Query 000721
Match_columns 1332
No_of_seqs 227 out of 1651
Neff 3.3
Searched_HMMs 46136
Date Mon Apr 1 22:31:22 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000721.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000721hhsearch_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 1.4E-15 3E-20 173.4 6.5 146 1-165 7-155 (391)
2 COG5432 RAD18 RING-finger-cont 99.4 1.1E-13 2.4E-18 151.2 5.9 180 3-188 11-228 (391)
3 TIGR00599 rad18 DNA repair pro 99.2 4.1E-11 8.9E-16 137.6 8.6 62 5-68 14-75 (397)
4 KOG0287 Postreplication repair 99.2 5.5E-12 1.2E-16 140.4 1.3 148 3-154 9-190 (442)
5 KOG3002 Zn finger protein [Gen 99.0 7.4E-10 1.6E-14 123.6 7.5 115 14-149 45-163 (299)
6 smart00504 Ubox Modified RING 98.9 1E-09 2.2E-14 94.3 4.8 51 17-69 1-51 (63)
7 PF04564 U-box: U-box domain; 98.7 7.5E-09 1.6E-13 93.6 3.7 66 14-93 1-67 (73)
8 KOG0320 Predicted E3 ubiquitin 98.7 4E-09 8.6E-14 110.2 1.8 53 16-68 130-182 (187)
9 PLN03208 E3 ubiquitin-protein 98.7 1.1E-08 2.3E-13 108.5 3.6 55 13-69 14-84 (193)
10 KOG0823 Predicted E3 ubiquitin 98.7 8.8E-09 1.9E-13 111.1 2.7 53 15-69 45-100 (230)
11 PF15227 zf-C3HC4_4: zinc fing 98.5 6.4E-08 1.4E-12 80.0 2.7 38 20-59 1-42 (42)
12 PF13923 zf-C3HC4_2: Zinc fing 98.5 9.1E-08 2E-12 77.0 2.5 38 20-59 1-39 (39)
13 PF14835 zf-RING_6: zf-RING of 98.4 8.9E-08 1.9E-12 86.4 0.3 53 13-69 3-56 (65)
14 PF13920 zf-C3HC4_3: Zinc fing 98.3 2.7E-07 5.9E-12 77.6 2.9 47 16-64 1-48 (50)
15 KOG2177 Predicted E3 ubiquitin 98.3 2.1E-07 4.6E-12 94.5 2.5 48 12-61 8-55 (386)
16 PHA02929 N1R/p28-like protein; 98.3 3E-07 6.5E-12 100.4 3.5 49 15-64 172-227 (238)
17 KOG0317 Predicted E3 ubiquitin 98.3 1.9E-07 4.1E-12 103.5 1.9 50 16-67 238-287 (293)
18 PF13639 zf-RING_2: Ring finge 98.3 2.5E-07 5.4E-12 75.9 1.7 42 19-60 2-44 (44)
19 KOG2164 Predicted E3 ubiquitin 98.2 4.9E-07 1.1E-11 106.1 2.0 51 17-69 186-241 (513)
20 cd00162 RING RING-finger (Real 98.1 1.7E-06 3.7E-11 67.8 2.8 42 19-62 1-44 (45)
21 PF00097 zf-C3HC4: Zinc finger 98.1 1.8E-06 3.9E-11 69.4 2.7 38 20-59 1-41 (41)
22 TIGR00570 cdk7 CDK-activating 98.1 2.1E-06 4.5E-11 96.8 3.9 53 16-69 2-59 (309)
23 KOG0311 Predicted E3 ubiquitin 98.0 4.9E-07 1.1E-11 102.4 -3.8 58 7-66 33-92 (381)
24 PHA02926 zinc finger-like prot 98.0 3.2E-06 6.9E-11 91.6 2.1 53 12-64 165-230 (242)
25 COG5222 Uncharacterized conser 97.9 5E-06 1.1E-10 92.7 2.8 42 18-61 275-318 (427)
26 smart00184 RING Ring finger. E 97.9 9.1E-06 2E-10 61.5 2.6 38 20-59 1-39 (39)
27 KOG0825 PHD Zn-finger protein 97.9 1.2E-06 2.6E-11 105.9 -3.6 49 17-67 123-174 (1134)
28 PF14634 zf-RING_5: zinc-RING 97.9 8.4E-06 1.8E-10 67.5 2.4 43 19-61 1-44 (44)
29 COG5574 PEX10 RING-finger-cont 97.8 7.2E-06 1.6E-10 90.5 1.8 51 15-67 213-265 (271)
30 KOG2660 Locus-specific chromos 97.8 5.9E-06 1.3E-10 93.3 0.5 54 11-66 9-63 (331)
31 KOG0978 E3 ubiquitin ligase in 97.8 5.7E-06 1.2E-10 100.9 -0.0 54 14-69 640-694 (698)
32 PF13445 zf-RING_UBOX: RING-ty 97.8 1.3E-05 2.8E-10 67.3 2.0 35 20-57 1-43 (43)
33 COG5152 Uncharacterized conser 97.4 6.4E-05 1.4E-09 80.5 1.8 45 18-64 197-241 (259)
34 KOG0802 E3 ubiquitin ligase [P 97.3 6.2E-05 1.3E-09 90.2 0.9 48 17-66 291-343 (543)
35 PF12678 zf-rbx1: RING-H2 zinc 97.3 0.00017 3.7E-09 66.0 3.5 39 20-60 22-73 (73)
36 KOG1002 Nucleotide excision re 97.2 0.00012 2.6E-09 86.6 1.5 52 14-67 533-589 (791)
37 PLN03086 PRLI-interacting fact 97.1 0.00015 3.3E-09 87.6 1.5 121 15-159 405-548 (567)
38 KOG4159 Predicted E3 ubiquitin 97.0 0.00025 5.3E-09 82.9 1.6 51 13-65 80-130 (398)
39 PF03145 Sina: Seven in absent 97.0 9.3E-05 2E-09 77.8 -2.2 68 83-152 3-74 (198)
40 PF11789 zf-Nse: Zinc-finger o 96.9 0.00058 1.3E-08 60.5 2.3 46 12-59 6-54 (57)
41 COG5243 HRD1 HRD ubiquitin lig 96.8 0.00057 1.2E-08 78.7 2.5 51 15-66 285-347 (491)
42 KOG1813 Predicted E3 ubiquitin 96.8 0.00054 1.2E-08 77.1 2.1 45 18-64 242-286 (313)
43 KOG3039 Uncharacterized conser 96.8 0.00066 1.4E-08 74.9 2.4 53 15-69 219-275 (303)
44 KOG4628 Predicted E3 ubiquitin 96.8 0.00084 1.8E-08 77.3 3.1 48 18-65 230-279 (348)
45 PLN03086 PRLI-interacting fact 96.8 0.00081 1.8E-08 81.5 3.0 51 104-158 459-510 (567)
46 COG5540 RING-finger-containing 96.7 0.00073 1.6E-08 76.3 2.4 48 16-63 322-371 (374)
47 KOG2879 Predicted E3 ubiquitin 96.7 0.0011 2.3E-08 74.3 3.1 48 15-64 237-287 (298)
48 KOG1814 Predicted E3 ubiquitin 96.6 0.00067 1.5E-08 79.0 1.1 105 14-122 181-301 (445)
49 KOG1785 Tyrosine kinase negati 96.5 0.00068 1.5E-08 78.5 0.4 46 19-66 371-418 (563)
50 PF04641 Rtf2: Rtf2 RING-finge 96.2 0.0041 8.9E-08 68.7 4.0 55 14-69 110-166 (260)
51 KOG1039 Predicted E3 ubiquitin 96.1 0.0028 6.1E-08 73.2 2.2 49 15-65 159-222 (344)
52 KOG0824 Predicted E3 ubiquitin 96.0 0.0026 5.7E-08 72.0 1.3 47 18-66 8-55 (324)
53 PF02176 zf-TRAF: TRAF-type zi 95.9 0.0014 3E-08 56.6 -1.1 40 116-157 1-43 (60)
54 KOG4265 Predicted E3 ubiquitin 95.7 0.0056 1.2E-07 70.6 2.5 46 17-64 290-336 (349)
55 PF12861 zf-Apc11: Anaphase-pr 95.5 0.0091 2E-07 57.3 2.6 34 32-65 46-83 (85)
56 PF02176 zf-TRAF: TRAF-type zi 95.5 0.0032 6.9E-08 54.4 -0.4 52 89-144 4-60 (60)
57 COG5219 Uncharacterized conser 95.1 0.0051 1.1E-07 77.0 -0.4 50 15-64 1467-1523(1525)
58 KOG4172 Predicted E3 ubiquitin 95.0 0.0042 9.1E-08 55.6 -1.1 45 18-64 8-54 (62)
59 KOG1734 Predicted RING-contain 94.9 0.0073 1.6E-07 67.7 0.2 50 16-67 223-284 (328)
60 KOG4739 Uncharacterized protei 94.9 0.01 2.2E-07 65.6 1.0 47 17-66 3-50 (233)
61 COG5175 MOT2 Transcriptional r 94.8 0.011 2.4E-07 67.9 1.2 55 14-69 12-69 (480)
62 KOG3800 Predicted E3 ubiquitin 94.8 0.016 3.4E-07 65.6 2.4 50 19-69 2-56 (300)
63 COG5236 Uncharacterized conser 94.8 0.0073 1.6E-07 69.4 -0.3 99 14-117 58-173 (493)
64 KOG1812 Predicted E3 ubiquitin 94.7 0.012 2.5E-07 68.9 1.2 114 17-134 146-274 (384)
65 KOG4185 Predicted E3 ubiquitin 94.6 0.047 1E-06 60.6 5.6 48 17-64 3-55 (296)
66 KOG0804 Cytoplasmic Zn-finger 94.3 0.013 2.8E-07 69.4 0.3 47 14-64 172-222 (493)
67 PF07800 DUF1644: Protein of u 94.3 0.024 5.1E-07 59.8 2.1 85 16-118 1-129 (162)
68 KOG0297 TNF receptor-associate 94.2 0.027 5.8E-07 66.0 2.6 68 93-166 113-181 (391)
69 KOG1001 Helicase-like transcri 93.9 0.015 3.3E-07 72.3 -0.3 49 18-69 455-505 (674)
70 KOG1645 RING-finger-containing 93.8 0.022 4.7E-07 66.9 0.8 52 16-69 3-61 (463)
71 KOG4692 Predicted E3 ubiquitin 93.6 0.029 6.2E-07 64.9 1.2 48 15-64 420-467 (489)
72 KOG4275 Predicted E3 ubiquitin 93.4 0.015 3.2E-07 66.0 -1.5 42 17-64 300-342 (350)
73 KOG0828 Predicted E3 ubiquitin 93.3 0.035 7.5E-07 66.4 1.4 50 14-63 568-633 (636)
74 KOG4367 Predicted Zn-finger pr 93.0 0.038 8.3E-07 65.1 1.2 37 14-52 1-37 (699)
75 PF14570 zf-RING_4: RING/Ubox 92.5 0.07 1.5E-06 46.7 1.7 44 20-63 1-47 (48)
76 KOG0826 Predicted E3 ubiquitin 92.3 0.074 1.6E-06 61.3 2.2 50 15-66 298-348 (357)
77 KOG2462 C2H2-type Zn-finger pr 92.2 0.064 1.4E-06 60.6 1.5 79 55-151 189-270 (279)
78 KOG2932 E3 ubiquitin ligase in 91.8 0.048 1E-06 62.4 -0.1 43 18-63 91-133 (389)
79 PF11793 FANCL_C: FANCL C-term 91.2 0.079 1.7E-06 48.7 0.8 49 17-65 2-67 (70)
80 COG5220 TFB3 Cdk activating ki 91.2 0.053 1.1E-06 60.3 -0.5 50 17-67 10-67 (314)
81 PF05290 Baculo_IE-1: Baculovi 90.7 0.14 3E-06 53.0 2.0 49 16-66 79-134 (140)
82 PF14447 Prok-RING_4: Prokaryo 90.4 0.19 4.1E-06 45.2 2.3 49 15-67 5-53 (55)
83 KOG4362 Transcriptional regula 90.2 0.069 1.5E-06 66.3 -0.7 55 11-67 15-72 (684)
84 KOG1815 Predicted E3 ubiquitin 89.2 0.34 7.3E-06 57.7 3.9 52 16-69 69-131 (444)
85 KOG0827 Predicted E3 ubiquitin 89.1 0.16 3.4E-06 59.8 1.0 42 19-62 6-54 (465)
86 KOG3161 Predicted E3 ubiquitin 89.1 0.12 2.5E-06 63.7 -0.0 40 16-57 10-51 (861)
87 KOG0298 DEAD box-containing he 88.9 0.077 1.7E-06 69.2 -1.7 52 10-62 1146-1197(1394)
88 KOG1571 Predicted E3 ubiquitin 88.9 0.23 5E-06 57.9 2.1 46 14-64 302-347 (355)
89 KOG0314 Predicted E3 ubiquitin 88.0 0.29 6.3E-06 58.8 2.2 48 11-61 213-263 (448)
90 PHA03096 p28-like protein; Pro 87.8 0.26 5.7E-06 56.2 1.6 44 18-61 179-231 (284)
91 COG5194 APC11 Component of SCF 87.5 0.32 6.9E-06 46.8 1.8 31 36-66 53-83 (88)
92 KOG3039 Uncharacterized conser 86.7 0.37 8E-06 54.2 2.0 40 11-52 37-76 (303)
93 KOG3623 Homeobox transcription 85.2 0.29 6.3E-06 61.1 0.4 68 90-161 236-318 (1007)
94 KOG1428 Inhibitor of type V ad 85.1 0.61 1.3E-05 61.5 2.9 53 15-67 3484-3547(3738)
95 KOG3579 Predicted E3 ubiquitin 84.9 0.34 7.3E-06 55.3 0.6 48 15-64 266-323 (352)
96 smart00744 RINGv The RING-vari 84.7 0.72 1.6E-05 40.0 2.4 42 19-60 1-49 (49)
97 KOG1701 Focal adhesion adaptor 82.8 0.99 2.1E-05 54.0 3.2 49 18-69 361-410 (468)
98 KOG3993 Transcription factor ( 81.9 0.43 9.3E-06 56.8 -0.1 44 10-64 260-306 (500)
99 KOG1941 Acetylcholine receptor 81.4 0.4 8.8E-06 56.6 -0.5 46 17-62 365-414 (518)
100 smart00734 ZnF_Rad18 Rad18-lik 79.8 1.2 2.7E-05 34.4 1.8 23 127-149 2-24 (26)
101 KOG0309 Conserved WD40 repeat- 79.3 0.89 1.9E-05 57.2 1.4 46 17-63 1028-1075(1081)
102 KOG1493 Anaphase-promoting com 79.3 0.47 1E-05 45.4 -0.7 30 36-65 50-82 (84)
103 KOG2462 C2H2-type Zn-finger pr 79.2 0.82 1.8E-05 52.1 1.0 35 124-158 213-249 (279)
104 KOG0006 E3 ubiquitin-protein l 77.9 2.4 5.1E-05 49.4 4.1 122 12-149 216-360 (446)
105 PF05883 Baculo_RING: Baculovi 77.5 0.94 2E-05 47.1 0.8 45 17-61 26-77 (134)
106 KOG2231 Predicted E3 ubiquitin 77.4 1.7 3.6E-05 54.7 2.9 44 19-64 2-52 (669)
107 PRK04023 DNA polymerase II lar 76.9 1.8 4E-05 56.2 3.2 46 16-66 625-676 (1121)
108 PF13913 zf-C2HC_2: zinc-finge 76.4 1.8 3.9E-05 33.1 1.8 23 126-148 2-24 (25)
109 KOG2817 Predicted E3 ubiquitin 75.6 1.9 4.1E-05 51.3 2.6 52 16-67 333-388 (394)
110 PF02891 zf-MIZ: MIZ/SP-RING z 75.4 1.4 3.1E-05 38.4 1.2 42 17-61 2-49 (50)
111 KOG3268 Predicted E3 ubiquitin 75.3 1.6 3.5E-05 47.3 1.8 55 12-66 160-230 (234)
112 KOG2114 Vacuolar assembly/sort 73.9 1.5 3.2E-05 56.0 1.3 43 17-64 840-883 (933)
113 PF05502 Dynactin_p62: Dynacti 73.2 1.4 3.1E-05 53.5 0.9 52 13-66 1-65 (483)
114 PF03854 zf-P11: P-11 zinc fin 72.3 2 4.3E-05 38.1 1.3 44 18-64 3-46 (50)
115 PF10367 Vps39_2: Vacuolar sor 71.7 2.2 4.7E-05 40.3 1.5 33 14-47 75-108 (109)
116 PLN02189 cellulose synthase 70.6 2.9 6.3E-05 54.8 2.8 46 19-64 36-87 (1040)
117 KOG1701 Focal adhesion adaptor 68.0 2.1 4.7E-05 51.3 0.8 45 17-65 302-346 (468)
118 PLN02195 cellulose synthase A 67.5 4.3 9.2E-05 53.1 3.3 6 1111-1116 666-671 (977)
119 KOG1940 Zn-finger protein [Gen 66.7 4.5 9.8E-05 46.5 3.0 47 18-65 159-207 (276)
120 PF08746 zf-RING-like: RING-li 64.7 5.6 0.00012 33.9 2.5 38 20-59 1-43 (43)
121 PLN02436 cellulose synthase A 64.2 5 0.00011 52.9 3.0 46 19-64 38-89 (1094)
122 KOG3970 Predicted E3 ubiquitin 63.7 4.5 9.7E-05 45.4 2.2 52 14-65 47-106 (299)
123 PLN02638 cellulose synthase A 63.3 5.3 0.00011 52.7 3.0 46 19-64 19-70 (1079)
124 COG3813 Uncharacterized protei 62.4 5.7 0.00012 38.0 2.3 48 20-69 8-57 (84)
125 PF07191 zinc-ribbons_6: zinc- 62.0 1.4 2.9E-05 41.6 -1.8 41 17-64 1-41 (70)
126 PF06906 DUF1272: Protein of u 61.9 7.7 0.00017 35.5 2.9 45 19-65 7-53 (57)
127 KOG3113 Uncharacterized conser 60.8 6.1 0.00013 45.1 2.5 52 15-70 109-164 (293)
128 KOG2169 Zn-finger transcriptio 60.4 11 0.00024 47.6 4.9 54 13-68 302-360 (636)
129 KOG1952 Transcription factor N 60.4 3.8 8.3E-05 52.6 1.1 49 15-63 189-246 (950)
130 KOG4718 Non-SMC (structural ma 59.8 3.1 6.7E-05 46.3 0.1 44 17-62 181-225 (235)
131 KOG4274 Positive cofactor 2 (P 59.3 47 0.001 41.8 9.6 10 108-117 32-41 (742)
132 COG5183 SSM4 Protein involved 58.6 5.2 0.00011 51.2 1.7 55 15-69 10-71 (1175)
133 PF04216 FdhE: Protein involve 57.9 2.7 5.7E-05 47.5 -0.8 44 17-62 172-220 (290)
134 PLN02400 cellulose synthase 57.8 6.2 0.00013 52.2 2.3 46 19-64 38-89 (1085)
135 KOG1812 Predicted E3 ubiquitin 57.5 5.4 0.00012 47.4 1.6 44 16-59 305-351 (384)
136 PRK14559 putative protein seri 57.1 5.2 0.00011 50.5 1.4 45 19-64 3-52 (645)
137 PF08209 Sgf11: Sgf11 (transcr 57.0 4.7 0.0001 33.2 0.7 25 126-150 4-28 (33)
138 PF14569 zf-UDP: Zinc-binding 56.6 6.7 0.00014 37.9 1.7 48 18-65 10-63 (80)
139 KOG1100 Predicted E3 ubiquitin 56.6 5.3 0.00011 44.0 1.2 39 20-64 161-200 (207)
140 TIGR01562 FdhE formate dehydro 55.8 5 0.00011 46.6 0.9 43 17-61 184-232 (305)
141 KOG2930 SCF ubiquitin ligase, 55.5 5.4 0.00012 40.3 1.0 29 36-64 80-108 (114)
142 KOG2231 Predicted E3 ubiquitin 55.3 2.7 5.9E-05 53.0 -1.3 24 36-59 96-121 (669)
143 PLN02915 cellulose synthase A 54.2 9.3 0.0002 50.5 3.0 48 17-64 15-68 (1044)
144 KOG4445 Uncharacterized conser 53.1 3.3 7.2E-05 48.0 -1.0 50 17-66 115-188 (368)
145 PRK03564 formate dehydrogenase 52.8 6.9 0.00015 45.6 1.4 44 16-61 186-234 (309)
146 PRK14714 DNA polymerase II lar 52.3 9.4 0.0002 51.2 2.6 46 17-65 667-721 (1337)
147 KOG2789 Putative Zn-finger pro 49.7 6.3 0.00014 47.2 0.5 34 15-50 72-107 (482)
148 COG5151 SSL1 RNA polymerase II 49.6 27 0.00058 41.1 5.3 26 38-63 307-332 (421)
149 PLN02248 cellulose synthase-li 49.0 9.6 0.00021 50.6 2.0 17 748-764 409-425 (1135)
150 COG5109 Uncharacterized conser 47.8 11 0.00025 44.1 2.1 48 15-62 334-385 (396)
151 PF05605 zf-Di19: Drought indu 46.6 6.7 0.00015 34.2 0.1 21 127-147 3-23 (54)
152 PF06937 EURL: EURL protein; 46.2 17 0.00036 42.0 3.0 16 43-58 59-75 (285)
153 KOG2979 Protein involved in DN 45.7 13 0.00029 42.4 2.2 43 17-61 176-221 (262)
154 KOG2068 MOT2 transcription fac 45.4 14 0.0003 43.5 2.3 49 18-66 250-300 (327)
155 PF05605 zf-Di19: Drought indu 43.8 24 0.00052 30.8 3.0 48 95-147 3-51 (54)
156 PF10272 Tmpp129: Putative tra 43.0 23 0.00051 42.2 3.7 32 36-67 310-354 (358)
157 KOG3002 Zn finger protein [Gen 42.9 5.3 0.00011 46.3 -1.4 101 55-173 50-161 (299)
158 KOG0801 Predicted E3 ubiquitin 42.9 7 0.00015 42.2 -0.5 48 16-66 137-190 (205)
159 KOG3576 Ovo and related transc 42.0 3.5 7.5E-05 45.9 -2.9 13 15-27 115-127 (267)
160 smart00647 IBR In Between Ring 41.6 12 0.00026 32.3 0.9 35 16-50 17-59 (64)
161 PF15616 TerY-C: TerY-C metal 41.0 13 0.00029 38.8 1.2 47 12-66 72-118 (131)
162 KOG3896 Dynactin, subunit p62 40.1 14 0.00031 43.7 1.3 93 12-116 19-123 (449)
163 TIGR00373 conserved hypothetic 39.7 28 0.00061 36.8 3.3 23 46-68 121-143 (158)
164 KOG3623 Homeobox transcription 39.4 11 0.00024 48.0 0.4 49 93-146 280-330 (1007)
165 KOG0289 mRNA splicing factor [ 38.8 18 0.0004 44.0 2.0 51 18-70 1-52 (506)
166 PHA02825 LAP/PHD finger-like p 38.6 25 0.00054 38.0 2.8 51 15-66 6-61 (162)
167 PHA02862 5L protein; Provision 37.1 19 0.0004 38.6 1.5 47 19-67 4-56 (156)
168 PF09770 PAT1: Topoisomerase I 37.0 11 0.00025 48.2 0.0 10 107-116 30-39 (808)
169 PRK06266 transcription initiat 36.1 31 0.00066 37.3 3.0 21 48-68 131-151 (178)
170 KOG0957 PHD finger protein [Ge 36.0 28 0.0006 43.1 2.9 37 13-49 115-154 (707)
171 KOG1815 Predicted E3 ubiquitin 35.7 23 0.00049 42.8 2.2 33 30-63 177-209 (444)
172 KOG0956 PHD finger protein AF1 35.6 16 0.00034 46.6 0.9 25 35-59 44-68 (900)
173 KOG1044 Actin-binding LIM Zn-f 35.6 11 0.00023 47.2 -0.5 110 15-143 89-209 (670)
174 PF03145 Sina: Seven in absent 35.3 16 0.00035 39.1 0.8 43 131-173 23-72 (198)
175 KOG1356 Putative transcription 35.1 13 0.00027 48.2 -0.0 32 18-50 230-262 (889)
176 PF01485 IBR: IBR domain; Int 34.5 15 0.00032 31.7 0.3 32 18-49 19-58 (64)
177 KOG3799 Rab3 effector RIM1 and 34.0 12 0.00026 39.5 -0.3 44 13-61 61-115 (169)
178 KOG2034 Vacuolar sorting prote 33.9 17 0.00037 47.3 0.9 36 15-51 815-851 (911)
179 KOG0132 RNA polymerase II C-te 33.1 1.1E+03 0.024 31.7 15.7 20 80-99 37-56 (894)
180 PF13240 zinc_ribbon_2: zinc-r 32.5 12 0.00027 28.4 -0.4 22 41-62 1-22 (23)
181 PF03833 PolC_DP2: DNA polymer 32.4 15 0.00032 47.7 0.0 44 17-65 655-704 (900)
182 KOG2807 RNA polymerase II tran 31.7 41 0.00089 39.9 3.3 42 19-60 332-374 (378)
183 KOG3183 Predicted Zn-finger pr 30.9 24 0.00051 40.3 1.2 46 19-66 10-68 (250)
184 COG0777 AccD Acetyl-CoA carbox 30.9 26 0.00057 40.7 1.6 24 127-150 29-52 (294)
185 KOG2113 Predicted RNA binding 30.6 31 0.00068 40.7 2.1 45 13-61 339-384 (394)
186 PF14446 Prok-RING_1: Prokaryo 30.3 33 0.00072 31.3 1.8 34 17-50 5-40 (54)
187 PF11931 DUF3449: Domain of un 30.2 17 0.00037 40.2 0.0 48 1-48 81-136 (196)
188 KOG3576 Ovo and related transc 29.9 17 0.00036 40.8 -0.2 37 110-147 158-195 (267)
189 KOG2906 RNA polymerase III sub 29.7 21 0.00046 36.0 0.5 27 18-46 2-28 (105)
190 KOG1818 Membrane trafficking a 29.5 14 0.0003 46.7 -0.9 48 15-62 163-220 (634)
191 PF12906 RINGv: RING-variant d 29.5 42 0.00091 29.1 2.2 40 20-59 1-47 (47)
192 PRK11595 DNA utilization prote 29.3 33 0.00071 37.7 2.0 38 19-63 7-44 (227)
193 COG0068 HypF Hydrogenase matur 28.6 25 0.00055 45.1 1.1 26 41-66 153-186 (750)
194 PF01363 FYVE: FYVE zinc finge 28.5 36 0.00077 30.6 1.7 35 17-51 9-45 (69)
195 PF10235 Cript: Microtubule-as 28.5 27 0.00057 34.7 1.0 35 19-64 46-80 (90)
196 KOG3899 Uncharacterized conser 28.3 23 0.0005 41.4 0.6 33 36-68 324-369 (381)
197 KOG3608 Zn finger proteins [Ge 28.3 11 0.00025 44.7 -1.8 48 16-63 206-273 (467)
198 KOG2199 Signal transducing ada 28.3 1.3E+02 0.0027 37.0 6.4 10 18-27 28-37 (462)
199 KOG0827 Predicted E3 ubiquitin 27.9 5.5 0.00012 47.6 -4.4 48 19-66 198-247 (465)
200 PF09986 DUF2225: Uncharacteri 27.9 38 0.00083 37.4 2.1 17 53-69 5-21 (214)
201 KOG3815 Transcription factor D 27.8 34 0.00074 39.8 1.9 40 92-137 34-73 (322)
202 smart00154 ZnF_AN1 AN1-like Zi 27.5 42 0.00091 28.3 1.8 24 20-44 1-25 (39)
203 smart00064 FYVE Protein presen 27.2 26 0.00057 31.4 0.7 35 17-51 10-46 (68)
204 PRK11088 rrmA 23S rRNA methylt 27.0 33 0.00071 38.2 1.5 24 18-41 3-27 (272)
205 KOG4592 Uncharacterized conser 26.7 1.2E+02 0.0027 38.7 6.2 27 442-469 165-191 (728)
206 KOG4443 Putative transcription 26.5 29 0.00063 44.1 1.0 48 14-61 15-70 (694)
207 KOG1703 Adaptor protein Enigma 26.1 50 0.0011 40.4 2.9 46 16-65 329-375 (479)
208 COG0068 HypF Hydrogenase matur 25.8 54 0.0012 42.4 3.1 26 40-65 102-135 (750)
209 PF07975 C1_4: TFIIH C1-like d 25.3 42 0.0009 30.3 1.5 28 33-60 22-50 (51)
210 KOG2807 RNA polymerase II tran 25.2 85 0.0018 37.5 4.3 25 40-64 277-301 (378)
211 PRK10263 DNA translocase FtsK; 24.8 1.9E+02 0.0041 40.2 7.8 10 986-995 1263-1272(1355)
212 KOG1151 Tousled-like protein k 24.7 49 0.0011 41.0 2.4 32 881-912 587-623 (775)
213 PF09788 Tmemb_55A: Transmembr 24.6 42 0.00091 38.6 1.7 48 93-142 122-173 (256)
214 PF07948 Nairovirus_M: Nairovi 24.4 10 0.00022 46.9 -3.2 38 110-151 507-544 (645)
215 TIGR00622 ssl1 transcription f 23.8 91 0.002 32.1 3.7 41 18-60 56-110 (112)
216 PRK10263 DNA translocase FtsK; 23.8 1.4E+02 0.003 41.3 6.3 6 803-808 1144-1149(1355)
217 KOG1829 Uncharacterized conser 23.6 23 0.0005 44.6 -0.5 43 16-61 510-558 (580)
218 COG3058 FdhE Uncharacterized p 23.2 52 0.0011 38.4 2.2 44 17-62 185-234 (308)
219 PF12773 DZR: Double zinc ribb 23.1 54 0.0012 27.9 1.7 26 39-64 12-40 (50)
220 COG5627 MMS21 DNA repair prote 23.0 35 0.00076 39.0 0.8 48 17-66 189-241 (275)
221 PF13901 DUF4206: Domain of un 22.8 62 0.0013 35.5 2.6 41 16-61 151-197 (202)
222 PF13248 zf-ribbon_3: zinc-rib 22.5 25 0.00053 27.1 -0.4 21 41-61 4-24 (26)
223 cd00350 rubredoxin_like Rubred 22.4 57 0.0012 26.4 1.7 10 18-27 2-11 (33)
224 KOG0269 WD40 repeat-containing 22.1 53 0.0012 42.5 2.1 43 18-62 780-826 (839)
225 PF00096 zf-C2H2: Zinc finger, 21.9 37 0.00081 24.4 0.5 20 128-147 2-22 (23)
226 KOG4185 Predicted E3 ubiquitin 21.6 21 0.00046 40.1 -1.2 45 18-62 208-265 (296)
227 PF01428 zf-AN1: AN1-like Zinc 21.2 59 0.0013 27.6 1.6 26 20-47 1-29 (43)
228 COG4098 comFA Superfamily II D 21.2 39 0.00085 40.7 0.7 33 15-48 37-69 (441)
229 PF00412 LIM: LIM domain; Int 21.2 65 0.0014 27.5 1.9 32 16-48 25-56 (58)
230 KOG3362 Predicted BBOX Zn-fing 21.2 37 0.0008 36.3 0.5 25 19-47 120-146 (156)
231 PF02892 zf-BED: BED zinc fing 21.2 47 0.001 27.6 1.0 25 125-149 15-45 (45)
232 PF14205 Cys_rich_KTR: Cystein 21.0 51 0.0011 30.3 1.2 12 16-27 3-14 (55)
233 KOG4684 Uncharacterized conser 20.9 90 0.002 35.5 3.3 57 92-151 136-195 (275)
234 PF12660 zf-TFIIIC: Putative z 20.8 56 0.0012 32.4 1.6 46 18-64 15-66 (99)
235 TIGR00595 priA primosomal prot 20.7 53 0.0011 40.5 1.7 47 40-134 214-261 (505)
236 smart00614 ZnF_BED BED zinc fi 20.5 56 0.0012 28.3 1.3 25 126-150 18-49 (50)
237 PF15279 SOBP: Sine oculis-bin 20.5 1.7E+02 0.0036 34.7 5.5 17 135-151 38-54 (306)
238 cd00065 FYVE FYVE domain; Zinc 20.5 46 0.00099 28.7 0.8 34 18-51 3-38 (57)
239 PF07462 MSP1_C: Merozoite sur 20.4 2.3E+02 0.0049 36.1 6.7 16 137-152 247-262 (574)
240 PF10005 DUF2248: Uncharacteri 20.3 54 0.0012 39.1 1.6 32 92-123 51-83 (343)
No 1
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=99.58 E-value=1.4e-15 Score=173.41 Aligned_cols=146 Identities=26% Similarity=0.585 Sum_probs=126.4
Q ss_pred CCCchhhhccccCCCCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCCcccccccchhhhcccccch
Q 000721 1 MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPL 79 (1332)
Q Consensus 1 MGyD~e~IlfVE~L~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk~LsekDLklLveskIFPL 79 (1332)
||||.+.+. ..++++|.|+||..++ .+|+++ .|||.||..|+.+|+.....||.|+..+...+..
