Query 028970
Match_columns 201
No_of_seqs 250 out of 1736
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 05:24:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028970.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028970hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 3.8E-16 8.1E-21 95.7 2.2 44 136-179 1-44 (44)
2 PF12678 zf-rbx1: RING-H2 zinc 99.4 6.2E-14 1.3E-18 95.1 3.7 48 132-179 16-73 (73)
3 KOG4628 Predicted E3 ubiquitin 99.4 6.7E-14 1.5E-18 119.5 3.8 53 136-188 230-283 (348)
4 PHA02929 N1R/p28-like protein; 99.3 3.6E-12 7.9E-17 104.4 4.4 52 133-184 172-228 (238)
5 COG5243 HRD1 HRD ubiquitin lig 99.2 4E-12 8.7E-17 108.1 3.9 57 132-188 284-350 (491)
6 PF12861 zf-Apc11: Anaphase-pr 99.2 6.3E-12 1.4E-16 86.5 3.8 52 134-185 20-84 (85)
7 KOG0823 Predicted E3 ubiquitin 99.2 7.6E-12 1.7E-16 100.6 4.7 62 131-195 43-107 (230)
8 PLN03208 E3 ubiquitin-protein 99.2 9.5E-12 2.1E-16 98.3 4.9 60 133-195 16-91 (193)
9 PF13923 zf-C3HC4_2: Zinc fing 99.2 6.7E-12 1.4E-16 74.8 3.0 39 138-178 1-39 (39)
10 KOG0317 Predicted E3 ubiquitin 99.2 7.1E-12 1.5E-16 103.6 4.0 59 130-191 234-292 (293)
11 PF13920 zf-C3HC4_3: Zinc fing 99.2 8.9E-12 1.9E-16 78.3 3.5 47 134-183 1-48 (50)
12 COG5540 RING-finger-containing 99.2 1.7E-11 3.7E-16 101.8 3.6 51 133-183 321-372 (374)
13 cd00162 RING RING-finger (Real 99.1 6.6E-11 1.4E-15 71.5 3.7 44 137-182 1-45 (45)
14 KOG0320 Predicted E3 ubiquitin 99.1 6.8E-11 1.5E-15 91.5 3.3 56 132-188 128-183 (187)
15 PF15227 zf-C3HC4_4: zinc fing 99.1 1.3E-10 2.8E-15 70.3 3.5 38 138-178 1-42 (42)
16 PF14634 zf-RING_5: zinc-RING 99.0 2.4E-10 5.1E-15 69.9 3.5 44 137-180 1-44 (44)
17 PF00097 zf-C3HC4: Zinc finger 99.0 2.4E-10 5.3E-15 68.6 3.2 39 138-178 1-41 (41)
18 smart00504 Ubox Modified RING 99.0 4.2E-10 9.1E-15 73.6 4.5 51 136-189 2-52 (63)
19 COG5194 APC11 Component of SCF 99.0 2.1E-10 4.6E-15 77.2 2.9 55 132-186 17-84 (88)
20 PHA02926 zinc finger-like prot 99.0 3.5E-10 7.5E-15 90.6 3.6 57 131-187 166-234 (242)
21 KOG0802 E3 ubiquitin ligase [P 98.9 7.6E-10 1.7E-14 101.3 2.7 54 133-186 289-344 (543)
22 smart00184 RING Ring finger. E 98.9 2.3E-09 4.9E-14 62.4 3.4 38 138-178 1-39 (39)
23 TIGR00599 rad18 DNA repair pro 98.8 2.2E-09 4.8E-14 93.9 3.8 53 132-187 23-75 (397)
24 KOG2930 SCF ubiquitin ligase, 98.8 2.6E-09 5.7E-14 75.4 1.4 69 118-186 26-111 (114)
25 KOG1493 Anaphase-promoting com 98.7 1.9E-09 4.2E-14 72.0 -0.4 53 133-185 18-83 (84)
26 KOG2164 Predicted E3 ubiquitin 98.7 1E-08 2.2E-13 90.9 2.7 58 135-195 186-248 (513)
27 PF13445 zf-RING_UBOX: RING-ty 98.6 3.5E-08 7.6E-13 59.8 3.0 34 138-172 1-35 (43)
28 COG5574 PEX10 RING-finger-cont 98.6 3.2E-08 6.8E-13 81.2 2.4 52 133-187 213-266 (271)
29 PF04564 U-box: U-box domain; 98.6 6.2E-08 1.3E-12 65.6 3.4 54 134-190 3-57 (73)
30 smart00744 RINGv The RING-vari 98.5 9.9E-08 2.1E-12 59.6 3.3 42 137-179 1-49 (49)
31 KOG0287 Postreplication repair 98.5 5.6E-08 1.2E-12 82.3 1.6 51 133-186 21-71 (442)
32 COG5432 RAD18 RING-finger-cont 98.4 1.1E-07 2.3E-12 79.1 2.2 51 133-186 23-73 (391)
33 KOG0828 Predicted E3 ubiquitin 98.4 1.2E-07 2.5E-12 83.8 2.0 51 133-183 569-634 (636)
34 TIGR00570 cdk7 CDK-activating 98.4 3.2E-07 6.9E-12 77.6 3.8 53 134-186 2-57 (309)
35 KOG2177 Predicted E3 ubiquitin 98.2 4.2E-07 9.1E-12 75.4 1.9 46 132-180 10-55 (386)
36 KOG0804 Cytoplasmic Zn-finger 98.2 2.4E-07 5.2E-12 81.0 -0.5 49 133-183 173-222 (493)
37 PF14835 zf-RING_6: zf-RING of 98.2 2.5E-07 5.5E-12 60.2 -0.6 52 134-189 6-57 (65)
38 PF11793 FANCL_C: FANCL C-term 98.2 3E-07 6.4E-12 61.7 -0.4 51 135-185 2-68 (70)
39 KOG1039 Predicted E3 ubiquitin 98.0 2.5E-06 5.4E-11 73.6 2.1 53 133-185 159-223 (344)
40 KOG1734 Predicted RING-contain 98.0 2.3E-06 5E-11 70.6 1.0 56 131-186 220-284 (328)
41 KOG4265 Predicted E3 ubiquitin 97.9 6.4E-06 1.4E-10 70.5 3.1 49 133-184 288-337 (349)
42 COG5219 Uncharacterized conser 97.9 4E-06 8.6E-11 79.2 1.9 55 130-184 1464-1524(1525)
43 KOG0825 PHD Zn-finger protein 97.9 2.8E-06 6E-11 78.8 0.2 62 133-194 121-182 (1134)
44 KOG0824 Predicted E3 ubiquitin 97.9 4.9E-06 1.1E-10 69.6 1.5 51 134-187 6-57 (324)
45 KOG4172 Predicted E3 ubiquitin 97.9 3.5E-06 7.5E-11 52.9 0.4 48 133-183 5-54 (62)
46 KOG0311 Predicted E3 ubiquitin 97.9 1.3E-06 2.9E-11 74.4 -1.9 56 133-190 41-97 (381)
47 KOG0978 E3 ubiquitin ligase in 97.9 4.1E-06 8.9E-11 77.7 1.1 54 134-190 642-696 (698)
48 KOG1645 RING-finger-containing 97.8 9.1E-06 2E-10 70.6 1.7 56 134-189 3-62 (463)
49 KOG0827 Predicted E3 ubiquitin 97.8 1.3E-05 2.9E-10 69.1 2.4 47 136-182 5-55 (465)
50 PF11789 zf-Nse: Zinc-finger o 97.7 1.9E-05 4.1E-10 50.8 2.2 43 133-177 9-53 (57)
51 KOG2660 Locus-specific chromos 97.7 3E-06 6.5E-11 71.7 -2.1 52 133-186 13-64 (331)
52 KOG4445 Uncharacterized conser 97.7 9.9E-06 2.1E-10 67.8 0.7 53 133-185 113-188 (368)
53 KOG0297 TNF receptor-associate 97.5 5.2E-05 1.1E-09 66.9 1.7 54 133-188 19-72 (391)
54 KOG4159 Predicted E3 ubiquitin 97.4 9.1E-05 2E-09 65.2 2.3 49 133-184 82-130 (398)
55 KOG1428 Inhibitor of type V ad 97.4 0.00011 2.5E-09 72.2 3.1 54 131-184 3482-3545(3738)
56 KOG1785 Tyrosine kinase negati 97.4 8.4E-05 1.8E-09 64.6 1.9 55 134-191 368-424 (563)
57 KOG4692 Predicted E3 ubiquitin 97.3 0.00037 8E-09 59.8 5.1 49 132-183 419-467 (489)
58 COG5152 Uncharacterized conser 97.3 0.00011 2.4E-09 58.2 1.7 48 133-183 194-241 (259)
59 PF12906 RINGv: RING-variant d 97.3 0.00016 3.5E-09 44.6 1.8 40 138-178 1-47 (47)
60 PHA02862 5L protein; Provision 97.2 0.00021 4.6E-09 53.9 2.6 48 135-186 2-56 (156)
61 KOG2879 Predicted E3 ubiquitin 97.2 0.00035 7.6E-09 58.0 3.6 52 130-183 234-287 (298)
62 KOG1941 Acetylcholine receptor 97.1 0.00015 3.3E-09 62.9 0.7 50 131-180 361-413 (518)
63 PF04641 Rtf2: Rtf2 RING-finge 97.1 0.00084 1.8E-08 56.2 4.8 63 132-195 110-173 (260)
64 PHA02825 LAP/PHD finger-like p 97.1 0.00052 1.1E-08 52.7 3.1 51 131-185 4-61 (162)
65 PF05883 Baculo_RING: Baculovi 96.9 0.00038 8.3E-09 52.1 1.4 36 134-169 25-66 (134)
66 KOG1813 Predicted E3 ubiquitin 96.9 0.00032 7E-09 58.8 0.9 48 133-183 239-286 (313)
67 KOG4275 Predicted E3 ubiquitin 96.8 0.00027 5.9E-09 59.1 -0.4 44 134-184 299-343 (350)
68 KOG1002 Nucleotide excision re 96.7 0.00061 1.3E-08 61.3 1.4 55 130-187 531-590 (791)
69 KOG3039 Uncharacterized conser 96.7 0.0018 3.9E-08 53.1 3.9 60 133-192 219-279 (303)
70 KOG1952 Transcription factor N 96.7 0.0015 3.4E-08 61.6 3.8 52 130-181 186-245 (950)
71 KOG1571 Predicted E3 ubiquitin 96.4 0.0025 5.4E-08 54.9 2.6 46 132-183 302-347 (355)
72 KOG3970 Predicted E3 ubiquitin 96.3 0.0034 7.3E-08 50.9 3.2 53 132-185 47-107 (299)
73 PF14570 zf-RING_4: RING/Ubox 96.3 0.0038 8.3E-08 38.5 2.7 45 138-182 1-47 (48)
74 KOG1814 Predicted E3 ubiquitin 96.3 0.0024 5.2E-08 55.9 2.5 38 133-170 182-219 (445)
75 PHA03096 p28-like protein; Pro 96.2 0.0024 5.2E-08 54.0 1.8 45 136-180 179-231 (284)
76 PF10367 Vps39_2: Vacuolar sor 96.2 0.0019 4.1E-08 46.2 1.0 35 132-167 75-109 (109)
77 COG5236 Uncharacterized conser 96.1 0.0077 1.7E-07 51.8 4.2 61 130-196 56-118 (493)
78 COG5222 Uncharacterized conser 95.9 0.0042 9E-08 52.4 1.9 50 136-187 275-326 (427)
79 COG5175 MOT2 Transcriptional r 95.9 0.0048 1.1E-07 52.8 2.3 64 130-193 9-74 (480)
80 KOG4739 Uncharacterized protei 95.8 0.0033 7.2E-08 51.4 0.9 47 137-186 5-51 (233)
81 KOG0826 Predicted E3 ubiquitin 95.8 0.0093 2E-07 50.9 3.5 59 130-190 295-353 (357)
82 COG5183 SSM4 Protein involved 95.7 0.0087 1.9E-07 56.5 3.2 61 133-194 10-77 (1175)
83 KOG2114 Vacuolar assembly/sort 95.5 0.005 1.1E-07 58.3 0.9 44 134-182 839-882 (933)
84 PF07800 DUF1644: Protein of u 95.3 0.02 4.3E-07 44.1 3.4 34 134-170 1-47 (162)
85 PF14447 Prok-RING_4: Prokaryo 95.3 0.0092 2E-07 37.7 1.3 49 134-187 6-54 (55)
86 KOG1940 Zn-finger protein [Gen 95.1 0.012 2.7E-07 49.3 2.0 46 135-180 158-204 (276)
87 PF03854 zf-P11: P-11 zinc fin 95.0 0.0092 2E-07 36.5 0.6 34 152-185 14-48 (50)
88 KOG4185 Predicted E3 ubiquitin 94.9 0.021 4.5E-07 48.4 2.8 47 136-182 4-54 (296)
89 KOG3268 Predicted E3 ubiquitin 94.6 0.028 6E-07 44.1 2.6 54 131-184 161-229 (234)
90 KOG1001 Helicase-like transcri 94.5 0.011 2.4E-07 55.7 0.3 50 136-189 455-506 (674)
91 PF08746 zf-RING-like: RING-li 94.4 0.021 4.6E-07 34.4 1.2 41 138-178 1-43 (43)
92 KOG3053 Uncharacterized conser 93.8 0.029 6.2E-07 46.4 1.2 55 130-184 15-83 (293)
93 KOG2034 Vacuolar sorting prote 93.7 0.029 6.3E-07 53.6 1.3 48 122-170 803-851 (911)
94 KOG0801 Predicted E3 ubiquitin 93.2 0.03 6.5E-07 43.3 0.4 30 133-162 175-204 (205)
95 KOG1609 Protein involved in mR 92.8 0.076 1.6E-06 45.0 2.4 52 134-185 77-136 (323)
96 KOG0298 DEAD box-containing he 92.6 0.03 6.6E-07 55.4 -0.3 45 134-180 1152-1196(1394)
97 PF10272 Tmpp129: Putative tra 92.3 0.21 4.5E-06 43.7 4.5 55 131-187 267-355 (358)
98 KOG2932 E3 ubiquitin ligase in 92.3 0.062 1.3E-06 45.7 1.2 45 135-183 90-134 (389)
99 PF02891 zf-MIZ: MIZ/SP-RING z 91.3 0.26 5.7E-06 30.6 2.9 43 136-181 3-50 (50)
100 KOG3800 Predicted E3 ubiquitin 90.8 0.24 5.1E-06 41.8 3.1 50 137-186 2-54 (300)
