)
-+|-||.+-- .|.|.-.||| ..|..|-.+.++ ....||+||.+|.
T Consensus 8 dECTICye~p--vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHP--VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCc--chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 4699999877 6778789999 589999998877 4578999998764
No 63
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.32 E-value=0.022 Score=68.37 Aligned_cols=49 Identities=18% Similarity=0.441 Sum_probs=36.5
Q ss_pred CCccccccCccCCCC---------------CCCEEcCCCCccchhhHHHHHhc-CCCCCCCCccc
Q 000596 15 AGEYFCPVCRLLVYP---------------NEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLV 63 (1400)
Q Consensus 15 eEeLiCPICleVL~p---------------kDPVQT~CGHtFCssCIeKwLks-s~kCPvCRq~I 63 (1400)
++...|.||+..+.. ++-+.++|.|+|-+.|++.|+.. +..||+||+.+
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 456679999965510 01122489999999999999985 45899999876
No 64
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.14 E-value=0.016 Score=67.05 Aligned_cols=48 Identities=17% Similarity=0.381 Sum_probs=37.4
Q ss_pred CCCccccccCccCCCCCCCEEcCCCCccchhhHHHHH--hcCCCCCCCCccc
Q 000596 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIV--NTTQACPYDGYLV 63 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwL--kss~kCPvCRq~I 63 (1400)
-+++.+|-||-.-+ .=...++|+|..|.-|..+.. -....|++||+..
T Consensus 58 DEen~~C~ICA~~~--TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAGST--TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccceeEEecCCc--eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 45678899999877 334457999999999988754 3467899999753
No 65
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=93.89 E-value=0.042 Score=62.81 Aligned_cols=51 Identities=25% Similarity=0.625 Sum_probs=38.7
Q ss_pred ccccCccCCCCCCCEE---cCCCCccchhhHHHHHhcC-CCCCCCCcccccccch
Q 000596 19 FCPVCRLLVYPNEALQ---SQCTHLYCKPCLTYIVNTT-QACPYDGYLVTEADSK 69 (1400)
Q Consensus 19 iCPICleVL~pkDPVQ---T~CGHtFCssCIeKwLkss-~kCPvCRq~It~kdLk 69 (1400)
.|++|+.-.|.+..+. -.|+|..|..|+..+...+ ..||.|...+....++
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 4999996443232222 3999999999999998765 5899999988777655
No 66
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=93.73 E-value=0.03 Score=72.82 Aligned_cols=55 Identities=16% Similarity=0.434 Sum_probs=40.5
Q ss_pred CCccccccCccCCCCCCC-EEcCCCCccchhhHHHHHhcC----------CCCCCCCcccccccch
Q 000596 15 AGEYFCPVCRLLVYPNEA-LQSQCTHLYCKPCLTYIVNTT----------QACPYDGYLVTEADSK 69 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDP-VQT~CGHtFCssCIeKwLkss----------~kCPvCRq~It~kdLk 69 (1400)
+.+-.|-||..--+-..| +++.|+|+|-..|.++++++. ..||+|...|....++
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~Lk 3549 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLK 3549 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHH
Confidence 345679999843322344 447999999999999988763 3799999988765554
No 67
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.72 E-value=0.032 Score=64.96 Aligned_cols=48 Identities=23% Similarity=0.507 Sum_probs=41.0
Q ss_pred CCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
.++-.|+||..-- ..+|.++|+|.-|+.||...+-+.+.|-.|++.+.
T Consensus 420 sEd~lCpICyA~p--i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGP--INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceeccc--chhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 3556799999755 58889999999999999999998899999987553
No 68
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.62 E-value=0.047 Score=47.97 Aligned_cols=44 Identities=20% Similarity=0.497 Sum_probs=23.4
Q ss_pred cccCccCCCCCCC--EEcCCCCccchhhHHHHHhc-CCCCCCCCccc
Q 000596 20 CPVCRLLVYPNEA--LQSQCTHLYCKPCLTYIVNT-TQACPYDGYLV 63 (1400)
Q Consensus 20 CPICleVL~pkDP--VQT~CGHtFCssCIeKwLks-s~kCPvCRq~I 63 (1400)
|++|.+.+-..+- +-+.|+..+|..|+.+++++ +..||.||+..
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7889887721221 22699999999999999974 67999999754
No 69
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.60 E-value=0.031 Score=66.25 Aligned_cols=37 Identities=30% Similarity=0.707 Sum_probs=33.4
Q ss_pred CCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhc
Q 000596 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT 52 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLks 52 (1400)
++++|.|+||..++ ++|++++|+|..|..|...++..
T Consensus 1 meeelkc~vc~~f~--~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 1 MEEELKCPVCGSFY--REPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred CcccccCceehhhc--cCceEeecccHHHHHHHHhhccc
Confidence 47899999999999 99999999999999999877654
No 70
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.26 E-value=0.037 Score=65.57 Aligned_cols=114 Identities=19% Similarity=0.375 Sum_probs=60.8
Q ss_pred ccccccCc-cCCCCCCC-EEcCCCCccchhhHHHHHhcC------CCCCC--CCcccccccchhhhcccccchhhhhhHH
Q 000596 17 EYFCPVCR-LLVYPNEA-LQSQCTHLYCKPCLTYIVNTT------QACPY--DGYLVTEADSKVVLSSAVVPLVESNKAL 86 (1400)
Q Consensus 17 eLiCPICl-eVL~pkDP-VQT~CGHtFCssCIeKwLkss------~kCPv--CRq~It~kdLkllvee~IFPlIesNK~L 86 (1400)
..+|.||. +.....+- ....|+|.||..|+.+.+... ..||. |...++...+.-++...+.... ...+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~--e~~~ 223 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLLTPKLREMW--EQRL 223 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhcCHHHHHHH--HHHH
Confidence 56799999 44411111 225899999999999987642 47886 6555555544311111111100 1112
Q ss_pred Hh-hhcc-eeeecccCCCCCceeecccccccc----cCCCCCCCccccCCcccch
Q 000596 87 AE-TIGK-ITVHCLFHRSGCTWQGPLSECTSH----CSGCAFGNSPVVCNRCAIQ 135 (1400)
Q Consensus 87 er-eIek-LkVkCpn~k~GCqw~gkLkdLkkH----l~tC~y~~RpV~Cp~Cgqq 135 (1400)
.+ .|.. -.++|++. .|.+.+...++..- -..|... ..+.|-.|+..
T Consensus 224 ~e~~i~~~~~~ycp~~--~C~~l~~~~el~~~~~~~~~~C~~C-~~~fCv~C~~~ 275 (384)
T KOG1812|consen 224 KEEVIPSLDRVYCPYP--RCSSLMSKTELSSEVKSKRRPCVKC-HELFCVKCKVP 275 (384)
T ss_pred HHHhhhhhhcccCCCC--CchHhhhhhhhccchhhcccccccC-CCceeecCCCc
Confidence 11 1111 13489875 89888776666431 1123332 34557677653
No 71
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.26 E-value=0.058 Score=55.95 Aligned_cols=49 Identities=18% Similarity=0.375 Sum_probs=40.5
Q ss_pred CccccccCccCCCCCCCEEc----CCCCccchhhHHHHHhcC---CCCCCCCcccccc
Q 000596 16 GEYFCPVCRLLVYPNEALQS----QCTHLYCKPCLTYIVNTT---QACPYDGYLVTEA 66 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT----~CGHtFCssCIeKwLkss---~kCPvCRq~It~k 66 (1400)
..|+|-||.+.. .|..-+ +||-..|..|....|+.. ..||+|++.+...
T Consensus 79 ~lYeCnIC~etS--~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETS--AEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCccccc--chhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 678999999998 666553 899999999999988753 6899999877543
No 72
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.25 E-value=0.096 Score=58.99 Aligned_cols=46 Identities=17% Similarity=0.436 Sum_probs=37.1
Q ss_pred cccccCccCCCC----CCCEEcCCCCccchhhHHHHHhcC-CCCCCCCccc
Q 000596 18 YFCPVCRLLVYP----NEALQSQCTHLYCKPCLTYIVNTT-QACPYDGYLV 63 (1400)
Q Consensus 18 LiCPICleVL~p----kDPVQT~CGHtFCssCIeKwLkss-~kCPvCRq~I 63 (1400)
+.|-||.+.++- ..|..+.|||+||..|+.+.+... ..||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 569999987732 235557899999999999998875 5899999885
No 73
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.16 E-value=0.028 Score=70.69 Aligned_cols=47 Identities=21% Similarity=0.639 Sum_probs=40.5
Q ss_pred cccccCccCCCCCCCEEcCCCCccchhhHHHHHhcC--CCCCCCCccccccc
Q 000596 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT--QACPYDGYLVTEAD 67 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss--~kCPvCRq~It~kd 67 (1400)
+.|.||.+ . ..++++.|+|.||..|+.+.+... ..||.||..+....
T Consensus 455 ~~c~ic~~-~--~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD-L--DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc-c--ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 89999999 6 789999999999999999988753 47999998776554
No 74
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.98 E-value=0.037 Score=61.77 Aligned_cols=50 Identities=20% Similarity=0.517 Sum_probs=36.3
Q ss_pred ccccccCccCCCCCCCEE-cCCCCccchhhHHHHHhcCCCCCCCCcccccccch
Q 000596 17 EYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQ-T~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLk 69 (1400)
.+.|-.|...-. .+++- |.|.|+||..|...... ..|++|++.+....+.
T Consensus 3 ~VhCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~i~l~ 53 (233)
T KOG4739|consen 3 FVHCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSP--DVCPLCKKSIRIIQLN 53 (233)
T ss_pred eEEeccccccCC-CCceeeeechhhhhhhhcccCCc--cccccccceeeeeecc
Confidence 346888876553 45544 69999999999877644 2899999987655443
No 75
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.92 E-value=0.017 Score=65.90 Aligned_cols=42 Identities=19% Similarity=0.541 Sum_probs=36.0
Q ss_pred CccccccCccCCCCCCCEEcCCCC-ccchhhHHHHHhcCCCCCCCCccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGH-tFCssCIeKwLkss~kCPvCRq~I 63 (1400)
...+|.||++.. .|-+.+.||| +-|..|=+++. .||+||..|
T Consensus 299 ~~~LC~ICmDaP--~DCvfLeCGHmVtCt~CGkrm~----eCPICRqyi 341 (350)
T KOG4275|consen 299 TRRLCAICMDAP--RDCVFLECGHMVTCTKCGKRMN----ECPICRQYI 341 (350)
T ss_pred HHHHHHHHhcCC--cceEEeecCcEEeehhhccccc----cCchHHHHH
Confidence 368899999999 8999999999 58999987764 799999755
No 76
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=92.77 E-value=0.085 Score=62.62 Aligned_cols=68 Identities=18% Similarity=0.363 Sum_probs=61.7
Q ss_pred eeeecccCCCCCceeeccccccccc-CCCCCCCccccCCcccchhchhhHHHHHhhCCCCCCCCCCCCCcccccc
Q 000596 93 ITVHCLFHRSGCTWQGPLSECTSHC-SGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGVQPQASQPEGVHDAAA 166 (1400)
Q Consensus 93 LkVkCpn~k~GCqw~gkLkdLkkHl-~tC~y~~RpV~Cp~CgqqI~RkdLqeHLq~CPk~pVqCPn~cg~tkias 166 (1400)
..+.|++. |...+..+++++|+ ..|.+. ...|..|+..+.-..+..|... +...+.|...|+..++..
T Consensus 113 ~~~~C~~~---C~~~~~~~d~~~hl~~~C~~~--~~~c~~~~~~~~~~~~~~h~~~-~~~~~~c~~k~~~~~l~~ 181 (391)
T KOG0297|consen 113 DPLKCPHR---CGVQVPRDDLEDHLEAECPRR--SLKCSLCQSDSILILLEAHEEN-PQAEVSCELKCGKQKLKR 181 (391)
T ss_pred CcccCccc---cccccchHHHHHHHhcccccc--cccchhhcCccchhhhhhcCCC-CCccccccccchhhhhhh
Confidence 67888874 99999999999998 789995 9999999999999999999988 899999999999888888
No 77
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.10 E-value=0.065 Score=63.56 Aligned_cols=54 Identities=20% Similarity=0.402 Sum_probs=38.5
Q ss_pred CccccccCccCC-CCCCCE--EcCCCCccchhhHHHHHhcC--CCCCCCCcccccccch
Q 000596 16 GEYFCPVCRLLV-YPNEAL--QSQCTHLYCKPCLTYIVNTT--QACPYDGYLVTEADSK 69 (1400)
Q Consensus 16 EeLiCPICleVL-~pkDPV--QT~CGHtFCssCIeKwLkss--~kCPvCRq~It~kdLk 69 (1400)
...+|+||++-+ .+.+-. ...|||.|=+.||++|+.+. ..||.|...-+...+.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~ 61 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIR 61 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHH
Confidence 446899999766 112222 25999999999999999642 4899998765554443
No 78
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=91.73 E-value=0.057 Score=49.97 Aligned_cols=50 Identities=18% Similarity=0.330 Sum_probs=24.2
Q ss_pred ccccccCccCCCC--CCCEE-c---CCCCccchhhHHHHHhcC-----------CCCCCCCcccccc
Q 000596 17 EYFCPVCRLLVYP--NEALQ-S---QCTHLYCKPCLTYIVNTT-----------QACPYDGYLVTEA 66 (1400)
Q Consensus 17 eLiCPICleVL~p--kDPVQ-T---~CGHtFCssCIeKwLkss-----------~kCPvCRq~It~k 66 (1400)
++.|.||...+.. ..|.. + .|+..|=..||.+|+... ..||.|+..|+++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 4679999987631 12322 3 688888889999998641 2599999988654
No 79
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=91.41 E-value=0.1 Score=60.61 Aligned_cols=49 Identities=24% Similarity=0.542 Sum_probs=39.5
Q ss_pred CCccccccCccCCCCCCCEE-cCCCCccchhhHHHHHhcCCCCCCCCccccc
Q 000596 15 AGEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQ-T~CGHtFCssCIeKwLkss~kCPvCRq~It~ 65 (1400)
.+.-.|+||+.-. .+|.. ..-|.+||..||-.++.+..+||+-.+++..
T Consensus 298 ~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v 347 (357)
T KOG0826|consen 298 PDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASV 347 (357)
T ss_pred CccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchH
Confidence 3456799999766 56655 4779999999999999988999998776543
No 80
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 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. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=90.73 E-value=0.098 Score=46.14 Aligned_cols=29 Identities=38% Similarity=0.777 Sum_probs=26.0
Q ss_pred CcceeEeecccccccCccccchhHHHHhhhhh
Q 000596 1329 MGWCRICKVDCETVDGLDLHSQTREHQKMAMD 1360 (1400)
Q Consensus 1329 ~~wcric~~~c~tve~l~~h~~trehq~~amd 1360 (1400)
-|+|-+|++ ..|+|+.|++++.|++-|+|
T Consensus 5 ~GYCE~C~~---ky~~l~~Hi~s~~Hr~FA~~ 33 (49)
T PF07535_consen 5 PGYCENCRV---KYDDLEEHIQSEKHRKFAEN 33 (49)
T ss_pred CccCccccc---hhhhHHHHhCCHHHHHHHcC
Confidence 589999986 68899999999999999965
No 81
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=90.59 E-value=0.064 Score=47.35 Aligned_cols=30 Identities=27% Similarity=0.628 Sum_probs=26.6
Q ss_pred CcceeEeecccccccCccccchhHHHHhhhhhh
Q 000596 1329 MGWCRICKVDCETVDGLDLHSQTREHQKMAMDM 1361 (1400)
Q Consensus 1329 ~~wcric~~~c~tve~l~~h~~trehq~~amd~ 1361 (1400)
-|+|-||.+ ..|+|+.|+.||+|++=|++=
T Consensus 5 ~GYCE~Cr~---kfd~l~~Hi~s~~Hr~FA~~~ 34 (49)
T smart00586 5 PGYCENCRE---KYDDLETHLLSEKHRRFAENN 34 (49)
T ss_pred CcccccHhH---HHhhHHHHhccHHHHHHHcCc
Confidence 489999976 589999999999999999863
No 82
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.26 E-value=0.12 Score=59.64 Aligned_cols=43 Identities=23% Similarity=0.562 Sum_probs=31.0
Q ss_pred ccccccCccCCCCCC-CEEcCCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 17 EYFCPVCRLLVYPNE-ALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 17 eLiCPICleVL~pkD-PVQT~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
.-+|--|...+ .. -.++.|.|+||.+|...- ..+.||.|...|
T Consensus 90 VHfCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~~--~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 90 VHFCDRCDFPI--AIYGRMIPCKHVFCLECARSD--SDKICPLCDDRV 133 (389)
T ss_pred eEeecccCCcc--eeeecccccchhhhhhhhhcC--ccccCcCcccHH
Confidence 34688898766 22 244799999999997543 246899997544
No 83
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.24 E-value=0.1 Score=64.51 Aligned_cols=40 Identities=30% Similarity=0.693 Sum_probs=31.0
Q ss_pred CccccccCccCCC--CCCCEEcCCCCccchhhHHHHHhcCCCCC
Q 000596 16 GEYFCPVCRLLVY--PNEALQSQCTHLYCKPCLTYIVNTTQACP 57 (1400)
Q Consensus 16 EeLiCPICleVL~--pkDPVQT~CGHtFCssCIeKwLkss~kCP 57 (1400)
+.|+|+||++.|. ...||.+.|||+.|+.|+.+... ..||
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 4578999987661 13577789999999999999865 4566
No 84
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=90.23 E-value=0.16 Score=45.82 Aligned_cols=48 Identities=23% Similarity=0.476 Sum_probs=37.1
Q ss_pred CCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
..+..|-.|...- ...+.+.|+|..|..|+.-+- -+.||.|.+.+...