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 5699999999999999 899995 9999999999999999988999998877655322
Q ss_pred hhhhHHHHHHhhceecccccCCCCCccccccCCCCccCCCCCCCCccccCCC-ccchhcHHHHHHHHh-hCCCCCCCCCC
Q 000721 80 VESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNR-CAIQIVHRQVQEHAQ-NCPGVQPQASQ 157 (1332)
Q Consensus 80 lesNK~LEKeIekLkVKCpnsk~GCqwsgkLSELesHekeC~y~~RpVkCp~-CGqkI~RkELQeHLd-eCPK~PVqCPn 157 (1332)
..++.+.+++.++.+.|.+...||.|.+++..+..|+..| ..+.|+. |+..+.+.++.+|++ .|.+....|..
T Consensus 73 -~~~~~~~~~~~~l~i~c~~~~~GC~~~~~l~~~~~Hl~~c----~~~~C~~~C~~~~~~~d~~~hl~~~C~~~~~~c~~ 147 (391)
T KOG0297|consen 73 -PVPRALRRELLKLPIRCIFASRGCRADLELEALQGHLSTC----DPLKCPHRCGVQVPRDDLEDHLEAECPRRSLKCSL 147 (391)
T ss_pred -CchHHHHHHHHhcccccccCCCCccccccHHHHHhHhccC----CcccCccccccccchHHHHHHHhcccccccccchh
Confidence 1356788899999999999999999999999999999999 2689965 999999999999996 69999888887
Q ss_pred CCCccccc
Q 000721 158 PEGVHDAA 165 (1332)
Q Consensus 158 sc~~qkIA 165 (1332)
+.......
T Consensus 148 ~~~~~~~~ 155 (391)
T KOG0297|consen 148 CQSDSILI 155 (391)
T ss_pred hcCccchh
Confidence 65443333
No 2
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.42 E-value=1.1e-13 Score=151.19 Aligned_cols=180 Identities=16% Similarity=0.306 Sum_probs=124.2
Q ss_pred CchhhhccccCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccccchh--hhcccccchh
Q 000721 3 FDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKV--VLSSAVVPLV 80 (1332)
Q Consensus 3 yD~e~IlfVE~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekDLkl--LveskIFPLl 80 (1332)
|..+.|..+..|+..|+|-||.+.| ..|++|.|||+||.-||+..+.....||.||....+..++- +++ .| +
T Consensus 11 ~~~T~IPSL~~LDs~lrC~IC~~~i--~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~~-ei---~ 84 (391)
T COG5432 11 WNQTKIPSLKGLDSMLRCRICDCRI--SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSR-EI---N 84 (391)
T ss_pred cccccCcchhcchhHHHhhhhhhee--ecceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccchhHH-HH---H
Confidence 5566788888899999999999999 89999999999999999999999999999998876654430 111 11 1
Q ss_pred hhhHHHHH-Hhhceeccccc-----CCCCCccccccCCCCccC----------CCCC--------------CCCccccCC
Q 000721 81 ESNKALAE-TIGKITVHCLF-----HRSGCTWQGPLSECTSHC----------SGCA--------------FGNSPVVCN 130 (1332)
Q Consensus 81 esNK~LEK-eIekLkVKCpn-----sk~GCqwsgkLSELesHe----------keC~--------------y~~RpVkCp 130 (1332)
+....++. ..+.|++-|+- .+.-|.|+..+..-..-. ++-+ ..+.++.|+
T Consensus 85 es~~~~r~~l~~~L~~~~~~p~p~~ee~p~~~E~v~~~dS~S~~~~~eD~~~~~sS~~~iAKkt~~D~~KrK~E~l~~CP 164 (391)
T COG5432 85 ESHARNRDLLRKVLESLCRLPRPIKEERPCRWETVIAQDSASGDEEWEDDLASNSSPASIAKKTSRDSKKRKREDLVHCP 164 (391)
T ss_pred HhhhhccHHHHHHHhcccCCCCchhhcCCCchhheeccccccccchhhhhhhhccChHHHHhhhhhHHHHhHHHhhhcCc
Confidence 11111111 23334555532 234577754322111000 0000 004589999
Q ss_pred CccchhcHHHHHHHHhhCCCCCCCCC-----CC-CCccccccccccccCCCCcccccccccccc
Q 000721 131 RCAIQIVHRQVQEHAQNCPGVQPQAS-----QP-EGVHDAAAIGTAATGDQSQVATQAGLTASQ 188 (1332)
Q Consensus 131 ~CGqkI~RkELQeHLdeCPK~PVqCP-----ns-c~~qkIAsttq~ATqd~S~~aT~~~~TASa 188 (1332)
.|..-+..+.|+.|++.|...+..-+ +. +.+.+.++.+.+.+.+++.+.++.+.|+++
T Consensus 165 ~C~~~~P~~~i~~HLD~CL~~~S~~~~~Ss~~~~~~N~~~~S~~~FK~~~~~i~K~~~~~~~~~ 228 (391)
T COG5432 165 ACSNLVPHNQINQHLDSCLNSPSSPSSSSSPYKNKDNSKSNSLLSFKTDDDSITKRRLRSFNSA 228 (391)
T ss_pred hhhccCchHHHHHHHHHHhcCCCCCcccCCCCCCCCCcccccccceecCCchhhhhhhccccch
Confidence 99999999999999999987654422 11 256677888999999999999999888877
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=99.18 E-value=4.1e-11 Score=137.58 Aligned_cols=62 Identities=18% Similarity=0.459 Sum_probs=54.0
Q ss_pred hhhhccccCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccccc
Q 000721 5 NECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADS 68 (1332)
Q Consensus 5 ~e~IlfVE~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekDL 68 (1332)
.+.+..++.|++.|+|+||++++ .+|+++.|||+||..||..|+.....||.|+..+....+
T Consensus 14 ~t~~~~l~~Le~~l~C~IC~d~~--~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L 75 (397)
T TIGR00599 14 TTPIPSLYPLDTSLRCHICKDFF--DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL 75 (397)
T ss_pred cCCcccccccccccCCCcCchhh--hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccC
Confidence 34455678899999999999999 899999999999999999999887799999998876544
No 4
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.17 E-value=5.5e-12 Score=140.40 Aligned_cols=148 Identities=16% Similarity=0.266 Sum_probs=95.1
Q ss_pred CchhhhccccCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccccchhhhcccccchhhh
Q 000721 3 FDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVES 82 (1332)
Q Consensus 3 yD~e~IlfVE~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekDLklLveskIFPLles 82 (1332)
|..+.|..+..|++.|+|.||.+.| +.|+++.|+|+||.-||++++.....||.|+..+.+.+++. +..+..+++.
T Consensus 9 w~~tsipslk~lD~lLRC~IC~eyf--~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~--n~il~Eiv~S 84 (442)
T KOG0287|consen 9 WPPTSIPSLKTLDDLLRCGICFEYF--NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRN--NRILDEIVKS 84 (442)
T ss_pred CCCccCchhhhhHHHHHHhHHHHHh--cCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhh--hhHHHHHHHH
Confidence 4555677778899999999999999 99999999999999999999999999999999999888771 0001111111
Q ss_pred hHHHHHH-hhcee---cccccC-CCCCccccccCCCC----------------------------ccCCCCCCCCccccC
Q 000721 83 NKALAET-IGKIT---VHCLFH-RSGCTWQGPLSECT----------------------------SHCSGCAFGNSPVVC 129 (1332)
Q Consensus 83 NK~LEKe-IekLk---VKCpns-k~GCqwsgkLSELe----------------------------sHekeC~y~~RpVkC 129 (1332)
-+.++.. +..+. +.-+.. ..---|+-.+.... .-.+.-.+....+.|
T Consensus 85 ~~~~R~~Ll~fl~~~~~p~P~~~~~p~~~ve~~~~~~S~s~~~~~~dl~~~~~s~~~~ak~s~~dikk~Ksk~~eq~~~c 164 (442)
T KOG0287|consen 85 LNFARNHLLQFLLESPAPSPASSSSPNLAVEVYTPVASRSSLKQGSDLMDNFLSREMSAKTSELDIKKNKSKFSEQKEAC 164 (442)
T ss_pred HHHHHHHHHHHHhcCCCCCcccccCCccceeeecccccccchhcchhHHHhhccHHhhcchhHHHHHhhccCCchhhhhC
Confidence 2222221 11121 111100 00011111111111 111223333457899
Q ss_pred CCccchhcHHHHH-HHHhhCCCCCCC
Q 000721 130 NRCAIQIVHRQVQ-EHAQNCPGVQPQ 154 (1332)
Q Consensus 130 p~CGqkI~RkELQ-eHLdeCPK~PVq 154 (1332)
+.|...+.++.++ .|++.|.+.+..
T Consensus 165 Pac~~~~p~~~~e~~hldscl~~ps~ 190 (442)
T KOG0287|consen 165 PACKTKEPRSVEEIAHLDSCLKRPSP 190 (442)
T ss_pred cccccccchhhhhcccChHHhcCCCC
Confidence 9999999999988 899999887544
No 5
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=98.98 E-value=7.4e-10 Score=123.59 Aligned_cols=115 Identities=23% Similarity=0.423 Sum_probs=97.3
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccccchhhhcccccchhhhhHHHHHHhhce
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKI 93 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekDLklLveskIFPLlesNK~LEKeIekL 93 (1332)
+.+.|.|+||.+.++ ...++|.-||+.|..|-.+.. .+||.||..+.. ++ ++++++.++.+
T Consensus 45 ~~~lleCPvC~~~l~-~Pi~QC~nGHlaCssC~~~~~---~~CP~Cr~~~g~--~R-------------~~amEkV~e~~ 105 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLS-PPIFQCDNGHLACSSCRTKVS---NKCPTCRLPIGN--IR-------------CRAMEKVAEAV 105 (299)
T ss_pred chhhccCchhhccCc-ccceecCCCcEehhhhhhhhc---ccCCcccccccc--HH-------------HHHHHHHHHhc
Confidence 456788999999994 345568999999999997653 469999998872 22 57888999999
Q ss_pred ecccccCCCCCccccccCCCCccCCCCCCCCccccCC----CccchhcHHHHHHHHhhCC
Q 000721 94 TVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCN----RCAIQIVHRQVQEHAQNCP 149 (1332)
Q Consensus 94 kVKCpnsk~GCqwsgkLSELesHekeC~y~~RpVkCp----~CGqkI~RkELQeHLdeCP 149 (1332)
.|.|+|.+.||.|.+.+.+-.+|++.|.|. +..|+ .|+..-..+++..|+..=.
T Consensus 106 ~vpC~~~~~GC~~~~~Y~~~~~HE~~C~f~--~~~CP~p~~~C~~~G~~~~l~~H~~~~h 163 (299)
T KOG3002|consen 106 LVPCKNAKLGCTKSFPYGEKSKHEKVCEFR--PCSCPVPGAECKYTGSYKDLYAHLNDTH 163 (299)
T ss_pred eecccccccCCceeeccccccccccccccC--CcCCCCCcccCCccCcHHHHHHHHHhhC
Confidence 999999999999999999999999999994 77884 7999999999999987443
No 6
>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=98.93 E-value=1e-09 Score=94.29 Aligned_cols=51 Identities=16% Similarity=0.317 Sum_probs=46.0
Q ss_pred ccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccccch
Q 000721 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekDLk 69 (1332)
+|.|+||++++ ++|+.+.|||+||+.||.+|+..+..||.|+..++..++.
T Consensus 1 ~~~Cpi~~~~~--~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~ 51 (63)
T smart00504 1 EFLCPISLEVM--KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI 51 (63)
T ss_pred CcCCcCCCCcC--CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce
Confidence 47899999999 8999999999999999999999888999999988766543
No 7
>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=98.73 E-value=7.5e-09 Score=93.58 Aligned_cols=66 Identities=21% Similarity=0.441 Sum_probs=50.0
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhhc-CCCCCCCCcccccccchhhhcccccchhhhhHHHHHHhhc
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGK 92 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss-s~kCPiCRk~LsekDLklLveskIFPLlesNK~LEKeIek 92 (1332)
+.+.|+|+||.+++ .+||++.|||+||+.||++|+.. ...||.|+..+...++. + |..|++.|..
T Consensus 1 iP~~f~CpIt~~lM--~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~--------p----n~~Lk~~I~~ 66 (73)
T PF04564_consen 1 IPDEFLCPITGELM--RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI--------P----NRALKSAIEE 66 (73)
T ss_dssp SSGGGB-TTTSSB---SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE--------E-----HHHHHHHHH
T ss_pred CCcccCCcCcCcHh--hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce--------E----CHHHHHHHHH
Confidence 45789999999999 99999999999999999999998 67999999988876544 3 5566665554
Q ss_pred e
Q 000721 93 I 93 (1332)
Q Consensus 93 L 93 (1332)
.
T Consensus 67 ~ 67 (73)
T PF04564_consen 67 W 67 (73)
T ss_dssp H
T ss_pred H
Confidence 3
No 8
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.72 E-value=4e-09 Score=110.21 Aligned_cols=53 Identities=26% Similarity=0.664 Sum_probs=46.6
Q ss_pred CccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccccc
Q 000721 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADS 68 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekDL 68 (1332)
..|.|+||++-+.++.++-+.|||+||+.||+..++...+||+|++.|+.+.+
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 45899999999976667779999999999999999999999999998876654
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.68 E-value=1.1e-08 Score=108.47 Aligned_cols=55 Identities=27% Similarity=0.594 Sum_probs=46.9
Q ss_pred CCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhc----------------CCCCCCCCcccccccch
Q 000721 13 SLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT----------------TQACPYDGYLVTEADSK 69 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss----------------s~kCPiCRk~LsekDLk 69 (1332)
.+.+++.|+||++.+ ++|+++.|||+||..||.+|+.. ...||+||..++..++.
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 355679999999999 89999999999999999999742 24899999998876654
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=8.8e-09 Score=111.05 Aligned_cols=53 Identities=28% Similarity=0.606 Sum_probs=46.8
Q ss_pred CCccccccCCccccCCCcEEccCCCeeccchHHHHhhcC---CCCCCCCcccccccch
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT---QACPYDGYLVTEADSK 69 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss---~kCPiCRk~LsekDLk 69 (1332)
...|.|.||++.. +|||+|.|||+||..||.+|+... +.||+|+..|+.+.+.
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 4568999999999 999999999999999999999864 5899999998876543
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.50 E-value=6.4e-08 Score=80.01 Aligned_cols=38 Identities=29% Similarity=0.836 Sum_probs=30.9
Q ss_pred cccCCccccCCCcEEccCCCeeccchHHHHhhcC----CCCCCC
Q 000721 20 CPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT----QACPYD 59 (1332)
Q Consensus 20 CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss----~kCPiC 59 (1332)
|+||+++| ++|+.+.|||+||..||.+|++.. ..||.|
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 899999999999999999999864 379887
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=98.45 E-value=9.1e-08 Score=76.97 Aligned_cols=38 Identities=26% Similarity=0.823 Sum_probs=33.3
Q ss_pred cccCCccccCCCcE-EccCCCeeccchHHHHhhcCCCCCCC
Q 000721 20 CPVCRLLVYPNEAL-QSQCTHLYCKPCLTYIVNTTQACPYD 59 (1332)
Q Consensus 20 CPICleLL~P~DPV-QcqCGHtFCssCIeKwLsss~kCPiC 59 (1332)
|+||.+.+ .+++ .+.|||+||+.||++|++.+.+||+|
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 7894 58999999999999999998899987
No 13
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.36 E-value=8.9e-08 Score=86.42 Aligned_cols=53 Identities=21% Similarity=0.522 Sum_probs=30.4
Q ss_pred CCCCccccccCCccccCCCcEE-ccCCCeeccchHHHHhhcCCCCCCCCcccccccch
Q 000721 13 SLAGEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLsss~kCPiCRk~LsekDLk 69 (1332)
.+++.|+|++|.+++ ++||. ..|.|+||+.||...+. ..||+|+.+....|++
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 456778999999999 89987 59999999999988766 3599999988777765
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=98.34 E-value=2.7e-07 Score=77.62 Aligned_cols=47 Identities=21% Similarity=0.602 Sum_probs=40.4
Q ss_pred CccccccCCccccCCCcEEccCCCe-eccchHHHHhhcCCCCCCCCcccc
Q 000721 16 GEYFCPVCRLLVYPNEALQSQCTHL-YCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQcqCGHt-FCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
++..|.||.+.. .+.+...|||. ||..|+.+|+.....||+||..++
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 457899999998 78888899999 999999999998889999998764
No 15
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=2.1e-07 Score=94.46 Aligned_cols=48 Identities=29% Similarity=0.632 Sum_probs=42.6
Q ss_pred cCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCc
Q 000721 12 QSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 12 E~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk 61 (1332)
+.+.+.+.|+||++.+ ++|+++.|+|+||..|+..++.....||.||.
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 4577889999999999 89977899999999999999884459999994
No 16
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.32 E-value=3e-07 Score=100.39 Aligned_cols=49 Identities=22% Similarity=0.618 Sum_probs=40.5
Q ss_pred CCccccccCCccccCCC-------cEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 15 AGEYFCPVCRLLVYPNE-------ALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~D-------PVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
.++..|+||++.+. .+ ++.+.|+|+||..||..|+..+..||.||..+.
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 45688999999763 22 244689999999999999998899999998765
No 17
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=1.9e-07 Score=103.50 Aligned_cols=50 Identities=16% Similarity=0.433 Sum_probs=45.2
Q ss_pred CccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCccccccc
Q 000721 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEAD 67 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekD 67 (1332)
...+|.||++-. .+|--|.|||+||..||..|...+..||.||..+...+
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 348999999998 89999999999999999999999999999999877654
No 18
>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=98.30 E-value=2.5e-07 Score=75.86 Aligned_cols=42 Identities=19% Similarity=0.599 Sum_probs=35.1
Q ss_pred ccccCCccccC-CCcEEccCCCeeccchHHHHhhcCCCCCCCC
Q 000721 19 FCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTTQACPYDG 60 (1332)
Q Consensus 19 ~CPICleLL~P-~DPVQcqCGHtFCssCIeKwLsss~kCPiCR 60 (1332)
.|+||.+.+.. ...+.+.|+|+||.+||.+|++.+.+||+||
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 59999988843 3455579999999999999999999999997
No 19
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=4.9e-07 Score=106.14 Aligned_cols=51 Identities=25% Similarity=0.625 Sum_probs=46.0
Q ss_pred ccccccCCccccCCCcEEccCCCeeccchHHHHhhcC-----CCCCCCCcccccccch
Q 000721 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT-----QACPYDGYLVTEADSK 69 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss-----~kCPiCRk~LsekDLk 69 (1332)
.+.|+||++-. ..|+.+.|||+||-.||..++... ..||+|+..|..+|++
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 78999999988 788999999999999999988765 3999999999988877
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=98.11 E-value=1.7e-06 Score=67.79 Aligned_cols=42 Identities=24% Similarity=0.705 Sum_probs=36.5
Q ss_pred ccccCCccccCCCcEEc-cCCCeeccchHHHHhhc-CCCCCCCCcc
Q 000721 19 FCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT-TQACPYDGYL 62 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLss-s~kCPiCRk~ 62 (1332)
.|+||.+.+ .+++.+ .|+|.||..|+..|+.. +..||.|+..
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 499999988 677776 59999999999999997 6689999864
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=98.10 E-value=1.8e-06 Score=69.39 Aligned_cols=38 Identities=26% Similarity=0.801 Sum_probs=34.0
Q ss_pred cccCCccccCCCcE-EccCCCeeccchHHHHhhc--CCCCCCC
Q 000721 20 CPVCRLLVYPNEAL-QSQCTHLYCKPCLTYIVNT--TQACPYD 59 (1332)
Q Consensus 20 CPICleLL~P~DPV-QcqCGHtFCssCIeKwLss--s~kCPiC 59 (1332)
|+||.+++ .+++ .+.|||+||..||.+|++. ...||.|
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 7888 6799999999999999993 4589987
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=98.09 E-value=2.1e-06 Score=96.75 Aligned_cols=53 Identities=19% Similarity=0.521 Sum_probs=39.9
Q ss_pred CccccccCCccccCCCcE----EccCCCeeccchHHHHhhcC-CCCCCCCcccccccch
Q 000721 16 GEYFCPVCRLLVYPNEAL----QSQCTHLYCKPCLTYIVNTT-QACPYDGYLVTEADSK 69 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPV----QcqCGHtFCssCIeKwLsss-~kCPiCRk~LsekDLk 69 (1332)
+++.|+||+...+ .++- +..|||.||..|+..++... ..||.|+..+...+++
T Consensus 2 d~~~CP~Ck~~~y-~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 2 DDQGCPRCKTTKY-RNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCCcCCCCCc-cCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 4578999997432 2332 23799999999999987654 5899999988877654
No 23
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=4.9e-07 Score=102.41 Aligned_cols=58 Identities=17% Similarity=0.560 Sum_probs=48.2
Q ss_pred hhccccCCCCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcC-CCCCCCCcccccc
Q 000721 7 CILNIQSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT-QACPYDGYLVTEA 66 (1332)
Q Consensus 7 ~IlfVE~L~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss-~kCPiCRk~Lsek 66 (1332)
+.+.+..+...++|+||+.+| +..+.+ .|.|.||..||.+.++.+ ..||.||+.+..+
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 444456678889999999999 677776 999999999999988874 6999999987643
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=97.95 E-value=3.2e-06 Score=91.61 Aligned_cols=53 Identities=25% Similarity=0.595 Sum_probs=40.6
Q ss_pred cCCCCccccccCCccccCCC-------cEEccCCCeeccchHHHHhhcC------CCCCCCCcccc
Q 000721 12 QSLAGEYFCPVCRLLVYPNE-------ALQSQCTHLYCKPCLTYIVNTT------QACPYDGYLVT 64 (1332)
Q Consensus 12 E~L~EeL~CPICleLL~P~D-------PVQcqCGHtFCssCIeKwLsss------~kCPiCRk~Ls 64 (1332)
....++.+|+||+++++.+. .+...|+|.||..||++|.... ..||.||..+.