101 COG5220 TFB3 Cdk activating ki 90.8 0.082 1.8E-06 43.4 0.4 52 134-185 9-66 (314)
102 KOG4367 Predicted Zn-finger pr 90.7 0.15 3.3E-06 45.4 1.9 36 133-171 2-37 (699)
103 KOG1812 Predicted E3 ubiquitin 90.3 0.12 2.7E-06 45.6 1.0 38 134-171 145-183 (384)
104 KOG3113 Uncharacterized conser 89.3 0.31 6.6E-06 40.4 2.5 64 132-197 108-172 (293)
105 KOG0827 Predicted E3 ubiquitin 89.0 0.023 4.9E-07 49.6 -4.4 54 134-187 195-249 (465)
106 KOG3161 Predicted E3 ubiquitin 88.5 0.18 3.9E-06 46.9 0.8 40 134-176 10-51 (861)
107 KOG4362 Transcriptional regula 88.4 0.12 2.6E-06 48.5 -0.4 51 133-186 19-72 (684)
108 KOG2817 Predicted E3 ubiquitin 87.9 0.49 1.1E-05 41.6 3.1 47 134-180 333-382 (394)
109 KOG3899 Uncharacterized conser 87.1 0.37 8.1E-06 40.7 1.8 33 156-188 325-370 (381)
110 KOG3002 Zn finger protein [Gen 86.3 0.57 1.2E-05 40.1 2.5 44 133-183 46-91 (299)
111 KOG1100 Predicted E3 ubiquitin 85.9 0.38 8.2E-06 38.9 1.2 39 138-183 161-200 (207)
112 PF05290 Baculo_IE-1: Baculovi 85.8 0.66 1.4E-05 34.8 2.3 53 134-186 79-135 (140)
113 KOG1815 Predicted E3 ubiquitin 83.7 0.56 1.2E-05 42.3 1.4 59 133-193 68-136 (444)
114 KOG0309 Conserved WD40 repeat- 83.6 0.72 1.6E-05 43.8 2.1 26 152-177 1044-1069(1081)
115 KOG0825 PHD Zn-finger protein 79.0 0.97 2.1E-05 43.2 1.2 53 133-185 94-156 (1134)
116 PF07975 C1_4: TFIIH C1-like d 78.9 1.4 3E-05 27.5 1.5 42 138-179 2-50 (51)
117 PF14446 Prok-RING_1: Prokaryo 76.8 4 8.7E-05 25.8 3.2 45 134-182 4-51 (54)
118 KOG0802 E3 ubiquitin ligase [P 76.4 1.6 3.6E-05 40.3 2.0 52 131-189 475-526 (543)
119 KOG3039 Uncharacterized conser 75.8 2.6 5.6E-05 35.0 2.7 38 130-170 38-75 (303)
120 KOG4718 Non-SMC (structural ma 75.0 1.7 3.8E-05 35.1 1.5 45 134-180 180-224 (235)
121 KOG2066 Vacuolar assembly/sort 73.8 1.2 2.5E-05 42.5 0.3 45 134-179 783-831 (846)
122 KOG1829 Uncharacterized conser 71.9 1.6 3.5E-05 40.5 0.7 45 133-180 509-558 (580)
123 COG5109 Uncharacterized conser 71.7 3.1 6.6E-05 35.8 2.3 47 134-180 335-384 (396)
124 KOG2068 MOT2 transcription fac 70.0 3.7 8.1E-05 35.4 2.5 51 135-185 249-300 (327)
125 KOG3005 GIY-YIG type nuclease 70.0 1.8 4E-05 36.2 0.6 56 134-189 181-249 (276)
126 smart00249 PHD PHD zinc finger 68.2 3.4 7.3E-05 23.9 1.4 31 137-167 1-31 (47)
127 PF13901 DUF4206: Domain of un 65.4 4.9 0.00011 32.3 2.2 42 134-180 151-197 (202)
128 KOG0269 WD40 repeat-containing 64.4 5 0.00011 38.3 2.3 40 137-177 781-820 (839)
129 TIGR00622 ssl1 transcription f 62.0 6.6 0.00014 28.6 2.1 44 136-179 56-110 (112)
130 KOG1812 Predicted E3 ubiquitin 61.9 4.5 9.9E-05 35.8 1.5 44 134-178 305-351 (384)
131 PF04710 Pellino: Pellino; In 61.6 2.6 5.7E-05 37.2 0.0 49 134-185 276-341 (416)
132 KOG2807 RNA polymerase II tran 61.3 7.1 0.00015 33.8 2.5 46 134-179 329-374 (378)
133 KOG3579 Predicted E3 ubiquitin 60.9 4.1 9E-05 34.5 1.0 37 133-172 266-306 (352)
134 PF07191 zinc-ribbons_6: zinc- 60.9 0.61 1.3E-05 31.0 -3.1 41 136-184 2-42 (70)
135 PF00412 LIM: LIM domain; Int 60.1 4.5 9.8E-05 25.0 0.9 40 138-186 1-40 (58)
136 PF00628 PHD: PHD-finger; Int 60.0 3.7 8.1E-05 24.9 0.5 43 137-179 1-49 (51)
137 smart00132 LIM Zinc-binding do 58.3 7.4 0.00016 21.5 1.5 36 138-182 2-37 (39)
138 PF06844 DUF1244: Protein of u 57.0 6.9 0.00015 25.7 1.3 12 159-170 11-22 (68)
139 PF14353 CpXC: CpXC protein 56.8 14 0.00031 27.0 3.3 57 136-195 2-61 (128)
140 COG5627 MMS21 DNA repair prote 53.6 6.3 0.00014 32.5 0.9 50 133-184 187-240 (275)
141 KOG0824 Predicted E3 ubiquitin 47.4 5.5 0.00012 34.0 -0.3 48 133-182 103-150 (324)
142 PF14569 zf-UDP: Zinc-binding 46.6 40 0.00087 22.9 3.8 51 134-184 8-63 (80)
143 PF14169 YdjO: Cold-inducible 46.2 12 0.00026 24.1 1.1 17 172-188 39-55 (59)
144 KOG2979 Protein involved in DN 45.9 12 0.00026 31.2 1.4 43 134-178 175-219 (262)
145 KOG2071 mRNA cleavage and poly 44.9 11 0.00023 35.2 1.0 36 133-169 511-557 (579)
146 PF06906 DUF1272: Protein of u 43.3 24 0.00051 22.5 2.1 47 137-186 7-55 (57)
147 PF01363 FYVE: FYVE zinc finge 42.2 11 0.00023 24.4 0.5 37 133-169 7-44 (69)
148 KOG3842 Adaptor protein Pellin 41.9 28 0.0006 30.1 3.0 53 132-184 338-415 (429)
149 PLN02189 cellulose synthase 40.0 32 0.0007 34.4 3.6 50 134-183 33-87 (1040)
150 PF10571 UPF0547: Uncharacteri 39.9 17 0.00036 19.3 0.9 8 138-145 3-10 (26)
151 PF07649 C1_3: C1-like domain; 39.1 24 0.00053 18.9 1.6 29 137-165 2-30 (30)
152 PF04423 Rad50_zn_hook: Rad50 38.7 11 0.00024 23.4 0.1 13 174-186 22-34 (54)
153 PF13832 zf-HC5HC2H_2: PHD-zin 38.6 18 0.00038 25.7 1.2 33 134-168 54-88 (110)
154 COG4847 Uncharacterized protei 37.2 28 0.0006 24.6 2.0 35 135-170 6-40 (103)
155 PF10497 zf-4CXXC_R1: Zinc-fin 36.4 22 0.00047 25.5 1.4 24 157-180 37-69 (105)
156 COG3813 Uncharacterized protei 36.2 28 0.00061 23.3 1.8 28 157-186 28-55 (84)
157 PF13771 zf-HC5HC2H: PHD-like 35.6 22 0.00048 24.1 1.3 34 134-167 35-68 (90)
158 cd00065 FYVE FYVE domain; Zinc 35.1 29 0.00063 21.3 1.7 35 136-170 3-38 (57)
159 KOG1729 FYVE finger containing 34.0 7.1 0.00015 33.2 -1.7 39 134-172 213-251 (288)
160 KOG4577 Transcription factor L 33.6 11 0.00024 32.0 -0.5 53 134-195 91-143 (383)
161 smart00064 FYVE Protein presen 33.4 40 0.00086 21.6 2.2 36 135-170 10-46 (68)
162 PF13717 zinc_ribbon_4: zinc-r 31.6 33 0.00072 19.5 1.4 11 137-147 4-14 (36)
163 PF13719 zinc_ribbon_5: zinc-r 31.1 35 0.00076 19.4 1.4 10 137-146 4-13 (37)
164 KOG4185 Predicted E3 ubiquitin 31.1 8.2 0.00018 32.5 -1.8 48 134-181 206-265 (296)
165 PF10235 Cript: Microtubule-as 31.0 24 0.00053 24.7 0.9 39 135-185 44-82 (90)
166 PF02318 FYVE_2: FYVE-type zin 30.7 31 0.00067 25.1 1.4 46 134-180 53-102 (118)
167 KOG2231 Predicted E3 ubiquitin 29.4 40 0.00086 32.1 2.2 45 137-184 2-53 (669)
168 COG3492 Uncharacterized protei 29.1 30 0.00065 24.2 1.1 13 159-171 42-54 (104)
169 smart00647 IBR In Between Ring 28.2 15 0.00033 22.9 -0.5 19 150-168 39-58 (64)
170 KOG1245 Chromatin remodeling c 27.9 23 0.00049 36.7 0.4 53 130-182 1103-1159(1404)
171 cd00350 rubredoxin_like Rubred 27.9 50 0.0011 18.2 1.7 9 172-180 17-25 (33)
172 smart00734 ZnF_Rad18 Rad18-lik 26.9 30 0.00066 18.2 0.6 10 173-182 2-11 (26)
173 KOG1815 Predicted E3 ubiquitin 26.7 18 0.0004 32.5 -0.4 37 135-171 226-267 (444)
174 COG2824 PhnA Uncharacterized Z 25.4 27 0.00059 25.2 0.3 29 136-170 4-32 (112)
175 PF04216 FdhE: Protein involve 25.3 9.7 0.00021 32.2 -2.4 47 133-181 170-220 (290)
176 PLN02400 cellulose synthase 25.1 66 0.0014 32.4 3.0 50 134-183 35-89 (1085)
177 PRK11827 hypothetical protein; 23.1 29 0.00062 22.4 0.1 19 167-185 3-21 (60)
178 PLN02436 cellulose synthase A 22.8 96 0.0021 31.3 3.5 50 134-183 35-89 (1094)
179 KOG2169 Zn-finger transcriptio 22.7 94 0.002 29.5 3.4 46 136-188 307-361 (636)
180 PF14311 DUF4379: Domain of un 22.7 54 0.0012 20.2 1.3 9 170-178 47-55 (55)
181 KOG3799 Rab3 effector RIM1 and 22.3 22 0.00048 26.8 -0.6 45 131-181 61-116 (169)
182 PRK11088 rrmA 23S rRNA methylt 22.2 63 0.0014 26.7 2.0 25 136-160 3-27 (272)
183 PF09889 DUF2116: Uncharacteri 22.1 50 0.0011 21.2 1.1 15 171-185 2-16 (59)
184 PF11809 DUF3330: Domain of un 21.9 28 0.00061 22.9 -0.1 37 134-172 10-51 (70)
185 PF09943 DUF2175: Uncharacteri 21.4 81 0.0018 22.5 2.1 34 136-170 3-36 (101)
186 PF12773 DZR: Double zinc ribb 21.3 74 0.0016 18.9 1.7 12 172-183 29-40 (50)
187 PHA03328 nuclear egress lamina 20.9 48 0.001 28.5 1.0 11 1-11 119-131 (316)
188 PF09723 Zn-ribbon_8: Zinc rib 20.5 18 0.00039 21.2 -1.2 27 153-180 8-34 (42)
189 PF02718 Herpes_UL31: Herpesvi 20.4 58 0.0013 27.3 1.4 12 159-170 183-194 (258)
190 PLN02638 cellulose synthase A 20.3 1.1E+02 0.0023 31.0 3.3 50 134-183 16-70 (1079)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.59 E-value=3.8e-16 Score=95.75 Aligned_cols=44 Identities=50% Similarity=1.158 Sum_probs=39.7
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccc
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (201)
+.|+||++.+...+.++.++|+|.||.+||.+|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 46999999998888888999999999999999999999999997
No 2
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.45 E-value=6.2e-14 Score=95.11 Aligned_cols=48 Identities=35% Similarity=0.950 Sum_probs=38.2
Q ss_pred CCCcccccccccccCC----------CCCeEEcCCCCcccHHHHHHHHhcCCCCcccc
Q 028970 132 SEEEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~----------~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (201)
...++.|+||++.+.. .-.+.+.+|+|.||..||.+||+.+.+||+||
T Consensus 16 ~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 16 DIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3445569999999922 23456679999999999999999999999997
No 3
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=6.7e-14 Score=119.46 Aligned_cols=53 Identities=38% Similarity=0.872 Sum_probs=47.1
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCC-CCcccccccccccee
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE-SCPICDQDAVFRYVI 188 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~-~CP~Cr~~~~~~~~~ 188 (201)
+.|.||||+|..++.+++|||+|.||..||..||.+.. .||+||+.+......