T Consensus 5 ~~~~~~~~~~~~~--~~~~~~pCgH~I~~~~f~~~r--YngCPfC~~~~~~~ 52 (55)
T PF14447_consen 5 QPEQPCVFCGFVG--TKGTVLPCGHLICDNCFPGER--YNGCPFCGTPFEFD 52 (55)
T ss_pred ccceeEEEccccc--cccccccccceeeccccChhh--ccCCCCCCCcccCC
Confidence 3456688888776 667778999999999987642 35899999987654
No 85
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.77 E-value=0.076 Score=66.54 Aligned_cols=56 Identities=21% Similarity=0.470 Sum_probs=44.5
Q ss_pred ccCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcC---CCCCCCCcccccccc
Q 000596 11 IQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT---QACPYDGYLVTEADS 68 (1400)
Q Consensus 11 Vd~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss---~kCPvCRq~It~kdL 68 (1400)
|+.+-..+.|+||...+ .+++.+.|.|.||..|+...+... ..|++|+..+....+
T Consensus 15 i~~~~k~lEc~ic~~~~--~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 15 INAMQKILECPICLEHV--KEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred HHHHhhhccCCceeEEe--eccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 34566778999999988 788888999999999999876543 479999976654433
No 86
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.75 E-value=0.17 Score=59.44 Aligned_cols=47 Identities=23% Similarity=0.453 Sum_probs=34.5
Q ss_pred CCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
++.-...|-||.+-. ++.+..+|||+.| |..-... ...||+||..|+
T Consensus 301 ~~~~p~lcVVcl~e~--~~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEP--KSAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCc--cceeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 344556799999988 7888899999876 5544322 245999998764
No 87
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=89.65 E-value=0.047 Score=40.35 Aligned_cols=24 Identities=25% Similarity=0.707 Sum_probs=23.2
Q ss_pred ceeEeecccccccCccccchhHHH
Q 000596 1331 WCRICKVDCETVDGLDLHSQTREH 1354 (1400)
Q Consensus 1331 wcric~~~c~tve~l~~h~~treh 1354 (1400)
||.||++.|.+...|..|.+.+.|
T Consensus 2 ~C~~C~~~f~s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHLRSKKH 25 (25)
T ss_dssp EETTTTEEESSHHHHHHHHTTHHH
T ss_pred CCCCCCCCcCCHHHHHHHHCcCCC
Confidence 799999999999999999999988
No 88
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=89.25 E-value=0.077 Score=69.64 Aligned_cols=54 Identities=19% Similarity=0.489 Sum_probs=44.7
Q ss_pred hccccCCCCccccccCccCCCCC-CCEEcCCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 8 ILNIQSLAGEYFCPVCRLLVYPN-EALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 8 IvfVd~LeEeLiCPICleVL~pk-DPVQT~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
+.++..+.+...|.||++++ + .-.++.|||.+|..|+..|+.....|++|....
T Consensus 1144 ~~y~~~~~~~~~c~ic~dil--~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1144 VRYLMNLSGHFVCEICLDIL--RNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred HHHHHHhhcccchHHHHHHH--HhcCCeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence 34445666778999999999 5 456679999999999999999999999998543
No 89
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.69 E-value=0.22 Score=59.03 Aligned_cols=43 Identities=28% Similarity=0.572 Sum_probs=32.0
Q ss_pred cccccCccCCCCCCC-EE-c-CCCCccchhhHHHHHhcC---CCCCCCCc
Q 000596 18 YFCPVCRLLVYPNEA-LQ-S-QCTHLYCKPCLTYIVNTT---QACPYDGY 61 (1400)
Q Consensus 18 LiCPICleVL~pkDP-VQ-T-~CGHtFCssCIeKwLkss---~kCPvCRq 61 (1400)
-+|.||-+.+ +.+- +. + .|||+|-..|+..|.... ..||+|+.
T Consensus 5 A~C~Ic~d~~-p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGR-PNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCC-ccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 4699996655 2221 22 3 799999999999999763 58999993
No 90
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=88.60 E-value=0.41 Score=54.82 Aligned_cols=79 Identities=15% Similarity=0.256 Sum_probs=52.0
Q ss_pred CCCCCCcccccccchhhhcccccchhhhhhHHHhhhcceeeecccCCCCCce-eecccccccccCCCCCCCccccCCccc
Q 000596 55 ACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTW-QGPLSECTSHCSGCAFGNSPVVCNRCA 133 (1400)
Q Consensus 55 kCPvCRq~It~kdLkllvee~IFPlIesNK~LereIekLkVkCpn~k~GCqw-~gkLkdLkkHl~tC~y~~RpV~Cp~Cg 133 (1400)
.|.+|.+.|....+. ..+|+.-..+..+.|.+ |.. .-...+|+.|+.+=... +...|..|+
T Consensus 189 ~C~iCGKaFSRPWLL-------------QGHiRTHTGEKPF~C~h----C~kAFADRSNLRAHmQTHS~~-K~~qC~~C~ 250 (279)
T KOG2462|consen 189 ECGICGKAFSRPWLL-------------QGHIRTHTGEKPFSCPH----CGKAFADRSNLRAHMQTHSDV-KKHQCPRCG 250 (279)
T ss_pred ccccccccccchHHh-------------hcccccccCCCCccCCc----ccchhcchHHHHHHHHhhcCC-ccccCcchh
Confidence 688888877654432 35565566666777764 422 33456678887665543 477899999
Q ss_pred chhchhh-HHHHHh-hCCCC
Q 000596 134 IQIVHRQ-VQEHAQ-NCPGV 151 (1400)
Q Consensus 134 qqI~Rkd-LqeHLq-~CPk~ 151 (1400)
+.|.++. |.+|++ -|.+.
T Consensus 251 KsFsl~SyLnKH~ES~C~~~ 270 (279)
T KOG2462|consen 251 KSFALKSYLNKHSESACLKY 270 (279)
T ss_pred hHHHHHHHHHHhhhhccccc
Confidence 9888664 688987 46654
No 91
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=88.42 E-value=0.39 Score=46.45 Aligned_cols=31 Identities=26% Similarity=0.536 Sum_probs=27.5
Q ss_pred CCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 36 QCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 36 ~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
.|.|.|=..||.+|+.+...||.||......
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 6999999999999999999999999876443
No 92
>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=88.32 E-value=0.18 Score=56.69 Aligned_cols=51 Identities=27% Similarity=0.627 Sum_probs=36.6
Q ss_pred ccccccCccCCCCC-CCEEc---CCCCccchhhHHHHHhcC-CCCC--CCCccccccc
Q 000596 17 EYFCPVCRLLVYPN-EALQS---QCTHLYCKPCLTYIVNTT-QACP--YDGYLVTEAD 67 (1400)
Q Consensus 17 eLiCPICleVL~pk-DPVQT---~CGHtFCssCIeKwLkss-~kCP--vCRq~It~kd 67 (1400)
+-.||||..-.|.+ |.+.+ .|-|..|..|..+++..+ ..|| -|.+.++...
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~k 67 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIK 67 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhc
Confidence 35799999644322 22222 599999999999999887 4799 5887766544
No 93
>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=87.27 E-value=0.58 Score=40.87 Aligned_cols=42 Identities=21% Similarity=0.477 Sum_probs=31.2
Q ss_pred ccccCccCCCCCCCEEcCCC-----CccchhhHHHHHhcC--CCCCCCC
Q 000596 19 FCPVCRLLVYPNEALQSQCT-----HLYCKPCLTYIVNTT--QACPYDG 60 (1400)
Q Consensus 19 iCPICleVL~pkDPVQT~CG-----HtFCssCIeKwLkss--~kCPvCR 60 (1400)
+|-||++.....++++.+|. +.+=..|+.+|+..+ ..|++|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999973333567776664 678889999999764 4899995
No 94
>PHA03096 p28-like protein; Provisional
Probab=87.08 E-value=0.37 Score=55.51 Aligned_cols=44 Identities=14% Similarity=0.287 Sum_probs=31.2
Q ss_pred cccccCccCCCCCCC------EEcCCCCccchhhHHHHHhcC---CCCCCCCc
Q 000596 18 YFCPVCRLLVYPNEA------LQSQCTHLYCKPCLTYIVNTT---QACPYDGY 61 (1400)
Q Consensus 18 LiCPICleVL~pkDP------VQT~CGHtFCssCIeKwLkss---~kCPvCRq 61 (1400)
.+|.||++..+-+.. ....|.|.||..|+..|.... ..|+.|+.
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 679999987731111 113899999999999998753 35666654
No 95
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.80 E-value=0.39 Score=58.19 Aligned_cols=47 Identities=19% Similarity=0.497 Sum_probs=35.9
Q ss_pred ccCCCCccccccC-ccCCCCCCCEEc--CCCCccchhhHHHHHhcCCCCCCCC
Q 000596 11 IQSLAGEYFCPVC-RLLVYPNEALQS--QCTHLYCKPCLTYIVNTTQACPYDG 60 (1400)
Q Consensus 11 Vd~LeEeLiCPIC-leVL~pkDPVQT--~CGHtFCssCIeKwLkss~kCPvCR 60 (1400)
+-.+++.+.|.+| +.+| .+.+++ +|.-.||..||++.+.. ..|+.|.
T Consensus 213 v~~~~e~~~c~~~~~~~~--~~~~l~~~~~~~~~~~~~i~~~l~~-~~~~~c~ 262 (448)
T KOG0314|consen 213 VGELPEGLQCPLCGKEVM--LDAALLSKCCLKSFCDKCIRDALIS-KSMCVCG 262 (448)
T ss_pred hccCCccccCceecchhh--HHHHHhhhhhcccCCcccccccccc-ccCCcch
Confidence 3467788999999 7777 677776 88899999999998764 3444443
No 96
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.73 E-value=1.2 Score=53.92 Aligned_cols=53 Identities=28% Similarity=0.563 Sum_probs=38.5
Q ss_pred CCccccccCccCCCCCC-CEEcCCCCccchhhHHHHHhcC--------CCCCC--CCcccccccch
Q 000596 15 AGEYFCPVCRLLVYPNE-ALQSQCTHLYCKPCLTYIVNTT--------QACPY--DGYLVTEADSK 69 (1400)
Q Consensus 15 eEeLiCPICleVL~pkD-PVQT~CGHtFCssCIeKwLkss--------~kCPv--CRq~It~kdLk 69 (1400)
.....|-||.+-+ .. .+...|+|.||..|+..++... .+||. |...+....+.
T Consensus 68 ~~~~~c~ic~~~~--~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~ 131 (444)
T KOG1815|consen 68 KGDVQCGICVESY--DGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVE 131 (444)
T ss_pred CccccCCcccCCC--cchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceee
Confidence 3447899999888 43 4446999999999999988653 25775 76666655444
No 97
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.24 E-value=0.66 Score=52.56 Aligned_cols=38 Identities=8% Similarity=0.080 Sum_probs=33.3
Q ss_pred ccCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHH
Q 000596 11 IQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIV 50 (1400)
Q Consensus 11 Vd~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwL 50 (1400)
-+.+.+.-+|++|+..+ .+||+|.-||+||+.||.+++
T Consensus 37 rDsiK~FdcCsLtLqPc--~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 37 RDSIKPFDCCSLTLQPC--RDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred ccccCCcceeeeecccc--cCCccCCCCeeeeHHHHHHHH
Confidence 35566666899999999 999999999999999999876
No 98
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=82.75 E-value=0.42 Score=56.79 Aligned_cols=48 Identities=31% Similarity=0.657 Sum_probs=37.8
Q ss_pred ccccccCccCCCC-CCCEE-cCCCCccchhhHHHHHhcC--CCCCCCCcccc
Q 000596 17 EYFCPVCRLLVYP-NEALQ-SQCTHLYCKPCLTYIVNTT--QACPYDGYLVT 64 (1400)
Q Consensus 17 eLiCPICleVL~p-kDPVQ-T~CGHtFCssCIeKwLkss--~kCPvCRq~It 64 (1400)
.|.|..|.+.+-. .+-.+ ++|.|+|=..|+.+++.++ ..||.||+.+.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 4789999988733 33444 5999999999999999765 58999996543
No 99
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.30 E-value=0.87 Score=52.47 Aligned_cols=36 Identities=19% Similarity=0.507 Sum_probs=28.9
Q ss_pred CccccccCccCCCCCCCEEcC----CCCccchhhHHHHHhcC
Q 000596 16 GEYFCPVCRLLVYPNEALQSQ----CTHLYCKPCLTYIVNTT 53 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~----CGHtFCssCIeKwLkss 53 (1400)
..|+|-+|.+-| +|..... -.|-||..|-++.++..
T Consensus 267 apLcCTLC~ERL--EDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERL--EDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred Cceeehhhhhhh--ccCceeecCCCcccceecccCHHHHHhh
Confidence 459999999999 6664444 47999999999999763
No 100
>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=81.06 E-value=0.81 Score=47.86 Aligned_cols=44 Identities=11% Similarity=0.351 Sum_probs=33.0
Q ss_pred ccccccCccCCCCCC--CEE-cCCC------CccchhhHHHHHhcCCCCCCCCcc
Q 000596 17 EYFCPVCRLLVYPNE--ALQ-SQCT------HLYCKPCLTYIVNTTQACPYDGYL 62 (1400)
Q Consensus 17 eLiCPICleVL~pkD--PVQ-T~CG------HtFCssCIeKwLkss~kCPvCRq~ 62 (1400)
...|.||++.+ .+ -|+ .+|+ |.||..|+.+|.+....=|.=|..
T Consensus 26 ~~EC~IC~~~I--~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR~I 78 (134)
T PF05883_consen 26 TVECQICFDRI--DNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNRNI 78 (134)
T ss_pred Ceeehhhhhhh--hcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCcccce
Confidence 67899999988 44 566 4776 569999999997655566665543
No 101
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.10 E-value=1.3 Score=52.93 Aligned_cols=50 Identities=22% Similarity=0.398 Sum_probs=39.1
Q ss_pred CCccccccCccCCCC-CCCEEcCCCCccchhhHHHHHhcC---CCCCCCCcccc
Q 000596 15 AGEYFCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTT---QACPYDGYLVT 64 (1400)
Q Consensus 15 eEeLiCPICleVL~p-kDPVQT~CGHtFCssCIeKwLkss---~kCPvCRq~It 64 (1400)
...|+|||=++--.- +.|+.+.|||+.|++-|.+..+++ .+||.|=....
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 345799998865522 457889999999999999998875 48999975543
No 102
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=79.54 E-value=0.75 Score=58.06 Aligned_cols=67 Identities=10% Similarity=0.188 Sum_probs=46.8
Q ss_pred hhcceeeecccCCCCCceeecccc-ccccc---CCCCCC---------CccccCCcccchhchh-hHHHHHhh-CCCCCC
Q 000596 89 TIGKITVHCLFHRSGCTWQGPLSE-CTSHC---SGCAFG---------NSPVVCNRCAIQIVHR-QVQEHAQN-CPGVQP 153 (1400)
Q Consensus 89 eIekLkVkCpn~k~GCqw~gkLkd-LkkHl---~tC~y~---------~RpV~Cp~CgqqI~Rk-dLqeHLq~-CPk~pV 153 (1400)
+.+.-.+.|. .|.+++.++. |+.|. +.|.-. .|+.+|..|++-|..+ .|++|+.+ --..+.