T Consensus 165 ~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 165 YRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred HhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 34567899999998763211 2345999999999999999753 36999998765
No 25
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.92 E-value=5e-06 Score=92.69 Aligned_cols=42 Identities=24% Similarity=0.726 Sum_probs=37.8
Q ss_pred cccccCCccccCCCcEEc-cCCCeeccchHHHHhhcC-CCCCCCCc
Q 000721 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT-QACPYDGY 61 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss-~kCPiCRk 61 (1332)
|.|++|+.|+ ++|+.+ +|+|+||.+||...+... .+||.|..
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 999999999999877654 59999964
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=97.87 E-value=9.1e-06 Score=61.55 Aligned_cols=38 Identities=24% Similarity=0.815 Sum_probs=34.0
Q ss_pred cccCCccccCCCcEEccCCCeeccchHHHHhh-cCCCCCCC
Q 000721 20 CPVCRLLVYPNEALQSQCTHLYCKPCLTYIVN-TTQACPYD 59 (1332)
Q Consensus 20 CPICleLL~P~DPVQcqCGHtFCssCIeKwLs-ss~kCPiC 59 (1332)
|+||.+.. .+++.+.|+|.||..|+..|+. ....||.|
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 89999997 7888899999999999999998 45689987
No 27
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.85 E-value=1.2e-06 Score=105.92 Aligned_cols=49 Identities=29% Similarity=0.596 Sum_probs=39.6
Q ss_pred ccccccCCccccCCCcEE---ccCCCeeccchHHHHhhcCCCCCCCCccccccc
Q 000721 17 EYFCPVCRLLVYPNEALQ---SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEAD 67 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ---cqCGHtFCssCIeKwLsss~kCPiCRk~LsekD 67 (1332)
.-.|++|+.-+ .+-++ ..|+|.||..||..|.+.-.+||+||+++...+
T Consensus 123 ~~~CP~Ci~s~--~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 123 ENQCPNCLKSC--NDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhhHHHHHH--HHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 34699998766 44444 389999999999999998889999999876544
No 28
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.85 E-value=8.4e-06 Score=67.50 Aligned_cols=43 Identities=21% Similarity=0.586 Sum_probs=35.4
Q ss_pred ccccCCccccC-CCcEEccCCCeeccchHHHHhhcCCCCCCCCc
Q 000721 19 FCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 19 ~CPICleLL~P-~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk 61 (1332)
.|+||.+.+.+ ..++.+.|||+||..|+.++......||+||+
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 35666899999999999999855679999984
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=7.2e-06 Score=90.49 Aligned_cols=51 Identities=24% Similarity=0.456 Sum_probs=43.9
Q ss_pred CCccccccCCccccCCCcEEccCCCeeccchHHH-HhhcCC-CCCCCCccccccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTY-IVNTTQ-ACPYDGYLVTEAD 67 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeK-wLsss~-kCPiCRk~LsekD 67 (1332)
..+++|.||.+.. .+|..+.|||+||..||.. |..++. .||.||..+..++
T Consensus 213 ~~d~kC~lC~e~~--~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEP--EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeeccc--CCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 4579999999999 8999999999999999999 777665 5999998776543
No 30
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.78 E-value=5.9e-06 Score=93.30 Aligned_cols=54 Identities=20% Similarity=0.599 Sum_probs=47.8
Q ss_pred ccCCCCccccccCCccccCCCcEE-ccCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 11 IQSLAGEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 11 VE~L~EeL~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
+..+...++|.+|..+| .|+.. +.|-|+||+.||.+.+..+..||.|...+...
T Consensus 9 ~~~~n~~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred hhhcccceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 56788889999999999 77777 59999999999999999999999999887644
No 31
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=5.7e-06 Score=100.92 Aligned_cols=54 Identities=22% Similarity=0.520 Sum_probs=47.1
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhhc-CCCCCCCCcccccccch
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLVTEADSK 69 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss-s~kCPiCRk~LsekDLk 69 (1332)
....|+|++|..=+ ++.+++.|+|+||..|+...+.. ..+||.|.+.+.-.|+.
T Consensus 640 yK~~LkCs~Cn~R~--Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 640 YKELLKCSVCNTRW--KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred HHhceeCCCccCch--hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 45678999999877 89999999999999999998876 46999999999888765
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.75 E-value=1.3e-05 Score=67.33 Aligned_cols=35 Identities=31% Similarity=0.997 Sum_probs=22.4
Q ss_pred cccCCccccCCC----cEEccCCCeeccchHHHHhhcC----CCCC
Q 000721 20 CPVCRLLVYPNE----ALQSQCTHLYCKPCLTYIVNTT----QACP 57 (1332)
Q Consensus 20 CPICleLL~P~D----PVQcqCGHtFCssCIeKwLsss----~kCP 57 (1332)
|+||++ + .+ |+.+.|||+||++||++++..+ .+||
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 6 56 8999999999999999999854 2665
No 33
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.40 E-value=6.4e-05 Score=80.52 Aligned_cols=45 Identities=18% Similarity=0.541 Sum_probs=41.4
Q ss_pred cccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
+.|-||.+-+ +.||.+.|||.||..|..+-...+..|-+|++...
T Consensus 197 F~C~iCKkdy--~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKDY--ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred eeehhchhhc--cchhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 6899999999 89999999999999999998888899999998653
No 34
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=6.2e-05 Score=90.22 Aligned_cols=48 Identities=19% Similarity=0.495 Sum_probs=41.9
Q ss_pred ccccccCCccccCCC-----cEEccCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 17 EYFCPVCRLLVYPNE-----ALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 17 eL~CPICleLL~P~D-----PVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
...|.||.+.+ .. +....|+|+||..|+.+|++....||.||..+...
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 55 67789999999999999999999999999955433
No 35
>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=97.33 E-value=0.00017 Score=65.97 Aligned_cols=39 Identities=21% Similarity=0.713 Sum_probs=32.4
Q ss_pred cccCCccccCCCc------------EE-ccCCCeeccchHHHHhhcCCCCCCCC
Q 000721 20 CPVCRLLVYPNEA------------LQ-SQCTHLYCKPCLTYIVNTTQACPYDG 60 (1332)
Q Consensus 20 CPICleLL~P~DP------------VQ-cqCGHtFCssCIeKwLsss~kCPiCR 60 (1332)
|.||++.| .++ +. ..|||.|...||.+|+..+..||+||
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 99999888 222 22 48999999999999999999999997
No 36
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.21 E-value=0.00012 Score=86.56 Aligned_cols=52 Identities=23% Similarity=0.519 Sum_probs=44.4
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhhc-----CCCCCCCCccccccc
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT-----TQACPYDGYLVTEAD 67 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss-----s~kCPiCRk~LsekD 67 (1332)
-..+.+|.+|.+.. .+++++.|.|.||+-||.+++.. +.+||.|...++...
T Consensus 533 nk~~~~C~lc~d~a--ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 533 NKGEVECGLCHDPA--EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred ccCceeecccCChh--hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 34567899999999 89999999999999999998874 359999998877543
No 37
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.15 E-value=0.00015 Score=87.60 Aligned_cols=121 Identities=15% Similarity=0.351 Sum_probs=76.2
Q ss_pred CCccccccCCccccCCCcEE---ccCC--Ceecc--chHHHHhhc----CCCCCCCCcccccccchhhhcccccchhhhh
Q 000721 15 AGEYFCPVCRLLVYPNEALQ---SQCT--HLYCK--PCLTYIVNT----TQACPYDGYLVTEADSKVVLSSAVVPLVESN 83 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQ---cqCG--HtFCs--sCIeKwLss----s~kCPiCRk~LsekDLklLveskIFPLlesN 83 (1332)
.+...|+=|...+. ..-+. ..|- .+.|. .|-....+. ...|+.|...+...++ .
T Consensus 405 ~~~V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~s~L--------------e 469 (567)
T PLN03086 405 VDTVECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQGEM--------------E 469 (567)
T ss_pred CCeEECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccchHHH--------------H
Confidence 34557999986552 11111 1332 12333 243333221 2379999876643221 2
Q ss_pred HHHHHHhhceecccccCCCCCccccccCCCCccCC-CCCCCCccccCCCccchhc-----------HHHHHHHHhhCCCC
Q 000721 84 KALAETIGKITVHCLFHRSGCTWQGPLSECTSHCS-GCAFGNSPVVCNRCAIQIV-----------HRQVQEHAQNCPGV 151 (1332)
Q Consensus 84 K~LEKeIekLkVKCpnsk~GCqwsgkLSELesHek-eC~y~~RpVkCp~CGqkI~-----------RkELQeHLdeCPK~ 151 (1332)
++.. .+ ...+.|+ |.......+|..|.. .|+.. ++.|.+|+..+. ...|..|+..|...
T Consensus 470 kH~~-~~-Hkpv~Cp-----Cg~~~~R~~L~~H~~thCp~K--pi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~r 540 (567)
T PLN03086 470 KHMK-VF-HEPLQCP-----CGVVLEKEQMVQHQASTCPLR--LITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSR 540 (567)
T ss_pred HHHH-hc-CCCccCC-----CCCCcchhHHHhhhhccCCCC--ceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCc
Confidence 3332 22 3567885 776777788999974 69984 899999998875 34899999999999
Q ss_pred CCCCCCCC
Q 000721 152 QPQASQPE 159 (1332)
Q Consensus 152 PVqCPnsc 159 (1332)
.+.|..|+
T Consensus 541 t~~C~~Cg 548 (567)
T PLN03086 541 TAPCDSCG 548 (567)
T ss_pred ceEccccC
Confidence 99996544
No 38
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.02 E-value=0.00025 Score=82.88 Aligned_cols=51 Identities=24% Similarity=0.575 Sum_probs=45.8
Q ss_pred CCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCccccc
Q 000721 13 SLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lse 65 (1332)
.+.++|.|.||..++ .+|+.+.|||+||..||.+.+.....||.||..+..
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 456789999999999 789999999999999999988888899999987764
No 39
>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=96.97 E-value=9.3e-05 Score=77.80 Aligned_cols=68 Identities=28% Similarity=0.455 Sum_probs=41.0
Q ss_pred hHHHHHHhhceecccccCCCCCccccccCCCCccCCCCCCCCccccCCC----ccchhcHHHHHHHHhhCCCCC
Q 000721 83 NKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNR----CAIQIVHRQVQEHAQNCPGVQ 152 (1332)
Q Consensus 83 NK~LEKeIekLkVKCpnsk~GCqwsgkLSELesHekeC~y~~RpVkCp~----CGqkI~RkELQeHLdeCPK~P 152 (1332)
|..+++.++.+.+-|+|++.||.+...+.++.+|+++|.|. +..|+. |++.-...+|..|+.......
T Consensus 3 ~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~--p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~~ 74 (198)
T PF03145_consen 3 NRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFR--PCSCPFPGSGCDWQGSYKELLDHLRDKHSWN 74 (198)
T ss_dssp ------------EE-CCGGGT---EE-GGGHHHHHHT-TTS--EEE-SSSSTT---EEECCCHHHHHHHHTTTS
T ss_pred cHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCc--CCcCCCCCCCccccCCHHHHHHHHHHHCCCc
Confidence 56788899999999999999999999999999999999995 899975 999888899999998766653
No 40
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.88 E-value=0.00058 Score=60.50 Aligned_cols=46 Identities=17% Similarity=0.432 Sum_probs=32.3
Q ss_pred cCCCCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcC--CCCCCC
Q 000721 12 QSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT--QACPYD 59 (1332)
Q Consensus 12 E~L~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss--~kCPiC 59 (1332)
+.-.-.++|+|.+.+| .+||.. .|+|+|.++.|..++.++ ..||+-
T Consensus 6 ~~~~~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~ 54 (57)
T PF11789_consen 6 EGGTISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVA 54 (57)
T ss_dssp -SSB--SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCC
T ss_pred eccEeccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCC
Confidence 3445568999999999 899996 999999999999999543 499983
No 41
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.84 E-value=0.00057 Score=78.69 Aligned_cols=51 Identities=20% Similarity=0.412 Sum_probs=41.7
Q ss_pred CCccccccCCccccCCC------------cEEccCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 15 AGEYFCPVCRLLVYPNE------------ALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~D------------PVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
.++-.|.||.+-+. .. |+...|||++--.|++.|+++..+||+||..+-..
T Consensus 285 n~D~~C~ICmde~~-h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd 347 (491)
T COG5243 285 NSDRTCTICMDEMF-HPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFD 347 (491)
T ss_pred CCCCeEEEeccccc-CCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccc
Confidence 35668999997632 22 46789999999999999999999999999986543
No 42
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00054 Score=77.11 Aligned_cols=45 Identities=18% Similarity=0.496 Sum_probs=41.0
Q ss_pred cccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
+.|-||...+ .+||++.|+|.||..|..+-+.++..|.+|...+.
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 3599999999 89999999999999999999998999999987653
No 43
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.79 E-value=0.00066 Score=74.94 Aligned_cols=53 Identities=19% Similarity=0.385 Sum_probs=46.2
Q ss_pred CCccccccCCccccCCCcEEc----cCCCeeccchHHHHhhcCCCCCCCCcccccccch
Q 000721 15 AGEYFCPVCRLLVYPNEALQS----QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQc----qCGHtFCssCIeKwLsss~kCPiCRk~LsekDLk 69 (1332)
++.|+|+||.+.| .+.+.| .|||+||.+|.++++.....||+|...+.+.|+.
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 565554 8999999999999999999999999999887754
No 44
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.76 E-value=0.00084 Score=77.32 Aligned_cols=48 Identities=19% Similarity=0.391 Sum_probs=39.9
Q ss_pred cccccCCccccCCCcEE-ccCCCeeccchHHHHhhcCC-CCCCCCccccc
Q 000721 18 YFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQ-ACPYDGYLVTE 65 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLsss~-kCPiCRk~Lse 65 (1332)
..|.||++-+.+.+-+. +.|.|.|=..||+.|+.... .||+|+..+..
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 48999999996655444 69999999999999999875 69999986543
No 45
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.75 E-value=0.00081 Score=81.50 Aligned_cols=51 Identities=20% Similarity=0.340 Sum_probs=26.8
Q ss_pred CccccccCCCCccCCCCCCCCccccCCCccchhcHHHHHHHHh-hCCCCCCCCCCC
Q 000721 104 CTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHAQ-NCPGVQPQASQP 158 (1332)
Q Consensus 104 CqwsgkLSELesHekeC~y~~RpVkCp~CGqkI~RkELQeHLd-eCPK~PVqCPns 158 (1332)
|.+....++|+.|...|. .++.|+ |+..+.+.+|..|+. .|++.++.|.+|
T Consensus 459 Cgk~f~~s~LekH~~~~H---kpv~Cp-Cg~~~~R~~L~~H~~thCp~Kpi~C~fC 510 (567)
T PLN03086 459 CGQAFQQGEMEKHMKVFH---EPLQCP-CGVVLEKEQMVQHQASTCPLRLITCRFC 510 (567)
T ss_pred CCCccchHHHHHHHHhcC---CCccCC-CCCCcchhHHHhhhhccCCCCceeCCCC
Confidence 544444455555555552 245555 555555555555554 355555555553
No 46
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.00073 Score=76.30 Aligned_cols=48 Identities=19% Similarity=0.411 Sum_probs=39.6
Q ss_pred CccccccCCccccCCCcEE-ccCCCeeccchHHHHhhc-CCCCCCCCccc
Q 000721 16 GEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNT-TQACPYDGYLV 63 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLss-s~kCPiCRk~L 63 (1332)
....|.||.+-+.|.+-+. +.|.|.|-..|+++|+.. +..||+||..+
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 3468999998776655444 699999999999999994 56999999876
No 47
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0011 Score=74.26 Aligned_cols=48 Identities=27% Similarity=0.504 Sum_probs=40.3
Q ss_pred CCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcC--CCCCCCCcccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT--QACPYDGYLVT 64 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss--~kCPiCRk~Ls 64 (1332)
..+.+|++|.+.- ..|.+. +|+|+||..||.+..... -.||.|+..+.
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 789986 799999999999977654 59999998654
No 48
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.63 E-value=0.00067 Score=78.99 Aligned_cols=105 Identities=20% Similarity=0.377 Sum_probs=63.9
Q ss_pred CCCccccccCCccccCCC-cEEccCCCeeccchHHHHhhcC--------CCCCCC--Ccccccccchhhhcccccchhhh
Q 000721 14 LAGEYFCPVCRLLVYPNE-ALQSQCTHLYCKPCLTYIVNTT--------QACPYD--GYLVTEADSKVVLSSAVVPLVES 82 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~D-PVQcqCGHtFCssCIeKwLsss--------~kCPiC--Rk~LsekDLklLveskIFPLles 82 (1332)
+...+.|.||.+-..... -+.+.|+|+||+.|+..+...- .+||.| +.......++.++..+++...+
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe- 259 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYE- 259 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHH-
Confidence 345678999997663212 2336999999999999987631 389974 4444444555555555554321
Q ss_pred hHHHHHHhhcee--cccccCCCCCccccccCCCCccC---CCCCC
Q 000721 83 NKALAETIGKIT--VHCLFHRSGCTWQGPLSECTSHC---SGCAF 122 (1332)
Q Consensus 83 NK~LEKeIekLk--VKCpnsk~GCqwsgkLSELesHe---keC~y 122 (1332)
.-.+++.++.+. ++|++. .|+... ..+...-+ ..|.|
T Consensus 260 ~l~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnF 301 (445)
T KOG1814|consen 260 KLMLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNF 301 (445)
T ss_pred HHHHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCcc
Confidence 223445555554 999996 576554 44444433 44544
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.54 E-value=0.00068 Score=78.52 Aligned_cols=46 Identities=24% Similarity=0.626 Sum_probs=39.7
Q ss_pred ccccCCccccCCCcEEccCCCeeccchHHHHhhc--CCCCCCCCcccccc
Q 000721 19 FCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT--TQACPYDGYLVTEA 66 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss--s~kCPiCRk~Lsek 66 (1332)
.|.||-+-- ++..+-.|||+.|..|+..|-.+ +..||.||++|+-.
T Consensus 371 LCKICaend--KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 371 LCKICAEND--KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHhhccC--CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 599999877 78788899999999999999855 45999999988754
No 50
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.20 E-value=0.0041 Score=68.74 Aligned_cols=55 Identities=22% Similarity=0.424 Sum_probs=43.8
Q ss_pred CCCccccccCCccccCCCcEEc--cCCCeeccchHHHHhhcCCCCCCCCcccccccch
Q 000721 14 LAGEYFCPVCRLLVYPNEALQS--QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQc--qCGHtFCssCIeKwLsss~kCPiCRk~LsekDLk 69 (1332)
-...|+|||+...|.....++. .|||+||..||.++. ....||+|...+...|+.
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 3567899999999833334443 999999999999995 456899999999988755
No 51
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.0028 Score=73.15 Aligned_cols=49 Identities=22% Similarity=0.551 Sum_probs=38.4
Q ss_pred CCccccccCCccccCCCcE-----E---ccCCCeeccchHHHHhh--c-----CCCCCCCCccccc
Q 000721 15 AGEYFCPVCRLLVYPNEAL-----Q---SQCTHLYCKPCLTYIVN--T-----TQACPYDGYLVTE 65 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPV-----Q---cqCGHtFCssCIeKwLs--s-----s~kCPiCRk~Lse 65 (1332)
.++.+|.||.+.+ .+.. - ..|.|.||..||++|.. . ...||.||...+.
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 4567899999888 3443 1 37999999999999984 2 3699999987654
No 52
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.99 E-value=0.0026 Score=72.00 Aligned_cols=47 Identities=17% Similarity=0.408 Sum_probs=40.9
Q ss_pred cccccCCccccCCCcEEccCCCeeccchHHHHhhcCC-CCCCCCcccccc
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQ-ACPYDGYLVTEA 66 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~-kCPiCRk~Lsek 66 (1332)
-+|.||++.. ..|+...|+|.||.-||+-...... .|++||..+...
T Consensus 8 ~eC~IC~nt~--n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 8 KECLICYNTG--NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CcceeeeccC--CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 3699999999 8898899999999999999877655 699999988754
No 53
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.90 E-value=0.0014 Score=56.62 Aligned_cols=40 Identities=28% Similarity=0.674 Sum_probs=25.0
Q ss_pred cCCCCCCCCccccCCC--ccchhcHHHHHHHHh-hCCCCCCCCCC
Q 000721 116 HCSGCAFGNSPVVCNR--CAIQIVHRQVQEHAQ-NCPGVQPQASQ 157 (1332)
Q Consensus 116 HekeC~y~~RpVkCp~--CGqkI~RkELQeHLd-eCPK~PVqCPn 157 (1332)
|+.+|++. ++.|+. |...|.+.+|.+|++ .|++..|.|++
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 45557764 677765 556677777777777 67777777776
No 54
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.72 E-value=0.0056 Score=70.63 Aligned_cols=46 Identities=22% Similarity=0.481 Sum_probs=40.6
Q ss_pred ccccccCCccccCCCcEEccCCCe-eccchHHHHhhcCCCCCCCCcccc
Q 000721 17 EYFCPVCRLLVYPNEALQSQCTHL-YCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQcqCGHt-FCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
..+|-||+.-. ++.++..|.|+ .|..|.+.+.-....||+||..+.
T Consensus 290 gkeCVIClse~--rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSES--RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCeeEEEecCC--cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 57899999999 89999999995 899999998766678999998765
No 55
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=95.49 E-value=0.0091 Score=57.27 Aligned_cols=34 Identities=21% Similarity=0.388 Sum_probs=28.1
Q ss_pred cEE-ccCCCeeccchHHHHhhc---CCCCCCCCccccc
Q 000721 32 ALQ-SQCTHLYCKPCLTYIVNT---TQACPYDGYLVTE 65 (1332)
Q Consensus 32 PVQ-cqCGHtFCssCIeKwLss---s~kCPiCRk~Lse 65 (1332)
|+. ..|+|.|-..||.+|+.+ +..||.||.....
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 444 489999999999999986 3599999987654
No 56
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.48 E-value=0.0032 Score=54.36 Aligned_cols=52 Identities=25% Similarity=0.402 Sum_probs=39.9
Q ss_pred HhhceecccccCCCCCccccccCCCCccCC-CCCCCCccccCCC----ccchhcHHHHHHH
Q 000721 89 TIGKITVHCLFHRSGCTWQGPLSECTSHCS-GCAFGNSPVVCNR----CAIQIVHRQVQEH 144 (1332)
Q Consensus 89 eIekLkVKCpnsk~GCqwsgkLSELesHek-eC~y~~RpVkCp~----CGqkI~RkELQeH 144 (1332)
.+....|.|++. +|...+..++|..|+. +|++. .+.|.+ |++.+.+.+|.+|
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 377788999984 5677788999999997 99995 999998 9999999999987
No 57
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.13 E-value=0.0051 Score=77.03 Aligned_cols=50 Identities=18% Similarity=0.429 Sum_probs=37.9
Q ss_pred CCccccccCCcccc----CCCcEEc-cCCCeeccchHHHHhhcC--CCCCCCCcccc
Q 000721 15 AGEYFCPVCRLLVY----PNEALQS-QCTHLYCKPCLTYIVNTT--QACPYDGYLVT 64 (1332)
Q Consensus 15 ~EeL~CPICleLL~----P~DPVQc-qCGHtFCssCIeKwLsss--~kCPiCRk~Ls 64 (1332)
+..-+|+||..++. +-....| .|.|.|-..|+.+|.+++ .+||.||.+++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34457999998872 0012335 899999999999999975 49999997664
No 58
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.01 E-value=0.0042 Score=55.58 Aligned_cols=45 Identities=18% Similarity=0.419 Sum_probs=37.0
Q ss_pred cccccCCccccCCCcEEccCCCe-eccchHHHHhh-cCCCCCCCCcccc
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHL-YCKPCLTYIVN-TTQACPYDGYLVT 64 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHt-FCssCIeKwLs-ss~kCPiCRk~Ls 64 (1332)
-+|-||.+-. .+.|.-.|||. .|..|-.+.++ .+..||+||..+.
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 67777799996 89999888777 4679999998664
No 59
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.93 E-value=0.0073 Score=67.71 Aligned_cols=50 Identities=22% Similarity=0.496 Sum_probs=38.4
Q ss_pred CccccccCCccccCCCc----------EEccCCCeeccchHHHHhhcC--CCCCCCCccccccc
Q 000721 16 GEYFCPVCRLLVYPNEA----------LQSQCTHLYCKPCLTYIVNTT--QACPYDGYLVTEAD 67 (1332)
Q Consensus 16 EeL~CPICleLL~P~DP----------VQcqCGHtFCssCIeKwLsss--~kCPiCRk~LsekD 67 (1332)
++-.|.||..-+ ... ...+|+|+|-+.||+-|...+ .+||.|++.++.+.
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 345699999655 232 346999999999999998764 59999998876543
No 60
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.86 E-value=0.01 Score=65.58 Aligned_cols=47 Identities=21% Similarity=0.546 Sum_probs=35.6
Q ss_pred ccccccCCccccCCCcEE-ccCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 17 EYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
...|-.|..--. .+++- |.|+|+||..|....... .|++|++.+...