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~ 283 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGS 283 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCC
Confidence 58999999999999999999999999999999998765 699999987655433
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.27 E-value=3.6e-12 Score=104.37 Aligned_cols=52 Identities=25% Similarity=0.797 Sum_probs=42.6
Q ss_pred CCcccccccccccCCCC-----CeEEcCCCCcccHHHHHHHHhcCCCCccccccccc
Q 028970 133 EEEDTCPICLEEYDTEN-----PKLITKCEHHFHLSCILEWNERSESCPICDQDAVF 184 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~-----~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (201)
..+..|+||++.+.... -.++++|+|.||..||.+|++.+.+||+||..+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 35678999999973322 13567899999999999999999999999998764
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=4e-12 Score=108.12 Aligned_cols=57 Identities=32% Similarity=0.821 Sum_probs=46.3
Q ss_pred CCCccccccccccc-CCC---------CCeEEcCCCCcccHHHHHHHHhcCCCCcccccccccccee
Q 028970 132 SEEEDTCPICLEEY-DTE---------NPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVI 188 (201)
Q Consensus 132 ~~~~~~C~ICle~~-~~~---------~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (201)
...+..|.||+++. .++ .....+||||+||.+|++.|++++++||+||.++.+|..-
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS 350 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence 35677899999994 322 1125699999999999999999999999999998777544
No 6
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.24 E-value=6.3e-12 Score=86.54 Aligned_cols=52 Identities=38% Similarity=0.969 Sum_probs=43.1
Q ss_pred CcccccccccccCC----------CCCeEEcCCCCcccHHHHHHHHhc---CCCCcccccccccc
Q 028970 134 EEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNER---SESCPICDQDAVFR 185 (201)
Q Consensus 134 ~~~~C~ICle~~~~----------~~~~~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~ 185 (201)
+++.|.||...|+. .-+++.-.|+|.||..||.+|+.. +..||+||+++.++
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 47789999999953 235567789999999999999985 46999999998764
No 7
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=7.6e-12 Score=100.58 Aligned_cols=62 Identities=26% Similarity=0.666 Sum_probs=54.0
Q ss_pred cCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCccccccccccceeeccCCCc
Q 028970 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQDAVFRYVIVATDHSK 195 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~~~~~~~~~~~ 195 (201)
.......|-|||+.- .++ +++.|||.||+-||.+|++. ++.||+||..+..++++.++.+..
T Consensus 43 ~~~~~FdCNICLd~a--kdP-VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~ 107 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLA--KDP-VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGS 107 (230)
T ss_pred CCCCceeeeeecccc--CCC-EEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCC
Confidence 346777899999998 666 66999999999999999974 558999999999999999988776
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.23 E-value=9.5e-12 Score=98.25 Aligned_cols=60 Identities=27% Similarity=0.704 Sum_probs=49.6
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc----------------CCCCccccccccccceeeccCCCc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER----------------SESCPICDQDAVFRYVIVATDHSK 195 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~----------------~~~CP~Cr~~~~~~~~~~~~~~~~ 195 (201)
.++..|+||++.+ .++ ++++|||.||..||.+|+.. ...||+||..+...++..+.....
T Consensus 16 ~~~~~CpICld~~--~dP-VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg~ 91 (193)
T PLN03208 16 GGDFDCNICLDQV--RDP-VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRGQ 91 (193)
T ss_pred CCccCCccCCCcC--CCc-EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccCC
Confidence 3567899999998 555 66999999999999999852 248999999999888888776654
No 9
>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=99.23 E-value=6.7e-12 Score=74.79 Aligned_cols=39 Identities=44% Similarity=1.161 Sum_probs=34.2
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccc
Q 028970 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPIC 178 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~C 178 (201)
|+||++.+ .++++.++|||.||..||.+|++....||+|
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 6676889999999999999999998899998
No 10
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=7.1e-12 Score=103.58 Aligned_cols=59 Identities=37% Similarity=0.774 Sum_probs=51.1
Q ss_pred ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccceeecc
Q 028970 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIVAT 191 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~ 191 (201)
...+....|.|||+.. .++ ..+||||+||+.||.+|...+..||+||..+...+++.+.
T Consensus 234 ~i~~a~~kC~LCLe~~--~~p-SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi~Lr 292 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENR--SNP-SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVICLR 292 (293)
T ss_pred cCCCCCCceEEEecCC--CCC-CcCcCcchHHHHHHHHHHccccCCCcccccCCCcceeeec
Confidence 5567778999999998 555 6699999999999999999999999999999888776543
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.22 E-value=8.9e-12 Score=78.29 Aligned_cols=47 Identities=34% Similarity=0.786 Sum_probs=39.9
Q ss_pred CcccccccccccCCCCCeEEcCCCCc-ccHHHHHHHHhcCCCCcccccccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHH-FHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~-Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
++..|.||++.. ..+++++|||. ||..|+.+|++....||+||+++.
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 356799999997 45688999999 999999999999999999999875
No 12
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.7e-11 Score=101.81 Aligned_cols=51 Identities=25% Similarity=0.784 Sum_probs=45.6
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHh-cCCCCcccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPICDQDAV 183 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~~ 183 (201)
...-+|.|||+.|...+.++++||.|.||..||.+|+. .+..||+||.++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 45567999999997778889999999999999999998 6789999999875
No 13
>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=99.12 E-value=6.6e-11 Score=71.47 Aligned_cols=44 Identities=41% Similarity=1.060 Sum_probs=38.1
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCccccccc
Q 028970 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQDA 182 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~ 182 (201)
.|+||++.+ .+.+.+++|+|.||..|+..|++. ...||+||+.+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 566666779999999999999987 77899998764
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=6.8e-11 Score=91.47 Aligned_cols=56 Identities=30% Similarity=0.684 Sum_probs=45.7
Q ss_pred CCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccccccee
Q 028970 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVI 188 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (201)
.+....|+|||+.+....+ +-++|||+||..||+..++....||+|++.|......
T Consensus 128 ~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFH 183 (187)
T ss_pred cccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhhhe
Confidence 3455789999999933333 5599999999999999999999999999977665443
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.07 E-value=1.3e-10 Score=70.34 Aligned_cols=38 Identities=39% Similarity=0.970 Sum_probs=29.2
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC----CCCccc
Q 028970 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERS----ESCPIC 178 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~----~~CP~C 178 (201)
|+||++.| .++ +.++|||.||..||.+|++.. ..||+|
T Consensus 1 CpiC~~~~--~~P-v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF--KDP-VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB---SSE-EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh--CCc-cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 566 669999999999999999764 369987
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.03 E-value=2.4e-10 Score=69.87 Aligned_cols=44 Identities=36% Similarity=0.875 Sum_probs=38.9
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
.|+||++.|.......+++|||+||..||..+......||+||+
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 49999999966666788999999999999999967779999985
No 17
>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=99.02 E-value=2.4e-10 Score=68.55 Aligned_cols=39 Identities=46% Similarity=1.226 Sum_probs=34.4
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHh--cCCCCccc
Q 028970 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNE--RSESCPIC 178 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~--~~~~CP~C 178 (201)
|+||++.+ .++..+++|+|.||..||.+|++ ....||+|
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 56655899999999999999998 56699987
No 18
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.01 E-value=4.2e-10 Score=73.63 Aligned_cols=51 Identities=24% Similarity=0.407 Sum_probs=44.0
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccceee
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIV 189 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~ 189 (201)
..|+||++.+ .++ ++++|||.|+..||.+|++...+||+|++.+..+++..
T Consensus 2 ~~Cpi~~~~~--~~P-v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~ 52 (63)
T smart00504 2 FLCPISLEVM--KDP-VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIP 52 (63)
T ss_pred cCCcCCCCcC--CCC-EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhcee
Confidence 5799999999 566 66899999999999999998889999999986665444
No 19
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.01 E-value=2.1e-10 Score=77.19 Aligned_cols=55 Identities=31% Similarity=0.604 Sum_probs=43.7
Q ss_pred CCCcccccccccccCC-------------CCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 132 SEEEDTCPICLEEYDT-------------ENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~-------------~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
...-+.|.||..-|.. +-+++.-.|.|.||..||.+||..+..||++|+.+...+
T Consensus 17 di~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 17 DIPIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred ccccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 3445789998877632 234566789999999999999999999999999887544
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=98.98 E-value=3.5e-10 Score=90.65 Aligned_cols=57 Identities=28% Similarity=0.658 Sum_probs=42.6
Q ss_pred cCCCcccccccccccCC----CC--CeEEcCCCCcccHHHHHHHHhcC------CCCccccccccccce
Q 028970 131 ASEEEDTCPICLEEYDT----EN--PKLITKCEHHFHLSCILEWNERS------ESCPICDQDAVFRYV 187 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~----~~--~~~~~~C~H~Fh~~CI~~Wl~~~------~~CP~Cr~~~~~~~~ 187 (201)
....+.+|+||||..-. .+ ..++.+|+|.||..||..|.+.+ .+||+||..+.+-..
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~p 234 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITM 234 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecc
Confidence 33566789999998621 11 23668999999999999999753 469999998765443
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=7.6e-10 Score=101.29 Aligned_cols=54 Identities=33% Similarity=0.675 Sum_probs=44.4
Q ss_pred CCcccccccccccCCCCC--eEEcCCCCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 133 EEEDTCPICLEEYDTENP--KLITKCEHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~--~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
..+..|+||+|.+..... ...++|+|+||..|++.|+++..+||+||..+....
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~ 344 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYV 344 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence 457889999999944322 467999999999999999999999999999554433
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.86 E-value=2.3e-09 Score=62.41 Aligned_cols=38 Identities=47% Similarity=1.176 Sum_probs=32.9
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHh-cCCCCccc
Q 028970 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPIC 178 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~-~~~~CP~C 178 (201)
|+||++.. ...+.++|+|.||..|+..|++ ....||+|
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 78999995 4557799999999999999998 56689987
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.83 E-value=2.2e-09 Score=93.91 Aligned_cols=53 Identities=25% Similarity=0.615 Sum_probs=45.2
Q ss_pred CCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccce
Q 028970 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYV 187 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~ 187 (201)
.+....|+||++.| .++ ++++|+|.||..||..|+.....||+||..+....+
T Consensus 23 Le~~l~C~IC~d~~--~~P-vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L 75 (397)
T TIGR00599 23 LDTSLRCHICKDFF--DVP-VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL 75 (397)
T ss_pred cccccCCCcCchhh--hCc-cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccC
Confidence 35677899999999 555 569999999999999999988899999998865543
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=2.6e-09 Score=75.38 Aligned_cols=69 Identities=28% Similarity=0.566 Sum_probs=51.7
Q ss_pred CCcchhhhcccc---ccCCCcccccccccccCC--------------CCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 118 PRKSEVSQLNVF---AASEEEDTCPICLEEYDT--------------ENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 118 ~~~~~~~k~~~~---~~~~~~~~C~ICle~~~~--------------~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
.+..+++|.... .-...-+.|.||..-+.. +-.+..-.|+|.||..||.+||+....||+|.+
T Consensus 26 ~krF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~ 105 (114)
T KOG2930|consen 26 KKRFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNK 105 (114)
T ss_pred CcceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCc
Confidence 455567776655 556678889999865411 123456689999999999999999999999998
Q ss_pred cccccc
Q 028970 181 DAVFRY 186 (201)
Q Consensus 181 ~~~~~~ 186 (201)
+..+.+
T Consensus 106 eW~~qr 111 (114)
T KOG2930|consen 106 EWVFQR 111 (114)
T ss_pred ceeEee
Confidence 876543
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=1.9e-09 Score=71.98 Aligned_cols=53 Identities=36% Similarity=0.866 Sum_probs=41.3
Q ss_pred CCcccccccccccCC----------CCCeEEcCCCCcccHHHHHHHHhc---CCCCcccccccccc
Q 028970 133 EEEDTCPICLEEYDT----------ENPKLITKCEHHFHLSCILEWNER---SESCPICDQDAVFR 185 (201)
Q Consensus 133 ~~~~~C~ICle~~~~----------~~~~~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~ 185 (201)
..++.|.||.-.|+. .-+.++-.|.|.||..||.+|+.. ...||+||+.+.+.