T Consensus 235 ekne~nfsC~----lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPf 310 (1007)
T KOG3623|consen 235 EKNEPNFSCM----LCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPF 310 (1007)
T ss_pred hhCCCCCcch----hhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCc
Confidence 4444456665 5888777664 56665 234332 5789999999999866 58999985 444688
Q ss_pred CCCCCC
Q 000596 154 QASQPE 159 (1400)
Q Consensus 154 qCPn~c 159 (1400)
.|+||.
T Consensus 311 eCpnCk 316 (1007)
T KOG3623|consen 311 ECPNCK 316 (1007)
T ss_pred CCcccc
Confidence 999886
No 103
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=79.03 E-value=0.61 Score=44.84 Aligned_cols=30 Identities=23% Similarity=0.411 Sum_probs=24.8
Q ss_pred CCCCccchhhHHHHHhcC---CCCCCCCccccc
Q 000596 36 QCTHLYCKPCLTYIVNTT---QACPYDGYLVTE 65 (1400)
Q Consensus 36 ~CGHtFCssCIeKwLkss---~kCPvCRq~It~ 65 (1400)
.|.|.|=..||.+|+... ..||.||..+..
T Consensus 50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred HHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 788999999999999753 589999986643
No 104
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.33 E-value=2.2 Score=54.23 Aligned_cols=45 Identities=20% Similarity=0.479 Sum_probs=31.8
Q ss_pred ccccCccCCCCCCCEEcCCCC-ccchhhHHHHHhc------CCCCCCCCccccc
Q 000596 19 FCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNT------TQACPYDGYLVTE 65 (1400)
Q Consensus 19 iCPICleVL~pkDPVQT~CGH-tFCssCIeKwLks------s~kCPvCRq~It~ 65 (1400)
-|.||..-. .-...-.|+| ..|..|..+.... ...|++|+..+..
T Consensus 2 ~c~ic~~s~--~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSP--DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCc--cccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 389998766 3333349999 8999999886532 2467999875543
No 105
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=77.74 E-value=0.69 Score=36.46 Aligned_cols=29 Identities=21% Similarity=0.524 Sum_probs=26.1
Q ss_pred cceeEeecccccccCccccchhHHHHhhh
Q 000596 1330 GWCRICKVDCETVDGLDLHSQTREHQKMA 1358 (1400)
Q Consensus 1330 ~wcric~~~c~tve~l~~h~~trehq~~a 1358 (1400)
-||-+|++.+.....|..|..++.|.+..
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~gk~H~~~~ 32 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLKGKKHKKNV 32 (35)
T ss_pred eEccccCCccCCHHHHHHHHChHHHHHHH
Confidence 38999999999999999999999997653
No 106
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=77.28 E-value=1.5 Score=33.63 Aligned_cols=24 Identities=21% Similarity=0.526 Sum_probs=21.9
Q ss_pred cccCCcccchhchhhHHHHHhhCC
Q 000596 126 PVVCNRCAIQIVHRQVQEHAQNCP 149 (1400)
Q Consensus 126 pV~Cp~CgqqI~RkdLqeHLq~CP 149 (1400)
++.|+.|+..+....|..|+..|.
T Consensus 2 l~~C~~CgR~F~~~~l~~H~~~C~ 25 (25)
T PF13913_consen 2 LVPCPICGRKFNPDRLEKHEKICK 25 (25)
T ss_pred CCcCCCCCCEECHHHHHHHHHhcC
Confidence 578999999999999999999883
No 107
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=76.28 E-value=0.72 Score=55.38 Aligned_cols=46 Identities=20% Similarity=0.592 Sum_probs=31.8
Q ss_pred hccccCCCCccccccCccCCCCCCCEEc---CCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 8 ILNIQSLAGEYFCPVCRLLVYPNEALQS---QCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 8 IvfVd~LeEeLiCPICleVL~pkDPVQT---~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
|-.|.....+|+|-+|++.+ .|++.+ .|..+. ....+||.|.+.|+
T Consensus 258 l~~i~n~iGdyiCqLCK~kY--eD~F~LAQHrC~RIV---------~vEYrCPEC~KVFs 306 (500)
T KOG3993|consen 258 LAGIPNVIGDYICQLCKEKY--EDAFALAQHRCPRIV---------HVEYRCPECDKVFS 306 (500)
T ss_pred hccCcccHHHHHHHHHHHhh--hhHHHHhhccCCeeE---------EeeecCCccccccc
Confidence 33456667789999999999 888875 554322 23467888877653
No 108
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=75.13 E-value=0.7 Score=53.52 Aligned_cols=51 Identities=18% Similarity=0.374 Sum_probs=36.6
Q ss_pred ccccccCccCCCCCCCEE-cCCCCccchhhHHHHHhc-----------------------CCCCCCCCccccccc
Q 000596 17 EYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNT-----------------------TQACPYDGYLVTEAD 67 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQ-T~CGHtFCssCIeKwLks-----------------------s~kCPvCRq~It~kd 67 (1400)
.-.|.||+--|-..+.++ |.|.|.|-..|+.+++.. ...||+||..|.+..
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 457999997662233344 799999999999887732 036999998876654
No 109
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=73.40 E-value=2.2 Score=33.20 Aligned_cols=23 Identities=22% Similarity=0.569 Sum_probs=20.9
Q ss_pred ccCCcccchhchhhHHHHHhhCC
Q 000596 127 VVCNRCAIQIVHRQVQEHAQNCP 149 (1400)
Q Consensus 127 V~Cp~CgqqI~RkdLqeHLq~CP 149 (1400)
+.|+.|++.+....+.+|++.|-
T Consensus 2 v~CPiC~~~v~~~~in~HLD~CL 24 (26)
T smart00734 2 VQCPVCFREVPENLINSHLDSCL 24 (26)
T ss_pred CcCCCCcCcccHHHHHHHHHHhc
Confidence 67999999999999999999883
No 110
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=71.12 E-value=2.5 Score=51.09 Aligned_cols=45 Identities=18% Similarity=0.392 Sum_probs=23.9
Q ss_pred cccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcCCCCCCCCccccc
Q 000596 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss~kCPvCRq~It~ 65 (1400)
|+|-+|..-|- ..+++. .-..++|-.|+.+.+. .+|-+|...|--
T Consensus 361 F~Cv~C~r~ld-gipFtvd~~n~v~Cv~dfh~kfA--PrCs~C~~PI~P 406 (468)
T KOG1701|consen 361 FTCVVCARCLD-GIPFTVDSQNNVYCVPDFHKKFA--PRCSVCGNPILP 406 (468)
T ss_pred eEEEEeccccC-CccccccCCCceeeehhhhhhcC--cchhhccCCccC
Confidence 45666655551 223333 3445666666655443 467777766543
No 111
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=70.66 E-value=1.4 Score=53.20 Aligned_cols=45 Identities=18% Similarity=0.464 Sum_probs=27.6
Q ss_pred cccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
|+|.+|..-|- -..+-..-+..||..|+...++ +|-+|...|.+.
T Consensus 303 FtC~~C~r~L~-Gq~FY~v~~k~~CE~cyq~tle---kC~~Cg~~I~d~ 347 (468)
T KOG1701|consen 303 FTCRTCRRQLA-GQSFYQVDGKPYCEGCYQDTLE---KCNKCGEPIMDR 347 (468)
T ss_pred eehHhhhhhhc-cccccccCCcccchHHHHHHHH---HHhhhhhHHHHH
Confidence 56777776551 1122234566799999888776 466676655443
No 112
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.34 E-value=3.5 Score=46.48 Aligned_cols=52 Identities=17% Similarity=0.312 Sum_probs=40.8
Q ss_pred CCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhc--------CCCCCCCCccccc
Q 000596 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT--------TQACPYDGYLVTE 65 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLks--------s~kCPvCRq~It~ 65 (1400)
-+.+--|.+|...|.-.|.+.+.|-|+|--.|+.+|... +..||.|..+|..
T Consensus 47 sDY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred cCCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 344456999999885456677899999999999999864 2589999987643
No 113
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=68.03 E-value=5.6 Score=46.05 Aligned_cols=54 Identities=17% Similarity=0.276 Sum_probs=33.6
Q ss_pred Cceeecccc----cccccCCCCCCCccccCCcccchhc-hhhHHHHHhh-CCCCCCCCCCC
Q 000596 104 CTWQGPLSE----CTSHCSGCAFGNSPVVCNRCAIQIV-HRQVQEHAQN-CPGVQPQASQP 158 (1400)
Q Consensus 104 Cqw~gkLkd----LkkHl~tC~y~~RpV~Cp~CgqqI~-RkdLqeHLq~-CPk~pVqCPn~ 158 (1400)
|.++++.-. |..|+.+=.= +++..|..|++-|. |.+|..|++. -.-..-+|..+
T Consensus 190 C~iCGKaFSRPWLLQGHiRTHTG-EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C 249 (279)
T KOG2462|consen 190 CGICGKAFSRPWLLQGHIRTHTG-EKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRC 249 (279)
T ss_pred cccccccccchHHhhcccccccC-CCCccCCcccchhcchHHHHHHHHhhcCCccccCcch
Confidence 444554332 4455544333 35778999998776 8899999884 22335567744
No 114
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=67.57 E-value=2.7 Score=54.26 Aligned_cols=41 Identities=22% Similarity=0.471 Sum_probs=34.7
Q ss_pred cccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
-.|.+|...| .-|++- .|||.|=..|++ .....||.|+...
T Consensus 841 skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 4799999999 888875 999999999998 4456899998744
No 115
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=67.38 E-value=1.3 Score=33.82 Aligned_cols=25 Identities=20% Similarity=0.589 Sum_probs=23.6
Q ss_pred ceeEeecccccccCccccchhHHHH
Q 000596 1331 WCRICKVDCETVDGLDLHSQTREHQ 1355 (1400)
Q Consensus 1331 wcric~~~c~tve~l~~h~~trehq 1355 (1400)
+|-+|.+.+.+.+.|+.|..|+-|+
T Consensus 3 ~C~~C~k~f~~~~~~~~H~~sk~Hk 27 (27)
T PF12171_consen 3 YCDACDKYFSSENQLKQHMKSKKHK 27 (27)
T ss_dssp BBTTTTBBBSSHHHHHCCTTSHHHH
T ss_pred CcccCCCCcCCHHHHHHHHccCCCC
Confidence 6999999999999999999999885
No 116
>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=67.10 E-value=2.4 Score=40.40 Aligned_cols=34 Identities=21% Similarity=0.443 Sum_probs=24.9
Q ss_pred CCCccccccCccCCCCCCCEE-cCCCCccchhhHHH
Q 000596 14 LAGEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTY 48 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQ-T~CGHtFCssCIeK 48 (1400)
++++-.|.||...|. ...+. .+|||+|...|+.+
T Consensus 75 i~~~~~C~vC~k~l~-~~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 75 ITESTKCSVCGKPLG-NSVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred ECCCCCccCcCCcCC-CceEEEeCCCeEEecccccC
Confidence 445667999999883 23333 49999999999853
No 117
>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=65.67 E-value=3.4 Score=36.87 Aligned_cols=44 Identities=27% Similarity=0.631 Sum_probs=26.3
Q ss_pred cccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
+-|.-|--.. ..++..-.|..|..|+...+..+..|++|..++-
T Consensus 3 ~nCKsCWf~~---k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 3 YNCKSCWFAN---KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp ----SS-S-----SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred ccChhhhhcC---CCeeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 3466564332 4455555799999999999999999999998763
No 118
>PRK04023 DNA polymerase II large subunit; Validated
Probab=65.40 E-value=3.8 Score=53.96 Aligned_cols=45 Identities=22% Similarity=0.333 Sum_probs=31.7
Q ss_pred CccccccCccCCCCCCCEEc-CCCC-----ccchhhHHHHHhcCCCCCCCCccccc
Q 000596 16 GEYFCPVCRLLVYPNEALQS-QCTH-----LYCKPCLTYIVNTTQACPYDGYLVTE 65 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT-~CGH-----tFCssCIeKwLkss~kCPvCRq~It~ 65 (1400)
....|+-|.... .-..| .||. .||..|-.. .....||.|...+..
T Consensus 625 g~RfCpsCG~~t---~~frCP~CG~~Te~i~fCP~CG~~--~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 625 GRRKCPSCGKET---FYRRCPFCGTHTEPVYRCPRCGIE--VEEDECEKCGREPTP 675 (1121)
T ss_pred cCccCCCCCCcC---CcccCCCCCCCCCcceeCccccCc--CCCCcCCCCCCCCCc
Confidence 345799999876 33567 5984 599999333 223579999987654
No 119
>PLN02189 cellulose synthase
Probab=64.78 E-value=4.4 Score=53.68 Aligned_cols=46 Identities=22% Similarity=0.519 Sum_probs=35.1
Q ss_pred ccccCccCCCC---CCCEE-c-CCCCccchhhHHHHHhcC-CCCCCCCcccc
Q 000596 19 FCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVT 64 (1400)
Q Consensus 19 iCPICleVL~p---kDPVQ-T-~CGHtFCssCIeKwLkss-~kCPvCRq~It 64 (1400)
+|.||.+-+.. .++++ | .|+--.|+.|.+.-.+++ ..||.|++...
T Consensus 36 ~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 36 VCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 89999987621 23444 5 699999999998777664 58999998765
No 120
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=64.62 E-value=2.2e+02 Score=33.23 Aligned_cols=47 Identities=28% Similarity=0.297 Sum_probs=27.2
Q ss_pred cCCCCCCCCCCCCCCCCCCCCccCCCCcccCCCCCCCCCCCCCCCCCCcccccc
Q 000596 931 LGHPHPSPVGGPPQRSVPLSGFDSHVGTMVGPAYGPGGPMDLKQPSNPMEAEMF 984 (1400)
Q Consensus 931 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~f 984 (1400)
++||.|..+.++ +.-+++.|+-.+|+ -|. |+ .+-|.-+ +-|+|.+.|
T Consensus 191 i~~g~p~~~p~p--g~p~~s~~~~~~~~-~r~--~~-p~~~vp~-~pp~~~~~~ 237 (341)
T KOG2893|consen 191 IGHGPPGGPPMP--GPPQRSRFDQPDGG-DRW--GP-PMRGVPR-TPPYENEHE 237 (341)
T ss_pred CCCCCCCCCCCC--CCCccccccCCCCC-CCC--CC-CcCCCCC-CCCcCCccc
Confidence 789988766555 34467888888877 333 21 2222222 555665555
No 121
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.16 E-value=4.6 Score=44.25 Aligned_cols=47 Identities=21% Similarity=0.407 Sum_probs=32.0
Q ss_pred cccccCccCCCCCCCEE----c---CCCCccchhhHHHHHhcC-----------CCCCCCCcccccc
Q 000596 18 YFCPVCRLLVYPNEALQ----S---QCTHLYCKPCLTYIVNTT-----------QACPYDGYLVTEA 66 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQ----T---~CGHtFCssCIeKwLkss-----------~kCPvCRq~It~k 66 (1400)
--|-||...- .+-.+ | .|+..|-.-|+.+|++.- ..||.|..++..+
T Consensus 166 ~~cgicyayq--ldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 166 GACGICYAYQ--LDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hcccceeeee--cCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 4577777543 12111 2 788888889999999741 3799999887653
No 122
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=63.35 E-value=17 Score=44.23 Aligned_cols=10 Identities=20% Similarity=0.328 Sum_probs=5.4
Q ss_pred cccccCccCC
Q 000596 18 YFCPVCRLLV 27 (1400)
Q Consensus 18 LiCPICleVL 27 (1400)
++--||-.|-
T Consensus 28 ~IlDvCD~v~ 37 (462)
T KOG2199|consen 28 LILDVCDKVG 37 (462)
T ss_pred HHHHHHHhhc
Confidence 4555665554
No 123
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=63.34 E-value=4.2 Score=50.14 Aligned_cols=34 Identities=29% Similarity=0.620 Sum_probs=18.1
Q ss_pred CCCccccccCccCCCCCCCEEc-CCCCccchhhHHHH
Q 000596 14 LAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYI 49 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKw 49 (1400)
|++-|.|..|..+- ..-.++ .=.-.||..|+...