T Consensus 3 ~VhCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~~--~C~lCkk~ir~i 50 (233)
T KOG4739|consen 3 FVHCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSPD--VCPLCKKSIRII 50 (233)
T ss_pred eEEeccccccCC-CCceeeeechhhhhhhhcccCCcc--ccccccceeeee
Confidence 456998886653 44444 799999999999776553 899999987643
No 61
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.83 E-value=0.011 Score=67.90 Aligned_cols=55 Identities=18% Similarity=0.425 Sum_probs=40.4
Q ss_pred CCCccccccCCccccC--CCcEEccCCCeeccchHHHHhhc-CCCCCCCCcccccccch
Q 000721 14 LAGEYFCPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLVTEADSK 69 (1332)
Q Consensus 14 L~EeL~CPICleLL~P--~DPVQcqCGHtFCssCIeKwLss-s~kCPiCRk~LsekDLk 69 (1332)
-+++| |++|.+.+.. ++-+-|.||-..|..|+...... +.+||.||....+++.+
T Consensus 12 deed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 12 DEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred ccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 34455 9999976621 12234899999999999887665 56999999887766544
No 62
>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=94.82 E-value=0.016 Score=65.62 Aligned_cols=50 Identities=22% Similarity=0.547 Sum_probs=37.9
Q ss_pred ccccCCccccCCCcEE----ccCCCeeccchHHHHhhcCC-CCCCCCcccccccch
Q 000721 19 FCPVCRLLVYPNEALQ----SQCTHLYCKPCLTYIVNTTQ-ACPYDGYLVTEADSK 69 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQ----cqCGHtFCssCIeKwLsss~-kCPiCRk~LsekDLk 69 (1332)
.|++|+.-.| .+|-. ..|+|..|..|...+...+. .||.|...+....++
T Consensus 2 ~Cp~CKt~~Y-~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRY-LNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCccccccee-cCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 5999984222 23322 49999999999999998875 999999988766554
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.78 E-value=0.0073 Score=69.42 Aligned_cols=99 Identities=16% Similarity=0.280 Sum_probs=58.5
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhh--cCCCCCCCCcccccc--------cch---hh--hcccccc
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVN--TTQACPYDGYLVTEA--------DSK---VV--LSSAVVP 78 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLs--ss~kCPiCRk~Lsek--------DLk---lL--veskIFP 78 (1332)
-+++..|-||-.-+ .-...+.|+|..|.-|..+.-. ..+.|++||.+...- |+. .+ .++++-
T Consensus 58 DEen~~C~ICA~~~--TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI~D~~~~k~~~EK~G- 134 (493)
T COG5236 58 DEENMNCQICAGST--TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADITDRRQWKGREEKVG- 134 (493)
T ss_pred ccccceeEEecCCc--eEEEeccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcchhHhhhccccccee-
Confidence 35668899999877 3445579999999999877544 357999999874311 111 11 111211
Q ss_pred hhhhhHHHH-HHhhceecccccCCCCCccccc-cCCCCccC
Q 000721 79 LVESNKALA-ETIGKITVHCLFHRSGCTWQGP-LSECTSHC 117 (1332)
Q Consensus 79 LlesNK~LE-KeIekLkVKCpnsk~GCqwsgk-LSELesHe 117 (1332)
++..+++++ +...-|.++|+.. .|...+. +.+|+.|.
T Consensus 135 I~y~~E~v~~E~~~LL~F~CP~s--kc~~~C~~~k~lk~H~ 173 (493)
T COG5236 135 IFYEGEDVRDEMEDLLSFKCPKS--KCHRRCGSLKELKKHY 173 (493)
T ss_pred eeecchHHHHHHHHHHHhcCCch--hhhhhhhhHHHHHHHH
Confidence 122233343 4555668889875 3544332 55555553
No 64
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.74 E-value=0.012 Score=68.91 Aligned_cols=114 Identities=18% Similarity=0.391 Sum_probs=63.4
Q ss_pred ccccccCC-ccccCCCcE-EccCCCeeccchHHHHhhcC------CCCCC--CCcccccccchhhhcccccchhhhhHHH
Q 000721 17 EYFCPVCR-LLVYPNEAL-QSQCTHLYCKPCLTYIVNTT------QACPY--DGYLVTEADSKVVLSSAVVPLVESNKAL 86 (1332)
Q Consensus 17 eL~CPICl-eLL~P~DPV-QcqCGHtFCssCIeKwLsss------~kCPi--CRk~LsekDLklLveskIFPLlesNK~L 86 (1332)
..+|.||. +....+.-+ ...|+|.||..|+...+... ..||. |...+....+..++..++.... ..+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~-e~~~~ 224 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLLTPKLREMW-EQRLK 224 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhcCHHHHHHH-HHHHH
Confidence 46799999 444211122 25899999999999988743 48986 7666666655422221111111 11112
Q ss_pred HHHhhce-ecccccCCCCCccccccCCCCcc----CCCCCCCCccccCCCccc
Q 000721 87 AETIGKI-TVHCLFHRSGCTWQGPLSECTSH----CSGCAFGNSPVVCNRCAI 134 (1332)
Q Consensus 87 EKeIekL-kVKCpnsk~GCqwsgkLSELesH----ekeC~y~~RpVkCp~CGq 134 (1332)
++.|... +++|++. .|.+.+...++..- -..|..- ....|-.|+.
T Consensus 225 e~~i~~~~~~ycp~~--~C~~l~~~~el~~~~~~~~~~C~~C-~~~fCv~C~~ 274 (384)
T KOG1812|consen 225 EEVIPSLDRVYCPYP--RCSSLMSKTELSSEVKSKRRPCVKC-HELFCVKCKV 274 (384)
T ss_pred HHhhhhhhcccCCCC--CchHhhhhhhhccchhhcccccccC-CCceeecCCC
Confidence 2222221 3489885 79888776666531 1223332 2355777765
No 65
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.64 E-value=0.047 Score=60.61 Aligned_cols=48 Identities=17% Similarity=0.389 Sum_probs=37.9
Q ss_pred ccccccCCccccCC----CcEEccCCCeeccchHHHHhhcC-CCCCCCCcccc
Q 000721 17 EYFCPVCRLLVYPN----EALQSQCTHLYCKPCLTYIVNTT-QACPYDGYLVT 64 (1332)
Q Consensus 17 eL~CPICleLL~P~----DPVQcqCGHtFCssCIeKwLsss-~kCPiCRk~Ls 64 (1332)
.+.|-||.+.+... .|....|||++|..|+.+++... ..||.||....
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~ 55 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTE 55 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCccc
Confidence 36799999877432 24556899999999999998875 48999998853
No 66
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=94.33 E-value=0.013 Score=69.38 Aligned_cols=47 Identities=26% Similarity=0.501 Sum_probs=37.3
Q ss_pred CCCccccccCCccccCCCcE---E-ccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 14 LAGEYFCPVCRLLVYPNEAL---Q-SQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPV---Q-cqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
+.+.-+|+||++-+ +.-+ . +-|.|.|=..|+.+|.- ..||+||....
T Consensus 172 ~tELPTCpVCLERM--D~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERM--DSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhc--CccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 44566899999988 4443 3 59999999999999976 58999997544
No 67
>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=94.32 E-value=0.024 Score=59.78 Aligned_cols=85 Identities=24% Similarity=0.445 Sum_probs=53.8
Q ss_pred CccccccCCccccCCCcEEccCC-------Ceecc------chHHHHhhcC-----------------------------
Q 000721 16 GEYFCPVCRLLVYPNEALQSQCT-------HLYCK------PCLTYIVNTT----------------------------- 53 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQcqCG-------HtFCs------sCIeKwLsss----------------------------- 53 (1332)
|+.+|+||++.- .++|.+.|. -..|. .|++.+.+..
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 888886553 22453 6777765420
Q ss_pred --CCCCCCCcccccccchhhhcccccchhhhhHHHHHHhhceecccccCCCCCccccccCCCCccCC
Q 000721 54 --QACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCS 118 (1332)
Q Consensus 54 --~kCPiCRk~LsekDLklLveskIFPLlesNK~LEKeIekLkVKCpnsk~GCqwsgkLSELesHek 118 (1332)
-.||.||-.|..-. + + +..++.++..+=.|.. ++|.+.+.|.+|.+|..
T Consensus 79 ~~L~CPLCRG~V~GWt--------v---v---e~AR~~LN~K~RsC~~--e~C~F~GtY~eLrKHar 129 (162)
T PF07800_consen 79 PELACPLCRGEVKGWT--------V---V---EPARRFLNAKKRSCSQ--ESCSFSGTYSELRKHAR 129 (162)
T ss_pred ccccCccccCceeceE--------E---c---hHHHHHhccCCccCcc--cccccccCHHHHHHHHH
Confidence 16888887664321 1 1 2244455555555654 57888888888888763
No 68
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=94.23 E-value=0.027 Score=65.99 Aligned_cols=68 Identities=18% Similarity=0.363 Sum_probs=62.2
Q ss_pred eecccccCCCCCccccccCCCCccC-CCCCCCCccccCCCccchhcHHHHHHHHhhCCCCCCCCCCCCCcccccc
Q 000721 93 ITVHCLFHRSGCTWQGPLSECTSHC-SGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGVQPQASQPEGVHDAAA 166 (1332)
Q Consensus 93 LkVKCpnsk~GCqwsgkLSELesHe-keC~y~~RpVkCp~CGqkI~RkELQeHLdeCPK~PVqCPnsc~~qkIAs 166 (1332)
..++|++. |...+..+++++|+ .+|.+. ...|..|+..+.-..++.|... +...+.|..+|+..++.+
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 67889884 99999999999998 889995 8999999999999999999999 899999999998888887
No 69
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.90 E-value=0.015 Score=72.29 Aligned_cols=49 Identities=20% Similarity=0.584 Sum_probs=41.8
Q ss_pred cccccCCccccCCCcEEccCCCeeccchHHHHhhcC--CCCCCCCcccccccch
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT--QACPYDGYLVTEADSK 69 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss--~kCPiCRk~LsekDLk 69 (1332)
+.|.||.+ . ..++.+.|+|.||..|+.+.+... ..||.||..+...++.
T Consensus 455 ~~c~ic~~-~--~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD-L--DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc-c--ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 89999999 6 789999999999999999998864 3799999877765443
No 70
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.81 E-value=0.022 Score=66.93 Aligned_cols=52 Identities=23% Similarity=0.432 Sum_probs=39.0
Q ss_pred CccccccCCccccCCCcEE-----ccCCCeeccchHHHHhhcC--CCCCCCCcccccccch
Q 000721 16 GEYFCPVCRLLVYPNEALQ-----SQCTHLYCKPCLTYIVNTT--QACPYDGYLVTEADSK 69 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQ-----cqCGHtFCssCIeKwLsss--~kCPiCRk~LsekDLk 69 (1332)
...+|+||++-+ .-+.. ..|||.|-+.||++|+.+. ..||.|..+-...+++
T Consensus 3 ~g~tcpiclds~--~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~ 61 (463)
T KOG1645|consen 3 CGTTCPICLDSY--TTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIR 61 (463)
T ss_pred ccccCceeeeee--eecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHH
Confidence 457899999766 33332 4999999999999999643 4999998766554443
No 71
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.59 E-value=0.029 Score=64.93 Aligned_cols=48 Identities=23% Similarity=0.507 Sum_probs=41.5
Q ss_pred CCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
.++-.|+||..-- .+++.+.|+|.-|+.||...+-..+.|-.|+..+.
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 4566799999765 68888999999999999999999999999997664
No 72
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.39 E-value=0.015 Score=66.00 Aligned_cols=42 Identities=19% Similarity=0.558 Sum_probs=35.8
Q ss_pred ccccccCCccccCCCcEEccCCCe-eccchHHHHhhcCCCCCCCCcccc
Q 000721 17 EYFCPVCRLLVYPNEALQSQCTHL-YCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQcqCGHt-FCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
...|.||.+.. ++-|.+.|||. -|.+|-.++. .||+||+.|.
T Consensus 300 ~~LC~ICmDaP--~DCvfLeCGHmVtCt~CGkrm~----eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP--RDCVFLECGHMVTCTKCGKRMN----ECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC--cceEEeecCcEEeehhhccccc----cCchHHHHHH
Confidence 67899999998 88889999995 7999987775 5999997553
No 73
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.34 E-value=0.035 Score=66.40 Aligned_cols=50 Identities=18% Similarity=0.444 Sum_probs=36.4
Q ss_pred CCCccccccCCccccC---------------CCcEEccCCCeeccchHHHHhhc-CCCCCCCCccc
Q 000721 14 LAGEYFCPVCRLLVYP---------------NEALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLV 63 (1332)
Q Consensus 14 L~EeL~CPICleLL~P---------------~DPVQcqCGHtFCssCIeKwLss-s~kCPiCRk~L 63 (1332)
+++..-|.||...+.- ++-+.+.|.|+|-..|++.|+.. +-.||+||+.+
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 3455679999854300 01223589999999999999995 45999999876
No 74
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.03 E-value=0.038 Score=65.11 Aligned_cols=37 Identities=30% Similarity=0.707 Sum_probs=33.3
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhhc
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT 52 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss 52 (1332)
++++|+|+||..++ ++|+++.|+|..|..|.+..+..
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 46889999999999 99999999999999999877654
No 75
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=92.49 E-value=0.07 Score=46.67 Aligned_cols=44 Identities=20% Similarity=0.483 Sum_probs=23.0
Q ss_pred cccCCccccCCC--cEEccCCCeeccchHHHHhhc-CCCCCCCCccc
Q 000721 20 CPVCRLLVYPNE--ALQSQCTHLYCKPCLTYIVNT-TQACPYDGYLV 63 (1332)
Q Consensus 20 CPICleLL~P~D--PVQcqCGHtFCssCIeKwLss-s~kCPiCRk~L 63 (1332)
|++|.+.+..++ -+-|.|+..+|..|+.+.++. +..||.||+..
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 788887662222 223799999999999999974 67999999753
No 76
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=92.31 E-value=0.074 Score=61.31 Aligned_cols=50 Identities=24% Similarity=0.514 Sum_probs=40.6
Q ss_pred CCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
.+.-.|+||+.-. .+|..+ .-|-+||..|+-.++.+...||+-.+++...
T Consensus 298 ~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~ 348 (357)
T KOG0826|consen 298 PDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVD 348 (357)
T ss_pred CccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHH
Confidence 3456799999877 566665 6799999999999999888999987766543
No 77
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=92.18 E-value=0.064 Score=60.60 Aligned_cols=79 Identities=15% Similarity=0.271 Sum_probs=57.9
Q ss_pred CCCCCCcccccccchhhhcccccchhhhhHHHHHHhhceecccccCCCCCccc-cccCCCCccCCCCCCCCccccCCCcc
Q 000721 55 ACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQ-GPLSECTSHCSGCAFGNSPVVCNRCA 133 (1332)
Q Consensus 55 kCPiCRk~LsekDLklLveskIFPLlesNK~LEKeIekLkVKCpnsk~GCqws-gkLSELesHekeC~y~~RpVkCp~CG 133 (1332)
+|.+|++.+.+-.+. ..+|+....+..+.|.+ |..- -..++|+.|+.+=... +...|..|+
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 899999988766532 35677777888888886 7554 4467788888665443 367899999
Q ss_pred chhcHHH-HHHHHhh-CCCC
Q 000721 134 IQIVHRQ-VQEHAQN-CPGV 151 (1332)
Q Consensus 134 qkI~RkE-LQeHLde-CPK~ 151 (1332)
+.+.++. |.+|++. |.+.
T Consensus 251 KsFsl~SyLnKH~ES~C~~~ 270 (279)
T KOG2462|consen 251 KSFALKSYLNKHSESACLKY 270 (279)
T ss_pred hHHHHHHHHHHhhhhccccc
Confidence 9988774 7789985 7654
No 78
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.76 E-value=0.048 Score=62.38 Aligned_cols=43 Identities=23% Similarity=0.521 Sum_probs=30.2
Q ss_pred cccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCccc
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~L 63 (1332)
-.|-.|...+. .--....|.|+||.+|.+.-. .+.||.|...|
T Consensus 91 HfCd~Cd~PI~-IYGRmIPCkHvFCl~CAr~~~--dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIA-IYGRMIPCKHVFCLECARSDS--DKICPLCDDRV 133 (389)
T ss_pred EeecccCCcce-eeecccccchhhhhhhhhcCc--cccCcCcccHH
Confidence 35889987661 122336999999999986533 46899997543
No 79
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=91.25 E-value=0.079 Score=48.66 Aligned_cols=49 Identities=18% Similarity=0.329 Sum_probs=23.8
Q ss_pred ccccccCCccccC--CCcEE-c---cCCCeeccchHHHHhhcC-----------CCCCCCCccccc
Q 000721 17 EYFCPVCRLLVYP--NEALQ-S---QCTHLYCKPCLTYIVNTT-----------QACPYDGYLVTE 65 (1332)
Q Consensus 17 eL~CPICleLL~P--~DPVQ-c---qCGHtFCssCIeKwLsss-----------~kCPiCRk~Lse 65 (1332)
++.|.||...+.. ..|.. | .|+.+|=..||.+|+... ..||.|+..|..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 4689999987621 12333 3 788889999999999741 279999988764
No 80
>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=91.22 E-value=0.053 Score=60.33 Aligned_cols=50 Identities=26% Similarity=0.612 Sum_probs=36.7
Q ss_pred ccccccCCccccCCCcEE----c-cCCCeeccchHHHHhhcCC-CCC--CCCccccccc
Q 000721 17 EYFCPVCRLLVYPNEALQ----S-QCTHLYCKPCLTYIVNTTQ-ACP--YDGYLVTEAD 67 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ----c-qCGHtFCssCIeKwLsss~-kCP--iCRk~LsekD 67 (1332)
+-+|+||+.-.| .+|-+ . .|-|..|.+|..+....+. .|| .|.+.+....
T Consensus 10 d~~CPvCksDrY-LnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~k 67 (314)
T COG5220 10 DRRCPVCKSDRY-LNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIK 67 (314)
T ss_pred cccCCccccccc-cCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhc
Confidence 357999994332 33322 2 5999999999999999875 999 5887765443
No 81
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=90.73 E-value=0.14 Score=53.02 Aligned_cols=49 Identities=18% Similarity=0.390 Sum_probs=39.3
Q ss_pred CccccccCCccccCCCcEE----ccCCCeeccchHHHHhhcC---CCCCCCCcccccc
Q 000721 16 GEYFCPVCRLLVYPNEALQ----SQCTHLYCKPCLTYIVNTT---QACPYDGYLVTEA 66 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQ----cqCGHtFCssCIeKwLsss---~kCPiCRk~Lsek 66 (1332)
..|+|-||.+.. .|..- ..||-..|.-|...+|+.. ..||+|++.+...
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 678999999988 45443 2799999999999988753 5999999877643
No 82
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=90.45 E-value=0.19 Score=45.21 Aligned_cols=49 Identities=24% Similarity=0.510 Sum_probs=37.4
Q ss_pred CCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCccccccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEAD 67 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekD 67 (1332)
..+..|-.|...- ...+...|||+.|..|+.-+ +-.-||.|.+.+...+
T Consensus 5 ~~~~~~~~~~~~~--~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 5 QPEQPCVFCGFVG--TKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred ccceeEEEccccc--cccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 3455688888776 56777899999999999754 2357999999877653
No 83
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=90.24 E-value=0.069 Score=66.35 Aligned_cols=55 Identities=22% Similarity=0.491 Sum_probs=44.4
Q ss_pred ccCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcC---CCCCCCCccccccc
Q 000721 11 IQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT---QACPYDGYLVTEAD 67 (1332)
Q Consensus 11 VE~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss---~kCPiCRk~LsekD 67 (1332)
+..+...++|+||...+ .+++.+.|.|.||..|+...+... ..|++|+..+....
T Consensus 15 i~~~~k~lEc~ic~~~~--~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 15 INAMQKILECPICLEHV--KEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred HHHHhhhccCCceeEEe--eccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 34567788999999988 788888999999999999877653 48999987665443
No 84
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.21 E-value=0.34 Score=57.68 Aligned_cols=52 Identities=29% Similarity=0.577 Sum_probs=38.6
Q ss_pred CccccccCCccccCCC-cEEccCCCeeccchHHHHhhcC--------CCCCC--CCcccccccch
Q 000721 16 GEYFCPVCRLLVYPNE-ALQSQCTHLYCKPCLTYIVNTT--------QACPY--DGYLVTEADSK 69 (1332)
Q Consensus 16 EeL~CPICleLL~P~D-PVQcqCGHtFCssCIeKwLsss--------~kCPi--CRk~LsekDLk 69 (1332)
....|.||.+-+ .. .+...|+|.||..|+..++.++ .+||. |...+....+.
T Consensus 69 ~~~~c~ic~~~~--~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~ 131 (444)
T KOG1815|consen 69 GDVQCGICVESY--DGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVE 131 (444)
T ss_pred ccccCCcccCCC--cchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceee
Confidence 447899999877 43 3445999999999999998864 25775 77766655544
No 85
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.12 E-value=0.16 Score=59.81 Aligned_cols=42 Identities=24% Similarity=0.521 Sum_probs=31.8
Q ss_pred ccccCCccccCCCcEE---c-cCCCeeccchHHHHhhcC---CCCCCCCcc
Q 000721 19 FCPVCRLLVYPNEALQ---S-QCTHLYCKPCLTYIVNTT---QACPYDGYL 62 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQ---c-qCGHtFCssCIeKwLsss---~kCPiCRk~ 62 (1332)
+|.||-+.. + .... + .|||+|-..|+..|.+.- ..||+|+..
T Consensus 6 ~C~Ic~d~~-p-~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik 54 (465)
T KOG0827|consen 6 ECHICIDGR-P-NDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIK 54 (465)
T ss_pred eeeEeccCC-c-cccccccccchhhHHHHHHHHHHHccCCccCCCCceeec
Confidence 699997665 2 2211 2 699999999999999863 489999943
No 86
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.10 E-value=0.12 Score=63.65 Aligned_cols=40 Identities=30% Similarity=0.685 Sum_probs=30.2
Q ss_pred CccccccCCccccC--CCcEEccCCCeeccchHHHHhhcCCCCC
Q 000721 16 GEYFCPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNTTQACP 57 (1332)
Q Consensus 16 EeL~CPICleLL~P--~DPVQcqCGHtFCssCIeKwLsss~kCP 57 (1332)
+.|.|.||++++.- .+|+...|||+.|+.|++.... ..||
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 45789999865521 3567779999999999998765 4566
No 87
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=88.93 E-value=0.077 Score=69.17 Aligned_cols=52 Identities=21% Similarity=0.524 Sum_probs=43.4
Q ss_pred cccCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcc
Q 000721 10 NIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYL 62 (1332)
Q Consensus 10 fVE~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~ 62 (1332)
.+..+.+...|.||++++. +--.+..|||.+|..|+..|+..+..|++|...
T Consensus 1146 y~~~~~~~~~c~ic~dil~-~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1146 YLMNLSGHFVCEICLDILR-NQGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred HHHHhhcccchHHHHHHHH-hcCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence 3455677789999999992 255667999999999999999999999999754
No 88
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.89 E-value=0.23 Score=57.94 Aligned_cols=46 Identities=24% Similarity=0.462 Sum_probs=34.0
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
+.-...|-||.+-. ++.+...|||+.| |+.-... ...||+||..+.
T Consensus 302 ~~~p~lcVVcl~e~--~~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEP--KSAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCc--cceeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 34456799999888 6788889999977 6654433 346999997654
No 89
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.99 E-value=0.29 Score=58.76 Aligned_cols=48 Identities=19% Similarity=0.472 Sum_probs=35.9
Q ss_pred ccCCCCccccccC-CccccCCCcEEc--cCCCeeccchHHHHhhcCCCCCCCCc
Q 000721 11 IQSLAGEYFCPVC-RLLVYPNEALQS--QCTHLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 11 VE~L~EeL~CPIC-leLL~P~DPVQc--qCGHtFCssCIeKwLsss~kCPiCRk 61 (1332)
+-.+.+.+.|.+| +.++ .+.+++ .|.-+||..||+..+.. ..|+.|.+
T Consensus 213 v~~~~e~~~c~~~~~~~~--~~~~l~~~~~~~~~~~~~i~~~l~~-~~~~~c~~ 263 (448)
T KOG0314|consen 213 VGELPEGLQCPLCGKEVM--LDAALLSKCCLKSFCDKCIRDALIS-KSMCVCGA 263 (448)
T ss_pred hccCCccccCceecchhh--HHHHHhhhhhcccCCcccccccccc-ccCCcchh
Confidence 3457788999999 6666 666665 88899999999998764 34555544
No 90
>PHA03096 p28-like protein; Provisional
Probab=87.77 E-value=0.26 Score=56.16 Aligned_cols=44 Identities=14% Similarity=0.287 Sum_probs=31.2
Q ss_pred cccccCCccccCCCcE------EccCCCeeccchHHHHhhcC---CCCCCCCc
Q 000721 18 YFCPVCRLLVYPNEAL------QSQCTHLYCKPCLTYIVNTT---QACPYDGY 61 (1332)
Q Consensus 18 L~CPICleLL~P~DPV------QcqCGHtFCssCIeKwLsss---~kCPiCRk 61 (1332)
-+|.||.+...-+... ...|.|.||..|++.|.... ..|+.|+.
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 6799999866322111 13899999999999998764 36666654
No 91
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=87.50 E-value=0.32 Score=46.83 Aligned_cols=31 Identities=26% Similarity=0.536 Sum_probs=27.6
Q ss_pred cCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 36 QCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 36 qCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
.|.|.|=.-||.+|+.++..||.||+.....
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 6899999999999999999999999876543
No 92
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.73 E-value=0.37 Score=54.17 Aligned_cols=40 Identities=8% Similarity=0.056 Sum_probs=35.2
Q ss_pred ccCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhc
Q 000721 11 IQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT 52 (1332)
Q Consensus 11 VE~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss 52 (1332)
-+.|.+.-.|++|+..+ ++||+|.-||+||++||.+++..
T Consensus 37 rDsiK~FdcCsLtLqPc--~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 37 RDSIKPFDCCSLTLQPC--RDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred ccccCCcceeeeecccc--cCCccCCCCeeeeHHHHHHHHHH
Confidence 46666777899999999 89999999999999999998763
No 93
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=85.25 E-value=0.29 Score=61.08 Aligned_cols=68 Identities=10% Similarity=0.202 Sum_probs=47.8
Q ss_pred hhceecccccCCCCCccccccCC-CCccC---CCCCCC---------CccccCCCccchhcHH-HHHHHHhh-CCCCCCC
Q 000721 90 IGKITVHCLFHRSGCTWQGPLSE-CTSHC---SGCAFG---------NSPVVCNRCAIQIVHR-QVQEHAQN-CPGVQPQ 154 (1332)
Q Consensus 90 IekLkVKCpnsk~GCqwsgkLSE-LesHe---keC~y~---------~RpVkCp~CGqkI~Rk-ELQeHLde-CPK~PVq 154 (1332)
...-.+.|.. |.++..++. |+.|+ +.|.-. .|..+|..|++.+..+ .|++|+.+ ....+..