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 455589999999844 224455579999999999999974 34999999988654
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=1e-08 Score=90.88 Aligned_cols=58 Identities=34% Similarity=0.683 Sum_probs=46.9
Q ss_pred cccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC-----CCCccccccccccceeeccCCCc
Q 028970 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS-----ESCPICDQDAVFRYVIVATDHSK 195 (201)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~-----~~CP~Cr~~~~~~~~~~~~~~~~ 195 (201)
+..|||||+.. .-+ .++.|||+||..||..+|... ..||+|+..|-..++.++....+
T Consensus 186 ~~~CPICL~~~--~~p-~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~ 248 (513)
T KOG2164|consen 186 DMQCPICLEPP--SVP-VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDD 248 (513)
T ss_pred CCcCCcccCCC--Ccc-cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccc
Confidence 77899999998 333 567799999999999998754 49999999998877766655444
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.61 E-value=3.5e-08 Score=59.82 Aligned_cols=34 Identities=38% Similarity=0.965 Sum_probs=22.2
Q ss_pred cccccccc-CCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028970 138 CPICLEEY-DTENPKLITKCEHHFHLSCILEWNERS 172 (201)
Q Consensus 138 C~ICle~~-~~~~~~~~~~C~H~Fh~~CI~~Wl~~~ 172 (201)
|+||.+ | ...++.++|+|||.|+.+||.+|++..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 7 445556779999999999999999843
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=3.2e-08 Score=81.21 Aligned_cols=52 Identities=35% Similarity=0.722 Sum_probs=43.4
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHH-HHhcCC-CCccccccccccce
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILE-WNERSE-SCPICDQDAVFRYV 187 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~-Wl~~~~-~CP~Cr~~~~~~~~ 187 (201)
+.+..|.||++.. +....++|||+||..||.. |=+++. .||+||+.....+.
T Consensus 213 ~~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 5678899999998 4447799999999999999 887766 49999998766554
No 29
>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=98.55 E-value=6.2e-08 Score=65.55 Aligned_cols=54 Identities=28% Similarity=0.400 Sum_probs=41.5
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCccccccccccceeec
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQDAVFRYVIVA 190 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~~~~~~~~ 190 (201)
++..|+|+.+.+ .++ +++++||.|...+|.+|+.. ..+||+|++.+..+++..+
T Consensus 3 ~~f~CpIt~~lM--~dP-Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn 57 (73)
T PF04564_consen 3 DEFLCPITGELM--RDP-VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPN 57 (73)
T ss_dssp GGGB-TTTSSB---SSE-EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-
T ss_pred cccCCcCcCcHh--hCc-eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceEC
Confidence 467899999999 677 56899999999999999998 8899999999887766543
No 30
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.51 E-value=9.9e-08 Score=59.56 Aligned_cols=42 Identities=36% Similarity=0.944 Sum_probs=32.9
Q ss_pred cccccccccCCCCCeEEcCCC-----CcccHHHHHHHHhcC--CCCcccc
Q 028970 137 TCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNERS--ESCPICD 179 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~-----H~Fh~~CI~~Wl~~~--~~CP~Cr 179 (201)
.|.||++..+.+++ .+.||. |.||..|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~~~~~~~-l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDP-LVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCe-eEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999994434444 678995 899999999999654 4999995
No 31
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.46 E-value=5.6e-08 Score=82.27 Aligned_cols=51 Identities=29% Similarity=0.600 Sum_probs=43.6
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
+.-..|.||.+.| +..++++|+|.||..||..+|..+..||.|+..+..-.
T Consensus 21 D~lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 21 DDLLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceecccchhh
Confidence 4556799999999 44477999999999999999999999999998775443
No 32
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.42 E-value=1.1e-07 Score=79.08 Aligned_cols=51 Identities=27% Similarity=0.503 Sum_probs=43.7
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
+..+.|.||-+.| ..+ ..++|||.||..||.+.|..+..||+||.+..+..
T Consensus 23 Ds~lrC~IC~~~i--~ip-~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 23 DSMLRCRICDCRI--SIP-CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESR 73 (391)
T ss_pred hhHHHhhhhhhee--ecc-eecccccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence 4566899999999 444 77999999999999999999999999999776543
No 33
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.2e-07 Score=83.80 Aligned_cols=51 Identities=29% Similarity=0.788 Sum_probs=40.2
Q ss_pred CCcccccccccccCC--------------CCCeEEcCCCCcccHHHHHHHHh-cCCCCcccccccc
Q 028970 133 EEEDTCPICLEEYDT--------------ENPKLITKCEHHFHLSCILEWNE-RSESCPICDQDAV 183 (201)
Q Consensus 133 ~~~~~C~ICle~~~~--------------~~~~~~~~C~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~~ 183 (201)
+....|+|||..++- .....++||.|+||..|+.+||. .+-.||+||..+.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 455679999988732 11235689999999999999999 4559999999875
No 34
>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=98.36 E-value=3.2e-07 Score=77.65 Aligned_cols=53 Identities=25% Similarity=0.495 Sum_probs=38.8
Q ss_pred Ccccccccccc--cCCCCCeEEcCCCCcccHHHHHHHH-hcCCCCccccccccccc
Q 028970 134 EEDTCPICLEE--YDTENPKLITKCEHHFHLSCILEWN-ERSESCPICDQDAVFRY 186 (201)
Q Consensus 134 ~~~~C~ICle~--~~~~~~~~~~~C~H~Fh~~CI~~Wl-~~~~~CP~Cr~~~~~~~ 186 (201)
++..||||+.. +.+.-...+.+|||.||..||...| .....||+|+..+....
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 34579999995 3222222333799999999999966 44669999999887765
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=4.2e-07 Score=75.36 Aligned_cols=46 Identities=41% Similarity=0.913 Sum_probs=39.9
Q ss_pred CCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
.+++..|+||++.| ..+ .+++|+|.||..||..|+.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~--~~p-~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYF--REP-VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHh--hcC-ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 35778899999999 555 77999999999999999986669999993
No 36
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.20 E-value=2.4e-07 Score=81.00 Aligned_cols=49 Identities=41% Similarity=0.956 Sum_probs=40.2
Q ss_pred CCcccccccccccCCCC-CeEEcCCCCcccHHHHHHHHhcCCCCcccccccc
Q 028970 133 EEEDTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~-~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
.+-..||||||..+... .++.+.|.|.||..|+..|... +||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~--scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS--SCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC--cChhhhhhcC
Confidence 46667999999996653 3456789999999999999876 9999998654
No 37
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.18 E-value=2.5e-07 Score=60.21 Aligned_cols=52 Identities=31% Similarity=0.682 Sum_probs=26.3
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccceee
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIV 189 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~ 189 (201)
+-..|++|.+.+ .+++.+..|.|.||..||..-+.. .||+|+.+.-..+...
T Consensus 6 ~lLrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~~ 57 (65)
T PF14835_consen 6 ELLRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQI 57 (65)
T ss_dssp HTTS-SSS-S----SS-B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS---
T ss_pred HhcCCcHHHHHh--cCCceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHHh
Confidence 445799999999 788778999999999999886553 5999998876655443
No 38
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.17 E-value=3e-07 Score=61.73 Aligned_cols=51 Identities=31% Similarity=0.763 Sum_probs=25.0
Q ss_pred cccccccccccCCCC--CeEE---cCCCCcccHHHHHHHHhc---C--------CCCcccccccccc
Q 028970 135 EDTCPICLEEYDTEN--PKLI---TKCEHHFHLSCILEWNER---S--------ESCPICDQDAVFR 185 (201)
Q Consensus 135 ~~~C~ICle~~~~~~--~~~~---~~C~H~Fh~~CI~~Wl~~---~--------~~CP~Cr~~~~~~ 185 (201)
+..|.||+..+.... +.++ ..|++.||..||.+||.. . ..||.|+++|...
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 457999999874222 2222 368999999999999973 1 1699999987643
No 39
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=2.5e-06 Score=73.56 Aligned_cols=53 Identities=34% Similarity=0.874 Sum_probs=40.7
Q ss_pred CCcccccccccccCCCC-----CeEEcCCCCcccHHHHHHHH--hc-----CCCCcccccccccc
Q 028970 133 EEEDTCPICLEEYDTEN-----PKLITKCEHHFHLSCILEWN--ER-----SESCPICDQDAVFR 185 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~-----~~~~~~C~H~Fh~~CI~~Wl--~~-----~~~CP~Cr~~~~~~ 185 (201)
..+.+|.||++...... -.++.+|.|.||..||..|- .+ ++.||.||......
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 45778999999983322 22346799999999999998 44 57999999877544
No 40
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=2.3e-06 Score=70.56 Aligned_cols=56 Identities=23% Similarity=0.643 Sum_probs=43.4
Q ss_pred cCCCcccccccccccCCCC-------CeEEcCCCCcccHHHHHHHHh--cCCCCccccccccccc
Q 028970 131 ASEEEDTCPICLEEYDTEN-------PKLITKCEHHFHLSCILEWNE--RSESCPICDQDAVFRY 186 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~-------~~~~~~C~H~Fh~~CI~~Wl~--~~~~CP~Cr~~~~~~~ 186 (201)
...++..|.||-..++... +.-.+.|+|.||..||+-|-. .+.+||-|++.+....
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 3457778999998874432 456799999999999999964 5779999998765443
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=6.4e-06 Score=70.46 Aligned_cols=49 Identities=29% Similarity=0.633 Sum_probs=41.7
Q ss_pred CCcccccccccccCCCCCeEEcCCCC-cccHHHHHHHHhcCCCCccccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEH-HFHLSCILEWNERSESCPICDQDAVF 184 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H-~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (201)
+...+|.|||.+. ...+++||.| ..|..|.+...-+.+.||+||+.+..
T Consensus 288 ~~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 4467899999998 5558899999 78999999888788899999998754
No 42
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.93 E-value=4e-06 Score=79.22 Aligned_cols=55 Identities=25% Similarity=0.762 Sum_probs=40.9
Q ss_pred ccCCCcccccccccccCCCC----CeEEcCCCCcccHHHHHHHHhc--CCCCccccccccc
Q 028970 130 AASEEEDTCPICLEEYDTEN----PKLITKCEHHFHLSCILEWNER--SESCPICDQDAVF 184 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~----~~~~~~C~H~Fh~~CI~~Wl~~--~~~CP~Cr~~~~~ 184 (201)
...+.-.+|+||+..+..-+ ..+-..|.|.||..|+.+|+.. +.+||+||.++.+
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 34456667999998873211 1244669999999999999985 4599999988764
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.89 E-value=2.8e-06 Score=78.83 Aligned_cols=62 Identities=21% Similarity=0.440 Sum_probs=50.9
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccceeeccCCC
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIVATDHS 194 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~ 194 (201)
.....|+||+..+..+......+|+|.||..||..|-+...+||+||..+.....+..+...
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~~ 182 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGIE 182 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeeecccccc
Confidence 45567999999885554445578999999999999999999999999999887777666653
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=4.9e-06 Score=69.63 Aligned_cols=51 Identities=22% Similarity=0.411 Sum_probs=41.1
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCccccccccccce
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQDAVFRYV 187 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~~~~~ 187 (201)
...+|+||+... +..+.+.|+|.||..||+--.+. ..+|++||.+|..+-.
T Consensus 6 ~~~eC~IC~nt~---n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 6 KKKECLICYNTG---NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred cCCcceeeeccC---CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 455799999997 44477999999999999976655 5579999999876543
No 45
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=3.5e-06 Score=52.91 Aligned_cols=48 Identities=27% Similarity=0.632 Sum_probs=38.2
Q ss_pred CCcccccccccccCCCCCeEEcCCCC-cccHHHHHHHHh-cCCCCcccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEH-HFHLSCILEWNE-RSESCPICDQDAV 183 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H-~Fh~~CI~~Wl~-~~~~CP~Cr~~~~ 183 (201)
+..++|.||+|.. .+. ++-.||| .+|..|-.+.++ .+..||+||.++.
T Consensus 5 ~~~dECTICye~p--vds-VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 5 QWSDECTICYEHP--VDS-VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccccceeeeccCc--chH-HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3457899999987 444 5678999 688999887766 6779999999875
No 46
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=1.3e-06 Score=74.38 Aligned_cols=56 Identities=25% Similarity=0.598 Sum_probs=44.9
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCccccccccccceeec
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPICDQDAVFRYVIVA 190 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~~~~~~~~ 190 (201)
..+..|+|||+.+ ...+....|.|.||..||..-|.. .+.||.||+.+.....+..
T Consensus 41 ~~~v~c~icl~ll--k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~ 97 (381)
T KOG0311|consen 41 DIQVICPICLSLL--KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRI 97 (381)
T ss_pred hhhhccHHHHHHH--HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCC
Confidence 4667899999999 555455679999999999888865 6699999998877655443
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=4.1e-06 Score=77.68 Aligned_cols=54 Identities=30% Similarity=0.562 Sum_probs=45.8
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHh-cCCCCccccccccccceeec
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-RSESCPICDQDAVFRYVIVA 190 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~~~~~~~~~ 190 (201)
.-..|+.|-..+ ..+++++|+|.||..||..-+. +...||.|...|...+...+
T Consensus 642 ~~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I 696 (698)
T KOG0978|consen 642 ELLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRI 696 (698)
T ss_pred hceeCCCccCch---hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccccc
Confidence 556899999887 5557799999999999999885 57799999999988776654
No 48
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=9.1e-06 Score=70.56 Aligned_cols=56 Identities=34% Similarity=0.762 Sum_probs=43.0
Q ss_pred CcccccccccccCC--CCCeEEcCCCCcccHHHHHHHHhc--CCCCccccccccccceee
Q 028970 134 EEDTCPICLEEYDT--ENPKLITKCEHHFHLSCILEWNER--SESCPICDQDAVFRYVIV 189 (201)
Q Consensus 134 ~~~~C~ICle~~~~--~~~~~~~~C~H~Fh~~CI~~Wl~~--~~~CP~Cr~~~~~~~~~~ 189 (201)
....|+||++.+.. ...++.+.|||.|...||.+|+.. ...||.|.....+..+..