T Consensus 2 l~~L~fC~~C~~ir--c~~c~~~Ei~~~yCp~CL~~~ 36 (483)
T PF05502_consen 2 LEELYFCEHCHKIR--CPRCVSEEIDSYYCPNCLFEV 36 (483)
T ss_pred cccceecccccccC--ChhhcccccceeECccccccC
Confidence 55667788887766 111000 11235777777654
No 124
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=62.36 E-value=4.1 Score=52.66 Aligned_cols=48 Identities=17% Similarity=0.445 Sum_probs=38.1
Q ss_pred CCccccccCccCCCCCCCEE-c-CCCCccchhhHHHHHhcC-------CCCCCCCcc
Q 000596 15 AGEYFCPVCRLLVYPNEALQ-S-QCTHLYCKPCLTYIVNTT-------QACPYDGYL 62 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQ-T-~CGHtFCssCIeKwLkss-------~kCPvCRq~ 62 (1400)
.+.|.|.||.+.+.+..++- | .|-|+|=..||.+|.++. -.||.|...
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 46799999999985455554 3 899999999999999752 279999844
No 125
>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=62.17 E-value=3.7 Score=36.19 Aligned_cols=42 Identities=24% Similarity=0.508 Sum_probs=22.9
Q ss_pred ccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhc---C--CCCCCCCc
Q 000596 17 EYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT---T--QACPYDGY 61 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLks---s--~kCPvCRq 61 (1400)
.|.|+|....+ +.|+.. .|.|.-|.+ ++.++.. . -.||+|.+
T Consensus 2 sL~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 2 SLRCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp ESB-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeeCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 37899999999 889884 999998743 4444432 2 37999975
No 126
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=62.16 E-value=9.6 Score=44.94 Aligned_cols=122 Identities=17% Similarity=0.275 Sum_probs=68.1
Q ss_pred cCCCCccccccCccCCCCCCCEE-cCCC--CccchhhHHHHHhcC---------------CCCCC-CCcccccccchh--
Q 000596 12 QSLAGEYFCPVCRLLVYPNEALQ-SQCT--HLYCKPCLTYIVNTT---------------QACPY-DGYLVTEADSKV-- 70 (1400)
Q Consensus 12 d~LeEeLiCPICleVL~pkDPVQ-T~CG--HtFCssCIeKwLkss---------------~kCPv-CRq~It~kdLkl-- 70 (1400)
..-..+..|-.|.++- ++|. ..|. |+.|.+|++-+.... .-|+. |-..+ ++++..
T Consensus 216 ~~N~~ni~C~~Ctdv~---~~vlvf~Cns~HvtC~dCFr~yc~~Rl~~rqf~~~p~~gyslpc~agc~~s~-i~e~HHF~ 291 (446)
T KOG0006|consen 216 ATNSRNITCITCTDVR---SPVLVFQCNSRHVTCLDCFRLYCVTRLNDRQFVHDPQLGYSLPCVAGCPNSL-IKELHHFR 291 (446)
T ss_pred hcccccceeEEecCCc---cceEEEecCCceeehHHhhhhHhhhcccccccccCccccccccccCCCchHH-HHhhhhhe
Confidence 3445678899999987 5554 5777 999999999664321 13554 33222 111110
Q ss_pred hhcccccchhhhhhHHHhh-hcceeeecccCCCCCceeecccccccccCCCCCCCccccCC-cccchhchhhHH-HHHhh
Q 000596 71 VLSSAVVPLVESNKALAET-IGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCN-RCAIQIVHRQVQ-EHAQN 147 (1400)
Q Consensus 71 lvee~IFPlIesNK~Lere-IekLkVkCpn~k~GCqw~gkLkdLkkHl~tC~y~~RpV~Cp-~CgqqI~RkdLq-eHLq~ 147 (1400)
+..+..|..+. ....++. +..--|.|+.- ||......+- . .|.+.|+ +|+..++|+.++ -|+.+
T Consensus 292 ilg~e~Y~rYQ-r~atEe~vlq~gGVlCP~p--gCG~gll~EP------D----~rkvtC~~gCgf~FCR~C~e~yh~ge 358 (446)
T KOG0006|consen 292 ILGEEQYNRYQ-RYATEECVLQMGGVLCPRP--GCGAGLLPEP------D----QRKVTCEGGCGFAFCRECKEAYHEGE 358 (446)
T ss_pred ecchhHHHHHH-HhhhhhheeecCCEecCCC--CCCcccccCC------C----CCcccCCCCchhHhHHHHHhhhcccc
Confidence 11111121111 0011111 22225788875 7765544331 1 3578996 599999999988 58778
Q ss_pred CCC
Q 000596 148 CPG 150 (1400)
Q Consensus 148 CPk 150 (1400)
|..
T Consensus 359 C~~ 361 (446)
T KOG0006|consen 359 CSA 361 (446)
T ss_pred cee
Confidence 763
No 127
>KOG4274 consensus Positive cofactor 2 (PC2), subunit of a multiprotein coactivator of RNA polymerase II [Transcription]
Probab=61.61 E-value=42 Score=42.51 Aligned_cols=28 Identities=25% Similarity=0.339 Sum_probs=14.2
Q ss_pred CcccccCCCCCCCCCCCCCCCCCCccCCccc
Q 000596 1030 ELRDERFKSFPDGRLNPFPVDPARSVIDRGE 1060 (1400)
Q Consensus 1030 ~l~~~~f~~~~~~~~~~~~~~p~~~~~~~~~ 1060 (1400)
-|+|.||-++ ++-==..||+.+.-.-++
T Consensus 654 klddk~lPPl---~lsVP~~YPaq~~~vdr~ 681 (742)
T KOG4274|consen 654 KLDDKQLPPL---RLSVPTTYPAQNVTVDRA 681 (742)
T ss_pred EecCCCCCCe---eeeccccccccchhhhhH
Confidence 6677777642 222234566666433333
No 128
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=61.44 E-value=6.8 Score=45.44 Aligned_cols=45 Identities=22% Similarity=0.616 Sum_probs=35.9
Q ss_pred ccccccCccCCCC--CCCEEcCCCCccchhhHHHHHhcCCCCCCCCc
Q 000596 17 EYFCPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNTTQACPYDGY 61 (1400)
Q Consensus 17 eLiCPICleVL~p--kDPVQT~CGHtFCssCIeKwLkss~kCPvCRq 61 (1400)
+.-||||.+.++. .++....|||+.=..|+++....+..||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3459999986633 23344699999889999999988899999998
No 129
>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=61.01 E-value=7.9 Score=33.28 Aligned_cols=38 Identities=18% Similarity=0.552 Sum_probs=23.7
Q ss_pred cccCccCCCCCCCEEcC---CCCccchhhHHHHHhcCC--CCCCC
Q 000596 20 CPVCRLLVYPNEALQSQ---CTHLYCKPCLTYIVNTTQ--ACPYD 59 (1400)
Q Consensus 20 CPICleVL~pkDPVQT~---CGHtFCssCIeKwLkss~--kCPvC 59 (1400)
|.+|++|+ ...+.+. |+-.+=..|+.++++... .||.|
T Consensus 1 C~~C~~iv--~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIV--TQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB---SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhH--eeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 78999999 6777764 887777789999987653 79987
No 130
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=60.81 E-value=5 Score=40.78 Aligned_cols=28 Identities=25% Similarity=0.587 Sum_probs=25.6
Q ss_pred CCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 36 QCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 36 ~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
.|.|.|=.-||.+|++....||.|.+.-
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 7999999999999999999999998754
No 131
>PLN02195 cellulose synthase A
Probab=59.12 E-value=7.4 Score=51.47 Aligned_cols=47 Identities=28% Similarity=0.516 Sum_probs=31.1
Q ss_pred cccccCccCCCC---CCCEE-c-CCCCccchhhHHHHHhcC-CCCCCCCcccc
Q 000596 18 YFCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVT 64 (1400)
Q Consensus 18 LiCPICleVL~p---kDPVQ-T-~CGHtFCssCIeKwLkss-~kCPvCRq~It 64 (1400)
-+|.||.+.+-. -++++ | .|+--.|+.|.+.-.+++ ..||.|++...
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 368888875411 13444 4 788888888886666554 57888887765
No 132
>PLN02436 cellulose synthase A
Probab=56.92 E-value=6.5 Score=52.34 Aligned_cols=46 Identities=26% Similarity=0.564 Sum_probs=35.0
Q ss_pred ccccCccCCCC---CCCEE-c-CCCCccchhhHHHHHhcC-CCCCCCCcccc
Q 000596 19 FCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVT 64 (1400)
Q Consensus 19 iCPICleVL~p---kDPVQ-T-~CGHtFCssCIeKwLkss-~kCPvCRq~It 64 (1400)
+|.||.+-+-. -++++ | .|+--.|+.|.+.-.+++ ..||.|++...
T Consensus 38 iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 38 TCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 89999976511 23444 5 799999999998777664 68999998765
No 133
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=55.16 E-value=7.3 Score=51.94 Aligned_cols=46 Identities=26% Similarity=0.556 Sum_probs=35.1
Q ss_pred ccccCccCCCC---CCCEE-c-CCCCccchhhHHHHHhcC-CCCCCCCcccc
Q 000596 19 FCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVT 64 (1400)
Q Consensus 19 iCPICleVL~p---kDPVQ-T-~CGHtFCssCIeKwLkss-~kCPvCRq~It 64 (1400)
+|.||.+-+-. -++++ | .|+--.|+.|.+.-.+++ ..||.|++...
T Consensus 19 iCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 19 VCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred eeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 79999976521 23444 5 899999999998777664 58999998765
No 134
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=54.14 E-value=13 Score=36.32 Aligned_cols=48 Identities=25% Similarity=0.524 Sum_probs=22.0
Q ss_pred cccccCccCCCC---CCCEE-c-CCCCccchhhHHHHHhcC-CCCCCCCccccc
Q 000596 18 YFCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVTE 65 (1400)
Q Consensus 18 LiCPICleVL~p---kDPVQ-T-~CGHtFCssCIeKwLkss-~kCPvCRq~It~ 65 (1400)
-+|.||.+-+-. -++++ | .|+--.|+.|++.-.+.. ..||.|++....
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 579999965521 24445 3 899999999999988775 689999977654
No 135
>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=53.09 E-value=14 Score=44.31 Aligned_cols=28 Identities=18% Similarity=0.396 Sum_probs=20.9
Q ss_pred ccchhhHHHHHhcC-------------CCCCCCCccccccc
Q 000596 40 LYCKPCLTYIVNTT-------------QACPYDGYLVTEAD 67 (1400)
Q Consensus 40 tFCssCIeKwLkss-------------~kCPvCRq~It~kd 67 (1400)
..|-+|+-+|..+. ..||.||..+..-|
T Consensus 314 mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 314 MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 45669999998642 37999999876544
No 136
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=52.70 E-value=8.9 Score=49.45 Aligned_cols=44 Identities=18% Similarity=0.203 Sum_probs=27.3
Q ss_pred cccccCccCCCC-CCCE-Ec---CCCCccchhhHHHHHhcC------CCCCCCCc
Q 000596 18 YFCPVCRLLVYP-NEAL-QS---QCTHLYCKPCLTYIVNTT------QACPYDGY 61 (1400)
Q Consensus 18 LiCPICleVL~p-kDPV-QT---~CGHtFCssCIeKwLkss------~kCPvCRq 61 (1400)
..|.||..-+.. .|.+ +| .|+|.||..||..|...- -.|+.|..
T Consensus 97 ~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~ 151 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE 151 (1134)
T ss_pred cccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence 456666655521 1111 13 699999999999998531 24666653
No 137
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=52.53 E-value=2.8 Score=48.81 Aligned_cols=88 Identities=15% Similarity=0.165 Sum_probs=52.0
Q ss_pred CCCCCCCcccccccchhhhcccccchhhhhhH-HHhhhc-ceeeecccCCCCCceeecccccccccCCCCCCCccccCC-
Q 000596 54 QACPYDGYLVTEADSKVVLSSAVVPLVESNKA-LAETIG-KITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCN- 130 (1400)
Q Consensus 54 ~kCPvCRq~It~kdLkllvee~IFPlIesNK~-LereIe-kLkVkCpn~k~GCqw~gkLkdLkkHl~tC~y~~RpV~Cp- 130 (1400)
..||+|...+..... ..- +.+ +-..+. ++..+|+. |...+.-..-..=++.++- ..+.|+
T Consensus 49 leCPvC~~~l~~Pi~---------QC~--nGHlaCssC~~~~~~~CP~----Cr~~~g~~R~~amEkV~e~--~~vpC~~ 111 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIF---------QCD--NGHLACSSCRTKVSNKCPT----CRLPIGNIRCRAMEKVAEA--VLVPCKN 111 (299)
T ss_pred ccCchhhccCcccce---------ecC--CCcEehhhhhhhhcccCCc----cccccccHHHHHHHHHHHh--ceecccc
Confidence 369999987755321 111 111 122222 56777775 5443331111111122333 256664
Q ss_pred ---cccchhchhhHHHHHhhCCCCCCCCCCC
Q 000596 131 ---RCAIQIVHRQVQEHAQNCPGVQPQASQP 158 (1400)
Q Consensus 131 ---~CgqqI~RkdLqeHLq~CPk~pVqCPn~ 158 (1400)
+|.+.+...+-.+|.+.|...+..||.-
T Consensus 112 ~~~GC~~~~~Y~~~~~HE~~C~f~~~~CP~p 142 (299)
T KOG3002|consen 112 AKLGCTKSFPYGEKSKHEKVCEFRPCSCPVP 142 (299)
T ss_pred cccCCceeeccccccccccccccCCcCCCCC
Confidence 7999999888899999999999999876
No 138
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=52.07 E-value=17 Score=46.35 Aligned_cols=54 Identities=22% Similarity=0.412 Sum_probs=33.1
Q ss_pred CCCCccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcC----CCCCCCCcccccccc
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT----QACPYDGYLVTEADS 68 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss----~kCPvCRq~It~kdL 68 (1400)
.+.-.|.|+||+.-+ .-|... .|.|+=|.+=+...-.+. -.||+|.+.+..+.+
T Consensus 302 ~~~vSL~CPl~~~Rm--~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l 360 (636)
T KOG2169|consen 302 SLRVSLNCPLSKMRM--SLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGL 360 (636)
T ss_pred cceeEecCCccccee--ecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccch
Confidence 344568999999877 455543 666666544333332221 379999987655543
No 139
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.08 E-value=13 Score=42.88 Aligned_cols=50 Identities=24% Similarity=0.434 Sum_probs=39.1
Q ss_pred CccccccCccCCCCCCCEE---c-CCCCccchhhHHHHHhcCCCCCCCCcccccccch
Q 000596 16 GEYFCPVCRLLVYPNEALQ---S-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQ---T-~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLk 69 (1400)
-.|+|+|-...| +.-+. + +|||+|-..-+.++- ...|++|...+...+..
T Consensus 110 a~fiCPvtgleM--ng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 110 ARFICPVTGLEM--NGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDVI 163 (293)
T ss_pred ceeeccccccee--cceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccCeE
Confidence 458999999999 66544 2 999999877777764 46899999988777643
No 140
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.71 E-value=6.6 Score=43.68 Aligned_cols=39 Identities=26% Similarity=0.468 Sum_probs=27.6
Q ss_pred cccCccCCCCCCCEEcCCCC-ccchhhHHHHHhcCCCCCCCCcccc
Q 000596 20 CPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 20 CPICleVL~pkDPVQT~CGH-tFCssCIeKwLkss~kCPvCRq~It 64 (1400)
|-+|.+-- ...+..+|.| .+|..|-.. + ..||+|+...+
T Consensus 161 Cr~C~~~~--~~VlllPCrHl~lC~~C~~~-~---~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGERE--ATVLLLPCRHLCLCGICDES-L---RICPICRSPKT 200 (207)
T ss_pred ceecCcCC--ceEEeecccceEeccccccc-C---ccCCCCcChhh
Confidence 88887654 3333359998 699999765 2 35999997653
No 141
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=50.32 E-value=9.4 Score=49.09 Aligned_cols=45 Identities=24% Similarity=0.521 Sum_probs=35.2
Q ss_pred CccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcCCCCCC-CCc
Q 000596 16 GEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPY-DGY 61 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss~kCPv-CRq 61 (1400)
..+.|.||..-+. .-...| .|+|..-..|..+|++.+..||. |.+
T Consensus 1027 ~~~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~CpsGCGC 1073 (1081)
T KOG0309|consen 1027 FTFQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPSGCGC 1073 (1081)
T ss_pred ceeeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCCCCCc
Confidence 4467999987661 233446 99999999999999999999996 554
No 142
>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=50.31 E-value=1.7 Score=41.27 Aligned_cols=41 Identities=24% Similarity=0.429 Sum_probs=23.1
Q ss_pred ccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
++.||+|...|.. . =++.+|..|-..+.. ...||.|...+.