T Consensus 236 kne~nfsC~l----CsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfe 311 (1007)
T KOG3623|consen 236 KNEPNFSCML----CSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFE 311 (1007)
T ss_pred hCCCCCcchh----hhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcC
Confidence 3334566765 888877664 44454 223221 4789999999998877 69999996 7778999
Q ss_pred CCCCCCc
Q 000721 155 ASQPEGV 161 (1332)
Q Consensus 155 CPnsc~~ 161 (1332)
|+||+-+
T Consensus 312 CpnCkKR 318 (1007)
T KOG3623|consen 312 CPNCKKR 318 (1007)
T ss_pred Ccccccc
Confidence 9988643
No 94
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=85.10 E-value=0.61 Score=61.50 Aligned_cols=53 Identities=15% Similarity=0.444 Sum_probs=38.4
Q ss_pred CCccccccCCccccCCCc-EEccCCCeeccchHHHHhhcC----------CCCCCCCccccccc
Q 000721 15 AGEYFCPVCRLLVYPNEA-LQSQCTHLYCKPCLTYIVNTT----------QACPYDGYLVTEAD 67 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DP-VQcqCGHtFCssCIeKwLsss----------~kCPiCRk~LsekD 67 (1332)
+.+-.|-||..-.....| +++.|+|+|--.|.+..+++. ..||+|...++..-
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~ 3547 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIV 3547 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHH
Confidence 445679999842212344 447999999999999988763 28999998877443
No 95
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.87 E-value=0.34 Score=55.29 Aligned_cols=48 Identities=23% Similarity=0.601 Sum_probs=35.2
Q ss_pred CCccccccCCccccCCCcEEccC----CCeeccchHHHHhhcC-----CCCCC-CCcccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQC----THLYCKPCLTYIVNTT-----QACPY-DGYLVT 64 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqC----GHtFCssCIeKwLsss-----~kCPi-CRk~Ls 64 (1332)
...|+|-+|.+-| .|.....| .|.||..|-++.|+.. ..||. +++.|-
T Consensus 266 ~apLcCTLC~ERL--EDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLv 323 (352)
T KOG3579|consen 266 SAPLCCTLCHERL--EDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLV 323 (352)
T ss_pred CCceeehhhhhhh--ccCceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCccc
Confidence 3459999999999 56544444 7999999999999863 27775 455443
No 96
>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=84.72 E-value=0.72 Score=40.02 Aligned_cols=42 Identities=21% Similarity=0.477 Sum_probs=31.3
Q ss_pred ccccCCccccCCCcEEccCC-----CeeccchHHHHhhcC--CCCCCCC
Q 000721 19 FCPVCRLLVYPNEALQSQCT-----HLYCKPCLTYIVNTT--QACPYDG 60 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQcqCG-----HtFCssCIeKwLsss--~kCPiCR 60 (1332)
.|-||++.....++++..|. +.+=..|+.+|+..+ ..|++|+
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 48999973333667776653 668889999999765 4899995
No 97
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=82.76 E-value=0.99 Score=53.99 Aligned_cols=49 Identities=20% Similarity=0.413 Sum_probs=30.9
Q ss_pred cccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCCcccccccch
Q 000721 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk~LsekDLk 69 (1332)
|+|-+|..-|. -.++.. .-..+||-.|+.+.+. .+|-+|...|...+.+
T Consensus 361 F~Cv~C~r~ld-gipFtvd~~n~v~Cv~dfh~kfA--PrCs~C~~PI~P~~G~ 410 (468)
T KOG1701|consen 361 FTCVVCARCLD-GIPFTVDSQNNVYCVPDFHKKFA--PRCSVCGNPILPRDGK 410 (468)
T ss_pred eEEEEeccccC-CccccccCCCceeeehhhhhhcC--cchhhccCCccCCCCC
Confidence 45666665552 334443 5566777777766554 5888998887766544
No 98
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=81.86 E-value=0.43 Score=56.83 Aligned_cols=44 Identities=20% Similarity=0.606 Sum_probs=31.4
Q ss_pred cccCCCCccccccCCccccCCCcEEc---cCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 10 NIQSLAGEYFCPVCRLLVYPNEALQS---QCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 10 fVE~L~EeL~CPICleLL~P~DPVQc---qCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
.+..+..+|+|.+|+..+ .|++.+ .|-.+. ....+||.|.+.++
T Consensus 260 ~i~n~iGdyiCqLCK~kY--eD~F~LAQHrC~RIV---------~vEYrCPEC~KVFs 306 (500)
T KOG3993|consen 260 GIPNVIGDYICQLCKEKY--EDAFALAQHRCPRIV---------HVEYRCPECDKVFS 306 (500)
T ss_pred cCcccHHHHHHHHHHHhh--hhHHHHhhccCCeeE---------EeeecCCccccccc
Confidence 345566789999999999 899885 565442 22357888887654
No 99
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=81.36 E-value=0.4 Score=56.56 Aligned_cols=46 Identities=33% Similarity=0.689 Sum_probs=36.2
Q ss_pred ccccccCCccccC-CCcEE-ccCCCeeccchHHHHhhcC--CCCCCCCcc
Q 000721 17 EYFCPVCRLLVYP-NEALQ-SQCTHLYCKPCLTYIVNTT--QACPYDGYL 62 (1332)
Q Consensus 17 eL~CPICleLL~P-~DPVQ-cqCGHtFCssCIeKwLsss--~kCPiCRk~ 62 (1332)
.|.|..|.+.+-- .+-++ ..|.|+|-.+|+.+++..+ ..||.||+.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 4779999987632 23344 4999999999999999876 399999953
No 100
>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=79.77 E-value=1.2 Score=34.38 Aligned_cols=23 Identities=22% Similarity=0.569 Sum_probs=21.1
Q ss_pred ccCCCccchhcHHHHHHHHhhCC
Q 000721 127 VVCNRCAIQIVHRQVQEHAQNCP 149 (1332)
Q Consensus 127 VkCp~CGqkI~RkELQeHLdeCP 149 (1332)
+.|+.|++.+....+.+|++.|.
T Consensus 2 v~CPiC~~~v~~~~in~HLD~CL 24 (26)
T smart00734 2 VQCPVCFREVPENLINSHLDSCL 24 (26)
T ss_pred CcCCCCcCcccHHHHHHHHHHhc
Confidence 68999999999999999999984
No 101
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=79.35 E-value=0.89 Score=57.20 Aligned_cols=46 Identities=24% Similarity=0.534 Sum_probs=36.1
Q ss_pred ccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCC-CCccc
Q 000721 17 EYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPY-DGYLV 63 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPi-CRk~L 63 (1332)
.+.|.||..-+. .-.+.| .|+|+.-..|..+|++.+..||. |++..
T Consensus 1028 ~~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~CpsGCGC~C 1075 (1081)
T KOG0309|consen 1028 TFQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPSGCGCHC 1075 (1081)
T ss_pred eeeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCCCCCcCc
Confidence 466999987663 233446 99999999999999999999996 77643
No 102
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=79.27 E-value=0.47 Score=45.40 Aligned_cols=30 Identities=23% Similarity=0.411 Sum_probs=25.0
Q ss_pred cCCCeeccchHHHHhhcC---CCCCCCCccccc
Q 000721 36 QCTHLYCKPCLTYIVNTT---QACPYDGYLVTE 65 (1332)
Q Consensus 36 qCGHtFCssCIeKwLsss---~kCPiCRk~Lse 65 (1332)
.|.|.|=.-||.+|+... ..||.||.....
T Consensus 50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred HHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 788999999999999863 499999986543
No 103
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=79.20 E-value=0.82 Score=52.12 Aligned_cols=35 Identities=17% Similarity=0.376 Sum_probs=20.1
Q ss_pred CccccCCCccchhc-HHHHHHHHhh-CCCCCCCCCCC
Q 000721 124 NSPVVCNRCAIQIV-HRQVQEHAQN-CPGVQPQASQP 158 (1332)
Q Consensus 124 ~RpVkCp~CGqkI~-RkELQeHLde-CPK~PVqCPns 158 (1332)
+++..|+.|++.+. |.+|..|+.. -.-...+|..+
T Consensus 213 EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C 249 (279)
T KOG2462|consen 213 EKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRC 249 (279)
T ss_pred CCCccCCcccchhcchHHHHHHHHhhcCCccccCcch
Confidence 35666777776543 5567767663 33335566643
No 104
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=77.93 E-value=2.4 Score=49.41 Aligned_cols=122 Identities=18% Similarity=0.289 Sum_probs=67.5
Q ss_pred cCCCCccccccCCccccCCCcEEccCC--CeeccchHHHHhhcC---------------CCCCC-CCcccccccch--hh
Q 000721 12 QSLAGEYFCPVCRLLVYPNEALQSQCT--HLYCKPCLTYIVNTT---------------QACPY-DGYLVTEADSK--VV 71 (1332)
Q Consensus 12 E~L~EeL~CPICleLL~P~DPVQcqCG--HtFCssCIeKwLsss---------------~kCPi-CRk~LsekDLk--lL 71 (1332)
..-.....|-.|.++- ...+...|. |+.|.+|++-+.... --|+. |-..+-. ++. .|
T Consensus 216 ~~N~~ni~C~~Ctdv~--~~vlvf~Cns~HvtC~dCFr~yc~~Rl~~rqf~~~p~~gyslpc~agc~~s~i~-e~HHF~i 292 (446)
T KOG0006|consen 216 ATNSRNITCITCTDVR--SPVLVFQCNSRHVTCLDCFRLYCVTRLNDRQFVHDPQLGYSLPCVAGCPNSLIK-ELHHFRI 292 (446)
T ss_pred hcccccceeEEecCCc--cceEEEecCCceeehHHhhhhHhhhcccccccccCccccccccccCCCchHHHH-hhhhhee
Confidence 3445677899999988 444445776 999999999665431 14664 4333221 111 11
Q ss_pred hcccccchhhhhHHHHHH-hhceecccccCCCCCccccccCCCCccCCCCCCCCccccCC-CccchhcHHHHHH-HHhhC
Q 000721 72 LSSAVVPLVESNKALAET-IGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCN-RCAIQIVHRQVQE-HAQNC 148 (1332)
Q Consensus 72 veskIFPLlesNK~LEKe-IekLkVKCpnsk~GCqwsgkLSELesHekeC~y~~RpVkCp-~CGqkI~RkELQe-HLdeC 148 (1332)
..++.+..+. ....++. +..--|.|++- ||..-....- .| +.+.|+ .|+..++|+.++. |+.+|
T Consensus 293 lg~e~Y~rYQ-r~atEe~vlq~gGVlCP~p--gCG~gll~EP------D~----rkvtC~~gCgf~FCR~C~e~yh~geC 359 (446)
T KOG0006|consen 293 LGEEQYNRYQ-RYATEECVLQMGGVLCPRP--GCGAGLLPEP------DQ----RKVTCEGGCGFAFCRECKEAYHEGEC 359 (446)
T ss_pred cchhHHHHHH-HhhhhhheeecCCEecCCC--CCCcccccCC------CC----CcccCCCCchhHhHHHHHhhhccccc
Confidence 1111111110 0011111 11224778874 7876443221 22 468886 4999999998885 77788
Q ss_pred C
Q 000721 149 P 149 (1332)
Q Consensus 149 P 149 (1332)
-
T Consensus 360 ~ 360 (446)
T KOG0006|consen 360 S 360 (446)
T ss_pred e
Confidence 5
No 105
>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=77.49 E-value=0.94 Score=47.07 Aligned_cols=45 Identities=13% Similarity=0.321 Sum_probs=31.4
Q ss_pred ccccccCCccccCCCcEE-ccCC------CeeccchHHHHhhcCCCCCCCCc
Q 000721 17 EYFCPVCRLLVYPNEALQ-SQCT------HLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ-cqCG------HtFCssCIeKwLsss~kCPiCRk 61 (1332)
.++|.||.+.+...+-|+ ..|+ |.||..|+.+|.+....=|.=|.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR~ 77 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNRN 77 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCcccc
Confidence 678999998882113566 4676 56999999999655445555443
No 106
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.36 E-value=1.7 Score=54.72 Aligned_cols=44 Identities=20% Similarity=0.491 Sum_probs=31.5
Q ss_pred ccccCCccccCCCcEEccCCC-eeccchHHHHhhc------CCCCCCCCcccc
Q 000721 19 FCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNT------TQACPYDGYLVT 64 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQcqCGH-tFCssCIeKwLss------s~kCPiCRk~Ls 64 (1332)
-|.||..-+ .-...-.||| ..|..|..++... ...|++|+..+.
T Consensus 2 ~c~ic~~s~--~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSP--DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCc--cccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 499998766 3333359999 8999998886543 236799988654
No 107
>PRK04023 DNA polymerase II large subunit; Validated
Probab=76.92 E-value=1.8 Score=56.25 Aligned_cols=46 Identities=22% Similarity=0.348 Sum_probs=32.9
Q ss_pred CccccccCCccccCCCcEEc-cCCC-----eeccchHHHHhhcCCCCCCCCcccccc
Q 000721 16 GEYFCPVCRLLVYPNEALQS-QCTH-----LYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQc-qCGH-----tFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
....|+-|.... .-+.| .||. .||.+|-... ....||.|+..+...
T Consensus 625 g~RfCpsCG~~t---~~frCP~CG~~Te~i~fCP~CG~~~--~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 625 GRRKCPSCGKET---FYRRCPFCGTHTEPVYRCPRCGIEV--EEDECEKCGREPTPY 676 (1121)
T ss_pred cCccCCCCCCcC---CcccCCCCCCCCCcceeCccccCcC--CCCcCCCCCCCCCcc
Confidence 345799999876 34667 5984 5999994442 235799999887643
No 108
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=76.45 E-value=1.8 Score=33.08 Aligned_cols=23 Identities=22% Similarity=0.557 Sum_probs=21.4
Q ss_pred cccCCCccchhcHHHHHHHHhhC
Q 000721 126 PVVCNRCAIQIVHRQVQEHAQNC 148 (1332)
Q Consensus 126 pVkCp~CGqkI~RkELQeHLdeC 148 (1332)
.+.|+.|+..+....|..|+..|
T Consensus 2 l~~C~~CgR~F~~~~l~~H~~~C 24 (25)
T PF13913_consen 2 LVPCPICGRKFNPDRLEKHEKIC 24 (25)
T ss_pred CCcCCCCCCEECHHHHHHHHHhc
Confidence 57899999999999999999988
No 109
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.61 E-value=1.9 Score=51.29 Aligned_cols=52 Identities=23% Similarity=0.443 Sum_probs=40.1
Q ss_pred CccccccCCccccC-CCcEEccCCCeeccchHHHHhhcCC---CCCCCCccccccc
Q 000721 16 GEYFCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTTQ---ACPYDGYLVTEAD 67 (1332)
Q Consensus 16 EeL~CPICleLL~P-~DPVQcqCGHtFCssCIeKwLsss~---kCPiCRk~LsekD 67 (1332)
..+.|||=++-..- +.|+...|||+.|++-+.++...+. +||+|=......+
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~ 388 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASD 388 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHh
Confidence 45689998865532 4577899999999999999988754 9999976554443
No 110
>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=75.42 E-value=1.4 Score=38.38 Aligned_cols=42 Identities=24% Similarity=0.505 Sum_probs=23.4
Q ss_pred ccccccCCccccCCCcEE-ccCCCeeccchHHHHhhc---C--CCCCCCCc
Q 000721 17 EYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNT---T--QACPYDGY 61 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLss---s--~kCPiCRk 61 (1332)
.|.|+|....+ +.|+. ..|.|.-|-+ ++.++.. . -.||+|++
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 78888 4999998754 4444442 2 28999985
No 111
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.27 E-value=1.6 Score=47.33 Aligned_cols=55 Identities=20% Similarity=0.300 Sum_probs=35.1
Q ss_pred cCCCCccccccCCcccc-CCCcEE-c---cCCCeeccchHHHHhhcC-----------CCCCCCCcccccc
Q 000721 12 QSLAGEYFCPVCRLLVY-PNEALQ-S---QCTHLYCKPCLTYIVNTT-----------QACPYDGYLVTEA 66 (1332)
Q Consensus 12 E~L~EeL~CPICleLL~-P~DPVQ-c---qCGHtFCssCIeKwLsss-----------~kCPiCRk~Lsek 66 (1332)
+.-++..-|.||...-. ...+-+ | .||..|-.-|+..|++.- ..||.|.+.+..+
T Consensus 160 ekdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 160 EKDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred CcchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 44445556888874321 011111 2 788888889999999741 3899999887653
No 112
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.87 E-value=1.5 Score=56.04 Aligned_cols=43 Identities=21% Similarity=0.433 Sum_probs=35.7
Q ss_pred ccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 17 EYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
.-+|.+|...+ .-|++- .|||.|-..|++ .....||.|+.++.
T Consensus 840 ~skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 840 VSKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 35799999999 888885 999999999998 33458999997543
No 113
>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=73.15 E-value=1.4 Score=53.49 Aligned_cols=52 Identities=23% Similarity=0.436 Sum_probs=33.1
Q ss_pred CCCCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcC------------CCCCCCCcccccc
Q 000721 13 SLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT------------QACPYDGYLVTEA 66 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss------------~kCPiCRk~Lsek 66 (1332)
+|.+.|.|..|..|- ..-.++ .---.||..|+..+-... ..||.|...|...
T Consensus 1 pl~~L~fC~~C~~ir--c~~c~~~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~ 65 (483)
T PF05502_consen 1 PLEELYFCEHCHKIR--CPRCVSEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSVR 65 (483)
T ss_pred CcccceecccccccC--ChhhcccccceeECccccccCChhhheeccceeccccccCCCCCCcceeE
Confidence 366778899998877 211111 223469999997765421 2789998877643
No 114
>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=72.31 E-value=2 Score=38.15 Aligned_cols=44 Identities=27% Similarity=0.631 Sum_probs=26.3
Q ss_pred cccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
+-|.-|-..- ..++..-.|-.|..|+..++..+..|++|...+-
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 3466664333 4444445799999999999999999999998764
No 115
>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=71.69 E-value=2.2 Score=40.27 Aligned_cols=33 Identities=21% Similarity=0.475 Sum_probs=25.5
Q ss_pred CCCccccccCCccccCCCcEE-ccCCCeeccchHH
Q 000721 14 LAGEYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLT 47 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQ-cqCGHtFCssCIe 47 (1332)
+.+.-.|.+|...+. ...+. ..|||+|...|+.
T Consensus 75 i~~~~~C~vC~k~l~-~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLG-NSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCC-CceEEEeCCCeEEeccccc
Confidence 456677999999884 34444 4999999999985
No 116
>PLN02189 cellulose synthase
Probab=70.58 E-value=2.9 Score=54.79 Aligned_cols=46 Identities=24% Similarity=0.545 Sum_probs=33.8
Q ss_pred ccccCCccccC---CCcEE-c-cCCCeeccchHHHHhhc-CCCCCCCCcccc
Q 000721 19 FCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNT-TQACPYDGYLVT 64 (1332)
Q Consensus 19 ~CPICleLL~P---~DPVQ-c-qCGHtFCssCIeKwLss-s~kCPiCRk~Ls 64 (1332)
+|.||.+-+-- -++++ | .|+--.|+.|++.-.++ +..||.|++..+
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 79999976510 23555 5 69999999999665554 359999998655
No 117
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=67.98 E-value=2.1 Score=51.30 Aligned_cols=45 Identities=18% Similarity=0.450 Sum_probs=31.6
Q ss_pred ccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCccccc
Q 000721 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lse 65 (1332)
-|+|.+|..-|. -..+-..-+..||+.|+...+++ |-.|+..|.+
T Consensus 302 CFtC~~C~r~L~-Gq~FY~v~~k~~CE~cyq~tlek---C~~Cg~~I~d 346 (468)
T KOG1701|consen 302 CFTCRTCRRQLA-GQSFYQVDGKPYCEGCYQDTLEK---CNKCGEPIMD 346 (468)
T ss_pred ceehHhhhhhhc-cccccccCCcccchHHHHHHHHH---HhhhhhHHHH
Confidence 356777776663 33444566788999999988874 8888875543
No 118
>PLN02195 cellulose synthase A
Probab=67.54 E-value=4.3 Score=53.09 Aligned_cols=6 Identities=33% Similarity=0.689 Sum_probs=3.0
Q ss_pred CCCCCC
Q 000721 1111 GLSYDP 1116 (1332)
Q Consensus 1111 g~~y~~ 1116 (1332)
|.-|+|
T Consensus 666 Gw~YGS 671 (977)
T PLN02195 666 GWIYGS 671 (977)
T ss_pred Ceeccc
Confidence 455544
No 119
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=66.73 E-value=4.5 Score=46.45 Aligned_cols=47 Identities=19% Similarity=0.563 Sum_probs=36.4
Q ss_pred cccccCCccccC--CCcEEccCCCeeccchHHHHhhcCCCCCCCCccccc
Q 000721 18 YFCPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1332)
Q Consensus 18 L~CPICleLL~P--~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lse 65 (1332)
..|+||.+-++. ..+....|||..=.+|+++....+..||+|.+ +..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d 207 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGD 207 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hHH
Confidence 449999976643 22333599999889999999998899999998 543
No 120
>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=64.69 E-value=5.6 Score=33.92 Aligned_cols=38 Identities=18% Similarity=0.552 Sum_probs=24.0
Q ss_pred cccCCccccCCCcEEcc---CCCeeccchHHHHhhcCC--CCCCC
Q 000721 20 CPVCRLLVYPNEALQSQ---CTHLYCKPCLTYIVNTTQ--ACPYD 59 (1332)
Q Consensus 20 CPICleLL~P~DPVQcq---CGHtFCssCIeKwLsss~--kCPiC 59 (1332)
|.+|++|+ ...+.+. |+-.+=..|+.++++... .||.|
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 887777889999998754 79987
No 121
>PLN02436 cellulose synthase A
Probab=64.20 E-value=5 Score=52.90 Aligned_cols=46 Identities=26% Similarity=0.587 Sum_probs=33.5
Q ss_pred ccccCCcccc---CCCcEE-c-cCCCeeccchHHHHhhc-CCCCCCCCcccc
Q 000721 19 FCPVCRLLVY---PNEALQ-S-QCTHLYCKPCLTYIVNT-TQACPYDGYLVT 64 (1332)
Q Consensus 19 ~CPICleLL~---P~DPVQ-c-qCGHtFCssCIeKwLss-s~kCPiCRk~Ls 64 (1332)
+|.||.+-+- --++++ | .|+--.|+.|++.-.++ +..||.|++..+
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 7999996541 023555 5 79999999999665554 359999998655
No 122
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.67 E-value=4.5 Score=45.43 Aligned_cols=52 Identities=17% Similarity=0.312 Sum_probs=40.8
Q ss_pred CCCccccccCCccccCCCcEEccCCCeeccchHHHHhhc--------CCCCCCCCccccc
Q 000721 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNT--------TQACPYDGYLVTE 65 (1332)
Q Consensus 14 L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLss--------s~kCPiCRk~Lse 65 (1332)
-+.+--|.+|...+...+-+.+.|-|+|--+|+.+|... +..||.|..+|..
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 344456999998885566666899999999999999874 2499999987653
No 123
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=63.32 E-value=5.3 Score=52.73 Aligned_cols=46 Identities=26% Similarity=0.568 Sum_probs=33.3
Q ss_pred ccccCCccccC---CCcEE-c-cCCCeeccchHHHHhhc-CCCCCCCCcccc
Q 000721 19 FCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNT-TQACPYDGYLVT 64 (1332)
Q Consensus 19 ~CPICleLL~P---~DPVQ-c-qCGHtFCssCIeKwLss-s~kCPiCRk~Ls 64 (1332)
+|.||.+-+-- -++++ | .|+--.|+.|.+.=.+. +..||.|++..+
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 79999975311 23555 5 89999999999654444 359999998665
No 124
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.38 E-value=5.7 Score=38.04 Aligned_cols=48 Identities=19% Similarity=0.409 Sum_probs=34.3
Q ss_pred cccCCccccC--CCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccccch
Q 000721 20 CPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSK 69 (1332)
Q Consensus 20 CPICleLL~P--~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~LsekDLk 69 (1332)
|--|..-+-+ .+..+|.-.++||.+|.+..+. ..||.|+-.+....++
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~--g~CPnCGGelv~RP~R 57 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRLH--GLCPNCGGELVARPIR 57 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhhc--CcCCCCCchhhcCcCC
Confidence 5556544422 5677777789999999987665 6899999877655444
No 125
>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=61.97 E-value=1.4 Score=41.61 Aligned_cols=41 Identities=27% Similarity=0.475 Sum_probs=23.8
Q ss_pred ccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 17 EYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
++.|++|...|. + .=++.+|..|-..+.. ...||.|...|.
T Consensus 1 e~~CP~C~~~L~---~---~~~~~~C~~C~~~~~~-~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELE---W---QGGHYHCEACQKDYKK-EAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEE---E---ETTEEEETTT--EEEE-EEE-TTT-SB-E
T ss_pred CCcCCCCCCccE---E---eCCEEECcccccccee-cccCCCcccHHH
Confidence 368999998882 1 1289999999987543 468999998764
No 126
>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=61.92 E-value=7.7 Score=35.51 Aligned_cols=45 Identities=24% Similarity=0.518 Sum_probs=33.3
Q ss_pred ccccCCccccCC--CcEEccCCCeeccchHHHHhhcCCCCCCCCccccc
Q 000721 19 FCPVCRLLVYPN--EALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1332)
Q Consensus 19 ~CPICleLL~P~--DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lse 65 (1332)
.|-.|..-|-+. ++.+|+=-.+||..|.+..+. ..||.|+-.+..
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~--~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN--GVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc--CcCcCCCCcccc
Confidence 477787666332 466776667999999999874 689999876643
No 127
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.77 E-value=6.1 Score=45.10 Aligned_cols=52 Identities=25% Similarity=0.448 Sum_probs=40.4
Q ss_pred CCccccccCCccccCCCcEE----ccCCCeeccchHHHHhhcCCCCCCCCcccccccchh
Q 000721 15 AGEYFCPVCRLLVYPNEALQ----SQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKV 70 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQ----cqCGHtFCssCIeKwLsss~kCPiCRk~LsekDLkl 70 (1332)
...|+|+|-...+ +.-.. -+|||+|-.+-+.++. ...|+.|...+...|..+
T Consensus 109 ~a~fiCPvtgleM--ng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dvIv 164 (293)
T KOG3113|consen 109 RARFICPVTGLEM--NGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDVIV 164 (293)
T ss_pred cceeeccccccee--cceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccCeEe
Confidence 3468999999888 55444 2999999888877765 368999999998887553
No 128
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=60.43 E-value=11 Score=47.57 Aligned_cols=54 Identities=22% Similarity=0.412 Sum_probs=32.3
Q ss_pred CCCCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcC----CCCCCCCcccccccc
Q 000721 13 SLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTT----QACPYDGYLVTEADS 68 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss----~kCPiCRk~LsekDL 68 (1332)
.+.-.|.|+||+.-+ .-|... .|.|+=|-+=...+-... -.||+|.+....+++
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 345568899999877 444443 666665444332222211 289999987766543
No 129
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=60.37 E-value=3.8 Score=52.59 Aligned_cols=49 Identities=16% Similarity=0.430 Sum_probs=38.3
Q ss_pred CCccccccCCccccCCCcEE-c-cCCCeeccchHHHHhhcC-------CCCCCCCccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQ-S-QCTHLYCKPCLTYIVNTT-------QACPYDGYLV 63 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQ-c-qCGHtFCssCIeKwLsss-------~kCPiCRk~L 63 (1332)
.+.|+|-||.+.+....++= | .|-|+|=..||.+|.+.. -.||.|....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 46799999999885444544 3 799999999999999752 2899998543
No 130
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=59.75 E-value=3.1 Score=46.31 Aligned_cols=44 Identities=25% Similarity=0.588 Sum_probs=36.5
Q ss_pred ccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCCcc
Q 000721 17 EYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYL 62 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk~ 62 (1332)
...|.+|++++ ..-+.| .|+-.|-..|+.+++.+...||.|+.-
T Consensus 181 lk~Cn~Ch~Lv--Iqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~ 225 (235)
T KOG4718|consen 181 LKNCNLCHCLV--IQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDL 225 (235)
T ss_pred HHHHhHhHHHh--heeeccCcccchhhhHHHHHHhcccCcCCchhcc
Confidence 35799999998 555667 888778889999999998899999753
No 131
>KOG4274 consensus Positive cofactor 2 (PC2), subunit of a multiprotein coactivator of RNA polymerase II [Transcription]
Probab=59.33 E-value=47 Score=41.80 Aligned_cols=10 Identities=20% Similarity=0.272 Sum_probs=5.1
Q ss_pred cccCCCCccC
Q 000721 108 GPLSECTSHC 117 (1332)
Q Consensus 108 gkLSELesHe 117 (1332)
...+++++|+
T Consensus 32 k~a~~mE~hV 41 (742)
T KOG4274|consen 32 KSAKDMESHV 41 (742)
T ss_pred cchHHHHHHH
Confidence 3445555555
No 132
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=58.55 E-value=5.2 Score=51.19 Aligned_cols=55 Identities=18% Similarity=0.346 Sum_probs=39.8
Q ss_pred CCccccccCCccccCCCcEE--ccCCCe---eccchHHHHhhcC--CCCCCCCcccccccch
Q 000721 15 AGEYFCPVCRLLVYPNEALQ--SQCTHL---YCKPCLTYIVNTT--QACPYDGYLVTEADSK 69 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQ--cqCGHt---FCssCIeKwLsss--~kCPiCRk~LsekDLk 69 (1332)
+|+-.|.||..--.+++|+- |.|.-. .-++|+.+|+.-+ .+|-+|..++..+++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY 71 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY 71 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence 45578999996554577776 455422 4568999999864 4999999988876643
No 133
>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=57.86 E-value=2.7 Score=47.55 Aligned_cols=44 Identities=27% Similarity=0.413 Sum_probs=22.4
Q ss_pred ccccccCCccccCCCcEEc-c----CCCeeccchHHHHhhcCCCCCCCCcc
Q 000721 17 EYFCPVCRLLVYPNEALQS-Q----CTHLYCKPCLTYIVNTTQACPYDGYL 62 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQc-q----CGHtFCssCIeKwLsss~kCPiCRk~ 62 (1332)
.-.||||...- .-.++. . -.+.+|.-|-..|.-....||.|+..