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~ 62 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRP 62 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHH
Confidence 45679999999933 334467899999999999999963 339999987766655443
No 49
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=1.3e-05 Score=69.14 Aligned_cols=47 Identities=34% Similarity=0.851 Sum_probs=34.1
Q ss_pred ccccccccccCCCCCeE-EcCCCCcccHHHHHHHHhc--C-CCCccccccc
Q 028970 136 DTCPICLEEYDTENPKL-ITKCEHHFHLSCILEWNER--S-ESCPICDQDA 182 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~-~~~C~H~Fh~~CI~~Wl~~--~-~~CP~Cr~~~ 182 (201)
..|.||.+-+.....+. +-.|||+||..|+..|+.. + ..||+|+-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 36999965553333333 3459999999999999985 3 4899998333
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.74 E-value=1.9e-05 Score=50.78 Aligned_cols=43 Identities=37% Similarity=0.796 Sum_probs=30.8
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCcc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--SESCPI 177 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~--~~~CP~ 177 (201)
.-...|||.+..| .++++-..|+|.|-...|.+|+++ ...||+
T Consensus 9 ~~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4556799999999 889888899999999999999943 459998
No 51
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.73 E-value=3e-06 Score=71.72 Aligned_cols=52 Identities=33% Similarity=0.574 Sum_probs=45.3
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
..-..|.+|-.+| .+...++.|-|.||.+||.+.|...+.||+|+..+....
T Consensus 13 n~~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 13 NPHITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred ccceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 3666899999999 666677899999999999999999999999998876654
No 52
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.71 E-value=9.9e-06 Score=67.80 Aligned_cols=53 Identities=23% Similarity=0.674 Sum_probs=44.0
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHh-----------------------cCCCCcccccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE-----------------------RSESCPICDQDAVFR 185 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~-----------------------~~~~CP~Cr~~~~~~ 185 (201)
-..-.|.|||.-|......++++|.|.||..|+.++|. ....||+||..|..+
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 45556999999998888889999999999999998765 123899999988655
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.46 E-value=5.2e-05 Score=66.94 Aligned_cols=54 Identities=31% Similarity=0.735 Sum_probs=45.3
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccccccee
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVI 188 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~ 188 (201)
+++..|+||...+ .+++..+.|||.||..||..|+..+..||.|+..+.....+
T Consensus 19 ~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 19 DENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred cccccCccccccc--cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 5667899999999 66644369999999999999999999999998887665544
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=9.1e-05 Score=65.24 Aligned_cols=49 Identities=29% Similarity=0.694 Sum_probs=42.8
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVF 184 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (201)
..+..|.||+..+ ..+ +.++|||.||..||.+-+.+...||.||.++..
T Consensus 82 ~sef~c~vc~~~l--~~p-v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRAL--YPP-VVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhc--CCC-ccccccccccHHHHHHHhccCCCCccccccccc
Confidence 4677899999998 555 668999999999999999989999999998874
No 55
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.38 E-value=0.00011 Score=72.20 Aligned_cols=54 Identities=33% Similarity=0.703 Sum_probs=44.7
Q ss_pred cCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC----------CCCccccccccc
Q 028970 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS----------ESCPICDQDAVF 184 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~----------~~CP~Cr~~~~~ 184 (201)
..+.++.|-||+.+--...+.+.+.|+|+||..|..+.|++. -+||+|+..|..
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 456788999999988777788889999999999999777642 199999988753
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.37 E-value=8.4e-05 Score=64.59 Aligned_cols=55 Identities=24% Similarity=0.600 Sum_probs=44.0
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCccccccccccceeecc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--SESCPICDQDAVFRYVIVAT 191 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~--~~~CP~Cr~~~~~~~~~~~~ 191 (201)
.-..|-||-|.- ..+.+-||||..|..|+..|-.. .++||.||.+|.-...+.+.
T Consensus 368 TFeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid 424 (563)
T KOG1785|consen 368 TFELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIID 424 (563)
T ss_pred hHHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccceeee
Confidence 344699998884 66677999999999999999854 46999999999766655543
No 57
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.00037 Score=59.81 Aligned_cols=49 Identities=22% Similarity=0.594 Sum_probs=42.6
Q ss_pred CCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccc
Q 028970 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
..+++.|+||+-.. ...+..||+|.-|..||.+.|...+.|=.|+..+.
T Consensus 419 ~sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 35778899998775 45578999999999999999999999999988765
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.30 E-value=0.00011 Score=58.22 Aligned_cols=48 Identities=27% Similarity=0.749 Sum_probs=40.7
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
.-...|.||...| ..+ +++.|||+||..|..+-++.-..|-+|.+...
T Consensus 194 ~IPF~C~iCKkdy--~sp-vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 194 KIPFLCGICKKDY--ESP-VVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred CCceeehhchhhc--cch-hhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 4556899999999 555 66999999999999998888889999987653
No 59
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.26 E-value=0.00016 Score=44.56 Aligned_cols=40 Identities=40% Similarity=1.010 Sum_probs=28.3
Q ss_pred ccccccccCCCCCeEEcCCC-----CcccHHHHHHHHhc--CCCCccc
Q 028970 138 CPICLEEYDTENPKLITKCE-----HHFHLSCILEWNER--SESCPIC 178 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~-----H~Fh~~CI~~Wl~~--~~~CP~C 178 (201)
|.||++.....++ .+.||. ...|..|+.+|+.. ..+|++|
T Consensus 1 CrIC~~~~~~~~~-li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEP-LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCc-eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 7899999855554 668886 48899999999974 5588887
No 60
>PHA02862 5L protein; Provisional
Probab=97.25 E-value=0.00021 Score=53.87 Aligned_cols=48 Identities=23% Similarity=0.596 Sum_probs=36.7
Q ss_pred cccccccccccCCCCCeEEcCCC-----CcccHHHHHHHHhc--CCCCccccccccccc
Q 028970 135 EDTCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNER--SESCPICDQDAVFRY 186 (201)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~~~C~-----H~Fh~~CI~~Wl~~--~~~CP~Cr~~~~~~~ 186 (201)
.+.|-||+++-+ +. .-||. ...|+.|+.+|+.. +..|++|+.++....
T Consensus 2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 457999999862 22 35664 68999999999975 449999999886543
No 61
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.00035 Score=57.98 Aligned_cols=52 Identities=29% Similarity=0.685 Sum_probs=43.2
Q ss_pred ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHh--cCCCCcccccccc
Q 028970 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE--RSESCPICDQDAV 183 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~--~~~~CP~Cr~~~~ 183 (201)
.....+.+|++|-+.. ..|.+..+|+|+||..||..-+. .+.+||.|..+..
T Consensus 234 s~~t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4456778899999987 77878889999999999998765 3579999987665
No 62
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.10 E-value=0.00015 Score=62.87 Aligned_cols=50 Identities=36% Similarity=0.666 Sum_probs=40.2
Q ss_pred cCCCcccccccccccCCCC-CeEEcCCCCcccHHHHHHHHhcCC--CCccccc
Q 028970 131 ASEEEDTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWNERSE--SCPICDQ 180 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~-~~~~~~C~H~Fh~~CI~~Wl~~~~--~CP~Cr~ 180 (201)
..+.+..|..|=+.+...+ ...-+||.|+||..|+.++|.+.. +||.||+
T Consensus 361 ~~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 361 VEETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3456778999999995443 335699999999999999997644 9999994
No 63
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.07 E-value=0.00084 Score=56.16 Aligned_cols=63 Identities=21% Similarity=0.434 Sum_probs=52.2
Q ss_pred CCCcccccccccccCCCCCe-EEcCCCCcccHHHHHHHHhcCCCCccccccccccceeeccCCCc
Q 028970 132 SEEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIVATDHSK 195 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~~ 195 (201)
......|||...++...... .+.+|||+|...+|.+.- ....||+|.+++...+++.++...+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~~e 173 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPPEE 173 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCCcc
Confidence 46788999999999544444 556999999999999973 4568999999999999999888776
No 64
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.05 E-value=0.00052 Score=52.69 Aligned_cols=51 Identities=31% Similarity=0.731 Sum_probs=38.4
Q ss_pred cCCCcccccccccccCCCCCeEEcCCC--C---cccHHHHHHHHhc--CCCCcccccccccc
Q 028970 131 ASEEEDTCPICLEEYDTENPKLITKCE--H---HFHLSCILEWNER--SESCPICDQDAVFR 185 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~~~C~--H---~Fh~~CI~~Wl~~--~~~CP~Cr~~~~~~ 185 (201)
....+..|-||.++.+. ...||. . ..|.+|+.+|+.. ...|++|++.+...
T Consensus 4 ~s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 4 VSLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred cCCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 44677889999988632 225665 3 6799999999975 44999999987654
No 65
>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=96.93 E-value=0.00038 Score=52.08 Aligned_cols=36 Identities=19% Similarity=0.483 Sum_probs=29.8
Q ss_pred CcccccccccccCCCCCeEEcCCC------CcccHHHHHHHH
Q 028970 134 EEDTCPICLEEYDTENPKLITKCE------HHFHLSCILEWN 169 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~------H~Fh~~CI~~Wl 169 (201)
-..+|.||++.+.....++...|+ |.||..|+.+|-
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 366899999999665566777786 899999999994
No 66
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.00032 Score=58.76 Aligned_cols=48 Identities=31% Similarity=0.625 Sum_probs=41.0
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
.-.+.|-||...| .++ +++.|+|.||..|...-++....|.+|.+.+.
T Consensus 239 ~~Pf~c~icr~~f--~~p-Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 239 LLPFKCFICRKYF--YRP-VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred cCCcccccccccc--ccc-hhhcCCceeehhhhccccccCCcceecccccc
Confidence 3445699999999 666 66999999999999999999899999988653
No 67
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.00027 Score=59.13 Aligned_cols=44 Identities=27% Similarity=0.580 Sum_probs=34.7
Q ss_pred CcccccccccccCCCCCeEEcCCCC-cccHHHHHHHHhcCCCCccccccccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEH-HFHLSCILEWNERSESCPICDQDAVF 184 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H-~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (201)
....|.||++.. ...++|+||| .-|.+|-++ ...||+||+-|..
T Consensus 299 ~~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi~r 343 (350)
T KOG4275|consen 299 TRRLCAICMDAP---RDCVFLECGHMVTCTKCGKR----MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHHhcCC---cceEEeecCcEEeehhhccc----cccCchHHHHHHH
Confidence 377899999997 5558899999 567888654 3489999997754
No 68
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.74 E-value=0.00061 Score=61.30 Aligned_cols=55 Identities=24% Similarity=0.584 Sum_probs=44.3
Q ss_pred ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-----CCCCccccccccccce
Q 028970 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-----SESCPICDQDAVFRYV 187 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~-----~~~CP~Cr~~~~~~~~ 187 (201)
.....+.+|.+|-+.- +..+...|-|.||..||.+++.. ..+||+|-..+..|..
T Consensus 531 ~enk~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred ccccCceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 4556777899999986 44477999999999999988762 4599999998887743
No 69
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.74 E-value=0.0018 Score=53.14 Aligned_cols=60 Identities=15% Similarity=0.283 Sum_probs=51.0
Q ss_pred CCcccccccccccCCCCCe-EEcCCCCcccHHHHHHHHhcCCCCccccccccccceeeccC
Q 028970 133 EEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIVATD 192 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~ 192 (201)
.....|+||.+.+....+. ++-+|||+|+.+|+.+.+..-..||+|.+++..++++.++-
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~Lqr 279 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQR 279 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeec
Confidence 3667899999999555444 56789999999999999998899999999999999887764
No 70
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.70 E-value=0.0015 Score=61.57 Aligned_cols=52 Identities=37% Similarity=0.787 Sum_probs=38.8
Q ss_pred ccCCCcccccccccccCCCCCe-EEcCCCCcccHHHHHHHHhcCC-------CCcccccc
Q 028970 130 AASEEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSE-------SCPICDQD 181 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl~~~~-------~CP~Cr~~ 181 (201)
.......+|.||++.++...++ .-..|-|+||+.||.+|-.... .||-|...
T Consensus 186 ~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 186 QLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred HHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 3446777899999999666653 1234779999999999986422 89999743
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.35 E-value=0.0025 Score=54.92 Aligned_cols=46 Identities=28% Similarity=0.649 Sum_probs=34.4
Q ss_pred CCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccc
Q 028970 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
....+.|.||+++. ...+.++|||.-| |+.--.. ..+||+||+.|.
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 34566799999998 4468899999866 7655433 345999999875
No 72
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.35 E-value=0.0034 Score=50.91 Aligned_cols=53 Identities=25% Similarity=0.546 Sum_probs=42.6
Q ss_pred CCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--------CCCCcccccccccc
Q 028970 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--------SESCPICDQDAVFR 185 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~--------~~~CP~Cr~~~~~~ 185 (201)
.+-...|..|-..+..++. +.+-|-|.||..|+.+|--. -..||-|.++|...