T Consensus 1 e~~CP~C~~~L~~---~---~~~~~C~~C~~~~~~-~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELEW---Q---GGHYHCEACQKDYKK-EAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEEE---E---TTEEEETTT--EEEE-EEE-TTT-SB-E
T ss_pred CCcCCCCCCccEE---e---CCEEECcccccccee-cccCCCcccHHH
Confidence 4689999988822 1 189999999876532 468999997663
No 143
>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=50.22 E-value=19 Score=33.24 Aligned_cols=44 Identities=25% Similarity=0.527 Sum_probs=32.6
Q ss_pred ccccCccCCCCC--CCEEcCCCCccchhhHHHHHhcCCCCCCCCcccc
Q 000596 19 FCPVCRLLVYPN--EALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 19 iCPICleVL~pk--DPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It 64 (1400)
-|-.|..-|.+. ++++++=.-+||..|.+..+. ..||.|.-.+.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~--~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN--GVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc--CcCcCCCCccc
Confidence 477787666333 366666566899999999874 68999987653
No 144
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.68 E-value=15 Score=35.54 Aligned_cols=47 Identities=19% Similarity=0.399 Sum_probs=33.4
Q ss_pred cccCccCCCC--CCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccccc
Q 000596 20 CPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADS 68 (1400)
Q Consensus 20 CPICleVL~p--kDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdL 68 (1400)
|--|-.-|-+ .+.++|+-.++||.+|.+..+. ..||.|.-.+....+
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~--g~CPnCGGelv~RP~ 56 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRLH--GLCPNCGGELVARPI 56 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhhc--CcCCCCCchhhcCcC
Confidence 5555544422 4677788889999999997764 689999987654433
No 145
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=49.35 E-value=12 Score=44.32 Aligned_cols=48 Identities=25% Similarity=0.525 Sum_probs=37.4
Q ss_pred CCccccccCccCCCC-CCCEEcCCCCccchhhHHHHHhcC---CCCCCCCcc
Q 000596 15 AGEYFCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTT---QACPYDGYL 62 (1400)
Q Consensus 15 eEeLiCPICleVL~p-kDPVQT~CGHtFCssCIeKwLkss---~kCPvCRq~ 62 (1400)
...|+|||-++.-.- +.|+.+.|||+.-+.-+....+++ .+||.|-..
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~ 385 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEM 385 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcc
Confidence 456899998876522 357889999999999998888775 489999643
No 146
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=49.04 E-value=7.4 Score=46.01 Aligned_cols=26 Identities=15% Similarity=0.490 Sum_probs=16.9
Q ss_pred CCccchhhHHHHHhcCCCCCCCCccc
Q 000596 38 THLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 38 GHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
+-.||..|-.+...--..||+|...+
T Consensus 275 ~Gy~CP~CkakvCsLP~eCpiC~ltL 300 (378)
T KOG2807|consen 275 GGYFCPQCKAKVCSLPIECPICSLTL 300 (378)
T ss_pred CceeCCcccCeeecCCccCCccceeE
Confidence 44577777666544445799998654
No 147
>PLN02400 cellulose synthase
Probab=48.20 E-value=8.6 Score=51.36 Aligned_cols=46 Identities=24% Similarity=0.555 Sum_probs=34.8
Q ss_pred ccccCccCCCC---CCCEE-c-CCCCccchhhHHHHHhcC-CCCCCCCcccc
Q 000596 19 FCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVT 64 (1400)
Q Consensus 19 iCPICleVL~p---kDPVQ-T-~CGHtFCssCIeKwLkss-~kCPvCRq~It 64 (1400)
+|.||.+-+-. -++++ | .|+--.|+.|.+.-.+++ ..||.|++...
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 89999976521 23444 5 899999999997766654 58999998764
No 148
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=46.83 E-value=11 Score=46.71 Aligned_cols=40 Identities=25% Similarity=0.606 Sum_probs=22.5
Q ss_pred CccccccCccCCCCCCCEEcCCCCccch-hhHHHHHhcCCCCCCCCcccccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTHLYCK-PCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGHtFCs-sCIeKwLkss~kCPvCRq~It~k 66 (1400)
+-+.|+-|+..+...+ ..=....|. .|+ .||+|...+...
T Consensus 25 ~~~yCp~CL~~~p~~e---~~~~~nrC~r~Cf--------~CP~C~~~L~~~ 65 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSE---ARSEKNRCSRNCF--------DCPICFSPLSVR 65 (483)
T ss_pred ceeECccccccCChhh---heeccceeccccc--------cCCCCCCcceeE
Confidence 4466888886661111 111223454 665 699998776543
No 149
>PF07948 Nairovirus_M: Nairovirus M polyprotein-like; InterPro: IPR012487 The sequences in this family are similar to the Dugbe virus (Dugbe nairovirus) M polyprotein precursor (Q02004 from SWISSPROT), which includes glycoproteins G1 and G2. Both are thought to be inserted in the membrane of the Golgi complex of the infected host cell, and G1 is known to have a role in infection of vertebrate hosts []. ; PDB: 2L7X_A.
Probab=46.00 E-value=3 Score=51.45 Aligned_cols=41 Identities=20% Similarity=0.483 Sum_probs=26.9
Q ss_pred eecccccccccCCCCCCCccccCCcccchhchhhHHHHHhhCCCC
Q 000596 107 QGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGV 151 (1400)
Q Consensus 107 ~gkLkdLkkHl~tC~y~~RpV~Cp~CgqqI~RkdLqeHLq~CPk~ 151 (1400)
.+.+-|-+-|.-.|.|. .|+||..++...-|..|+..||++
T Consensus 504 ~vN~~DqElHdLNCsyN----iCPYCanRLs~eGL~RHV~~CPKR 544 (645)
T PF07948_consen 504 PVNAIDQELHDLNCSYN----ICPYCANRLSDEGLVRHVPQCPKR 544 (645)
T ss_dssp -SSHHHHHHHHHHHTTT------TTT-----TTTHHHHHTT-SHH
T ss_pred ccchhhHHHHhcCCCcc----cChhhhhccCccchhhhcccCCch
Confidence 34455666788999995 899999999999999999999976
No 150
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=45.97 E-value=10 Score=42.74 Aligned_cols=44 Identities=25% Similarity=0.590 Sum_probs=36.7
Q ss_pred cccccCccCCCCCCCEEc-CCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
..|.+|+.++ ..-+.| .|+-.+-..|+.+++.+...||.|....
T Consensus 182 k~Cn~Ch~Lv--Iqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 182 KNCNLCHCLV--IQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHhHhHHHh--heeeccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 4799999988 566667 8888888899999998888999997543
No 151
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=44.40 E-value=14 Score=49.46 Aligned_cols=49 Identities=27% Similarity=0.468 Sum_probs=36.3
Q ss_pred CccccccCccCCCC---CCCEE-c-CCCCccchhhHHHHHhcC-CCCCCCCcccc
Q 000596 16 GEYFCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVT 64 (1400)
Q Consensus 16 EeLiCPICleVL~p---kDPVQ-T-~CGHtFCssCIeKwLkss-~kCPvCRq~It 64 (1400)
..-+|.||.+-+-. -++++ | .|+--.|+.|.+.-.+++ ..||.|++...
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34579999976521 23444 5 899999999997776664 58999998765
No 152
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=43.70 E-value=17 Score=43.21 Aligned_cols=49 Identities=20% Similarity=0.364 Sum_probs=37.8
Q ss_pred cccccCccCCCCCCC--EEcCCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 18 YFCPVCRLLVYPNEA--LQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 18 LiCPICleVL~pkDP--VQT~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
-.|+||.+.+...+. +-|+|++..|-.|+.+.......|+.||+.....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 469999986621222 2269999999999999998889999999765443
No 153
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=43.27 E-value=16 Score=47.56 Aligned_cols=54 Identities=19% Similarity=0.378 Sum_probs=38.1
Q ss_pred CCccccccCccCCCCCCCEE--cCCCC---ccchhhHHHHHhcC--CCCCCCCcccccccc
Q 000596 15 AGEYFCPVCRLLVYPNEALQ--SQCTH---LYCKPCLTYIVNTT--QACPYDGYLVTEADS 68 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQ--T~CGH---tFCssCIeKwLkss--~kCPvCRq~It~kdL 68 (1400)
+|+-+|.||+.--.+.+|.- |.|.- ..-++|+.+|+..+ .+|-+|..++..+++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence 35578999995443467766 44442 24468999999865 589999988776654
No 154
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=43.17 E-value=11 Score=31.24 Aligned_cols=26 Identities=23% Similarity=0.549 Sum_probs=22.5
Q ss_pred cccCCcccchhchhhHHHHHhhCCCC
Q 000596 126 PVVCNRCAIQIVHRQVQEHAQNCPGV 151 (1400)
Q Consensus 126 pV~Cp~CgqqI~RkdLqeHLq~CPk~ 151 (1400)
.+.|+.|+..|....+..|++.|..+
T Consensus 4 ~~~C~nC~R~v~a~RfA~HLekCmg~ 29 (33)
T PF08209_consen 4 YVECPNCGRPVAASRFAPHLEKCMGR 29 (33)
T ss_dssp EEE-TTTSSEEEGGGHHHHHHHHTCH
T ss_pred eEECCCCcCCcchhhhHHHHHHHHcc
Confidence 58899999999999999999999753
No 155
>PF15616 TerY-C: TerY-C metal binding domain
Probab=42.56 E-value=9.7 Score=40.01 Aligned_cols=47 Identities=23% Similarity=0.457 Sum_probs=33.6
Q ss_pred cCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccc
Q 000596 12 QSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1400)
Q Consensus 12 d~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~k 66 (1400)
++|...--||-|.+.+ .-+.|.||++|| |.. ....+||.|.......
T Consensus 72 seL~g~PgCP~CGn~~---~fa~C~CGkl~C---i~g--~~~~~CPwCg~~g~~~ 118 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQY---AFAVCGCGKLFC---IDG--EGEVTCPWCGNEGSFG 118 (131)
T ss_pred HHhcCCCCCCCCcChh---cEEEecCCCEEE---eCC--CCCEECCCCCCeeeec
Confidence 4555667799999877 446689999996 333 2246899999876543
No 156
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.27 E-value=12 Score=45.12 Aligned_cols=44 Identities=18% Similarity=0.448 Sum_probs=32.5
Q ss_pred CccccccCccCCCCC---CCEEcCCCCccchhhHHHHHhcCCCCCCC
Q 000596 16 GEYFCPVCRLLVYPN---EALQSQCTHLYCKPCLTYIVNTTQACPYD 59 (1400)
Q Consensus 16 EeLiCPICleVL~pk---DPVQT~CGHtFCssCIeKwLkss~kCPvC 59 (1400)
....|++|+..+... .-++|.|+|-||..|...|...+..|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 356799999766222 34567899999999999987766666554
No 157
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=40.97 E-value=17 Score=46.53 Aligned_cols=26 Identities=15% Similarity=0.340 Sum_probs=16.8
Q ss_pred EcCCCCccchhhHHHHHhcCCCCCCC
Q 000596 34 QSQCTHLYCKPCLTYIVNTTQACPYD 59 (1400)
Q Consensus 34 QT~CGHtFCssCIeKwLkss~kCPvC 59 (1400)
+.+-|-+||++|-.........|-.|
T Consensus 43 qVPtGpWfCrKCesqeraarvrCeLC 68 (900)
T KOG0956|consen 43 QVPTGPWFCRKCESQERAARVRCELC 68 (900)
T ss_pred ecCCCchhhhhhhhhhhhccceeecc
Confidence 44668889999977654433444444
No 158
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=40.31 E-value=13 Score=50.26 Aligned_cols=44 Identities=23% Similarity=0.431 Sum_probs=25.9
Q ss_pred cccccCccCCCCCCCEEc-CCCCc-----cchhhHHHHHhc---CCCCCCCCcccc
Q 000596 18 YFCPVCRLLVYPNEALQS-QCTHL-----YCKPCLTYIVNT---TQACPYDGYLVT 64 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT-~CGHt-----FCssCIeKwLks---s~kCPvCRq~It 64 (1400)
+.|+-|.... .. ..| .||.. +|..|=.+.... ...||.|...+.
T Consensus 668 rkCPkCG~~t--~~-~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 668 RRCPSCGTET--YE-NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EECCCCCCcc--cc-ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 6688887655 12 356 47744 477776654322 236888876543
No 159
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=39.33 E-value=29 Score=40.36 Aligned_cols=29 Identities=21% Similarity=0.612 Sum_probs=18.1
Q ss_pred cccccCccCCCCCCCEEcCCCCccch----hhHHH
Q 000596 18 YFCPVCRLLVYPNEALQSQCTHLYCK----PCLTY 48 (1400)
Q Consensus 18 LiCPICleVL~pkDPVQT~CGHtFCs----sCIeK 48 (1400)
-.|-.|..|- +-|+-..||.+-|. .|+.+
T Consensus 52 AFCYFC~s~q--rlp~Ca~Cgk~KCm~k~gdCvvk 84 (314)
T PF06524_consen 52 AFCYFCQSVQ--RLPMCAHCGKTKCMLKTGDCVVK 84 (314)
T ss_pred ceeehhhhhh--cCchhhhcCCeeeeccCCCeEEe
Confidence 3466776666 56666677777664 45544
No 160
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=38.88 E-value=6 Score=44.30 Aligned_cols=122 Identities=15% Similarity=0.172 Sum_probs=0.0
Q ss_pred CCCCchhhccccCCCCccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCcccccccchhhhcccccchh
Q 000596 1 MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLV 80 (1400)
Q Consensus 1 MGFD~e~IvfVd~LeEeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kdLkllvee~IFPlI 80 (1400)
|+-.....+....-.+.+.|-||..-| .--..-..|+-|..=+++.+ |-.|.+-+. ..+
T Consensus 101 ~~ss~k~t~gsssd~d~ftCrvCgK~F---~lQRmlnrh~kch~~vkr~l-----ct~cgkgfn-------------dtf 159 (267)
T KOG3576|consen 101 STSSPKSTIGSSSDQDSFTCRVCGKKF---GLQRMLNRHLKCHSDVKRHL-----CTFCGKGFN-------------DTF 159 (267)
T ss_pred cccCCcccccCCCCCCeeeeehhhhhh---hHHHHHHHHhhhccHHHHHH-----HhhccCccc-------------chh
Q ss_pred hhhhHHHhhhcceeeecccCCCCCceeeccc-ccccccCCCCCC----------CccccCCcccchhchhh-HHHHHhh
Q 000596 81 ESNKALAETIGKITVHCLFHRSGCTWQGPLS-ECTSHCSGCAFG----------NSPVVCNRCAIQIVHRQ-VQEHAQN 147 (1400)
Q Consensus 81 esNK~LereIekLkVkCpn~k~GCqw~gkLk-dLkkHl~tC~y~----------~RpV~Cp~CgqqI~Rkd-LqeHLq~ 147 (1400)
.+.++++....-...+|. -|....+-+ .|+.|+..---. .++..|..|+..-.+-+ ...|++.
T Consensus 160 dlkrh~rthtgvrpykc~----~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~ 234 (267)
T KOG3576|consen 160 DLKRHTRTHTGVRPYKCS----LCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKL 234 (267)
T ss_pred hhhhhhccccCccccchh----hhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHh
No 161
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=38.77 E-value=22 Score=45.90 Aligned_cols=45 Identities=20% Similarity=0.305 Sum_probs=27.2
Q ss_pred CCCCceeeccccc----ccccCCCCCCCccccCCcccchhchhh-HHHHHh
Q 000596 101 RSGCTWQGPLSEC----TSHCSGCAFGNSPVVCNRCAIQIVHRQ-VQEHAQ 146 (1400)
Q Consensus 101 k~GCqw~gkLkdL----kkHl~tC~y~~RpV~Cp~CgqqI~Rkd-LqeHLq 146 (1400)
++.|.++++.-++ +.|+..-.- +++..|+.|+++|...- ...|+.