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 45799999754 233332 2 24789999999998888899999864
No 134
>PLN02400 cellulose synthase
Probab=57.85 E-value=6.2 Score=52.16 Aligned_cols=46 Identities=26% Similarity=0.581 Sum_probs=32.8
Q ss_pred ccccCCccccC---CCcEE-c-cCCCeeccchHHHHhhc-CCCCCCCCcccc
Q 000721 19 FCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNT-TQACPYDGYLVT 64 (1332)
Q Consensus 19 ~CPICleLL~P---~DPVQ-c-qCGHtFCssCIeKwLss-s~kCPiCRk~Ls 64 (1332)
+|.||.+-+-- -++++ | .|+--.|+.|.+.=.+. +..||.|++..+
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 79999975411 23555 5 89999999999554443 359999997654
No 135
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.51 E-value=5.4 Score=47.40 Aligned_cols=44 Identities=18% Similarity=0.428 Sum_probs=33.0
Q ss_pred CccccccCCccccC---CCcEEccCCCeeccchHHHHhhcCCCCCCC
Q 000721 16 GEYFCPVCRLLVYP---NEALQSQCTHLYCKPCLTYIVNTTQACPYD 59 (1332)
Q Consensus 16 EeL~CPICleLL~P---~DPVQcqCGHtFCssCIeKwLsss~kCPiC 59 (1332)
....|++|+..+.. .+-++|.|||-||..|...|...+..|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 35679999865421 345667899999999999998877767654
No 136
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=57.10 E-value=5.2 Score=50.49 Aligned_cols=45 Identities=27% Similarity=0.541 Sum_probs=27.2
Q ss_pred ccccCCccccCCCcEEc-cCCC----eeccchHHHHhhcCCCCCCCCcccc
Q 000721 19 FCPVCRLLVYPNEALQS-QCTH----LYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQc-qCGH----tFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
+|+-|.... +.+.+.| .||. .+|..|-.......+.|+.|+..+.
T Consensus 3 ~Cp~Cg~~n-~~~akFC~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG~~~~ 52 (645)
T PRK14559 3 ICPQCQFEN-PNNNRFCQKCGTSLTHKPCPQCGTEVPVDEAHCPNCGAETG 52 (645)
T ss_pred cCCCCCCcC-CCCCccccccCCCCCCCcCCCCCCCCCcccccccccCCccc
Confidence 577777655 2344444 5553 3577776666555567777776554
No 137
>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=57.03 E-value=4.7 Score=33.22 Aligned_cols=25 Identities=24% Similarity=0.598 Sum_probs=22.2
Q ss_pred cccCCCccchhcHHHHHHHHhhCCC
Q 000721 126 PVVCNRCAIQIVHRQVQEHAQNCPG 150 (1332)
Q Consensus 126 pVkCp~CGqkI~RkELQeHLdeCPK 150 (1332)
.+.|+.|+..|....+..|++.|..
T Consensus 4 ~~~C~nC~R~v~a~RfA~HLekCmg 28 (33)
T PF08209_consen 4 YVECPNCGRPVAASRFAPHLEKCMG 28 (33)
T ss_dssp EEE-TTTSSEEEGGGHHHHHHHHTC
T ss_pred eEECCCCcCCcchhhhHHHHHHHHc
Confidence 5889999999999999999999965
No 138
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=56.59 E-value=6.7 Score=37.95 Aligned_cols=48 Identities=25% Similarity=0.534 Sum_probs=21.1
Q ss_pred cccccCCcccc---CCCcEE-c-cCCCeeccchHHHHhhcC-CCCCCCCccccc
Q 000721 18 YFCPVCRLLVY---PNEALQ-S-QCTHLYCKPCLTYIVNTT-QACPYDGYLVTE 65 (1332)
Q Consensus 18 L~CPICleLL~---P~DPVQ-c-qCGHtFCssCIeKwLsss-~kCPiCRk~Lse 65 (1332)
-+|.||.+-+- .-++++ | .|+-..|+.|++.-.+.. ..||.|+...+.
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 46999995331 124555 3 899999999998876654 699999976554
No 139
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.56 E-value=5.3 Score=43.99 Aligned_cols=39 Identities=26% Similarity=0.477 Sum_probs=28.0
Q ss_pred cccCCccccCCCcEEccCCC-eeccchHHHHhhcCCCCCCCCcccc
Q 000721 20 CPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 20 CPICleLL~P~DPVQcqCGH-tFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
|-+|.+-- ...+...|.| .+|..|-... ..||+|+....
T Consensus 161 Cr~C~~~~--~~VlllPCrHl~lC~~C~~~~----~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGERE--ATVLLLPCRHLCLCGICDESL----RICPICRSPKT 200 (207)
T ss_pred ceecCcCC--ceEEeecccceEecccccccC----ccCCCCcChhh
Confidence 88888755 3444459987 5999998762 34999987543
No 140
>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=55.85 E-value=5 Score=46.62 Aligned_cols=43 Identities=19% Similarity=0.308 Sum_probs=32.0
Q ss_pred ccccccCCccccCCCcEE-c---cCC--CeeccchHHHHhhcCCCCCCCCc
Q 000721 17 EYFCPVCRLLVYPNEALQ-S---QCT--HLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ-c---qCG--HtFCssCIeKwLsss~kCPiCRk 61 (1332)
.-.||||...- .-.++ . .-| +.+|.-|-.+|--....||.|+.
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 34799999765 22222 1 234 67999999999988889999986
No 141
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=55.55 E-value=5.4 Score=40.34 Aligned_cols=29 Identities=24% Similarity=0.567 Sum_probs=26.0
Q ss_pred cCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 36 QCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 36 qCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
.|.|.|=.-||.+|++++..||.|.++-.
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 69999999999999999999999987543
No 142
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.33 E-value=2.7 Score=52.97 Aligned_cols=24 Identities=21% Similarity=0.443 Sum_probs=16.7
Q ss_pred cCCCeeccchHHHHhh--cCCCCCCC
Q 000721 36 QCTHLYCKPCLTYIVN--TTQACPYD 59 (1332)
Q Consensus 36 qCGHtFCssCIeKwLs--ss~kCPiC 59 (1332)
.|.|.+|..|.+..-. .++.|+.|
T Consensus 96 ~~~~~~C~~C~~~~~~~~~~~~~~~c 121 (669)
T KOG2231|consen 96 ACLHHSCHICDRRFRALYNKKECLHC 121 (669)
T ss_pred HHHhhhcCccccchhhhcccCCCccc
Confidence 6777888888777532 34578887
No 143
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=54.23 E-value=9.3 Score=50.45 Aligned_cols=48 Identities=27% Similarity=0.488 Sum_probs=34.0
Q ss_pred ccccccCCccccC---CCcEE-c-cCCCeeccchHHHHhhc-CCCCCCCCcccc
Q 000721 17 EYFCPVCRLLVYP---NEALQ-S-QCTHLYCKPCLTYIVNT-TQACPYDGYLVT 64 (1332)
Q Consensus 17 eL~CPICleLL~P---~DPVQ-c-qCGHtFCssCIeKwLss-s~kCPiCRk~Ls 64 (1332)
.-+|.||.+-+-- -++++ | .|+--.|+.|++.-.+. +..||.|+...+
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4579999965310 23555 5 89999999999655444 359999997665
No 144
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=53.09 E-value=3.3 Score=48.01 Aligned_cols=50 Identities=18% Similarity=0.364 Sum_probs=34.5
Q ss_pred ccccccCCccccCCCcEE-ccCCCeeccchHHHHhhc-----------------------CCCCCCCCcccccc
Q 000721 17 EYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNT-----------------------TQACPYDGYLVTEA 66 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLss-----------------------s~kCPiCRk~Lsek 66 (1332)
...|.||+--|-..+.++ |.|.|.|-..|+.+++.. ...||+||..|.+.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 456999985553234354 799998888888776641 02799999877654
No 145
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=52.76 E-value=6.9 Score=45.61 Aligned_cols=44 Identities=20% Similarity=0.363 Sum_probs=32.9
Q ss_pred CccccccCCccccCCCcEE---ccCC--CeeccchHHHHhhcCCCCCCCCc
Q 000721 16 GEYFCPVCRLLVYPNEALQ---SQCT--HLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQ---cqCG--HtFCssCIeKwLsss~kCPiCRk 61 (1332)
..-.||||...- .-.++ ..-| +.+|.-|-.+|--....||.|+.
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 356799999765 23332 1334 57899999999988889999985
No 146
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=52.31 E-value=9.4 Score=51.22 Aligned_cols=46 Identities=22% Similarity=0.412 Sum_probs=33.0
Q ss_pred ccccccCCccccCCCcEEc-cCCCe-----eccchHHHHhhc---CCCCCCCCccccc
Q 000721 17 EYFCPVCRLLVYPNEALQS-QCTHL-----YCKPCLTYIVNT---TQACPYDGYLVTE 65 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQc-qCGHt-----FCssCIeKwLss---s~kCPiCRk~Lse 65 (1332)
.+.|+-|.... .. ..| .||.. +|..|-.+.... ...||.|...+..
T Consensus 667 ~rkCPkCG~~t--~~-~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 667 RRRCPSCGTET--YE-NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EEECCCCCCcc--cc-ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 47899999876 22 367 69854 599998875443 2489999977654
No 147
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=49.69 E-value=6.3 Score=47.18 Aligned_cols=34 Identities=24% Similarity=0.539 Sum_probs=24.7
Q ss_pred CCccccccCCccccCCCcEE--ccCCCeeccchHHHHh
Q 000721 15 AGEYFCPVCRLLVYPNEALQ--SQCTHLYCKPCLTYIV 50 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQ--cqCGHtFCssCIeKwL 50 (1332)
..+..|+||...+ --.+. -+|....|.+|+..+-
T Consensus 72 rr~~ecpicflyy--ps~~n~~rcC~~~Ic~ecf~~~~ 107 (482)
T KOG2789|consen 72 RRKTECPICFLYY--PSAKNLVRCCSETICGECFAPFG 107 (482)
T ss_pred cccccCceeeeec--ccccchhhhhccchhhhheeccc
Confidence 3457899998766 23344 3899999999987654
No 148
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=49.57 E-value=27 Score=41.14 Aligned_cols=26 Identities=19% Similarity=0.405 Sum_probs=16.8
Q ss_pred CCeeccchHHHHhhcCCCCCCCCccc
Q 000721 38 THLYCKPCLTYIVNTTQACPYDGYLV 63 (1332)
Q Consensus 38 GHtFCssCIeKwLsss~kCPiCRk~L 63 (1332)
|-.+|..|-.+...--..||.|...+
T Consensus 307 gGy~CP~CktkVCsLPi~CP~Csl~L 332 (421)
T COG5151 307 GGYECPVCKTKVCSLPISCPICSLQL 332 (421)
T ss_pred CceeCCcccceeecCCccCcchhHHH
Confidence 44567777666555455899997543
No 149
>PLN02248 cellulose synthase-like protein
Probab=48.97 E-value=9.6 Score=50.61 Aligned_cols=17 Identities=6% Similarity=-0.060 Sum_probs=10.5
Q ss_pred hccchhhHHHHHHHHHh
Q 000721 748 AENVQPINKMVKEEVIE 764 (1332)
Q Consensus 748 ~~~~~~~~~~~~~~~~~ 764 (1332)
.||-..+-=....|+.+
T Consensus 409 DDGgS~LTf~AL~EAa~ 425 (1135)
T PLN02248 409 DDGGALLTFEAMAEAAS 425 (1135)
T ss_pred cCCchHHHHHHHHHHHH
Confidence 45566665566667666
No 150
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=47.78 E-value=11 Score=44.11 Aligned_cols=48 Identities=25% Similarity=0.533 Sum_probs=37.2
Q ss_pred CCccccccCCccccC-CCcEEccCCCeeccchHHHHhhcCC---CCCCCCcc
Q 000721 15 AGEYFCPVCRLLVYP-NEALQSQCTHLYCKPCLTYIVNTTQ---ACPYDGYL 62 (1332)
Q Consensus 15 ~EeL~CPICleLL~P-~DPVQcqCGHtFCssCIeKwLsss~---kCPiCRk~ 62 (1332)
...++|++-++...- +.|+...|||+.-++-+..+.+.+. +||.|-..
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 346789998876643 3477789999999999988877653 99999653
No 151
>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=46.58 E-value=6.7 Score=34.25 Aligned_cols=21 Identities=19% Similarity=0.517 Sum_probs=12.5
Q ss_pred ccCCCccchhcHHHHHHHHhh
Q 000721 127 VVCNRCAIQIVHRQVQEHAQN 147 (1332)
Q Consensus 127 VkCp~CGqkI~RkELQeHLde 147 (1332)
..|++|++.+....|.+|++.
T Consensus 3 f~CP~C~~~~~~~~L~~H~~~ 23 (54)
T PF05605_consen 3 FTCPYCGKGFSESSLVEHCED 23 (54)
T ss_pred cCCCCCCCccCHHHHHHHHHh
Confidence 456666666666666666553
No 152
>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=46.16 E-value=17 Score=41.97 Aligned_cols=16 Identities=25% Similarity=0.567 Sum_probs=10.0
Q ss_pred cchHHHHhhc-CCCCCC
Q 000721 43 KPCLTYIVNT-TQACPY 58 (1332)
Q Consensus 43 ssCIeKwLss-s~kCPi 58 (1332)
++|+++|-.. +..||.
T Consensus 59 rdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 59 RDCFEKYHLIANQDCPR 75 (285)
T ss_pred HHHHHHHHHHHcCCCCc
Confidence 4677776543 457873
No 153
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=45.72 E-value=13 Score=42.44 Aligned_cols=43 Identities=23% Similarity=0.440 Sum_probs=35.3
Q ss_pred ccccccCCccccCCCcEEc-cCCCeeccchHHHHhhc--CCCCCCCCc
Q 000721 17 EYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT--TQACPYDGY 61 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLss--s~kCPiCRk 61 (1332)
.++|+|-+..+ .+|++. .|+|+|=++-|..++.. ...||+=++
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 46799988888 789984 99999999999998876 358997433
No 154
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=45.39 E-value=14 Score=43.52 Aligned_cols=49 Identities=20% Similarity=0.340 Sum_probs=37.5
Q ss_pred cccccCCccccC-C-CcEEccCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 18 YFCPVCRLLVYP-N-EALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 18 L~CPICleLL~P-~-DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
-.|+||.+.+.. + ..+-|.|++..|-.|+.........|+.||+.....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 469999986521 1 223379999999999999988889999999765543
No 155
>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=43.78 E-value=24 Score=30.84 Aligned_cols=48 Identities=21% Similarity=0.434 Sum_probs=33.4
Q ss_pred cccccCCCCCccccccCCCCccCCCCCCC-CccccCCCccchhcHHHHHHHHhh
Q 000721 95 VHCLFHRSGCTWQGPLSECTSHCSGCAFG-NSPVVCNRCAIQIVHRQVQEHAQN 147 (1332)
Q Consensus 95 VKCpnsk~GCqwsgkLSELesHekeC~y~-~RpVkCp~CGqkI~RkELQeHLde 147 (1332)
+.|++ |.......+|..|+.+--.. .+.+.|+.|...+. .+|..|+..
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 57888 87766667788887542211 23689999998755 488889863
No 156
>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=42.97 E-value=23 Score=42.19 Aligned_cols=32 Identities=19% Similarity=0.435 Sum_probs=22.8
Q ss_pred cCCCeeccchHHHHhhcC-------------CCCCCCCccccccc
Q 000721 36 QCTHLYCKPCLTYIVNTT-------------QACPYDGYLVTEAD 67 (1332)
Q Consensus 36 qCGHtFCssCIeKwLsss-------------~kCPiCRk~LsekD 67 (1332)
-|.=+.|.+|+-+|.... ..||.||+.+..-|
T Consensus 310 ~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 310 YCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred cccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 344445779999988742 38999999876554
No 157
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=42.90 E-value=5.3 Score=46.26 Aligned_cols=101 Identities=13% Similarity=0.104 Sum_probs=58.7
Q ss_pred CCCCCCcccccccchhhhcccccchhhhhHHH-HHHhh-ceecccccCCCCCccccc-cCCCCccCCCCCCCCccccCC-
Q 000721 55 ACPYDGYLVTEADSKVVLSSAVVPLVESNKAL-AETIG-KITVHCLFHRSGCTWQGP-LSECTSHCSGCAFGNSPVVCN- 130 (1332)
Q Consensus 55 kCPiCRk~LsekDLklLveskIFPLlesNK~L-EKeIe-kLkVKCpnsk~GCqwsgk-LSELesHekeC~y~~RpVkCp- 130 (1332)
.||+|...+...... .- |-+| -..|. ++..+|+. |...+. ++.+. =++.++- ..+.|+
T Consensus 50 eCPvC~~~l~~Pi~Q---------C~--nGHlaCssC~~~~~~~CP~----Cr~~~g~~R~~a-mEkV~e~--~~vpC~~ 111 (299)
T KOG3002|consen 50 DCPVCFNPLSPPIFQ---------CD--NGHLACSSCRTKVSNKCPT----CRLPIGNIRCRA-MEKVAEA--VLVPCKN 111 (299)
T ss_pred cCchhhccCccccee---------cC--CCcEehhhhhhhhcccCCc----cccccccHHHHH-HHHHHHh--ceecccc
Confidence 799999887754322 10 1111 12233 67788886 655444 22111 1122333 256664
Q ss_pred ---CccchhcHHHHHHHHhhCCCCCCCCCCCC----CccccccccccccC
Q 000721 131 ---RCAIQIVHRQVQEHAQNCPGVQPQASQPE----GVHDAAAIGTAATG 173 (1332)
Q Consensus 131 ---~CGqkI~RkELQeHLdeCPK~PVqCPnsc----~~qkIAsttq~ATq 173 (1332)
.|.+.+...+-.+|.+.|...+-.||.-+ ..-.+.....+.+.
T Consensus 112 ~~~GC~~~~~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~ 161 (299)
T KOG3002|consen 112 AKLGCTKSFPYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLND 161 (299)
T ss_pred cccCCceeeccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHh
Confidence 79888888888999999999988888662 33444444444433
No 158
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.90 E-value=7 Score=42.22 Aligned_cols=48 Identities=15% Similarity=0.277 Sum_probs=27.2
Q ss_pred CccccccCCccccCCCcEEccCCCeeccch-----HHHHhhc-CCCCCCCCcccccc
Q 000721 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPC-----LTYIVNT-TQACPYDGYLVTEA 66 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQcqCGHtFCssC-----IeKwLss-s~kCPiCRk~Lsek 66 (1332)
..++|+||.++.-+++ ..|.-+.|..= -+.++++ +.+|-+|-..|...
T Consensus 137 ~g~KCPvC~K~V~sDd---~e~HlvMCLtkPrlsYNdDVL~ddkGECvICLEdL~~G 190 (205)
T KOG0801|consen 137 SGMKCPVCHKVVPSDD---AEIHLVMCLTKPRLSYNDDVLKDDKGECVICLEDLEAG 190 (205)
T ss_pred CCccCCccccccCCCc---ceEEEEEEecccccccccchhcccCCcEEEEhhhccCC
Confidence 3488999998873322 35665665321 1122222 34888887655443
No 159
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=41.99 E-value=3.5 Score=45.85 Aligned_cols=13 Identities=23% Similarity=0.600 Sum_probs=8.1
Q ss_pred CCccccccCCccc
Q 000721 15 AGEYFCPVCRLLV 27 (1332)
Q Consensus 15 ~EeL~CPICleLL 27 (1332)
.+.+.|-||.+-|
T Consensus 115 ~d~ftCrvCgK~F 127 (267)
T KOG3576|consen 115 QDSFTCRVCGKKF 127 (267)
T ss_pred CCeeeeehhhhhh
Confidence 3456677776655
No 160
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=41.56 E-value=12 Score=32.34 Aligned_cols=35 Identities=17% Similarity=0.494 Sum_probs=24.5
Q ss_pred Cccccc--cCCccccCC-----CcEEc-cCCCeeccchHHHHh
Q 000721 16 GEYFCP--VCRLLVYPN-----EALQS-QCTHLYCKPCLTYIV 50 (1332)
Q Consensus 16 EeL~CP--ICleLL~P~-----DPVQc-qCGHtFCssCIeKwL 50 (1332)
+..-|+ -|..++... ..+.| .|++.||..|...|-
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCC
Confidence 344599 998666322 13446 799999999988874
No 161
>PF15616 TerY-C: TerY-C metal binding domain
Probab=41.03 E-value=13 Score=38.77 Aligned_cols=47 Identities=23% Similarity=0.431 Sum_probs=33.5
Q ss_pred cCCCCccccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 12 QSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 12 E~L~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
+.|...--||-|.+.+ .-+.|.||++||..= .....||-|+......
T Consensus 72 seL~g~PgCP~CGn~~---~fa~C~CGkl~Ci~g-----~~~~~CPwCg~~g~~~ 118 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQY---AFAVCGCGKLFCIDG-----EGEVTCPWCGNEGSFG 118 (131)
T ss_pred HHhcCCCCCCCCcChh---cEEEecCCCEEEeCC-----CCCEECCCCCCeeeec
Confidence 4445556799999987 445689999998542 1235899999877654
No 162
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=40.12 E-value=14 Score=43.70 Aligned_cols=93 Identities=15% Similarity=0.323 Sum_probs=51.8
Q ss_pred cCCCCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhc-----CC------CCCCCCcccccccchhhhcccccch
Q 000721 12 QSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNT-----TQ------ACPYDGYLVTEADSKVVLSSAVVPL 79 (1332)
Q Consensus 12 E~L~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLss-----s~------kCPiCRk~LsekDLklLveskIFPL 79 (1332)
..|.+.+.|-.|.++- .+-..+ .-...||..|++..-.. +. -||.|-..++..--. +..-
T Consensus 19 ~pl~~L~FCRyC~klr--c~~Cv~hEvdshfCp~CLEn~ps~EArlKKn~CAnCfDCP~C~htLSaRa~~------~stq 90 (449)
T KOG3896|consen 19 RPLPDLVFCRYCFKLR--CDDCVLHEVDSHFCPRCLENSPSPEARLKKNKCANCFDCPKCAHTLSARAEN------DSTQ 90 (449)
T ss_pred ccccceeeeecccccc--cccccccccccccchhhccCCCchHHHhhhccccccccCcchhhhhhhhccc------cccc
Confidence 5788888999998876 232222 44567999999875432 11 566665544321100 0001
Q ss_pred hhhhHHHHHHhhceecccccCCCCCccccccCCCCcc
Q 000721 80 VESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSH 116 (1332)
Q Consensus 80 lesNK~LEKeIekLkVKCpnsk~GCqwsgkLSELesH 116 (1332)
+..|.+-..+-...-+.|.+ |.|+..-..+.+.
T Consensus 91 ~p~dpaktt~kk~yYL~C~~----CRWtsRdvg~~Dq 123 (449)
T KOG3896|consen 91 LPDDPAKTTMKKNYYLVCQY----CRWTSRDVGQEDQ 123 (449)
T ss_pred CCCChhhhhhhheeEEeeee----eeccccccCCccc
Confidence 11122222334455677987 9998775555543
No 163
>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=39.74 E-value=28 Score=36.81 Aligned_cols=23 Identities=17% Similarity=0.342 Sum_probs=16.2
Q ss_pred HHHHhhcCCCCCCCCcccccccc
Q 000721 46 LTYIVNTTQACPYDGYLVTEADS 68 (1332)
Q Consensus 46 IeKwLsss~kCPiCRk~LsekDL 68 (1332)
+...+..+..||.|+..+...|.
T Consensus 121 f~eA~~~~F~Cp~Cg~~L~~~dn 143 (158)
T TIGR00373 121 FNEAMELNFTCPRCGAMLDYLDN 143 (158)
T ss_pred HHHHHHcCCcCCCCCCEeeeccC
Confidence 34444456799999998877653
No 164
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=39.36 E-value=11 Score=48.04 Aligned_cols=49 Identities=16% Similarity=0.276 Sum_probs=27.9
Q ss_pred eecccccCCCCCccccccCC-CCccCCCCCCCCccccCCCccchhcHH-HHHHHHh
Q 000721 93 ITVHCLFHRSGCTWQGPLSE-CTSHCSGCAFGNSPVVCNRCAIQIVHR-QVQEHAQ 146 (1332)
Q Consensus 93 LkVKCpnsk~GCqwsgkLSE-LesHekeC~y~~RpVkCp~CGqkI~Rk-ELQeHLd 146 (1332)
++++|.. |.+-.+++. |++|+..-.= +++..|+.|++.+... ..-.|+.
T Consensus 280 RKFKCtE----CgKAFKfKHHLKEHlRIHSG-EKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 280 RKFKCTE----CGKAFKFKHHLKEHLRIHSG-EKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred ccccccc----cchhhhhHHHHHhhheeecC-CCCcCCcccccccccCCccccccc
Confidence 3455543 555444442 4445433222 2477899999988766 3555764
No 165
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=38.80 E-value=18 Score=44.00 Aligned_cols=51 Identities=14% Similarity=0.181 Sum_probs=45.7
Q ss_pred cccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCCcccccccchh
Q 000721 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKV 70 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk~LsekDLkl 70 (1332)
+.|.|-.++- ++||+. .-||+|=++=|++++..+.+||+-..+++.+++..