T Consensus 47 sDY~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred cCCCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 3455679999999988887 55899999999999999763 12899999987543
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.34 E-value=0.0038 Score=38.50 Aligned_cols=45 Identities=27% Similarity=0.584 Sum_probs=23.1
Q ss_pred ccccccccCCCCC-eEEcCCCCcccHHHHHHHHh-cCCCCccccccc
Q 028970 138 CPICLEEYDTENP-KLITKCEHHFHLSCILEWNE-RSESCPICDQDA 182 (201)
Q Consensus 138 C~ICle~~~~~~~-~~~~~C~H~Fh~~CI~~Wl~-~~~~CP~Cr~~~ 182 (201)
|++|.++++..+. ..-=+|++.+|..|....++ ....||-||++.
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 7899999944443 23345789999999988886 477999999864
No 74
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.34 E-value=0.0024 Score=55.90 Aligned_cols=38 Identities=26% Similarity=0.456 Sum_probs=33.1
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~ 170 (201)
..-..|.||+++.....-...+||+|+||+.|++.++.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 34567999999997777778999999999999999986
No 75
>PHA03096 p28-like protein; Provisional
Probab=96.21 E-value=0.0024 Score=54.05 Aligned_cols=45 Identities=29% Similarity=0.626 Sum_probs=31.8
Q ss_pred ccccccccccCCCC-----CeEEcCCCCcccHHHHHHHHhcC---CCCccccc
Q 028970 136 DTCPICLEEYDTEN-----PKLITKCEHHFHLSCILEWNERS---ESCPICDQ 180 (201)
Q Consensus 136 ~~C~ICle~~~~~~-----~~~~~~C~H~Fh~~CI~~Wl~~~---~~CP~Cr~ 180 (201)
..|.||++...... -..+..|.|.||..||..|...+ .+||.||.
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 67999999874321 11456799999999999998642 25555544
No 76
>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=96.21 E-value=0.0019 Score=46.18 Aligned_cols=35 Identities=26% Similarity=0.573 Sum_probs=27.7
Q ss_pred CCCcccccccccccCCCCCeEEcCCCCcccHHHHHH
Q 028970 132 SEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILE 167 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~ 167 (201)
..++..|++|-..+.. ....+.||||.||..|+.+
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeCCCeEEecccccC
Confidence 3556679999999944 4457799999999999753
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.07 E-value=0.0077 Score=51.80 Aligned_cols=61 Identities=23% Similarity=0.475 Sum_probs=45.3
Q ss_pred ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHH--HhcCCCCccccccccccceeeccCCCcc
Q 028970 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEW--NERSESCPICDQDAVFRYVIVATDHSKV 196 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~W--l~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 196 (201)
+..++...|-||.+.+ .-..++||+|..|.-|-.+. |...+.|++||.+.. .++++.+.+.
T Consensus 56 dtDEen~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e---~V~fT~~~~~ 118 (493)
T COG5236 56 DTDEENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE---AVVFTASSPA 118 (493)
T ss_pred ccccccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc---eEEEecCCCC
Confidence 4567777899999887 55577999999999998753 556889999998643 3444444443
No 78
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.94 E-value=0.0042 Score=52.40 Aligned_cols=50 Identities=28% Similarity=0.522 Sum_probs=38.3
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCccc-cccccccce
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER-SESCPIC-DQDAVFRYV 187 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~-~~~CP~C-r~~~~~~~~ 187 (201)
..|+.|-... .+++...-|+|.||.+||...|.. -..||.| |+.+..+.+
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l 326 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGL 326 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhcc
Confidence 6799999988 666554468999999999988765 4599999 445555443
No 79
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.93 E-value=0.0048 Score=52.85 Aligned_cols=64 Identities=23% Similarity=0.474 Sum_probs=44.6
Q ss_pred ccCCCcccccccccccCCCCCe-EEcCCCCcccHHHHHHHHhc-CCCCccccccccccceeeccCC
Q 028970 130 AASEEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNER-SESCPICDQDAVFRYVIVATDH 193 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~~~~~~~~~~~ 193 (201)
.++++++.||.|+++++..+.- .--+||-..|..|....-+. ...||-||+........+.+..
T Consensus 9 ~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~~s 74 (480)
T COG5175 9 NSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVTLS 74 (480)
T ss_pred ccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEEecC
Confidence 4556777899999999665542 33568888888886554433 5599999998776655555443
No 80
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.83 E-value=0.0033 Score=51.40 Aligned_cols=47 Identities=23% Similarity=0.624 Sum_probs=35.1
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
.|--|..--. ..+..++.|.|+||..|...-... .||+|++.+....
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~~--~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSPD--VCPLCKKSIRIIQ 51 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccCCcc--ccccccceeeeee
Confidence 4666766654 677788999999999997653332 9999999865443
No 81
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.82 E-value=0.0093 Score=50.86 Aligned_cols=59 Identities=22% Similarity=0.537 Sum_probs=48.0
Q ss_pred ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccceeec
Q 028970 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIVA 190 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~ 190 (201)
....+...|+||+... .++.++.--|-+||..||..++...+.||+=..++..+++...
T Consensus 295 ~l~~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl 353 (357)
T KOG0826|consen 295 LLPPDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRL 353 (357)
T ss_pred cCCCccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHH
Confidence 3445667899999988 7776767779999999999999999999998888777665443
No 82
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.70 E-value=0.0087 Score=56.51 Aligned_cols=61 Identities=28% Similarity=0.691 Sum_probs=48.5
Q ss_pred CCcccccccccccCCCCCeEEcCCC-----CcccHHHHHHHHhc--CCCCccccccccccceeeccCCC
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCE-----HHFHLSCILEWNER--SESCPICDQDAVFRYVIVATDHS 194 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~-----H~Fh~~CI~~Wl~~--~~~CP~Cr~~~~~~~~~~~~~~~ 194 (201)
+++..|.||..+-..+++ ..-||. ...|.+|+.+|+.- .+.|-+|..++.+++........
T Consensus 10 ~d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~mP~ 77 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKEDMPQ 77 (1175)
T ss_pred ccchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecccCCCc
Confidence 456789999999877777 446776 57899999999985 44999999999998876665544
No 83
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.51 E-value=0.005 Score=58.26 Aligned_cols=44 Identities=23% Similarity=0.683 Sum_probs=36.9
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDA 182 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (201)
....|.+|--.+ +-|.+.-.|+|.||..|+. .....||-|+.++
T Consensus 839 q~skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 446799998888 7788999999999999998 5566999998743
No 84
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.29 E-value=0.02 Score=44.06 Aligned_cols=34 Identities=29% Similarity=0.723 Sum_probs=24.3
Q ss_pred CcccccccccccCCCCCeEEcCCC-------------CcccHHHHHHHHh
Q 028970 134 EEDTCPICLEEYDTENPKLITKCE-------------HHFHLSCILEWNE 170 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~-------------H~Fh~~CI~~Wl~ 170 (201)
++..|+||||.. ...++|-|. -.-|.-|+.+..+
T Consensus 1 ed~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 356799999997 555667664 2457779988755
No 85
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.28 E-value=0.0092 Score=37.74 Aligned_cols=49 Identities=24% Similarity=0.465 Sum_probs=35.2
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccce
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYV 187 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~ 187 (201)
....|-.|...- ...++++|+|..+..|..- ++-+-||+|.+++..+++
T Consensus 6 ~~~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 6 PEQPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDDP 54 (55)
T ss_pred cceeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCCCC
Confidence 334466665553 4447799999999999543 456699999998877653
No 86
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.12 E-value=0.012 Score=49.35 Aligned_cols=46 Identities=35% Similarity=0.625 Sum_probs=37.5
Q ss_pred cccccccccccCC-CCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 135 EDTCPICLEEYDT-ENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 135 ~~~C~ICle~~~~-~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
...||||.+.+-. ...+..++|||..|..|+.+.....-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3349999998733 444577999999999999988877789999988
No 87
>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=94.97 E-value=0.0092 Score=36.49 Aligned_cols=34 Identities=32% Similarity=0.695 Sum_probs=24.1
Q ss_pred EEcCCC-CcccHHHHHHHHhcCCCCcccccccccc
Q 028970 152 LITKCE-HHFHLSCILEWNERSESCPICDQDAVFR 185 (201)
Q Consensus 152 ~~~~C~-H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (201)
.+..|. |..|..|+...+.++..||+|.++++..
T Consensus 14 ~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 346676 9999999999999999999999988653
No 88
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.88 E-value=0.021 Score=48.40 Aligned_cols=47 Identities=30% Similarity=0.704 Sum_probs=37.3
Q ss_pred ccccccccccCCCC---CeEEcCCCCcccHHHHHHHHhcCC-CCccccccc
Q 028970 136 DTCPICLEEYDTEN---PKLITKCEHHFHLSCILEWNERSE-SCPICDQDA 182 (201)
Q Consensus 136 ~~C~ICle~~~~~~---~~~~~~C~H~Fh~~CI~~Wl~~~~-~CP~Cr~~~ 182 (201)
..|-||-++|...+ ..+.+.|||.||..|+...+.... .||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 46999999995542 226688999999999988776544 899999985
No 89
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.61 E-value=0.028 Score=44.12 Aligned_cols=54 Identities=24% Similarity=0.568 Sum_probs=36.9
Q ss_pred cCCCcccccccccccCCCC----CeEEcCCCCcccHHHHHHHHhc------C-----CCCccccccccc
Q 028970 131 ASEEEDTCPICLEEYDTEN----PKLITKCEHHFHLSCILEWNER------S-----ESCPICDQDAVF 184 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~----~~~~~~C~H~Fh~~CI~~Wl~~------~-----~~CP~Cr~~~~~ 184 (201)
..++-..|.||+.+--.+. ..--..||.-||.-|+..||.. + ..||.|..++..
T Consensus 161 kdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 161 KDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 3445556888886642221 1123679999999999999972 1 289999877653
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.53 E-value=0.011 Score=55.68 Aligned_cols=50 Identities=28% Similarity=0.695 Sum_probs=41.2
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCC--CCccccccccccceee
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCPICDQDAVFRYVIV 189 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~--~CP~Cr~~~~~~~~~~ 189 (201)
..|.||++ . +..+++.|+|.||..|+..-+.... .||+||..+..+++..
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 78999999 4 5668899999999999999887533 7999999887666544
No 91
>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=94.36 E-value=0.021 Score=34.39 Aligned_cols=41 Identities=22% Similarity=0.553 Sum_probs=21.6
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCC--CCccc
Q 028970 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE--SCPIC 178 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~--~CP~C 178 (201)
|.+|.+....+..-....|+-.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 567777763333222235888999999999998655 79987
No 92
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.76 E-value=0.029 Score=46.42 Aligned_cols=55 Identities=25% Similarity=0.671 Sum_probs=38.6
Q ss_pred ccCCCcccccccccccCCCCCe-EEcCCC-----CcccHHHHHHHHhcCC--------CCccccccccc
Q 028970 130 AASEEEDTCPICLEEYDTENPK-LITKCE-----HHFHLSCILEWNERSE--------SCPICDQDAVF 184 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~-~~~~C~-----H~Fh~~CI~~Wl~~~~--------~CP~Cr~~~~~ 184 (201)
+..+.+..|=||+..=+..... -+-||. |-.|..|+.+|+..+. +||.|+.+...
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 3456778899999775222111 235674 8999999999996432 89999887654
No 93
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.73 E-value=0.029 Score=53.57 Aligned_cols=48 Identities=27% Similarity=0.509 Sum_probs=35.4
Q ss_pred hhhhcccc-ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028970 122 EVSQLNVF-AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (201)
Q Consensus 122 ~~~k~~~~-~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~ 170 (201)
++.++... ...+..+.|.+|...+-. .+..+-+|||.||..||.+-..
T Consensus 803 ~~~~l~~ry~v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 803 EISKLRQRYRVLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred HHHHhhcceEEecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence 33444433 556788899999988733 3557799999999999987654
No 94
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.21 E-value=0.03 Score=43.27 Aligned_cols=30 Identities=23% Similarity=0.595 Sum_probs=26.9
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccH
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHL 162 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~ 162 (201)
.+.-+|.||||++..++.+..|||--+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 456689999999999999999999999986
No 95
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.80 E-value=0.076 Score=45.01 Aligned_cols=52 Identities=31% Similarity=0.606 Sum_probs=39.5
Q ss_pred CcccccccccccCCCCC-eEEcCCC-----CcccHHHHHHHHh--cCCCCcccccccccc
Q 028970 134 EEDTCPICLEEYDTENP-KLITKCE-----HHFHLSCILEWNE--RSESCPICDQDAVFR 185 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~-~~~~~C~-----H~Fh~~CI~~Wl~--~~~~CP~Cr~~~~~~ 185 (201)
.+..|.||.++....+. ....+|. +..|..|+..|+. ....|.+|...+...
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 35679999998743321 3567876 6789999999997 566999998866554
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.63 E-value=0.03 Score=55.37 Aligned_cols=45 Identities=33% Similarity=0.633 Sum_probs=38.6
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
.-..|.||++.. .+...+..|+|.+|..|+..|+..+..||+|+.