T Consensus 281 KFKCtECgKAFKfKHHLKEHlRIHSG-EKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 281 KFKCTECGKAFKFKHHLKEHLRIHSG-EKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred cccccccchhhhhHHHHHhhheeecC-CCCcCCcccccccccCCccccccc
Confidence 4445555554444 444433222 35788999999998764 567764
No 162
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.39 E-value=11 Score=48.19 Aligned_cols=24 Identities=21% Similarity=0.427 Sum_probs=12.9
Q ss_pred CCCCccchhhHHHHH--hcCCCCCCC
Q 000596 36 QCTHLYCKPCLTYIV--NTTQACPYD 59 (1400)
Q Consensus 36 ~CGHtFCssCIeKwL--kss~kCPvC 59 (1400)
.|.|.+|..|..+.- .....|+.|
T Consensus 96 ~~~~~~C~~C~~~~~~~~~~~~~~~c 121 (669)
T KOG2231|consen 96 ACLHHSCHICDRRFRALYNKKECLHC 121 (669)
T ss_pred HHHhhhcCccccchhhhcccCCCccc
Confidence 555566666665542 223456666
No 163
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=37.11 E-value=16 Score=39.63 Aligned_cols=27 Identities=19% Similarity=0.322 Sum_probs=20.2
Q ss_pred cccchhchhhHHHHHhhCCCCCCCCCC
Q 000596 131 RCAIQIVHRQVQEHAQNCPGVQPQASQ 157 (1400)
Q Consensus 131 ~CgqqI~RkdLqeHLq~CPk~pVqCPn 157 (1400)
+|...+...++.+|++.|..++..||.
T Consensus 23 GC~~~~~~~~~~~HE~~C~~~p~~CP~ 49 (198)
T PF03145_consen 23 GCTETFPYSEKREHEEECPFRPCSCPF 49 (198)
T ss_dssp T---EE-GGGHHHHHHT-TTSEEE-SS
T ss_pred CCcccccccChhhHhccCCCcCCcCCC
Confidence 699999999999999999999999998
No 164
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=37.08 E-value=31 Score=37.55 Aligned_cols=51 Identities=18% Similarity=0.341 Sum_probs=35.2
Q ss_pred CCCccccccCccCCCCCCCEE--cCCCC---ccchhhHHHHHhcC--CCCCCCCccccccc
Q 000596 14 LAGEYFCPVCRLLVYPNEALQ--SQCTH---LYCKPCLTYIVNTT--QACPYDGYLVTEAD 67 (1400)
Q Consensus 14 LeEeLiCPICleVL~pkDPVQ--T~CGH---tFCssCIeKwLkss--~kCPvCRq~It~kd 67 (1400)
...+..|-||.+-- . ... |.|.. ..=..|+.+|+..+ ..|+.|+..+....
T Consensus 5 s~~~~~CRIC~~~~--~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 5 SLMDKCCWICKDEY--D-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKK 62 (162)
T ss_pred CCCCCeeEecCCCC--C-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEE
Confidence 34556899999765 2 222 45544 23468999999865 58999998776543
No 165
>PLN02248 cellulose synthase-like protein
Probab=36.80 E-value=22 Score=47.90 Aligned_cols=6 Identities=17% Similarity=0.340 Sum_probs=3.0
Q ss_pred hhhhhh
Q 000596 1359 MDMVLS 1364 (1400)
Q Consensus 1359 md~vl~ 1364 (1400)
+|.|||
T Consensus 996 l~aiLK 1001 (1135)
T PLN02248 996 LQGLLK 1001 (1135)
T ss_pred HHHHHH
Confidence 455554
No 166
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=35.53 E-value=31 Score=36.83 Aligned_cols=35 Identities=17% Similarity=0.328 Sum_probs=24.5
Q ss_pred CccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCccccccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEAD 67 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kd 67 (1400)
..|.|+.|..-+ =+...+..+..||.|...+...+
T Consensus 108 ~~Y~Cp~c~~r~-----------------tf~eA~~~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 108 MFFICPNMCVRF-----------------TFNEAMELNFTCPRCGAMLDYLD 142 (158)
T ss_pred CeEECCCCCcEe-----------------eHHHHHHcCCcCCCCCCEeeecc
Confidence 446777777555 25555566789999999876654
No 167
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.11 E-value=19 Score=42.17 Aligned_cols=32 Identities=28% Similarity=0.589 Sum_probs=22.2
Q ss_pred CCCccchhhHHHHHhc-------------CCCCCCCCcccccccc
Q 000596 37 CTHLYCKPCLTYIVNT-------------TQACPYDGYLVTEADS 68 (1400)
Q Consensus 37 CGHtFCssCIeKwLks-------------s~kCPvCRq~It~kdL 68 (1400)
|.-..|..|+.+|... +..||.||+.+...++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 3445667999998742 2479999987765443
No 168
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=34.99 E-value=12 Score=43.92 Aligned_cols=43 Identities=19% Similarity=0.305 Sum_probs=31.6
Q ss_pred ccccccCccCCCCCCCEEc----CCC--CccchhhHHHHHhcCCCCCCCCc
Q 000596 17 EYFCPVCRLLVYPNEALQS----QCT--HLYCKPCLTYIVNTTQACPYDGY 61 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT----~CG--HtFCssCIeKwLkss~kCPvCRq 61 (1400)
.-.||||...- .-.++. .-| +.+|.-|-.+|--....||.|..
T Consensus 184 ~~~CPvCGs~P--~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPP--VASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChh--hhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 34799999865 333321 234 57999999999877789999985
No 169
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=34.70 E-value=13 Score=48.63 Aligned_cols=43 Identities=23% Similarity=0.443 Sum_probs=0.0
Q ss_pred ccccccCccCCCCCCCEEc-CCCC-----ccchhhHHHHHhcCCCCCCCCcccc
Q 000596 17 EYFCPVCRLLVYPNEALQS-QCTH-----LYCKPCLTYIVNTTQACPYDGYLVT 64 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT-~CGH-----tFCssCIeKwLkss~kCPvCRq~It 64 (1400)
...|+-|...- --..| .||- .+|..|-..... ..||.|....+
T Consensus 655 ~r~Cp~Cg~~t---~~~~Cp~CG~~T~~~~~Cp~C~~~~~~--~~C~~C~~~~~ 703 (900)
T PF03833_consen 655 RRRCPKCGKET---FYNRCPECGSHTEPVYVCPDCGIEVEE--DECPKCGRETT 703 (900)
T ss_dssp ------------------------------------------------------
T ss_pred cccCcccCCcc---hhhcCcccCCccccceeccccccccCc--cccccccccCc
Confidence 46799998765 22346 5873 499999887754 38999987654
No 170
>PF08894 DUF1838: Protein of unknown function (DUF1838); InterPro: IPR014990 This group of proteins are functionally uncharacterised.
Probab=34.56 E-value=24 Score=40.44 Aligned_cols=52 Identities=25% Similarity=0.525 Sum_probs=30.7
Q ss_pred CCCCCCCCCCCCcccccccCCCCCCCcc--cCCccccccccCC-CCCCCcceeEee
Q 000596 1284 NFPPPRLGEPGFRSSFSRQGFPNDGGFY--TGDMESIDNSRKR-KPPSMGWCRICK 1336 (1400)
Q Consensus 1284 ~~~~~~~~~p~~~~~~s~~gfp~~~~~~--~g~~~~~~~~r~~-k~~~~~wcric~ 1336 (1400)
+++||-++|+-+. .||--|-=.-.-+| .++..++-|.-.. ++..|+|||||.
T Consensus 116 ~YPnPL~~d~q~~-~~s~g~~Y~A~ElF~f~~~~~dl~~~~~~~~~~~~sW~R~gp 170 (238)
T PF08894_consen 116 FYPNPLAGDPQYP-DYSPGGTYQATELFNFFVDRADLTNPEPTSAPVTMSWTRIGP 170 (238)
T ss_pred cCCCCcccccccc-ccCCcchhhhhhhhhhccChhhhcCCCcCcccceeeEEeccc
Confidence 4679999999985 67643322222223 3433333333332 577899999984
No 171
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division []. ; PDB: 2XER_C 2XES_B 2XEQ_D.
Probab=34.32 E-value=13 Score=48.18 Aligned_cols=10 Identities=0% Similarity=0.106 Sum_probs=0.0
Q ss_pred eeeccccccc
Q 000596 106 WQGPLSECTS 115 (1400)
Q Consensus 106 w~gkLkdLkk 115 (1400)
+..+|+.|-+
T Consensus 29 fedTYDGLGd 38 (808)
T PF09770_consen 29 FEDTYDGLGD 38 (808)
T ss_dssp ----------
T ss_pred cccccccccc
Confidence 3344444433
No 172
>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=33.92 E-value=7.9 Score=44.37 Aligned_cols=44 Identities=27% Similarity=0.413 Sum_probs=22.3
Q ss_pred ccccccCccCCCCCCCEEc-C----CCCccchhhHHHHHhcCCCCCCCCcc
Q 000596 17 EYFCPVCRLLVYPNEALQS-Q----CTHLYCKPCLTYIVNTTQACPYDGYL 62 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT-~----CGHtFCssCIeKwLkss~kCPvCRq~ 62 (1400)
.-.||||...- .-.++. . -.+.+|.-|-..|.-....||.|...
T Consensus 172 ~g~CPvCGs~P--~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPP--VLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---E--EEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcC--ceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 45899999765 333443 2 24679999999998777899999864
No 173
>PHA02862 5L protein; Provisional
Probab=33.07 E-value=30 Score=37.31 Aligned_cols=47 Identities=15% Similarity=0.364 Sum_probs=32.4
Q ss_pred ccccCccCCCCCCCEE-cCCC---CccchhhHHHHHhcC--CCCCCCCccccccc
Q 000596 19 FCPVCRLLVYPNEALQ-SQCT---HLYCKPCLTYIVNTT--QACPYDGYLVTEAD 67 (1400)
Q Consensus 19 iCPICleVL~pkDPVQ-T~CG---HtFCssCIeKwLkss--~kCPvCRq~It~kd 67 (1400)
+|=||++-- .+.+. |.|. ...=..|+.+|++.+ ..|+.|+.++....
T Consensus 4 iCWIC~~~~--~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 4 ICWICNDVC--DERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred EEEEecCcC--CCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 699999876 33322 4553 234468999999764 58999998876543
No 174
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.60 E-value=22 Score=46.69 Aligned_cols=36 Identities=19% Similarity=0.380 Sum_probs=28.4
Q ss_pred CCccccccCccCCCCCCCEEc-CCCCccchhhHHHHHh
Q 000596 15 AGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVN 51 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLk 51 (1400)
+..-.|.+|...|+ ..|+.. .|||.|=++||.+...
T Consensus 815 ep~d~C~~C~~~ll-~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLL-IKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhh-cCcceeeeccchHHHHHHHHHHH
Confidence 44557999997664 567665 9999999999998764
No 175
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=31.96 E-value=29 Score=39.80 Aligned_cols=46 Identities=20% Similarity=0.486 Sum_probs=29.0
Q ss_pred ccc--cCccCCCCCCCEEc-CCCCccchhhHHHHHh--------c--CCCCCCCCcccccc
Q 000596 19 FCP--VCRLLVYPNEALQS-QCTHLYCKPCLTYIVN--------T--TQACPYDGYLVTEA 66 (1400)
Q Consensus 19 iCP--ICleVL~pkDPVQT-~CGHtFCssCIeKwLk--------s--s~kCPvCRq~It~k 66 (1400)
.|. .|+.+= -=|+.| -|.++||.+=...... + -..||.|.+.+...
T Consensus 10 HCs~~~CkqlD--FLPf~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~~ 68 (250)
T KOG3183|consen 10 HCSVPYCKQLD--FLPFKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPTK 68 (250)
T ss_pred ccCcchhhhcc--ccceeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCCCC
Confidence 466 787544 247887 8999998654333221 1 14799998877554
No 176
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=31.88 E-value=37 Score=37.07 Aligned_cols=35 Identities=26% Similarity=0.547 Sum_probs=24.3
Q ss_pred CccccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCccccccc
Q 000596 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEAD 67 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~It~kd 67 (1400)
..|.|+.|..-+ =+...+..+..||.|...+...+
T Consensus 116 ~~Y~Cp~C~~ry-----------------tf~eA~~~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 116 MFFFCPNCHIRF-----------------TFDEAMEYGFRCPQCGEMLEEYD 150 (178)
T ss_pred CEEECCCCCcEE-----------------eHHHHhhcCCcCCCCCCCCeecc
Confidence 457787777555 14455556789999999887654
No 177
>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=31.55 E-value=46 Score=29.40 Aligned_cols=20 Identities=20% Similarity=0.506 Sum_probs=11.6
Q ss_pred ccCCcccchhchhhHHHHHh
Q 000596 127 VVCNRCAIQIVHRQVQEHAQ 146 (1400)
Q Consensus 127 V~Cp~CgqqI~RkdLqeHLq 146 (1400)
..|++|++.+....|.+|+.
T Consensus 3 f~CP~C~~~~~~~~L~~H~~ 22 (54)
T PF05605_consen 3 FTCPYCGKGFSESSLVEHCE 22 (54)
T ss_pred cCCCCCCCccCHHHHHHHHH
Confidence 34556666555556666654
No 178
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=31.50 E-value=18 Score=42.69 Aligned_cols=44 Identities=20% Similarity=0.338 Sum_probs=32.5
Q ss_pred CccccccCccCCCCCCCEE-c--CCC--CccchhhHHHHHhcCCCCCCCCc
Q 000596 16 GEYFCPVCRLLVYPNEALQ-S--QCT--HLYCKPCLTYIVNTTQACPYDGY 61 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQ-T--~CG--HtFCssCIeKwLkss~kCPvCRq 61 (1400)
..-.||||...- .-.++ . .=| +.+|.-|-.+|--....||.|..
T Consensus 186 ~~~~CPvCGs~P--~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMP--VSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcc--hhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 456799999865 33333 1 233 56899999999877789999985
No 179
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=31.42 E-value=19 Score=43.77 Aligned_cols=33 Identities=24% Similarity=0.561 Sum_probs=24.4
Q ss_pred CccccccCccCCCCCCCEE--cCCCCccchhhHHHHH
Q 000596 16 GEYFCPVCRLLVYPNEALQ--SQCTHLYCKPCLTYIV 50 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPVQ--T~CGHtFCssCIeKwL 50 (1400)
....|+||.... -..+. -+|....|..|+..+-
T Consensus 73 r~~ecpicflyy--ps~~n~~rcC~~~Ic~ecf~~~~ 107 (482)
T KOG2789|consen 73 RKTECPICFLYY--PSAKNLVRCCSETICGECFAPFG 107 (482)
T ss_pred ccccCceeeeec--ccccchhhhhccchhhhheeccc
Confidence 456899998765 23333 3899999999998754
No 180
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=31.16 E-value=33 Score=40.78 Aligned_cols=45 Identities=7% Similarity=-0.092 Sum_probs=32.7
Q ss_pred CCCCccccccCccCCCCCCCEEcCCCC-ccchhhHHHHHhcCCCCCCCCc
Q 000596 13 SLAGEYFCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNTTQACPYDGY 61 (1400)
Q Consensus 13 ~LeEeLiCPICleVL~pkDPVQT~CGH-tFCssCIeKwLkss~kCPvCRq 61 (1400)
.+-..+.|-+|.+-+ .......|+| .||-.|.. +.-...|++|..
T Consensus 339 ~~~s~~~~~~~~~~~--~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~ 384 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGL--LSTIWSGGNMNLSPGSLAS--ASASPTSSTCDH 384 (394)
T ss_pred cchhhcccccccCce--eeeEeecCCcccChhhhhh--cccCCccccccc
Confidence 344567899998766 3444458998 79999987 344579999974
No 181
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=30.90 E-value=49 Score=39.35 Aligned_cols=26 Identities=19% Similarity=0.405 Sum_probs=17.7
Q ss_pred CCccchhhHHHHHhcCCCCCCCCccc
Q 000596 38 THLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 38 GHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
|-.+|..|-.+...--..||.|...+
T Consensus 307 gGy~CP~CktkVCsLPi~CP~Csl~L 332 (421)
T COG5151 307 GGYECPVCKTKVCSLPISCPICSLQL 332 (421)
T ss_pred CceeCCcccceeecCCccCcchhHHH
Confidence 55677777766655446899997543
No 182
>PF12049 DUF3531: Protein of unknown function (DUF3531); InterPro: IPR021920 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 149 to 199 amino acids in length.