T Consensus 1 m~CaISgEvP--~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~ 52 (506)
T KOG0289|consen 1 MVCAISGEVP--EEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVE 52 (506)
T ss_pred CeecccCCCC--CCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeee
Confidence 4699999999 899996 88999999999999999999999999988777653
No 166
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=38.55 E-value=25 Score=38.00 Aligned_cols=51 Identities=18% Similarity=0.217 Sum_probs=34.5
Q ss_pred CCccccccCCccccCCCcEEccCCCe---eccchHHHHhhcC--CCCCCCCcccccc
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQCTHL---YCKPCLTYIVNTT--QACPYDGYLVTEA 66 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqCGHt---FCssCIeKwLsss--~kCPiCRk~Lsek 66 (1332)
..+-.|-||.+-.. ....-|.|... .=.+|+++|+..+ ..|+.|+......
T Consensus 6 ~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 44568999997651 11112556442 3468999999875 4999999887654
No 167
>PHA02862 5L protein; Provisional
Probab=37.08 E-value=19 Score=38.56 Aligned_cols=47 Identities=15% Similarity=0.364 Sum_probs=32.9
Q ss_pred ccccCCccccCCCcEE-ccCC---CeeccchHHHHhhcC--CCCCCCCccccccc
Q 000721 19 FCPVCRLLVYPNEALQ-SQCT---HLYCKPCLTYIVNTT--QACPYDGYLVTEAD 67 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQ-cqCG---HtFCssCIeKwLsss--~kCPiCRk~LsekD 67 (1332)
+|=||.+-- .+.+. |.|. ...=.+|+.+|+..+ ..|+.|+.+...+.
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 5552 334568999999864 49999999876543
No 168
>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=37.01 E-value=11 Score=48.22 Aligned_cols=10 Identities=0% Similarity=0.026 Sum_probs=0.0
Q ss_pred ccccCCCCcc
Q 000721 107 QGPLSECTSH 116 (1332)
Q Consensus 107 sgkLSELesH 116 (1332)
..+|+.|.+.
T Consensus 30 edTYDGLGd~ 39 (808)
T PF09770_consen 30 EDTYDGLGDQ 39 (808)
T ss_dssp ----------
T ss_pred cccccccccc
Confidence 3344444333
No 169
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=36.14 E-value=31 Score=37.33 Aligned_cols=21 Identities=24% Similarity=0.357 Sum_probs=15.3
Q ss_pred HHhhcCCCCCCCCcccccccc
Q 000721 48 YIVNTTQACPYDGYLVTEADS 68 (1332)
Q Consensus 48 KwLsss~kCPiCRk~LsekDL 68 (1332)
+.+..+..||.|+..+...|-
T Consensus 131 eA~~~~F~Cp~Cg~~L~~~dn 151 (178)
T PRK06266 131 EAMEYGFRCPQCGEMLEEYDN 151 (178)
T ss_pred HHhhcCCcCCCCCCCCeeccc
Confidence 344456799999998877653
No 170
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=35.96 E-value=28 Score=43.11 Aligned_cols=37 Identities=22% Similarity=0.314 Sum_probs=21.7
Q ss_pred CCCCccccccCCcccc--CCCcEEc-cCCCeeccchHHHH
Q 000721 13 SLAGEYFCPVCRLLVY--PNEALQS-QCTHLYCKPCLTYI 49 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~--P~DPVQc-qCGHtFCssCIeKw 49 (1332)
...+..+|.||+.--. -.+.++| .||-..-..|+-..
T Consensus 115 apkk~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~ 154 (707)
T KOG0957|consen 115 APKKAVICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVL 154 (707)
T ss_pred ccccceEEEEeecCccccccceeeccccCceecccccccc
Confidence 3445568999983220 0345666 88866666665443
No 171
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.65 E-value=23 Score=42.77 Aligned_cols=33 Identities=18% Similarity=0.423 Sum_probs=23.6
Q ss_pred CCcEEccCCCeeccchHHHHhhcCCCCCCCCccc
Q 000721 30 NEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1332)
Q Consensus 30 ~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~L 63 (1332)
...|.|.|||.||..|...|-.. ..|..+...+
T Consensus 177 ~~~v~C~~g~~FC~~C~~~~H~p-~~C~~~~~wl 209 (444)
T KOG1815|consen 177 SVEVDCGCGHEFCFACGEESHSP-VSCPGAKKWL 209 (444)
T ss_pred ccceeCCCCchhHhhccccccCC-CcccchHHHH
Confidence 45677999999999998877553 2566655433
No 172
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=35.63 E-value=16 Score=46.55 Aligned_cols=25 Identities=12% Similarity=0.317 Sum_probs=15.9
Q ss_pred ccCCCeeccchHHHHhhcCCCCCCC
Q 000721 35 SQCTHLYCKPCLTYIVNTTQACPYD 59 (1332)
Q Consensus 35 cqCGHtFCssCIeKwLsss~kCPiC 59 (1332)
..-|-+||++|-..-.....+|-.|
T Consensus 44 VPtGpWfCrKCesqeraarvrCeLC 68 (900)
T KOG0956|consen 44 VPTGPWFCRKCESQERAARVRCELC 68 (900)
T ss_pred cCCCchhhhhhhhhhhhccceeecc
Confidence 3456779999976654444455555
No 173
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=35.57 E-value=11 Score=47.18 Aligned_cols=110 Identities=15% Similarity=0.243 Sum_probs=65.7
Q ss_pred CCccccccCCccccCCCcEEccCCC-eeccchHHHHhhc-----C-CCCCCCCcccccccchhhhcccccchhhhhHHHH
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNT-----T-QACPYDGYLVTEADSKVVLSSAVVPLVESNKALA 87 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqCGH-tFCssCIeKwLss-----s-~kCPiCRk~LsekDLklLveskIFPLlesNK~LE 87 (1332)
.+-+.|.+|+..+ +..-.++-||. ..|..|..-.... . ..|-.|+..+..... ++
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 4557799999888 34555566764 6778887654432 2 378888876655431 11
Q ss_pred HHhhceecccccCCCCCccccccCCCCcc----CCCCCCCCccccCCCccchhcHHHHHH
Q 000721 88 ETIGKITVHCLFHRSGCTWQGPLSECTSH----CSGCAFGNSPVVCNRCAIQIVHRQVQE 143 (1332)
Q Consensus 88 KeIekLkVKCpnsk~GCqwsgkLSELesH----ekeC~y~~RpVkCp~CGqkI~RkELQe 143 (1332)
.+...+-|.|-.. ..|..++.-..|.+| |..|-+..--++|..|.+.|.-+-|+.
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 1334556777542 235555554444444 334433223588989988888777775
No 174
>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=35.28 E-value=16 Score=39.10 Aligned_cols=43 Identities=12% Similarity=0.142 Sum_probs=26.8
Q ss_pred CccchhcHHHHHHHHhhCCCCCCCCCC--CC-----CccccccccccccC
Q 000721 131 RCAIQIVHRQVQEHAQNCPGVQPQASQ--PE-----GVHDAAAIGTAATG 173 (1332)
Q Consensus 131 ~CGqkI~RkELQeHLdeCPK~PVqCPn--sc-----~~qkIAsttq~ATq 173 (1332)
+|...+...++.+|++.|...+..||. .+ ....+..|......
T Consensus 23 GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~ 72 (198)
T PF03145_consen 23 GCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHS 72 (198)
T ss_dssp T---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTT
T ss_pred CCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCC
Confidence 699999999999999999999999998 22 22445555544443
No 175
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=35.08 E-value=13 Score=48.18 Aligned_cols=32 Identities=19% Similarity=0.484 Sum_probs=24.1
Q ss_pred cccccCCccccCCCcEEc-cCCCeeccchHHHHh
Q 000721 18 YFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIV 50 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQc-qCGHtFCssCIeKwL 50 (1332)
-+|..|..-++ +.-.+| .|++.||-.|++.|-
T Consensus 230 ~mC~~C~~tlf-n~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 230 EMCDRCETTLF-NIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred hhhhhhccccc-ceeEEccccCCeeeecchhhcc
Confidence 36999987663 234456 899999999999984
No 176
>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=34.49 E-value=15 Score=31.71 Aligned_cols=32 Identities=19% Similarity=0.656 Sum_probs=19.1
Q ss_pred ccccc--CCccccCCC---c--EEcc-CCCeeccchHHHH
Q 000721 18 YFCPV--CRLLVYPNE---A--LQSQ-CTHLYCKPCLTYI 49 (1332)
Q Consensus 18 L~CPI--CleLL~P~D---P--VQcq-CGHtFCssCIeKw 49 (1332)
..|+- |..++...+ . +.|. |++.||..|...|
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 997764322 2 5565 9999999998877
No 177
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.04 E-value=12 Score=39.46 Aligned_cols=44 Identities=16% Similarity=0.483 Sum_probs=24.5
Q ss_pred CCCCccccccCCccccCCCcEEccCCCe-------eccchHHHHhhc-CC---CCCCCCc
Q 000721 13 SLAGEYFCPVCRLLVYPNEALQSQCTHL-------YCKPCLTYIVNT-TQ---ACPYDGY 61 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~P~DPVQcqCGHt-------FCssCIeKwLss-s~---kCPiCRk 61 (1332)
.+.++-+|.||+..-+ . .-|||. ||..|--+...+ ++ .|-.|++
T Consensus 61 Gv~ddatC~IC~KTKF-A----DG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKF-A----DGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred ccCcCcchhhhhhccc-c----cccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 3567789999996542 2 346663 455554443332 21 5666654
No 178
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.88 E-value=17 Score=47.26 Aligned_cols=36 Identities=19% Similarity=0.380 Sum_probs=28.3
Q ss_pred CCccccccCCccccCCCcEEc-cCCCeeccchHHHHhh
Q 000721 15 AGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVN 51 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLs 51 (1332)
+..-.|.+|...+. ..|+.. .|||.|=+.||.+.+.
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 44457999996554 567775 9999999999988665
No 179
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=33.11 E-value=1.1e+03 Score=31.66 Aligned_cols=20 Identities=15% Similarity=0.313 Sum_probs=13.4
Q ss_pred hhhhHHHHHHhhceeccccc
Q 000721 80 VESNKALAETIGKITVHCLF 99 (1332)
Q Consensus 80 lesNK~LEKeIekLkVKCpn 99 (1332)
++..+++-..|+++..+|+-
T Consensus 37 Ik~ykhVVqsVeKfi~kCkp 56 (894)
T KOG0132|consen 37 IKLYKHVVQSVEKFIKKCKP 56 (894)
T ss_pred HHHHHHHHHHHHHHHHhCCc
Confidence 44456666777777777854
No 180
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=32.52 E-value=12 Score=28.35 Aligned_cols=22 Identities=32% Similarity=0.664 Sum_probs=11.2
Q ss_pred eccchHHHHhhcCCCCCCCCcc
Q 000721 41 YCKPCLTYIVNTTQACPYDGYL 62 (1332)
Q Consensus 41 FCssCIeKwLsss~kCPiCRk~ 62 (1332)
||..|-.++......|+.|+..
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCc
Confidence 4555555544444456666543
No 181
>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=32.36 E-value=15 Score=47.75 Aligned_cols=44 Identities=23% Similarity=0.502 Sum_probs=0.0
Q ss_pred ccccccCCccccCCCcEEc-cCCC-----eeccchHHHHhhcCCCCCCCCccccc
Q 000721 17 EYFCPVCRLLVYPNEALQS-QCTH-----LYCKPCLTYIVNTTQACPYDGYLVTE 65 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQc-qCGH-----tFCssCIeKwLsss~kCPiCRk~Lse 65 (1332)
...|+-|....+ -..| .||- .+|..|-..... ..||.|+.....
T Consensus 655 ~r~Cp~Cg~~t~---~~~Cp~CG~~T~~~~~Cp~C~~~~~~--~~C~~C~~~~~~ 704 (900)
T PF03833_consen 655 RRRCPKCGKETF---YNRCPECGSHTEPVYVCPDCGIEVEE--DECPKCGRETTS 704 (900)
T ss_dssp -------------------------------------------------------
T ss_pred cccCcccCCcch---hhcCcccCCccccceeccccccccCc--cccccccccCcc
Confidence 457999997762 2446 6873 499999987754 389999877553
No 182
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=31.74 E-value=41 Score=39.95 Aligned_cols=42 Identities=21% Similarity=0.637 Sum_probs=27.4
Q ss_pred ccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCC
Q 000721 19 FCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDG 60 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCR 60 (1332)
.|-.|..-+.....+.| .|.+.||.+|=.-.-+.--.||.|.
T Consensus 332 ~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 332 FCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred ceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 38888433322455666 8889999988654444444788886
No 183
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=30.92 E-value=24 Score=40.26 Aligned_cols=46 Identities=20% Similarity=0.486 Sum_probs=30.9
Q ss_pred ccc--cCCccccCCCcEEc-cCCCeeccchHHHHhh--------c--CCCCCCCCcccccc
Q 000721 19 FCP--VCRLLVYPNEALQS-QCTHLYCKPCLTYIVN--------T--TQACPYDGYLVTEA 66 (1332)
Q Consensus 19 ~CP--ICleLL~P~DPVQc-qCGHtFCssCIeKwLs--------s--s~kCPiCRk~Lsek 66 (1332)
.|. .|..+= -=|+.| -|.++||.+=...-.. . ...||.|.+.+...
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 577 788554 247887 8999999754333211 1 24899999887654
No 184
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=30.86 E-value=26 Score=40.69 Aligned_cols=24 Identities=17% Similarity=0.621 Sum_probs=13.5
Q ss_pred ccCCCccchhcHHHHHHHHhhCCC
Q 000721 127 VVCNRCAIQIVHRQVQEHAQNCPG 150 (1332)
Q Consensus 127 VkCp~CGqkI~RkELQeHLdeCPK 150 (1332)
.+|+.|+..+-+++|..++..|++
T Consensus 29 ~KCp~c~~~~y~~eL~~n~~vcp~ 52 (294)
T COG0777 29 TKCPSCGEMLYRKELESNLKVCPK 52 (294)
T ss_pred eECCCccceeeHHHHHhhhhcccc
Confidence 455555555555555555555554
No 185
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=30.61 E-value=31 Score=40.71 Aligned_cols=45 Identities=7% Similarity=-0.092 Sum_probs=32.2
Q ss_pred CCCCccccccCCccccCCCcEEccCCC-eeccchHHHHhhcCCCCCCCCc
Q 000721 13 SLAGEYFCPVCRLLVYPNEALQSQCTH-LYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 13 ~L~EeL~CPICleLL~P~DPVQcqCGH-tFCssCIeKwLsss~kCPiCRk 61 (1332)
.+-..++|-+|.+-+ ..-.-..|+| +||.+|.. +.-...|+.|..
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 455567899999655 2333348887 69999987 444579999975
No 186
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=30.31 E-value=33 Score=31.30 Aligned_cols=34 Identities=21% Similarity=0.463 Sum_probs=26.7
Q ss_pred ccccccCCcccc-CCCcEEc-cCCCeeccchHHHHh
Q 000721 17 EYFCPVCRLLVY-PNEALQS-QCTHLYCKPCLTYIV 50 (1332)
Q Consensus 17 eL~CPICleLL~-P~DPVQc-qCGHtFCssCIeKwL 50 (1332)
.-+|.+|.+.|. ..+.|+| .||-.|=+.|+++.-
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g 40 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAG 40 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhCC
Confidence 457999999885 3567777 899999889987653
No 187
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=30.19 E-value=17 Score=40.17 Aligned_cols=48 Identities=29% Similarity=0.598 Sum_probs=0.0
Q ss_pred CCCchhhhcc----ccCCCCccccccCCccccC-CCcEE---ccCCCeeccchHHH
Q 000721 1 MGFDNECILN----IQSLAGEYFCPVCRLLVYP-NEALQ---SQCTHLYCKPCLTY 48 (1332)
Q Consensus 1 MGyD~e~Ilf----VE~L~EeL~CPICleLL~P-~DPVQ---cqCGHtFCssCIeK 48 (1332)
+|||=+.|.+ +..|...|.|-||.+..|. +..+. ..-.|.|.-+|+--
T Consensus 81 LG~DGkPIPyWLYKLhGL~~ey~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcLGI 136 (196)
T PF11931_consen 81 LGWDGKPIPYWLYKLHGLGVEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCLGI 136 (196)
T ss_dssp --------------------------------------------------------
T ss_pred CCCCCCcccHHHHHHhCCCCeeeeEeCCCcceecHHHHHHhcChhHHHccChhcCC
Confidence 5777777766 6778899999999998863 34444 36678888888743
No 188
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=29.90 E-value=17 Score=40.82 Aligned_cols=37 Identities=14% Similarity=0.245 Sum_probs=23.6
Q ss_pred cCCCCccCCCCCCCCccccCCCccchhcH-HHHHHHHhh
Q 000721 110 LSECTSHCSGCAFGNSPVVCNRCAIQIVH-RQVQEHAQN 147 (1332)
Q Consensus 110 LSELesHekeC~y~~RpVkCp~CGqkI~R-kELQeHLde 147 (1332)
.-+|+.|..+-.=. |+.+|..|++.+.. -.|+.|+..
T Consensus 158 tfdlkrh~rthtgv-rpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 158 TFDLKRHTRTHTGV-RPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred hhhhhhhhccccCc-cccchhhhhHHHHhhccHHHHHHH
Confidence 33455565543322 57789999987664 468888754
No 189
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=29.69 E-value=21 Score=36.02 Aligned_cols=27 Identities=26% Similarity=0.827 Sum_probs=19.3
Q ss_pred cccccCCccccCCCcEEccCCCeeccchH
Q 000721 18 YFCPVCRLLVYPNEALQSQCTHLYCKPCL 46 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQcqCGHtFCssCI 46 (1332)
+.|+.|.++| ..-....|...+|+.|-
T Consensus 2 ~FCP~Cgn~L--ive~g~~~~rf~C~tCp 28 (105)
T KOG2906|consen 2 LFCPTCGNML--IVESGESCNRFSCRTCP 28 (105)
T ss_pred cccCCCCCEE--EEecCCeEeeEEcCCCC
Confidence 4699999988 22222468888999883
No 190
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.53 E-value=14 Score=46.72 Aligned_cols=48 Identities=17% Similarity=0.364 Sum_probs=32.8
Q ss_pred CCccccccCCccccCCC-cEEc-cCCCeeccchHHHHhhcC--------CCCCCCCcc
Q 000721 15 AGEYFCPVCRLLVYPNE-ALQS-QCTHLYCKPCLTYIVNTT--------QACPYDGYL 62 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~D-PVQc-qCGHtFCssCIeKwLsss--------~kCPiCRk~ 62 (1332)
.+...|-+|...|.-.+ -.-| .||.+||..|..+.+... .+|-.|-..
T Consensus 163 ~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C~E~ 220 (634)
T KOG1818|consen 163 IDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSCYEL 220 (634)
T ss_pred ccccccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhhHHH
Confidence 35578999998773111 0115 899999999998876542 388888433
No 191
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=29.50 E-value=42 Score=29.12 Aligned_cols=40 Identities=23% Similarity=0.470 Sum_probs=24.2
Q ss_pred cccCCccccCCCcEEccCC--C---eeccchHHHHhhcC--CCCCCC
Q 000721 20 CPVCRLLVYPNEALQSQCT--H---LYCKPCLTYIVNTT--QACPYD 59 (1332)
Q Consensus 20 CPICleLL~P~DPVQcqCG--H---tFCssCIeKwLsss--~kCPiC 59 (1332)
|-||++.-...++++..|. - ..=..|+++|+..+ .+|.+|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 7789876643345665443 2 34468999999853 478877
No 192
>PRK11595 DNA utilization protein GntX; Provisional
Probab=29.34 E-value=33 Score=37.74 Aligned_cols=38 Identities=21% Similarity=0.497 Sum_probs=19.5
Q ss_pred ccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCccc
Q 000721 19 FCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLV 63 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~L 63 (1332)
.|.+|...+ ... ....|..|...+......|+.|...+
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 12356666666533233566666543
No 193
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=28.64 E-value=25 Score=45.06 Aligned_cols=26 Identities=23% Similarity=0.301 Sum_probs=19.4
Q ss_pred eccchHHHHhhcC--------CCCCCCCcccccc
Q 000721 41 YCKPCLTYIVNTT--------QACPYDGYLVTEA 66 (1332)
Q Consensus 41 FCssCIeKwLsss--------~kCPiCRk~Lsek 66 (1332)
.|..|..++..-. ..||.|+-.+...
T Consensus 153 lC~~C~~EY~dP~nRRfHAQp~aCp~CGP~~~l~ 186 (750)
T COG0068 153 LCPFCDKEYKDPLNRRFHAQPIACPKCGPHLFLV 186 (750)
T ss_pred CCHHHHHHhcCccccccccccccCcccCCCeEEE
Confidence 6999999876532 3899999876644
No 194
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=28.53 E-value=36 Score=30.61 Aligned_cols=35 Identities=14% Similarity=0.404 Sum_probs=16.5
Q ss_pred ccccccCCccccC-CCcEEc-cCCCeeccchHHHHhh
Q 000721 17 EYFCPVCRLLVYP-NEALQS-QCTHLYCKPCLTYIVN 51 (1332)
Q Consensus 17 eL~CPICleLL~P-~DPVQc-qCGHtFCssCIeKwLs 51 (1332)
.-.|.+|...|.- +.-.-| .||++||..|....+.
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 3569999976621 112225 8999999999866543
No 195
>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=28.49 E-value=27 Score=34.67 Aligned_cols=35 Identities=26% Similarity=0.536 Sum_probs=27.6
Q ss_pred ccccCCccccCCCcEEccCCCeeccchHHHHhhcCCCCCCCCcccc
Q 000721 19 FCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
.|-||..-+ ..=|+.||..|-.+- ..|..|++.|.
T Consensus 46 ~C~~CK~~v-------~q~g~~YCq~CAYkk----GiCamCGKki~ 80 (90)
T PF10235_consen 46 KCKICKTKV-------HQPGAKYCQTCAYKK----GICAMCGKKIL 80 (90)
T ss_pred ccccccccc-------ccCCCccChhhhccc----CcccccCCeec
Confidence 699998777 245899999997653 57999998764
No 196
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.30 E-value=23 Score=41.35 Aligned_cols=33 Identities=27% Similarity=0.552 Sum_probs=23.3
Q ss_pred cCCCeeccchHHHHhhc-------------CCCCCCCCcccccccc
Q 000721 36 QCTHLYCKPCLTYIVNT-------------TQACPYDGYLVTEADS 68 (1332)
Q Consensus 36 qCGHtFCssCIeKwLss-------------s~kCPiCRk~LsekDL 68 (1332)
-|.-..|.+|+..|... +..||.||+.+...|.
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 35556778999887752 2489999987765553
No 197
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=28.30 E-value=11 Score=44.72 Aligned_cols=48 Identities=19% Similarity=0.403 Sum_probs=24.5
Q ss_pred CccccccCCccccCCCcEE--------ccCCCeeccchHHHHhhcC------------CCCCCCCccc
Q 000721 16 GEYFCPVCRLLVYPNEALQ--------SQCTHLYCKPCLTYIVNTT------------QACPYDGYLV 63 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQ--------cqCGHtFCssCIeKwLsss------------~kCPiCRk~L 63 (1332)
+-+-|+.|..+|.-++-+. +.-.+.-|+.|.......+ .+||.|--.+
T Consensus 206 KvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc 273 (467)
T KOG3608|consen 206 KVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTC 273 (467)
T ss_pred eEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCC
Confidence 3456888887773111110 1223556777766544321 3777775433
No 198
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=28.28 E-value=1.3e+02 Score=37.01 Aligned_cols=10 Identities=20% Similarity=0.328 Sum_probs=6.1
Q ss_pred cccccCCccc
Q 000721 18 YFCPVCRLLV 27 (1332)
Q Consensus 18 L~CPICleLL 27 (1332)
|+-.||..|-
T Consensus 28 ~IlDvCD~v~ 37 (462)
T KOG2199|consen 28 LILDVCDKVG 37 (462)
T ss_pred HHHHHHHhhc
Confidence 4556676655
No 199
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.89 E-value=5.5 Score=47.58 Aligned_cols=48 Identities=15% Similarity=0.182 Sum_probs=36.7
Q ss_pred ccccCCccccC--CCcEEccCCCeeccchHHHHhhcCCCCCCCCcccccc
Q 000721 19 FCPVCRLLVYP--NEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEA 66 (1332)
Q Consensus 19 ~CPICleLL~P--~DPVQcqCGHtFCssCIeKwLsss~kCPiCRk~Lsek 66 (1332)
.|.||..-+-. .+.....|||.+-..||++|+.+...|+.|+.++...
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 48999865510 1222358999999999999999988999999887643
No 200
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=27.86 E-value=38 Score=37.36 Aligned_cols=17 Identities=18% Similarity=0.339 Sum_probs=12.6
Q ss_pred CCCCCCCCcccccccch
Q 000721 53 TQACPYDGYLVTEADSK 69 (1332)
Q Consensus 53 s~kCPiCRk~LsekDLk 69 (1332)
+.+||+|++.+..+.++
T Consensus 5 ~~~CPvC~~~F~~~~vr 21 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVR 21 (214)
T ss_pred ceECCCCCCeeeeeEEE
Confidence 45899999988766543
No 201
>KOG3815 consensus Transcription factor Doublesex [Transcription]
Probab=27.84 E-value=34 Score=39.81 Aligned_cols=40 Identities=23% Similarity=0.517 Sum_probs=32.8
Q ss_pred ceecccccCCCCCccccccCCCCccCCCCCCCCccccCCCccchhc
Q 000721 92 KITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIV 137 (1332)
Q Consensus 92 kLkVKCpnsk~GCqwsgkLSELesHekeC~y~~RpVkCp~CGqkI~ 137 (1332)
....+|.. |.-.+.+..|+-|-..|.|. .+.|..|.....
T Consensus 34 ~r~p~CaR----CrnHG~~~~LKGHk~~C~~~--~C~C~kC~li~e 73 (322)
T KOG3815|consen 34 ARGPKCAR----CENHGVLSRLKGHKRSCPYR--DCPCEKCGLVEE 73 (322)
T ss_pred cccchhhh----hhccCcceeccCCCCCCCCC--CCCchHhcchHH
Confidence 34567864 88899999999999999995 899999985443
No 202
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=27.48 E-value=42 Score=28.34 Aligned_cols=24 Identities=29% Similarity=0.764 Sum_probs=17.2
Q ss_pred cccCCccccCCCcEEcc-CCCeeccc
Q 000721 20 CPVCRLLVYPNEALQSQ-CTHLYCKP 44 (1332)
Q Consensus 20 CPICleLL~P~DPVQcq-CGHtFCss 44 (1332)
|.+|..... ..++.|. |+.+||..