T Consensus 1152 ~~~~c~ic~dil--~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDIL--RNQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHH--HhcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 344799999998 444466889999999999999999999999974
No 97
>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=92.35 E-value=0.21 Score=43.67 Aligned_cols=55 Identities=25% Similarity=0.604 Sum_probs=36.3
Q ss_pred cCCCcccccccccccCCCCCeEE----------------cCCC-----CcccHHHHHHHHh-------------cCCCCc
Q 028970 131 ASEEEDTCPICLEEYDTENPKLI----------------TKCE-----HHFHLSCILEWNE-------------RSESCP 176 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~----------------~~C~-----H~Fh~~CI~~Wl~-------------~~~~CP 176 (201)
..++.+.|--|+..- .+-++. .+|. -..|.+|+.+|+- .+..||
T Consensus 267 ~~~e~e~CigC~~~~--~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CP 344 (358)
T PF10272_consen 267 SGQELEPCIGCMQAQ--PNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCP 344 (358)
T ss_pred CccccCCccccccCC--CCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCC
Confidence 346777799998765 121111 1333 3458999999985 233999
Q ss_pred cccccccccce
Q 028970 177 ICDQDAVFRYV 187 (201)
Q Consensus 177 ~Cr~~~~~~~~ 187 (201)
+||+.+...+.
T Consensus 345 tCRa~FCilDV 355 (358)
T PF10272_consen 345 TCRAKFCILDV 355 (358)
T ss_pred CCcccceeeee
Confidence 99999876654
No 98
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.32 E-value=0.062 Score=45.69 Aligned_cols=45 Identities=24% Similarity=0.550 Sum_probs=30.3
Q ss_pred cccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccc
Q 028970 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
.-.|--|=-.+ ..-.++.+|.|+||++|... ..-+.||.|...+.
T Consensus 90 VHfCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 90 VHFCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred eEeecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 34566664333 22236799999999999643 55679999966554
No 99
>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=91.28 E-value=0.26 Score=30.57 Aligned_cols=43 Identities=26% Similarity=0.637 Sum_probs=21.9
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHh---cCC--CCcccccc
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE---RSE--SCPICDQD 181 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~---~~~--~CP~Cr~~ 181 (201)
..|+|-...+ ..+++...|.|.-|.+ +..||+ +.. .||+|+++
T Consensus 3 L~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4699999888 7788888999974422 233443 222 79999863
No 100
>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=90.82 E-value=0.24 Score=41.80 Aligned_cols=50 Identities=22% Similarity=0.466 Sum_probs=36.6
Q ss_pred ccccccccc--CCCCCeEEcCCCCcccHHHHHHHHhc-CCCCccccccccccc
Q 028970 137 TCPICLEEY--DTENPKLITKCEHHFHLSCILEWNER-SESCPICDQDAVFRY 186 (201)
Q Consensus 137 ~C~ICle~~--~~~~~~~~~~C~H~Fh~~CI~~Wl~~-~~~CP~Cr~~~~~~~ 186 (201)
.||+|.... .+.-...+-+|+|..|.+|+...+.. ...||.|...+..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence 589998653 22222233489999999999999865 669999988776654
No 101
>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=90.78 E-value=0.082 Score=43.43 Aligned_cols=52 Identities=27% Similarity=0.562 Sum_probs=37.5
Q ss_pred Cccccccccccc--CCCCCeEEcC-CCCcccHHHHHHHHhc-CCCCc--ccccccccc
Q 028970 134 EEDTCPICLEEY--DTENPKLITK-CEHHFHLSCILEWNER-SESCP--ICDQDAVFR 185 (201)
Q Consensus 134 ~~~~C~ICle~~--~~~~~~~~~~-C~H~Fh~~CI~~Wl~~-~~~CP--~Cr~~~~~~ 185 (201)
.+..||||..+. .+.-...+-| |-|.+|.+|+.+.|.+ ...|| -|.+-+...
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~ 66 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKI 66 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHh
Confidence 455899998664 3333334445 9999999999999975 55999 787755443
No 102
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=90.70 E-value=0.15 Score=45.36 Aligned_cols=36 Identities=33% Similarity=0.717 Sum_probs=30.6
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER 171 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~ 171 (201)
+++..|+||..-| .++ ++++|+|..|..|....+..
T Consensus 2 eeelkc~vc~~f~--~ep-iil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFY--REP-IILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhc--cCc-eEeecccHHHHHHHHhhccc
Confidence 5778899999999 666 66999999999999877653
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.28 E-value=0.12 Score=45.65 Aligned_cols=38 Identities=29% Similarity=0.648 Sum_probs=28.6
Q ss_pred Ccccccccc-cccCCCCCeEEcCCCCcccHHHHHHHHhc
Q 028970 134 EEDTCPICL-EEYDTENPKLITKCEHHFHLSCILEWNER 171 (201)
Q Consensus 134 ~~~~C~ICl-e~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~ 171 (201)
....|.||+ +............|+|.||..|+++.++.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 456799999 44433333346889999999999998874
No 104
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.29 E-value=0.31 Score=40.42 Aligned_cols=64 Identities=17% Similarity=0.240 Sum_probs=48.3
Q ss_pred CCCcccccccccccCCCCC-eEEcCCCCcccHHHHHHHHhcCCCCccccccccccceeeccCCCccc
Q 028970 132 SEEEDTCPICLEEYDTENP-KLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIVATDHSKVQ 197 (201)
Q Consensus 132 ~~~~~~C~ICle~~~~~~~-~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~~~~ 197 (201)
..-...|||=--++..... ..+..|||+|-..=+.+.- ..+|++|.+.+..++.++++.+.+..
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dvIvlNg~~E~~ 172 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDVIVLNGTEEDV 172 (293)
T ss_pred ccceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccCeEeeCCCHHHH
Confidence 3456779887766632222 2567899999988776643 56999999999999999998887654
No 105
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.04 E-value=0.023 Score=49.63 Aligned_cols=54 Identities=17% Similarity=0.356 Sum_probs=43.3
Q ss_pred CcccccccccccCCC-CCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccce
Q 028970 134 EEDTCPICLEEYDTE-NPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYV 187 (201)
Q Consensus 134 ~~~~C~ICle~~~~~-~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~ 187 (201)
-...|.||.+.+... +....+-|||.+|..||.+|+.....||.|+..+.....
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~ 249 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGF 249 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhH
Confidence 445699999888443 444557899999999999999888899999998876543
No 106
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.54 E-value=0.18 Score=46.87 Aligned_cols=40 Identities=28% Similarity=0.595 Sum_probs=30.5
Q ss_pred CcccccccccccCCC--CCeEEcCCCCcccHHHHHHHHhcCCCCc
Q 028970 134 EEDTCPICLEEYDTE--NPKLITKCEHHFHLSCILEWNERSESCP 176 (201)
Q Consensus 134 ~~~~C~ICle~~~~~--~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP 176 (201)
+-..|+||+..|... .+ +.+.|||..|..|+..-..+ +||
T Consensus 10 ~~l~c~ic~n~f~~~~~~P-vsl~cghtic~~c~~~lyn~--scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEP-VSLQCGHTICGHCVQLLYNA--SCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCc-ccccccchHHHHHHHhHhhc--cCC
Confidence 345699999888332 34 66899999999999876655 777
No 107
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.39 E-value=0.12 Score=48.48 Aligned_cols=51 Identities=33% Similarity=0.721 Sum_probs=39.5
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCccccccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQDAVFRY 186 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~~ 186 (201)
....+|+||+..+ .++ ..+.|.|.|+..|+..-|.. ...||+|+..+....
T Consensus 19 ~k~lEc~ic~~~~--~~p-~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 19 QKILECPICLEHV--KEP-SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred hhhccCCceeEEe--ecc-chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 4566899999999 444 67999999999998765543 458999997665543
No 108
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.92 E-value=0.49 Score=41.55 Aligned_cols=47 Identities=26% Similarity=0.528 Sum_probs=40.0
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCccccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQ 180 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~ 180 (201)
.-..|||=.+.-..++|...+.|||+...+=|.+..+. +..||.|=.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 45689999999888999999999999999999997764 358999944
No 109
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.10 E-value=0.37 Score=40.75 Aligned_cols=33 Identities=27% Similarity=0.556 Sum_probs=25.1
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCcccccccccccee
Q 028970 156 CEHHFHLSCILEWNE-------------RSESCPICDQDAVFRYVI 188 (201)
Q Consensus 156 C~H~Fh~~CI~~Wl~-------------~~~~CP~Cr~~~~~~~~~ 188 (201)
|....|.+|+.+|+. .+-+||+||+.+...+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~ 370 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH 370 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence 345678899999875 345999999998766543
No 110
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=86.35 E-value=0.57 Score=40.06 Aligned_cols=44 Identities=27% Similarity=0.629 Sum_probs=33.5
Q ss_pred CCcccccccccccCCCCCeEEcCC--CCcccHHHHHHHHhcCCCCcccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKC--EHHFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C--~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
-+-..||||.+.+ ..+ + ..| ||.-|..|=. +.++.||.||.++.
T Consensus 46 ~~lleCPvC~~~l--~~P-i-~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPL--SPP-I-FQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccC--ccc-c-eecCCCcEehhhhhh---hhcccCCccccccc
Confidence 4556799999999 333 3 567 6999998854 55678999999886
No 111
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.89 E-value=0.38 Score=38.95 Aligned_cols=39 Identities=28% Similarity=0.565 Sum_probs=29.9
Q ss_pred ccccccccCCCCCeEEcCCCC-cccHHHHHHHHhcCCCCcccccccc
Q 028970 138 CPICLEEYDTENPKLITKCEH-HFHLSCILEWNERSESCPICDQDAV 183 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H-~Fh~~CI~~Wl~~~~~CP~Cr~~~~ 183 (201)
|.+|-+.- ..++++||.| .+|..|-.. ...||+|+....
T Consensus 161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 99998885 6688999997 677778543 447999987544
No 112
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=85.82 E-value=0.66 Score=34.78 Aligned_cols=53 Identities=19% Similarity=0.275 Sum_probs=37.1
Q ss_pred CcccccccccccCCCCCe-EEcCCCCcccHHHHHHHHhc---CCCCccccccccccc
Q 028970 134 EEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNER---SESCPICDQDAVFRY 186 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~~ 186 (201)
.-.+|-||.|.-.++.-. -..-||-..|..|-...|+. ...||+|+.++....
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 667899999987222111 11238999999988777764 449999999886543
No 113
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.71 E-value=0.56 Score=42.26 Aligned_cols=59 Identities=24% Similarity=0.424 Sum_probs=41.9
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC--------CCCcc--ccccccccceeeccCC
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS--------ESCPI--CDQDAVFRYVIVATDH 193 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~--------~~CP~--Cr~~~~~~~~~~~~~~ 193 (201)
.....|.||.+.+.. ....+.|+|.||..|+...+..+ .+||. |++.+..+.+..+...
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~ 136 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSD 136 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCC
Confidence 455789999999943 55778999999999999888632 24654 6666655555544443
No 114
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=83.62 E-value=0.72 Score=43.83 Aligned_cols=26 Identities=35% Similarity=0.864 Sum_probs=23.2
Q ss_pred EEcCCCCcccHHHHHHHHhcCCCCcc
Q 028970 152 LITKCEHHFHLSCILEWNERSESCPI 177 (201)
Q Consensus 152 ~~~~C~H~Fh~~CI~~Wl~~~~~CP~ 177 (201)
+-..|+|..|.+|.++|+..-..||-
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 45679999999999999999889985
No 115
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.97 E-value=0.97 Score=43.18 Aligned_cols=53 Identities=19% Similarity=0.305 Sum_probs=36.6
Q ss_pred CCcccccccccccCC----CCCeEEcCCCCcccHHHHHHHHhc------CCCCcccccccccc
Q 028970 133 EEEDTCPICLEEYDT----ENPKLITKCEHHFHLSCILEWNER------SESCPICDQDAVFR 185 (201)
Q Consensus 133 ~~~~~C~ICle~~~~----~~~~~~~~C~H~Fh~~CI~~Wl~~------~~~CP~Cr~~~~~~ 185 (201)
.+.+.|.||..++.. .....+..|+|.||..||..|..+ .-.|++|..-|...
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 356678888888843 122233459999999999999974 22778887765443
No 116
>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=78.86 E-value=1.4 Score=27.54 Aligned_cols=42 Identities=26% Similarity=0.640 Sum_probs=21.2
Q ss_pred ccccccccCCC-------CCeEEcCCCCcccHHHHHHHHhcCCCCcccc
Q 028970 138 CPICLEEYDTE-------NPKLITKCEHHFHLSCILEWNERSESCPICD 179 (201)
Q Consensus 138 C~ICle~~~~~-------~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (201)
|--|+..|... ....-..|+++||.+|=.-.-+....||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 45566666332 1234467999999999433334566999883
No 117
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=76.82 E-value=4 Score=25.77 Aligned_cols=45 Identities=22% Similarity=0.750 Sum_probs=31.1
Q ss_pred CcccccccccccCCCCCe-EEcCCCCcccHHHHHHHHhcCCCCcc--ccccc
Q 028970 134 EEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNERSESCPI--CDQDA 182 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl~~~~~CP~--Cr~~~ 182 (201)
....|.+|-+.|..++.+ +-..|+-.+|+.| |. ....|-+ |...+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C---~~-~~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDC---WE-KAGGCINYSCGTGF 51 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHH---Hh-hCCceEeccCCCCc
Confidence 445799999999765554 4467999999999 42 2455655 54443
No 118
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.45 E-value=1.6 Score=40.29 Aligned_cols=52 Identities=31% Similarity=0.666 Sum_probs=41.6
Q ss_pred cCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccceee
Q 028970 131 ASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIV 189 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~ 189 (201)
..+..+.|.||+++. ..+.++|. |.-|+.+|+.....||+|++.+..++...