Probab=30.88 E-value=24 Score=37.76 Aligned_cols=62 Identities=35% Similarity=0.599 Sum_probs=39.6
Q ss_pred cccCCCCCCCCCCCCCCCCcccccccCCCCC-------CCcc-cCCccccccccCCCCCCCcceeEeecccccccCcccc
Q 000596 1277 EELGGPGNFPPPRLGEPGFRSSFSRQGFPND-------GGFY-TGDMESIDNSRKRKPPSMGWCRICKVDCETVDGLDLH 1348 (1400)
Q Consensus 1277 ~~l~g~~~~~~~~~~~p~~~~~~s~~gfp~~-------~~~~-~g~~~~~~~~r~~k~~~~~wcric~~~c~tve~l~~h 1348 (1400)
|-|.|+ |-.++++-|-++-++| --|-.| +.|+ -|+||.-|| ||| |-||-+|.|.|
T Consensus 42 GrLGgf-NaeNlQv~~~~~d~s~--~~Yd~~~~~~~~~a~mHnmgd~Eyq~~----------waR-cWvDLGTsD~~--- 104 (146)
T PF12049_consen 42 GRLGGF-NAENLQVQEAGVDLSY--MSYDNEEADSSMPALMHNMGDFEYQGN----------WAR-CWVDLGTSDAL--- 104 (146)
T ss_pred hccccc-chhhhhhhhccccccc--cCCChhhhccccchhhhcccchhccCc----------EEE-EEEECCCchHH---
Confidence 334433 3445555555554433 344444 2333 499999886 998 89999999986
Q ss_pred chhHHHHhhhhhhhhh
Q 000596 1349 SQTREHQKMAMDMVLS 1364 (1400)
Q Consensus 1349 ~~trehq~~amd~vl~ 1364 (1400)
|+||++.
T Consensus 105 ---------aLDVLIN 111 (146)
T PF12049_consen 105 ---------ALDVLIN 111 (146)
T ss_pred ---------HHHHHHH
Confidence 6777663
No 183
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=30.40 E-value=17 Score=31.82 Aligned_cols=34 Identities=18% Similarity=0.490 Sum_probs=23.7
Q ss_pred Cccccc--cCccCCCCC----C-CEEc-CCCCccchhhHHHH
Q 000596 16 GEYFCP--VCRLLVYPN----E-ALQS-QCTHLYCKPCLTYI 49 (1400)
Q Consensus 16 EeLiCP--ICleVL~pk----D-PVQT-~CGHtFCssCIeKw 49 (1400)
+..-|+ -|..++... + .+.+ .|++.||..|...|
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 344599 898766332 1 3446 79999999998776
No 184
>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=30.35 E-value=25 Score=31.07 Aligned_cols=48 Identities=21% Similarity=0.428 Sum_probs=30.0
Q ss_pred eecccCCCCCceeecccccccccCCCC-CCCccccCCcccchhchhhHHHHHhh
Q 000596 95 VHCLFHRSGCTWQGPLSECTSHCSGCA-FGNSPVVCNRCAIQIVHRQVQEHAQN 147 (1400)
Q Consensus 95 VkCpn~k~GCqw~gkLkdLkkHl~tC~-y~~RpV~Cp~CgqqI~RkdLqeHLq~ 147 (1400)
+.|++ |........|..|+.+-= ...+.+.|+.|...+. .+|..|+..
T Consensus 3 f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~-~~l~~Hl~~ 51 (54)
T PF05605_consen 3 FTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPICSSRVT-DNLIRHLNS 51 (54)
T ss_pred cCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCCchhhhh-hHHHHHHHH
Confidence 45776 444444556777764311 1123689999998755 488889853
No 185
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=29.48 E-value=21 Score=42.56 Aligned_cols=37 Identities=22% Similarity=0.431 Sum_probs=25.8
Q ss_pred cCCCCccccccCccCCCCCCCEEc-CCCCccchhhHHHHH
Q 000596 12 QSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIV 50 (1400)
Q Consensus 12 d~LeEeLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwL 50 (1400)
..|.+.+.|--|.++- .+-..+ .-...||..|++..-
T Consensus 19 ~pl~~L~FCRyC~klr--c~~Cv~hEvdshfCp~CLEn~p 56 (449)
T KOG3896|consen 19 RPLPDLVFCRYCFKLR--CDDCVLHEVDSHFCPRCLENSP 56 (449)
T ss_pred ccccceeeeecccccc--cccccccccccccchhhccCCC
Confidence 5677888899998766 332222 445679999998753
No 186
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=29.41 E-value=35 Score=39.56 Aligned_cols=43 Identities=23% Similarity=0.440 Sum_probs=34.7
Q ss_pred ccccccCccCCCCCCCEEc-CCCCccchhhHHHHHhc--CCCCCCCCc
Q 000596 17 EYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT--TQACPYDGY 61 (1400)
Q Consensus 17 eLiCPICleVL~pkDPVQT-~CGHtFCssCIeKwLks--s~kCPvCRq 61 (1400)
.+.|||-+..+ .+|++. .|+|+|=++-|..++.. ...||+=.+
T Consensus 176 s~rdPis~~~I--~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 176 SNRDPISKKPI--VNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred cccCchhhhhh--hchhhhcCcCcchhhhhHHHHhccCceeecccccC
Confidence 46799988777 789885 99999999999998876 458998333
No 187
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=28.84 E-value=29 Score=27.37 Aligned_cols=22 Identities=32% Similarity=0.635 Sum_probs=12.2
Q ss_pred ccccCccCCCCCCCEEc-CCCCcc
Q 000596 19 FCPVCRLLVYPNEALQS-QCTHLY 41 (1400)
Q Consensus 19 iCPICleVL~pkDPVQT-~CGHtF 41 (1400)
.||.|...+ +.....| .|||.|
T Consensus 2 ~CP~C~~~V-~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEV-PESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCc-hhhcCcCCCCCCCC
Confidence 477777665 1344445 366665
No 188
>PRK10263 DNA translocase FtsK; Provisional
Probab=28.29 E-value=1.3e+02 Score=41.83 Aligned_cols=14 Identities=29% Similarity=0.309 Sum_probs=5.9
Q ss_pred CCCCcccccccccc
Q 000596 1378 DRCSSDDANKSRNV 1391 (1400)
Q Consensus 1378 ~~~~~~~~~~~~~~ 1391 (1400)
|-.+..+++|.|++
T Consensus 1335 Giv~p~~gsk~ReV 1348 (1355)
T PRK10263 1335 GIVSEQGHNGNREV 1348 (1355)
T ss_pred CcCCCCCCCCCCeE
Confidence 33444444444443
No 189
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=28.15 E-value=39 Score=39.44 Aligned_cols=21 Identities=38% Similarity=0.760 Sum_probs=12.9
Q ss_pred hhhccccCCCCccccccCccCC
Q 000596 6 ECILNIQSLAGEYFCPVCRLLV 27 (1400)
Q Consensus 6 e~IvfVd~LeEeLiCPICleVL 27 (1400)
+.|++|+ |.++-+|.||+..-
T Consensus 5 eqFvnID-LnddniCsVCkl~T 25 (285)
T PF06937_consen 5 EQFVNID-LNDDNICSVCKLGT 25 (285)
T ss_pred hhceeec-cCCCceeeeeeecc
Confidence 4455544 66767777777554
No 190
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division []. ; PDB: 2XER_C 2XES_B 2XEQ_D.
Probab=27.86 E-value=20 Score=46.65 Aligned_cols=6 Identities=0% Similarity=-0.308 Sum_probs=0.0
Q ss_pred CCCCCC
Q 000596 202 DTNQQP 207 (1400)
Q Consensus 202 ~Snqq~ 207 (1400)
.|.|..
T Consensus 125 ~SlWg~ 130 (808)
T PF09770_consen 125 SSLWGN 130 (808)
T ss_dssp ------
T ss_pred cccccc
Confidence 344444
No 191
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=27.65 E-value=32 Score=38.71 Aligned_cols=24 Identities=21% Similarity=0.552 Sum_probs=17.6
Q ss_pred cccccCccCCCC-CCCEEcCCCCcc
Q 000596 18 YFCPVCRLLVYP-NEALQSQCTHLY 41 (1400)
Q Consensus 18 LiCPICleVL~p-kDPVQT~CGHtF 41 (1400)
|.||||...|.. ...+.|.++|+|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 789999988832 134567888888
No 192
>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=27.32 E-value=31 Score=32.84 Aligned_cols=12 Identities=25% Similarity=0.730 Sum_probs=8.8
Q ss_pred ccchhhHHHHHh
Q 000596 40 LYCKPCLTYIVN 51 (1400)
Q Consensus 40 tFCssCIeKwLk 51 (1400)
-||+.||.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 193
>PF15279 SOBP: Sine oculis-binding protein
Probab=27.02 E-value=86 Score=37.28 Aligned_cols=48 Identities=19% Similarity=0.306 Sum_probs=27.9
Q ss_pred CceeecccccccccCCCCCCCccccC-Ccccchhc----hhhHHHHHhhCCCC
Q 000596 104 CTWQGPLSECTSHCSGCAFGNSPVVC-NRCAIQIV----HRQVQEHAQNCPGV 151 (1400)
Q Consensus 104 Cqw~gkLkdLkkHl~tC~y~~RpV~C-p~CgqqI~----RkdLqeHLq~CPk~ 151 (1400)
|+|+-.++..++.++.=.-+.++-.| ..|-.++. .++-+.|+..++..
T Consensus 2 cdwckh~rh~~~y~d~~~g~~~lqfcs~kclnqykm~if~~etqa~l~~~~~~ 54 (306)
T PF15279_consen 2 CDWCKHVRHTKSYVDFQDGERQLQFCSDKCLNQYKMDIFYKETQAHLPMNPHL 54 (306)
T ss_pred ccchhcccchhheeccccchHHhhhccHHHHhHHHHHHHHHHHHHhcCCCCCC
Confidence 88887776665555332222345666 46765544 55666687765544
No 194
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=25.57 E-value=28 Score=44.79 Aligned_cols=10 Identities=30% Similarity=0.952 Sum_probs=6.3
Q ss_pred cccccCccCC
Q 000596 18 YFCPVCRLLV 27 (1400)
Q Consensus 18 LiCPICleVL 27 (1400)
+.|+-|....
T Consensus 2 ~~Cp~Cg~~n 11 (645)
T PRK14559 2 LICPQCQFEN 11 (645)
T ss_pred CcCCCCCCcC
Confidence 3577776655
No 195
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=25.52 E-value=57 Score=39.06 Aligned_cols=10 Identities=30% Similarity=1.334 Sum_probs=4.9
Q ss_pred CCCCccchhh
Q 000596 36 QCTHLYCKPC 45 (1400)
Q Consensus 36 ~CGHtFCssC 45 (1400)
.|.++||.+|
T Consensus 350 ~Ck~~FCldC 359 (378)
T KOG2807|consen 350 SCKNVFCLDC 359 (378)
T ss_pred hccceeeccc
Confidence 4444444444
No 196
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=25.27 E-value=32 Score=42.92 Aligned_cols=40 Identities=20% Similarity=0.482 Sum_probs=27.1
Q ss_pred ccCCC-CccccccCccCCC--CCCCEEc---CCCCccchhhHHHHH
Q 000596 11 IQSLA-GEYFCPVCRLLVY--PNEALQS---QCTHLYCKPCLTYIV 50 (1400)
Q Consensus 11 Vd~Le-EeLiCPICleVL~--pkDPVQT---~CGHtFCssCIeKwL 50 (1400)
|++.- |+-.|-+|..... .-.|+-| +|-..||..||...-
T Consensus 448 IkPYv~eDq~CdeC~g~~c~~q~aPfFC~n~~C~QYYCe~CWa~~H 493 (520)
T KOG0129|consen 448 IKPYVMEDQLCDECGGRRCGGQFAPFFCRNATCFQYYCESCWAKIH 493 (520)
T ss_pred ecceeccccchhhhcCeeccCccCCcccCCccHHhhhchHHHHHhh
Confidence 34444 7788999988431 0256665 788888888887763
No 197
>KOG4274 consensus Positive cofactor 2 (PC2), subunit of a multiprotein coactivator of RNA polymerase II [Transcription]
Probab=25.11 E-value=4.5e+02 Score=34.09 Aligned_cols=11 Identities=18% Similarity=0.253 Sum_probs=6.4
Q ss_pred eeccccccccc
Q 000596 107 QGPLSECTSHC 117 (1400)
Q Consensus 107 ~gkLkdLkkHl 117 (1400)
....+++++|+
T Consensus 31 ~k~a~~mE~hV 41 (742)
T KOG4274|consen 31 SKSAKDMESHV 41 (742)
T ss_pred CcchHHHHHHH
Confidence 34455666666
No 198
>KOG4761 consensus Proteasome formation inhibitor PI31 [Posttranslational modification, protein turnover, chaperones]
Probab=24.82 E-value=2.9e+02 Score=32.37 Aligned_cols=51 Identities=25% Similarity=0.369 Sum_probs=34.0
Q ss_pred CCCCcCCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCcccccccCCCCCCCCCCC
Q 000596 1116 PGLKLDPMGASAPSRFLPAYHDDAAGRSDSSHAHPDFPRPGRAYGRRHMGGLSPRSPFR 1174 (1400)
Q Consensus 1116 ~g~~~~~~~g~~p~~f~~~~~~d~~~~~~~~~~~p~~~~p~~~~~~~~~dg~~~r~p~~ 1174 (1400)
-||-+|+|. +. +=|.-++..|+++ .||+-.-||+.|+--+-.|.++--|++
T Consensus 203 Gg~~~dpl~-~G----p~g~~~~~pg~pn---~~PG~vPpgarFdP~gP~g~~~~gpnp 253 (266)
T KOG4761|consen 203 GGMIVDPLR-SG----PRGLIDPSPGLPN---LPPGAVPPGARFDPFGPIGTSPPGPNP 253 (266)
T ss_pred CCccccccc-cC----CCCCCCCCCCCCC---CCCCCCCCCCcCCCCCCCCCCCCCCCc
Confidence 477778773 22 2266688888888 899998899888765555554333333
No 199
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=24.39 E-value=33 Score=39.44 Aligned_cols=19 Identities=32% Similarity=0.788 Sum_probs=16.0
Q ss_pred ccCCCCCCCcceeEeeccc
Q 000596 1321 SRKRKPPSMGWCRICKVDC 1339 (1400)
Q Consensus 1321 ~r~~k~~~~~wcric~~~c 1339 (1400)
+||+|--+--||..||.+-
T Consensus 2 grkkkk~~kpwcwycnref 20 (341)
T KOG2893|consen 2 GRKKKKVDKPWCWYCNREF 20 (341)
T ss_pred CccccccCCceeeeccccc
Confidence 5888888899999998763
No 200
>PF02948 Amelogenin: Amelogenin; InterPro: IPR004116 Amelogenins, cell adhesion proteins, play a role in the biomineralisation of teeth. They seem to regulate formation of crystallites during the secretory stage of tooth enamel development and are thought to play a major role in the structural organisation and mineralisation of developing enamel. The extracellular matrix of the developing enamel comprises two major classes of protein: the hydrophobic amelogenins and the acidic enamelins []. Circular dichroism studies of porcine amelogenin have shown that the protein consists of 3 discrete folding units []: the N-terminal region appears to contain beta-strand structures, while the C-terminal region displays characteristics of a random coil conformation. Subsequent studies on the bovine protein have indicated the amelogenin structure to contain a repetitive beta-turn segment and a "beta-spiral" between Gln112 and Leu138, which sequester a (Pro, Leu, Gln) rich region []. The beta-spiral offers a probable site for interactions with Ca2+ ions. Muatations in the human amelogenin gene (AMGX) cause X-linked hypoplastic amelogenesis imperfecta, a disease characterised by defective enamel. A 9bp deletion in exon 2 of AMGX results in the loss of codons for Ile5, Leu6, Phe7 and Ala8, and replacement by a new threonine codon, disrupting the 16-residue (Met1-Ala16) amelogenin signal peptide [].; GO: 0007275 multicellular organismal development, 0005578 proteinaceous extracellular matrix
Probab=23.70 E-value=2.6e+02 Score=31.15 Aligned_cols=26 Identities=31% Similarity=0.586 Sum_probs=17.1
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCC
Q 000596 495 TGLPPLGQVANIPPAQQLPVRPHAPQ 520 (1400)
Q Consensus 495 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 520 (1400)
.++|..++-+++++.-|.++.+||-+
T Consensus 91 ~~~P~~gh~p~~~pP~qhPlqPqage 116 (174)
T PF02948_consen 91 PFVPMQGHQPHYPPPAQHPLQPQAGE 116 (174)
T ss_pred CccCCCCCCCCCCCCCccccCCCCCC
Confidence 36666666677776667777776544
No 201
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the 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=22.63 E-value=41 Score=30.50 Aligned_cols=34 Identities=15% Similarity=0.386 Sum_probs=16.0
Q ss_pred CccccccCccCCCC-CCCEEc-CCCCccchhhHHHH
Q 000596 16 GEYFCPVCRLLVYP-NEALQS-QCTHLYCKPCLTYI 49 (1400)
Q Consensus 16 EeLiCPICleVL~p-kDPVQT-~CGHtFCssCIeKw 49 (1400)
+.-.|.+|...|.. +.-..+ .||++||..|....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 34569999987722 222235 89999999997543
No 203
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=22.51 E-value=18 Score=31.58 Aligned_cols=32 Identities=19% Similarity=0.656 Sum_probs=18.2
Q ss_pred ccccc--CccCCCCCC---C--EEcC-CCCccchhhHHHH
Q 000596 18 YFCPV--CRLLVYPNE---A--LQSQ-CTHLYCKPCLTYI 49 (1400)
Q Consensus 18 LiCPI--CleVL~pkD---P--VQT~-CGHtFCssCIeKw 49 (1400)
..|+- |..++...+ . +.+. |++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 47988 998773322 2 5565 9999999987655
No 204
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=22.32 E-value=76 Score=29.23 Aligned_cols=33 Identities=21% Similarity=0.519 Sum_probs=26.1
Q ss_pred ccccccCccCCCC-CCCEEc-CCCCccchhhHHHH
Q 000596 17 EYFCPVCRLLVYP-NEALQS-QCTHLYCKPCLTYI 49 (1400)
Q Consensus 17 eLiCPICleVL~p-kDPVQT-~CGHtFCssCIeKw 49 (1400)
.-.|.+|.+.|.+ .|.|+| .|+-.|=+.|+++.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 4579999998843 456777 89999989998775
No 205
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.02 E-value=21 Score=38.91 Aligned_cols=12 Identities=42% Similarity=0.841 Sum_probs=9.2
Q ss_pred ccccccCccCCC
Q 000596 17 EYFCPVCRLLVY 28 (1400)
Q Consensus 17 eLiCPICleVL~ 28 (1400)
-+.||||..++.