T Consensus 1 C~~C~~~~~-l~~f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVG-LTGFKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCccc-ccCeECCccCCccccc
Confidence 678886552 2388885 99999865
No 203
>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 PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=27.01 E-value=33 Score=38.18 Aligned_cols=24 Identities=21% Similarity=0.552 Sum_probs=17.6
Q ss_pred cccccCCccccC-CCcEEccCCCee
Q 000721 18 YFCPVCRLLVYP-NEALQSQCTHLY 41 (1332)
Q Consensus 18 L~CPICleLL~P-~DPVQcqCGHtF 41 (1332)
|.||||...+.. ...+.|.++|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 789999987731 234567888988
No 205
>KOG4592 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.71 E-value=1.2e+02 Score=38.74 Aligned_cols=27 Identities=19% Similarity=0.245 Sum_probs=14.1
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCccccc
Q 000721 442 PHQQIPLSGPLQHPMYVHPHTGAQSQMQ 469 (1332)
Q Consensus 442 p~~q~~~~~~~q~~~~~~~~~~~~~~~q 469 (1332)
|+++|.+-.| |.+-||-+.+++++..|
T Consensus 165 p~P~~lpq~p-qqq~~m~~qs~q~~psq 191 (728)
T KOG4592|consen 165 PTPTMLPQQP-QQQHHMKQQSQQQPPSQ 191 (728)
T ss_pred CCCCCccccc-cccchhhhhccCCChhh
Confidence 3444544453 55666666555554433
No 206
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=26.50 E-value=29 Score=44.13 Aligned_cols=48 Identities=21% Similarity=0.403 Sum_probs=29.4
Q ss_pred CCCccccccCCcccc--CCCcEEc-cCCCeeccchHHHHhhcC-----CCCCCCCc
Q 000721 14 LAGEYFCPVCRLLVY--PNEALQS-QCTHLYCKPCLTYIVNTT-----QACPYDGY 61 (1332)
Q Consensus 14 L~EeL~CPICleLL~--P~DPVQc-qCGHtFCssCIeKwLsss-----~kCPiCRk 61 (1332)
+...++|.||...=. ..-.+.| .|+-.|=..|...|+..- -.||-||.
T Consensus 15 ~~~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 15 IIVCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 445678999974320 0112234 788777778888777642 26887764
No 207
>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=26.10 E-value=50 Score=40.37 Aligned_cols=46 Identities=15% Similarity=0.410 Sum_probs=32.3
Q ss_pred CccccccCCccccCCCc-EEccCCCeeccchHHHHhhcCCCCCCCCccccc
Q 000721 16 GEYFCPVCRLLVYPNEA-LQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTE 65 (1332)
Q Consensus 16 EeL~CPICleLL~P~DP-VQcqCGHtFCssCIeKwLsss~kCPiCRk~Lse 65 (1332)
+.+.|..|..++ ... ....=|.+||..|+..|+. ..|-.|...+..
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 456788888766 332 2356788899999999877 577778765543
No 208
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=25.76 E-value=54 Score=42.35 Aligned_cols=26 Identities=27% Similarity=0.443 Sum_probs=20.1
Q ss_pred eeccchHHHHhhcC--------CCCCCCCccccc
Q 000721 40 LYCKPCLTYIVNTT--------QACPYDGYLVTE 65 (1332)
Q Consensus 40 tFCssCIeKwLsss--------~kCPiCRk~Lse 65 (1332)
.+|.+|+++....+ ..|..|+-.++.
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTI 135 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTI 135 (750)
T ss_pred hhhHHHHHHhcCCCCcceeccccccCCCCcceee
Confidence 48999999988754 289999876654
No 209
>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=25.26 E-value=42 Score=30.27 Aligned_cols=28 Identities=25% Similarity=0.673 Sum_probs=14.4
Q ss_pred EEc-cCCCeeccchHHHHhhcCCCCCCCC
Q 000721 33 LQS-QCTHLYCKPCLTYIVNTTQACPYDG 60 (1332)
Q Consensus 33 VQc-qCGHtFCssCIeKwLsss~kCPiCR 60 (1332)
+.+ .|++.||.+|=.-.-+.--.||.|.
T Consensus 22 y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp E--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred EECCCCCCccccCcChhhhccccCCcCCC
Confidence 334 7888999999544434334799884
No 210
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=25.17 E-value=85 Score=37.49 Aligned_cols=25 Identities=16% Similarity=0.543 Sum_probs=16.2
Q ss_pred eeccchHHHHhhcCCCCCCCCcccc
Q 000721 40 LYCKPCLTYIVNTTQACPYDGYLVT 64 (1332)
Q Consensus 40 tFCssCIeKwLsss~kCPiCRk~Ls 64 (1332)
.||..|-.++..--..||+|.-.+-
T Consensus 277 y~CP~CkakvCsLP~eCpiC~ltLV 301 (378)
T KOG2807|consen 277 YFCPQCKAKVCSLPIECPICSLTLV 301 (378)
T ss_pred eeCCcccCeeecCCccCCccceeEe
Confidence 4666666555444458999986654
No 211
>PRK10263 DNA translocase FtsK; Provisional
Probab=24.80 E-value=1.9e+02 Score=40.16 Aligned_cols=10 Identities=50% Similarity=0.919 Sum_probs=5.9
Q ss_pred CCCCCCCCCC
Q 000721 986 GQRPGYMDGR 995 (1332)
Q Consensus 986 ~~r~~~~~~~ 995 (1332)
..+|+|.+.-
T Consensus 1263 ~~~p~y~~~~ 1272 (1355)
T PRK10263 1263 RGRPQYVDGI 1272 (1355)
T ss_pred cCCCchhhhh
Confidence 4567776544
No 212
>KOG1151 consensus Tousled-like protein kinase [Signal transduction mechanisms]
Probab=24.71 E-value=49 Score=40.98 Aligned_cols=32 Identities=19% Similarity=0.333 Sum_probs=20.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCC-----CCCCCCCCCCC
Q 000721 881 FRPPMFKPEVPPGGIPVSGPA-----ASFGRGPGHNG 912 (1332)
Q Consensus 881 ~~~~~~~~~~~~g~~~~~~~~-----~~~~~~~~~~~ 912 (1332)
..|+..|-.|.||.|+-.+-+ -+++-|+|-.-
T Consensus 587 ikpPIIHYDLKPgNILLv~GtacGeIKITDFGLSKIM 623 (775)
T KOG1151|consen 587 IKPPIIHYDLKPGNILLVNGTACGEIKITDFGLSKIM 623 (775)
T ss_pred cCCCeeeeccCCccEEEecCcccceeEeeecchhhhc
Confidence 345667778888888844433 45667776543
No 213
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=24.57 E-value=42 Score=38.59 Aligned_cols=48 Identities=15% Similarity=0.301 Sum_probs=27.0
Q ss_pred eecccccCCCCCccccccCCCCccCCCCCC----CCccccCCCccchhcHHHHH
Q 000721 93 ITVHCLFHRSGCTWQGPLSECTSHCSGCAF----GNSPVVCNRCAIQIVHRQVQ 142 (1332)
Q Consensus 93 LkVKCpnsk~GCqwsgkLSELesHekeC~y----~~RpVkCp~CGqkI~RkELQ 142 (1332)
.+|.|+.. +|+-++.|......-.+=.. ....+.|.+|...+....+.
T Consensus 122 ~rIaCPRp--~CkRiI~L~~~~~~p~~~~~~~~p~~~rv~CghC~~~Fl~~~~~ 173 (256)
T PF09788_consen 122 QRIACPRP--NCKRIINLGPSHQGPVTPPVPTQPGSCRVICGHCSNTFLFNTLT 173 (256)
T ss_pred ccccCCCC--CCcceEEeCCccCCCCCCCCCCCCCceeEECCCCCCcEeccCCC
Confidence 46777753 68777777665322111000 01236788888877776655
No 214
>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=24.35 E-value=10 Score=46.91 Aligned_cols=38 Identities=21% Similarity=0.559 Sum_probs=24.9
Q ss_pred cCCCCccCCCCCCCCccccCCCccchhcHHHHHHHHhhCCCC
Q 000721 110 LSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGV 151 (1332)
Q Consensus 110 LSELesHekeC~y~~RpVkCp~CGqkI~RkELQeHLdeCPK~ 151 (1332)
+-+-+.|...|.|. .|+||...+....|.+|+..||+.
T Consensus 507 ~~DqElHdLNCsyN----iCPYCanRLs~eGL~RHV~~CPKR 544 (645)
T PF07948_consen 507 AIDQELHDLNCSYN----ICPYCANRLSDEGLVRHVPQCPKR 544 (645)
T ss_dssp HHHHHHHHHHHTTT------TTT-----TTTHHHHHTT-SHH
T ss_pred hhhHHHHhcCCCcc----cChhhhhccCccchhhhcccCCch
Confidence 34455688899996 899999999999999999999975
No 215
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.81 E-value=91 Score=32.15 Aligned_cols=41 Identities=20% Similarity=0.540 Sum_probs=29.2
Q ss_pred cccccCCccccCCCc-------------EEc-cCCCeeccchHHHHhhcCCCCCCCC
Q 000721 18 YFCPVCRLLVYPNEA-------------LQS-QCTHLYCKPCLTYIVNTTQACPYDG 60 (1332)
Q Consensus 18 L~CPICleLL~P~DP-------------VQc-qCGHtFCssCIeKwLsss~kCPiCR 60 (1332)
..|--|...| .+. ..| .|.+.||.+|=.-+-+.--.||.|.
T Consensus 56 ~~C~~C~~~f--~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPF--PKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCC--CCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 3599998877 222 335 8999999999666655555799886
No 216
>PRK10263 DNA translocase FtsK; Provisional
Probab=23.80 E-value=1.4e+02 Score=41.34 Aligned_cols=6 Identities=17% Similarity=-0.019 Sum_probs=2.7
Q ss_pred cccchh
Q 000721 803 TQFGEQ 808 (1332)
Q Consensus 803 ~~~~~~ 808 (1332)
..++|.
T Consensus 1144 VIIDE~ 1149 (1355)
T PRK10263 1144 VLVDEF 1149 (1355)
T ss_pred EEEcCh
Confidence 444544
No 217
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=23.59 E-value=23 Score=44.57 Aligned_cols=43 Identities=23% Similarity=0.678 Sum_probs=26.7
Q ss_pred CccccccCC--ccccCC---CcEEc-cCCCeeccchHHHHhhcCCCCCCCCc
Q 000721 16 GEYFCPVCR--LLVYPN---EALQS-QCTHLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 16 EeL~CPICl--eLL~P~---DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk 61 (1332)
..++|.||. +++||- +...| .|+++|=++|++.. +..||.|-.
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~---s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK---SPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc---CCCCCchHH
Confidence 456788886 455442 11224 78888888887654 334999954
No 218
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=23.17 E-value=52 Score=38.45 Aligned_cols=44 Identities=20% Similarity=0.370 Sum_probs=31.6
Q ss_pred ccccccCCccccCCCcEE----ccCCC--eeccchHHHHhhcCCCCCCCCcc
Q 000721 17 EYFCPVCRLLVYPNEALQ----SQCTH--LYCKPCLTYIVNTTQACPYDGYL 62 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ----cqCGH--tFCssCIeKwLsss~kCPiCRk~ 62 (1332)
.-.|++|...- ...++ +.-|- .-|.-|..+|.-...+|-.|...
T Consensus 185 ~~~CPvCGS~P--vaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~t 234 (308)
T COG3058 185 RQYCPVCGSMP--VASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQS 234 (308)
T ss_pred cccCCCcCCCC--cceeeeecCccccchhhhhhhHHHHHHHHHHHhcccccc
Confidence 34699999766 33333 23343 35999999999888899999863
No 219
>PF12773 DZR: Double zinc ribbon
Probab=23.07 E-value=54 Score=27.89 Aligned_cols=26 Identities=23% Similarity=0.488 Sum_probs=15.1
Q ss_pred CeeccchHHHHh--h-cCCCCCCCCcccc
Q 000721 39 HLYCKPCLTYIV--N-TTQACPYDGYLVT 64 (1332)
Q Consensus 39 HtFCssCIeKwL--s-ss~kCPiCRk~Ls 64 (1332)
-.||..|-..+. . ....|+.|+..+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCc
Confidence 446666665555 2 2347888877543
No 220
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=23.01 E-value=35 Score=38.97 Aligned_cols=48 Identities=17% Similarity=0.174 Sum_probs=35.6
Q ss_pred ccccccCCccccCCCcEE-ccCCCeeccchHHHHhhc--CCCCCC--CCcccccc
Q 000721 17 EYFCPVCRLLVYPNEALQ-SQCTHLYCKPCLTYIVNT--TQACPY--DGYLVTEA 66 (1332)
Q Consensus 17 eL~CPICleLL~P~DPVQ-cqCGHtFCssCIeKwLss--s~kCPi--CRk~Lsek 66 (1332)
+++|+|-++.. .-|+. +.|.|.|=++=|.+++.. ...||. |...+...
T Consensus 189 ~nrCpitl~p~--~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~ 241 (275)
T COG5627 189 SNRCPITLNPD--FYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVD 241 (275)
T ss_pred cccCCcccCcc--hhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchheecc
Confidence 36899988777 45666 599999999999988873 457884 76555443
No 221
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=22.81 E-value=62 Score=35.46 Aligned_cols=41 Identities=20% Similarity=0.766 Sum_probs=29.2
Q ss_pred CccccccCC--ccccCCCc---EEc-cCCCeeccchHHHHhhcCCCCCCCCc
Q 000721 16 GEYFCPVCR--LLVYPNEA---LQS-QCTHLYCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 16 EeL~CPICl--eLL~P~DP---VQc-qCGHtFCssCIeKwLsss~kCPiCRk 61 (1332)
..++|.||. ++++|-+. +.| .|+-+|=+.|+.+ ..||.|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 467899998 56666332 335 7888888888874 45999953
No 222
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=22.52 E-value=25 Score=27.12 Aligned_cols=21 Identities=29% Similarity=0.619 Sum_probs=9.5
Q ss_pred eccchHHHHhhcCCCCCCCCc
Q 000721 41 YCKPCLTYIVNTTQACPYDGY 61 (1332)
Q Consensus 41 FCssCIeKwLsss~kCPiCRk 61 (1332)
+|..|-.........||.|+.
T Consensus 4 ~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 4 FCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCcccCCcCCcccccChhhCC
Confidence 444444433233345666654
No 223
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=22.45 E-value=57 Score=26.36 Aligned_cols=10 Identities=50% Similarity=1.417 Sum_probs=7.4
Q ss_pred cccccCCccc
Q 000721 18 YFCPVCRLLV 27 (1332)
Q Consensus 18 L~CPICleLL 27 (1332)
++|.+|..++
T Consensus 2 ~~C~~CGy~y 11 (33)
T cd00350 2 YVCPVCGYIY 11 (33)
T ss_pred EECCCCCCEE
Confidence 5688887776
No 224
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=22.08 E-value=53 Score=42.53 Aligned_cols=43 Identities=21% Similarity=0.264 Sum_probs=33.4
Q ss_pred cccccCCccccCCCcEE-c-cCCCeeccchHHHHhhcCCCCCC--CCcc
Q 000721 18 YFCPVCRLLVYPNEALQ-S-QCTHLYCKPCLTYIVNTTQACPY--DGYL 62 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQ-c-qCGHtFCssCIeKwLsss~kCPi--CRk~ 62 (1332)
..|.+|..++ +.... | .|+|.-=..|+.+|......|+. |...
T Consensus 780 ~~CtVC~~vi--~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 780 AKCTVCDLVI--RGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHL 826 (839)
T ss_pred cCceeeccee--eeeEeecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence 4699999888 44444 6 89998889999999998877776 6543
No 225
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=21.88 E-value=37 Score=24.36 Aligned_cols=20 Identities=15% Similarity=0.476 Sum_probs=15.3
Q ss_pred cCCCccchhc-HHHHHHHHhh
Q 000721 128 VCNRCAIQIV-HRQVQEHAQN 147 (1332)
Q Consensus 128 kCp~CGqkI~-RkELQeHLde 147 (1332)
.|+.|++.+. +..|..|+..
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHhH
Confidence 5889998766 4578889864
No 226
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.57 E-value=21 Score=40.10 Aligned_cols=45 Identities=24% Similarity=0.577 Sum_probs=33.2
Q ss_pred cccccCCccccCC----CcEEcc--------CCCeeccchHHHHhhcC-CCCCCCCcc
Q 000721 18 YFCPVCRLLVYPN----EALQSQ--------CTHLYCKPCLTYIVNTT-QACPYDGYL 62 (1332)
Q Consensus 18 L~CPICleLL~P~----DPVQcq--------CGHtFCssCIeKwLsss-~kCPiCRk~ 62 (1332)
..|.||...+..+ .|.... |+|+.|..|+...+... ..||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 4599999777311 133334 99999999999987754 599999863
No 227
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=21.24 E-value=59 Score=27.57 Aligned_cols=26 Identities=15% Similarity=0.470 Sum_probs=15.2
Q ss_pred ccc--CCccccCCCcEEcc-CCCeeccchHH
Q 000721 20 CPV--CRLLVYPNEALQSQ-CTHLYCKPCLT 47 (1332)
Q Consensus 20 CPI--CleLL~P~DPVQcq-CGHtFCssCIe 47 (1332)
|.+ |..+. ..++.|. |+..||.+-..
T Consensus 1 C~~~~C~~~~--~~~~~C~~C~~~FC~~Hr~ 29 (43)
T PF01428_consen 1 CSFPGCKKKD--FLPFKCKHCGKSFCLKHRL 29 (43)
T ss_dssp -SSTTT--BC--TSHEE-TTTS-EE-TTTHS
T ss_pred CccCcCcCcc--CCCeECCCCCcccCccccC
Confidence 666 88877 5788885 99999987554
No 228
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=21.24 E-value=39 Score=40.67 Aligned_cols=33 Identities=30% Similarity=0.676 Sum_probs=23.8
Q ss_pred CCccccccCCccccCCCcEEccCCCeeccchHHH
Q 000721 15 AGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTY 48 (1332)
Q Consensus 15 ~EeL~CPICleLL~P~DPVQcqCGHtFCssCIeK 48 (1332)
...|.|.-|.+.-. ..-....||..||+.|+.-
T Consensus 37 ~gk~~C~RC~~~~~-~~~~~lp~~~~YCr~Cl~m 69 (441)
T COG4098 37 NGKYRCNRCGNTHI-ELFAKLPCGCLYCRNCLMM 69 (441)
T ss_pred cCcEEehhcCCcch-hhhcccccceEeehhhhhc
Confidence 45789999995431 2333469999999999864
No 229
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=21.20 E-value=65 Score=27.46 Aligned_cols=32 Identities=19% Similarity=0.449 Sum_probs=20.3
Q ss_pred CccccccCCccccCCCcEEccCCCeeccchHHH
Q 000721 16 GEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTY 48 (1332)
Q Consensus 16 EeL~CPICleLL~P~DPVQcqCGHtFCssCIeK 48 (1332)
+=+.|.+|...|. ...+...=+.+||..|..+
T Consensus 25 ~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPLN-DGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBTT-TSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCccC-CCeeEeECCEEECHHHHhh
Confidence 3467888877773 2224456667788887765
No 230
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=21.19 E-value=37 Score=36.34 Aligned_cols=25 Identities=36% Similarity=1.022 Sum_probs=0.0
Q ss_pred ccccCCccccCCCcEEc-cCCCeecc-chHH
Q 000721 19 FCPVCRLLVYPNEALQS-QCTHLYCK-PCLT 47 (1332)
Q Consensus 19 ~CPICleLL~P~DPVQc-qCGHtFCs-sCIe 47 (1332)
.|.||. + .-...| .||-.||. .|+.
T Consensus 120 fCaVCG--~--~S~ysC~~CG~kyCsv~C~~ 146 (156)
T KOG3362|consen 120 FCAVCG--Y--DSKYSCVNCGTKYCSVRCLK 146 (156)
T ss_pred hhhhcC--C--CchhHHHhcCCceeechhhh
No 231
>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=21.17 E-value=47 Score=27.57 Aligned_cols=25 Identities=20% Similarity=0.461 Sum_probs=15.5
Q ss_pred ccccCCCccchhcHH-----HHHHHHh-hCC
Q 000721 125 SPVVCNRCAIQIVHR-----QVQEHAQ-NCP 149 (1332)
Q Consensus 125 RpVkCp~CGqkI~Rk-----ELQeHLd-eCP 149 (1332)
..+.|.+|+..+... .|..|+. .|+
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~~hp 45 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKKKHP 45 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHHTTH
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhhhCc
Confidence 357888898887764 8999994 453
No 232
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=21.04 E-value=51 Score=30.31 Aligned_cols=12 Identities=25% Similarity=0.661 Sum_probs=8.7
Q ss_pred CccccccCCccc
Q 000721 16 GEYFCPVCRLLV 27 (1332)
Q Consensus 16 EeL~CPICleLL 27 (1332)
+.+.|+||.+--
T Consensus 3 ~Wi~CP~CgnKT 14 (55)
T PF14205_consen 3 EWILCPICGNKT 14 (55)
T ss_pred eEEECCCCCCcc
Confidence 567899998533
No 233
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=20.92 E-value=90 Score=35.46 Aligned_cols=57 Identities=16% Similarity=0.336 Sum_probs=37.6
Q ss_pred ceecccccCCCCCccccccCCCCccC---CCCCCCCccccCCCccchhcHHHHHHHHhhCCCC
Q 000721 92 KITVHCLFHRSGCTWQGPLSECTSHC---SGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGV 151 (1332)
Q Consensus 92 kLkVKCpnsk~GCqwsgkLSELesHe---keC~y~~RpVkCp~CGqkI~RkELQeHLdeCPK~ 151 (1332)
..++.|+. ..|+-++.|.-+..-- ..-+.. --|+|..|+..+....+.+-+..||..
T Consensus 136 SqRIACPR--pnCkRiInL~p~~~~p~~P~~~P~g-cRV~CgHC~~tFLfnt~tnaLArCPHC 195 (275)
T KOG4684|consen 136 SQRIACPR--PNCKRIINLDPLIEKPRDPGTAPTG-CRVKCGHCNETFLFNTLTNALARCPHC 195 (275)
T ss_pred cceeccCC--CCcceeeecCCCCCCCCCCCCCCcc-eEEEecCccceeehhhHHHHHhcCCcc
Confidence 34677875 3688887777654321 111111 247899999999999999877777653
No 234
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=20.80 E-value=56 Score=32.37 Aligned_cols=46 Identities=17% Similarity=0.409 Sum_probs=15.4
Q ss_pred cccccCCccccCCCcEE--ccCCCeeccchHHHHhhcC----CCCCCCCcccc
Q 000721 18 YFCPVCRLLVYPNEALQ--SQCTHLYCKPCLTYIVNTT----QACPYDGYLVT 64 (1332)
Q Consensus 18 L~CPICleLL~P~DPVQ--cqCGHtFCssCIeKwLsss----~kCPiCRk~Ls 64 (1332)
-.|.||...+.-.+... |.-||+| .+|....+.-. ..|++|+..+-
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~l 66 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRAL 66 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EEE
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEEe
Confidence 36999998652134433 5668998 66766655432 48999986543
No 235
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.66 E-value=53 Score=40.46 Aligned_cols=47 Identities=23% Similarity=0.648 Sum_probs=0.0
Q ss_pred eeccchHHHHhhcCCCCCCCCcccccccchhhhcccccchhhhhHHHHHHhhceecccccCCCCCccccccCCCCccCCC
Q 000721 40 LYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSG 119 (1332)
Q Consensus 40 tFCssCIeKwLsss~kCPiCRk~LsekDLklLveskIFPLlesNK~LEKeIekLkVKCpnsk~GCqwsgkLSELesHeke 119 (1332)
++|..|-... .||.|...++. .-..-.+.|.+
T Consensus 214 ~~C~~Cg~~~-----~C~~C~~~l~~-----------------------h~~~~~l~Ch~-------------------- 245 (505)
T TIGR00595 214 LLCRSCGYIL-----CCPNCDVSLTY-----------------------HKKEGKLRCHY-------------------- 245 (505)
T ss_pred eEhhhCcCcc-----CCCCCCCceEE-----------------------ecCCCeEEcCC--------------------
Q ss_pred CCCC-CccccCCCccc
Q 000721 120 CAFG-NSPVVCNRCAI 134 (1332)
Q Consensus 120 C~y~-~RpVkCp~CGq 134 (1332)
|.+. ..+..|+.|+.
T Consensus 246 Cg~~~~~~~~Cp~C~s 261 (505)
T TIGR00595 246 CGYQEPIPKTCPQCGS 261 (505)
T ss_pred CcCcCCCCCCCCCCCC
No 236
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=20.54 E-value=56 Score=28.28 Aligned_cols=25 Identities=16% Similarity=0.533 Sum_probs=18.8
Q ss_pred cccCCCccchhcHH------HHHHHHh-hCCC
Q 000721 126 PVVCNRCAIQIVHR------QVQEHAQ-NCPG 150 (1332)
Q Consensus 126 pVkCp~CGqkI~Rk------ELQeHLd-eCPK 150 (1332)
.+.|.+|+..+... .|..|+. .|+.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~~ 49 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCcC
Confidence 46788888776554 8999998 6875
No 237
>PF15279 SOBP: Sine oculis-binding protein
Probab=20.49 E-value=1.7e+02 Score=34.69 Aligned_cols=17 Identities=24% Similarity=0.364 Sum_probs=10.6
Q ss_pred hhcHHHHHHHHhhCCCC
Q 000721 135 QIVHRQVQEHAQNCPGV 151 (1332)
Q Consensus 135 kI~RkELQeHLdeCPK~ 151 (1332)
.|-.+|-+.||..++..
T Consensus 38 ~if~~etqa~l~~~~~~ 54 (306)
T PF15279_consen 38 DIFYKETQAHLPMNPHL 54 (306)
T ss_pred HHHHHHHHHhcCCCCCC
Confidence 35566677787765544
No 238
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=20.49 E-value=46 Score=28.71 Aligned_cols=34 Identities=15% Similarity=0.418 Sum_probs=22.2
Q ss_pred cccccCCccccC-CCcEEc-cCCCeeccchHHHHhh
Q 000721 18 YFCPVCRLLVYP-NEALQS-QCTHLYCKPCLTYIVN 51 (1332)
Q Consensus 18 L~CPICleLL~P-~DPVQc-qCGHtFCssCIeKwLs 51 (1332)
-.|.+|..-|.- ..-..+ .||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 358899865521 111123 8999999999877544
No 239
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=20.44 E-value=2.3e+02 Score=36.06 Aligned_cols=16 Identities=25% Similarity=0.281 Sum_probs=12.0
Q ss_pred cHHHHHHHHhhCCCCC
Q 000721 137 VHRQVQEHAQNCPGVQ 152 (1332)
Q Consensus 137 ~RkELQeHLdeCPK~P 152 (1332)
.+..|+.+.+.-|+..
T Consensus 247 Vk~ALq~YqELLPKvt 262 (574)
T PF07462_consen 247 VKEALQAYQELLPKVT 262 (574)
T ss_pred HHHHHHHHHHhCCCCC
Confidence 4677888888888763
No 240
>PF10005 DUF2248: Uncharacterized protein conserved in bacteria (DUF2248); InterPro: IPR011201 This is a family of uncharacterised bacterial proteins.
Probab=20.28 E-value=54 Score=39.15 Aligned_cols=32 Identities=19% Similarity=0.562 Sum_probs=25.3
Q ss_pred ceecccccC-CCCCccccccCCCCccCCCCCCC
Q 000721 92 KITVHCLFH-RSGCTWQGPLSECTSHCSGCAFG 123 (1332)
Q Consensus 92 kLkVKCpns-k~GCqwsgkLSELesHekeC~y~ 123 (1332)
..-..|.|. ..+|+|.....+-...|..|.+.
T Consensus 51 ~~~~~C~N~~~~~CNWlvp~~~~~~~C~aCrln 83 (343)
T PF10005_consen 51 RRYRRCANAEHAVCNWLVPADDPDALCRACRLN 83 (343)
T ss_pred ceeeeCCCCCccccceeecCCCCCCcchhhhcc
Confidence 345678776 46799999988888889999885
Done!