T Consensus 138 g~KCPvC~K~V~ 149 (205)
T KOG0801|consen 138 GMKCPVCHKVVP 149 (205)
T ss_pred CccCCccccccC
Confidence 377999988773
No 206
>PHA02335 hypothetical protein
Probab=21.55 E-value=27 Score=35.92 Aligned_cols=19 Identities=37% Similarity=0.630 Sum_probs=15.9
Q ss_pred CCCccCCccchHHhhccCC
Q 000596 1051 PARSVIDRGEFEEDLKQFS 1069 (1400)
Q Consensus 1051 p~~~~~~~~~f~~~~k~f~ 1069 (1400)
-+-..|++.|||||||.|+
T Consensus 20 ~np~sVt~ddf~~DlkRi~ 38 (118)
T PHA02335 20 NNPQSVTYDDFEEDLKRFK 38 (118)
T ss_pred CCcccccHHHHHHHHHHHH
Confidence 3446799999999999986
No 207
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=21.55 E-value=11 Score=34.88 Aligned_cols=29 Identities=21% Similarity=0.432 Sum_probs=24.2
Q ss_pred cceeEeecccccccCccccchhHHHHhhh
Q 000596 1330 GWCRICKVDCETVDGLDLHSQTREHQKMA 1358 (1400)
Q Consensus 1330 ~wcric~~~c~tve~l~~h~~trehq~~a 1358 (1400)
--|.+|.....+++.|..|..+..|.+++
T Consensus 51 ~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~ 79 (100)
T PF12756_consen 51 FRCPYCNKTFRSREALQEHMRSKHHKKRN 79 (100)
T ss_dssp EEBSSSS-EESSHHHHHHHHHHTTTTC-S
T ss_pred CCCCccCCCCcCHHHHHHHHcCccCCCcc
Confidence 45999999999999999999998887654
No 208
>PRK11595 DNA utilization protein GntX; Provisional
Probab=21.45 E-value=61 Score=36.06 Aligned_cols=38 Identities=21% Similarity=0.497 Sum_probs=21.3
Q ss_pred ccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 19 FCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 19 iCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
.|.+|...+ ... ...+|..|+..+......|+.|...+
T Consensus 7 ~C~~C~~~~--~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPL--ALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCcc--CCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 477777655 111 12367777776533234677776553
No 209
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=21.35 E-value=52 Score=28.68 Aligned_cols=25 Identities=16% Similarity=0.533 Sum_probs=19.3
Q ss_pred cccCCcccchhchh------hHHHHHh-hCCC
Q 000596 126 PVVCNRCAIQIVHR------QVQEHAQ-NCPG 150 (1400)
Q Consensus 126 pV~Cp~CgqqI~Rk------dLqeHLq-~CPk 150 (1400)
.+.|.+|+..+... .|..|+. .|+.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~~ 49 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCcC
Confidence 47788888877654 7999998 6875
No 210
>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=21.27 E-value=46 Score=33.31 Aligned_cols=34 Identities=24% Similarity=0.568 Sum_probs=26.6
Q ss_pred ccccCccCCCCCCCEEcCCCCccchhhHHHHHhcCCCCCCCCccc
Q 000596 19 FCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1400)
Q Consensus 19 iCPICleVL~pkDPVQT~CGHtFCssCIeKwLkss~kCPvCRq~I 63 (1400)
.|-||..-+ .. =++.||..|..+- ..|..|...|
T Consensus 46 ~C~~CK~~v--~q-----~g~~YCq~CAYkk----GiCamCGKki 79 (90)
T PF10235_consen 46 KCKICKTKV--HQ-----PGAKYCQTCAYKK----GICAMCGKKI 79 (90)
T ss_pred ccccccccc--cc-----CCCccChhhhccc----CcccccCCee
Confidence 699999877 32 2889999997553 5799999876
No 211
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=21.26 E-value=49 Score=42.53 Aligned_cols=45 Identities=22% Similarity=0.404 Sum_probs=27.9
Q ss_pred CCccccccCccCCCCCC----CEEc-CCCCccchhhHHHHHhc-----CCCCCCCCc
Q 000596 15 AGEYFCPVCRLLVYPNE----ALQS-QCTHLYCKPCLTYIVNT-----TQACPYDGY 61 (1400)
Q Consensus 15 eEeLiCPICleVL~pkD----PVQT-~CGHtFCssCIeKwLks-----s~kCPvCRq 61 (1400)
...++|.||...= .. -+.| .|+-.|=..|+..|+.. .-.||-||.
T Consensus 16 ~~~~mc~l~~s~G--~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 16 IVCLMCPLCGSSG--KGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhhhcccc--ccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 3457789987543 21 1224 77777777788877754 235877764
No 212
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=21.15 E-value=36 Score=39.49 Aligned_cols=31 Identities=23% Similarity=0.434 Sum_probs=0.0
Q ss_pred ccccCCcccchhchhhHHHHHhhCCCCCCCC
Q 000596 125 SPVVCNRCAIQIVHRQVQEHAQNCPGVQPQA 155 (1400)
Q Consensus 125 RpV~Cp~CgqqI~RkdLqeHLq~CPk~pVqC 155 (1400)
+...|+.|+..+.+..++.|+..|.....+|
T Consensus 2 V~FtCnvCgEsvKKp~vekH~srCrn~~fSC 32 (276)
T KOG2186|consen 2 VFFTCNVCGESVKKPQVEKHMSRCRNAYFSC 32 (276)
T ss_pred eEEehhhhhhhccccchHHHHHhccCCeeEE
No 213
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=21.01 E-value=33 Score=41.36 Aligned_cols=114 Identities=16% Similarity=0.285 Sum_probs=63.0
Q ss_pred CCccccccCccCCCCCCCEE--------cCCCCccchhhHHHHHhc------------CCCCCCCCcccccccchhhhcc
Q 000596 15 AGEYFCPVCRLLVYPNEALQ--------SQCTHLYCKPCLTYIVNT------------TQACPYDGYLVTEADSKVVLSS 74 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQ--------T~CGHtFCssCIeKwLks------------s~kCPvCRq~It~kdLkllvee 74 (1400)
++.+-|+.|..+|..++-+. +.-.+.-|+.|.++...+ ..+||.|.......
T Consensus 205 eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~-------- 276 (467)
T KOG3608|consen 205 EKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSA-------- 276 (467)
T ss_pred CeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCCh--------
Confidence 45577999998882111111 123467888898876543 25899987543221
Q ss_pred cccchhhhhhHHH-hhhcceeeecccCCCCCce-eecccccccccCCCCCCCccccCC--cccchhc-hhhHHHHHhh
Q 000596 75 AVVPLVESNKALA-ETIGKITVHCLFHRSGCTW-QGPLSECTSHCSGCAFGNSPVVCN--RCAIQIV-HRQVQEHAQN 147 (1400)
Q Consensus 75 ~IFPlIesNK~Le-reIekLkVkCpn~k~GCqw-~gkLkdLkkHl~tC~y~~RpV~Cp--~CgqqI~-RkdLqeHLq~ 147 (1400)
.++.++|+ +-..+..++|. .|+. +....+|.+|...=. +....|. .|-..+. ...|..|..+
T Consensus 277 -----ssL~~H~r~rHs~dkpfKCd----~Cd~~c~~esdL~kH~~~HS--~~~y~C~h~~C~~s~r~~~q~~~H~~e 343 (467)
T KOG3608|consen 277 -----SSLTTHIRYRHSKDKPFKCD----ECDTRCVRESDLAKHVQVHS--KTVYQCEHPDCHYSVRTYTQMRRHFLE 343 (467)
T ss_pred -----HHHHHHHHhhhccCCCcccc----chhhhhccHHHHHHHHHhcc--ccceecCCCCCcHHHHHHHHHHHHHHH
Confidence 11123333 34445666764 3544 344667778875322 1245564 4876665 3456777654
No 214
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=20.88 E-value=82 Score=41.14 Aligned_cols=16 Identities=25% Similarity=0.405 Sum_probs=7.5
Q ss_pred cchHHhhccCCCCCCC
Q 000596 1059 GEFEEDLKQFSRPSHL 1074 (1400)
Q Consensus 1059 ~~f~~~~k~f~~~~~l 1074 (1400)
+-|+|-|++|.+-..+
T Consensus 434 ~~~~ea~~~~~~~~~~ 449 (750)
T COG0068 434 EFFREALRHFLKIYDF 449 (750)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 3345555555544333
No 215
>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=20.83 E-value=60 Score=29.45 Aligned_cols=25 Identities=28% Similarity=0.732 Sum_probs=13.2
Q ss_pred CCCCccchhhHHHHHhcCCCCCCCC
Q 000596 36 QCTHLYCKPCLTYIVNTTQACPYDG 60 (1400)
Q Consensus 36 ~CGHtFCssCIeKwLkss~kCPvCR 60 (1400)
.|.+.||.+|=.-+-+.-..||-|.
T Consensus 26 ~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCccccCcChhhhccccCCcCCC
Confidence 7888888888544333335788874
No 216
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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 predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=20.83 E-value=46 Score=27.88 Aligned_cols=24 Identities=17% Similarity=0.375 Sum_probs=15.0
Q ss_pred ccccCCcccchhchh-----hHHHHHh-hC
Q 000596 125 SPVVCNRCAIQIVHR-----QVQEHAQ-NC 148 (1400)
Q Consensus 125 RpV~Cp~CgqqI~Rk-----dLqeHLq-~C 148 (1400)
..+.|.+|+..+... .|..|+. .|
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 357888899888774 8999984 45
No 217
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=20.72 E-value=34 Score=43.40 Aligned_cols=110 Identities=14% Similarity=0.193 Sum_probs=62.5
Q ss_pred CCccccccCccCCCCCCCEEcCCCC-ccchhhHHHHHhc-----C-CCCCCCCcccccccchhhhcccccchhhhhhHHH
Q 000596 15 AGEYFCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNT-----T-QACPYDGYLVTEADSKVVLSSAVVPLVESNKALA 87 (1400)
Q Consensus 15 eEeLiCPICleVL~pkDPVQT~CGH-tFCssCIeKwLks-----s-~kCPvCRq~It~kdLkllvee~IFPlIesNK~Le 87 (1400)
.+-+.|.+|+..| +..-.++.||. ..|..|..-.... . ..|-.|...+..... |-
T Consensus 89 ~~cf~cs~ck~pf-~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~-----------------ll 150 (670)
T KOG1044|consen 89 PKCFSCSTCKSPF-KSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQA-----------------LL 150 (670)
T ss_pred cccceecccCCCC-CCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccce-----------------ee
Confidence 3457899999888 22344556664 5666676543322 1 368888776644321 11
Q ss_pred hhhcceeeecccCCCCCceeeccccccccc----CCCCCCCccccCCcccchhchhhHHH
Q 000596 88 ETIGKITVHCLFHRSGCTWQGPLSECTSHC----SGCAFGNSPVVCNRCAIQIVHRQVQE 143 (1400)
Q Consensus 88 reIekLkVkCpn~k~GCqw~gkLkdLkkHl----~tC~y~~RpV~Cp~CgqqI~RkdLqe 143 (1400)
.+...+-|.|... ..|..+..-+.+.+|- ..|-+..--|+|..|...|.-+-|+.
T Consensus 151 ald~qwhv~cfkc-~~c~~vL~gey~skdg~pyce~dy~~~fgvkc~~c~~fisgkvLqa 209 (670)
T KOG1044|consen 151 ALDKQWHVSCFKC-KSCSAVLNGEYMSKDGVPYCEKDYQAKFGVKCEECEKFISGKVLQA 209 (670)
T ss_pred eeccceeeeeeeh-hhhcccccceeeccCCCcchhhhhhhhcCeehHHhhhhhhhhhhhc
Confidence 2233466777543 3455555444444442 33333233588989988888777764
No 218
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=20.31 E-value=52 Score=38.66 Aligned_cols=23 Identities=17% Similarity=0.104 Sum_probs=10.9
Q ss_pred cceeeecccCCCCCceeeccccccccc
Q 000596 91 GKITVHCLFHRSGCTWQGPLSECTSHC 117 (1400)
Q Consensus 91 ekLkVkCpn~k~GCqw~gkLkdLkkHl 117 (1400)
+.+-++|+ .|......++|+.++
T Consensus 25 e~lw~KCp----~c~~~~y~~eL~~n~ 47 (294)
T COG0777 25 EGLWTKCP----SCGEMLYRKELESNL 47 (294)
T ss_pred CCceeECC----CccceeeHHHHHhhh
Confidence 34445554 344555555554444
No 219
>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=20.17 E-value=98 Score=38.35 Aligned_cols=46 Identities=15% Similarity=0.395 Sum_probs=34.2
Q ss_pred CccccccCccCCCCCCCE-EcCCCCccchhhHHHHHhcCCCCCCCCccccc
Q 000596 16 GEYFCPVCRLLVYPNEAL-QSQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1400)
Q Consensus 16 EeLiCPICleVL~pkDPV-QT~CGHtFCssCIeKwLkss~kCPvCRq~It~ 65 (1400)
+.+.|.+|..++ .+.. ...=|.++|..|+..|+. ..|-.|...|..
T Consensus 329 ~~~~c~~~~~~~--~~~~~~~~~g~~~c~~~~~~~~~--p~C~~C~~~i~~ 375 (479)
T KOG1703|consen 329 EHFSCEVCAIVI--LDGGPRELDGKILCHECFHAPFR--PNCKRCLLPILE 375 (479)
T ss_pred cceeeccccccc--cCCCccccCCCccHHHHHHHhhC--ccccccCCchHH
Confidence 557899998888 3332 357788999999999976 578788766543
No 220
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=20.16 E-value=33 Score=43.58 Aligned_cols=43 Identities=23% Similarity=0.658 Sum_probs=28.2
Q ss_pred CccccccCc--cCCCCC---CCEEc-CCCCccchhhHHHHHhcCCCCCCCCc
Q 000596 16 GEYFCPVCR--LLVYPN---EALQS-QCTHLYCKPCLTYIVNTTQACPYDGY 61 (1400)
Q Consensus 16 EeLiCPICl--eVL~pk---DPVQT-~CGHtFCssCIeKwLkss~kCPvCRq 61 (1400)
..++|.||. +++||- ....| .|+++|=+.|+++.. ..||.|-.
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~s---~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRKS---PCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhccC---CCCCchHH
Confidence 457888886 455442 11224 888888888876643 34999954
Done!