T Consensus 475 l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~ 526 (543)
T KOG0802|consen 475 LREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLS 526 (543)
T ss_pred hhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccccC
Confidence 345677899999997 33557787 89999999999999999999887765443
No 119
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.82 E-value=2.6 Score=35.00 Aligned_cols=38 Identities=26% Similarity=0.393 Sum_probs=31.8
Q ss_pred ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028970 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~ 170 (201)
++..+-+.|+.||..+ .++ ++++=||+|+.+||.+++.
T Consensus 38 DsiK~FdcCsLtLqPc--~dP-vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPC--RDP-VITPDGYLFDREAILEYIL 75 (303)
T ss_pred cccCCcceeeeecccc--cCC-ccCCCCeeeeHHHHHHHHH
Confidence 4445777899999999 666 6699999999999999875
No 120
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=75.03 E-value=1.7 Score=35.12 Aligned_cols=45 Identities=22% Similarity=0.573 Sum_probs=36.2
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
.-..|-+|.... ...++--.|+-.+|..|+.+.+++...||.|.-
T Consensus 180 nlk~Cn~Ch~Lv--Iqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 180 NLKNCNLCHCLV--IQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHHhHhHHHh--heeeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 445799998887 444445667888999999999999999999954
No 121
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.84 E-value=1.2 Score=42.54 Aligned_cols=45 Identities=24% Similarity=0.572 Sum_probs=33.3
Q ss_pred CcccccccccccCC----CCCeEEcCCCCcccHHHHHHHHhcCCCCcccc
Q 028970 134 EEDTCPICLEEYDT----ENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (201)
Q Consensus 134 ~~~~C~ICle~~~~----~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (201)
.+..|.-|.+.... -+.+++..|+|.||..|+.--+.+++ |-.|.
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 34479999988732 15567899999999999987776655 65553
No 122
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=71.92 E-value=1.6 Score=40.54 Aligned_cols=45 Identities=27% Similarity=0.751 Sum_probs=27.0
Q ss_pred CCcccccccccc-----cCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 133 EEEDTCPICLEE-----YDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 133 ~~~~~C~ICle~-----~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
.....|.||... |...+...-..|+++||..|+.+ .+..||.|-+
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 345567777322 12122334467999999999543 3445999943
No 123
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=71.65 E-value=3.1 Score=35.78 Aligned_cols=47 Identities=26% Similarity=0.527 Sum_probs=37.8
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCccccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQ 180 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~ 180 (201)
.-..||+=.+.-..+++..++.|||+.-.+-+...-+. +..||.|-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 45679998888888899999999999999888775443 458999943
No 124
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=69.98 E-value=3.7 Score=35.36 Aligned_cols=51 Identities=25% Similarity=0.542 Sum_probs=39.0
Q ss_pred cccccccccccCCCC-CeEEcCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 028970 135 EDTCPICLEEYDTEN-PKLITKCEHHFHLSCILEWNERSESCPICDQDAVFR 185 (201)
Q Consensus 135 ~~~C~ICle~~~~~~-~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (201)
...|+||.+.....+ ..+--+|++..|+.|+..-...+..||.||+.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 367999999874333 334456888899999988888899999999766544
No 125
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=69.96 E-value=1.8 Score=36.18 Aligned_cols=56 Identities=20% Similarity=0.375 Sum_probs=38.6
Q ss_pred CcccccccccccCCCCCeE----EcCCCCcccHHHHHHHHh---------cCCCCccccccccccceee
Q 028970 134 EEDTCPICLEEYDTENPKL----ITKCEHHFHLSCILEWNE---------RSESCPICDQDAVFRYVIV 189 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~----~~~C~H~Fh~~CI~~Wl~---------~~~~CP~Cr~~~~~~~~~~ 189 (201)
....|-||.+++...+..+ ...|+-++|..|+..-+. ....||.|++.+...+++.
T Consensus 181 ~~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w~~lv~ 249 (276)
T KOG3005|consen 181 LNVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSWTTLVD 249 (276)
T ss_pred cchhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeHHHHHH
Confidence 3358999999994333322 234788999999998443 2349999999776555544
No 126
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=65.39 E-value=4.9 Score=32.26 Aligned_cols=42 Identities=31% Similarity=0.769 Sum_probs=28.3
Q ss_pred Ccccccccccc-----cCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 134 EEDTCPICLEE-----YDTENPKLITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 134 ~~~~C~ICle~-----~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
....|-||-+. |.......-..|+..||..|.. + ..||.|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~---~--~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR---K--KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC---C--CCCCCcHh
Confidence 45678888753 2222333456799999999955 2 67999943
No 128
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=64.36 E-value=5 Score=38.31 Aligned_cols=40 Identities=20% Similarity=0.356 Sum_probs=27.7
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcc
Q 028970 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPI 177 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~ 177 (201)
.|.+|-..+.. .-+--..|+|.-|.+|++.|+....-||.
T Consensus 781 ~CtVC~~vi~G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRG-VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeee-eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 46677555411 11122469999999999999998887765
No 129
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=62.00 E-value=6.6 Score=28.64 Aligned_cols=44 Identities=20% Similarity=0.450 Sum_probs=32.9
Q ss_pred ccccccccccCCC-----------CCeEEcCCCCcccHHHHHHHHhcCCCCcccc
Q 028970 136 DTCPICLEEYDTE-----------NPKLITKCEHHFHLSCILEWNERSESCPICD 179 (201)
Q Consensus 136 ~~C~ICle~~~~~-----------~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (201)
..|--|+..|... ....-..|.++||.+|=.-|-+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 3588888877321 1223578999999999888878888999995
No 130
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.95 E-value=4.5 Score=35.81 Aligned_cols=44 Identities=25% Similarity=0.557 Sum_probs=31.6
Q ss_pred CcccccccccccC---CCCCeEEcCCCCcccHHHHHHHHhcCCCCccc
Q 028970 134 EEDTCPICLEEYD---TENPKLITKCEHHFHLSCILEWNERSESCPIC 178 (201)
Q Consensus 134 ~~~~C~ICle~~~---~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~C 178 (201)
.-..|++|.-.++ .-+.+.-. |+|.||..|...|......|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 3446888877662 23444444 99999999999999887777554
No 131
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=61.65 E-value=2.6 Score=37.21 Aligned_cols=49 Identities=29% Similarity=0.735 Sum_probs=0.0
Q ss_pred Cccccccccccc-----------CCCCCeEEcCCCCcccHHHHHHHHh------cCCCCcccccccccc
Q 028970 134 EEDTCPICLEEY-----------DTENPKLITKCEHHFHLSCILEWNE------RSESCPICDQDAVFR 185 (201)
Q Consensus 134 ~~~~C~ICle~~-----------~~~~~~~~~~C~H~Fh~~CI~~Wl~------~~~~CP~Cr~~~~~~ 185 (201)
.-..||+=|..+ ...++-+-+.|||++... .|-. ...+||+||+.=...
T Consensus 276 ~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~V 341 (416)
T PF04710_consen 276 GRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPYV 341 (416)
T ss_dssp ---------------------------------------------------------------------
T ss_pred cCCCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCccccCCce
Confidence 445677766554 224556789999987653 5753 245999999865553
No 132
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=61.34 E-value=7.1 Score=33.75 Aligned_cols=46 Identities=24% Similarity=0.485 Sum_probs=35.4
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICD 179 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr 179 (201)
....|-.|.++.......+--.|.+.||.+|=.-.-+.-..||-|.
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 3344999988876677777788999999999654445566899995
No 133
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.92 E-value=4.1 Score=34.49 Aligned_cols=37 Identities=24% Similarity=0.577 Sum_probs=28.9
Q ss_pred CCcccccccccccCCCCCeEEcCC----CCcccHHHHHHHHhcC
Q 028970 133 EEEDTCPICLEEYDTENPKLITKC----EHHFHLSCILEWNERS 172 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C----~H~Fh~~CI~~Wl~~~ 172 (201)
.....|.+|.|.+ ++. ....| .|.||.-|-.+-+++.
T Consensus 266 ~apLcCTLC~ERL--EDT-HFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 266 SAPLCCTLCHERL--EDT-HFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CCceeehhhhhhh--ccC-ceeecCCCcccceecccCHHHHHhh
Confidence 4557899999999 333 45667 4999999999998863
No 134
>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=60.90 E-value=0.61 Score=31.05 Aligned_cols=41 Identities=27% Similarity=0.603 Sum_probs=21.5
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccc
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVF 184 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~ 184 (201)
..||.|..+++... +|.+|..|-.. +.....||-|.++|..
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHHH
Confidence 46999988872222 66677777654 4455689999887653
No 135
>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=60.14 E-value=4.5 Score=24.96 Aligned_cols=40 Identities=18% Similarity=0.382 Sum_probs=26.8
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
|..|...+..... ++..-+..||..|+ .|-.|++.|....
T Consensus 1 C~~C~~~I~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEI-VIKAMGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSE-EEEETTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEE-EEEeCCcEEEcccc--------ccCCCCCccCCCe
Confidence 5667777743333 33456778888775 7888888876655
No 136
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=60.00 E-value=3.7 Score=24.86 Aligned_cols=43 Identities=23% Similarity=0.582 Sum_probs=27.3
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHh------cCCCCcccc
Q 028970 137 TCPICLEEYDTENPKLITKCEHHFHLSCILEWNE------RSESCPICD 179 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~------~~~~CP~Cr 179 (201)
.|.||.........+.=-.|+..||..|+..-.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4888988443334434467889999999864432 123677664
No 137
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=58.35 E-value=7.4 Score=21.52 Aligned_cols=36 Identities=17% Similarity=0.484 Sum_probs=23.3
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccc
Q 028970 138 CPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDA 182 (201)
Q Consensus 138 C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (201)
|..|-..+..... .+..=+..||..|+ .|..|+..|
T Consensus 2 C~~C~~~i~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGEL-VLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcE-EEEeCCccccccCC--------CCcccCCcC
Confidence 7778777733322 33334678888875 788887765
No 138
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=57.02 E-value=6.9 Score=25.69 Aligned_cols=12 Identities=25% Similarity=0.822 Sum_probs=8.9
Q ss_pred cccHHHHHHHHh
Q 028970 159 HFHLSCILEWNE 170 (201)
Q Consensus 159 ~Fh~~CI~~Wl~ 170 (201)
.||..|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 139
>PF14353 CpXC: CpXC protein
Probab=56.81 E-value=14 Score=27.03 Aligned_cols=57 Identities=23% Similarity=0.383 Sum_probs=33.3
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCccccccccccceeeccCCCc
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER---SESCPICDQDAVFRYVIVATDHSK 195 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~---~~~CP~Cr~~~~~~~~~~~~~~~~ 195 (201)
..||-|...+.. .+.+.-.-.....=..+.+.. ..+||.|...+...-..++.+...
T Consensus 2 itCP~C~~~~~~---~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 2 ITCPHCGHEFEF---EVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred cCCCCCCCeeEE---EEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcCCC
Confidence 468888888722 122222222333334444433 449999999988887777766543
No 140
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=53.64 E-value=6.3 Score=32.50 Aligned_cols=50 Identities=30% Similarity=0.514 Sum_probs=37.8
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCcc--ccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--SESCPI--CDQDAVF 184 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~--~~~CP~--Cr~~~~~ 184 (201)
.-+..|+|=+..+ ..+++-.+|+|.|-.+=|...++. ...||. |.+.+..
T Consensus 187 ~~~nrCpitl~p~--~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~ 240 (275)
T COG5627 187 LLSNRCPITLNPD--FYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVV 240 (275)
T ss_pred hhcccCCcccCcc--hhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchheec
Confidence 3456799988887 677778999999999999999884 446665 6554433
No 141
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.38 E-value=5.5 Score=34.00 Aligned_cols=48 Identities=27% Similarity=0.584 Sum_probs=37.1
Q ss_pred CCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDA 182 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~ 182 (201)
.+.+.|-||.-.+ .-+...-.|+|.|+..|...|....+-|+.|+..+
T Consensus 103 ~~~~~~~~~~g~l--~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 103 QDHDICYICYGKL--TVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CCccceeeeeeeE--EecccccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 4666788888877 22323345999999999999999988999887644
No 142
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=46.64 E-value=40 Score=22.93 Aligned_cols=51 Identities=20% Similarity=0.417 Sum_probs=20.4
Q ss_pred CcccccccccccCC---CCCe-EEcCCCCcccHHHHH-HHHhcCCCCccccccccc
Q 028970 134 EEDTCPICLEEYDT---ENPK-LITKCEHHFHLSCIL-EWNERSESCPICDQDAVF 184 (201)
Q Consensus 134 ~~~~C~ICle~~~~---~~~~-~~~~C~H~Fh~~CI~-~Wl~~~~~CP~Cr~~~~~ 184 (201)
....|-||=+.+.. ++.. .-..|+--.|..|.. +.-..++.||.|+.....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 45579999999832 2322 224577788899975 333457899999977653
No 143
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=46.21 E-value=12 Score=24.10 Aligned_cols=17 Identities=24% Similarity=0.581 Sum_probs=12.6
Q ss_pred CCCCcccccccccccee
Q 028970 172 SESCPICDQDAVFRYVI 188 (201)
Q Consensus 172 ~~~CP~Cr~~~~~~~~~ 188 (201)
...||+|..++......
T Consensus 39 ~p~CPlC~s~M~~~~r~ 55 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGTRM 55 (59)
T ss_pred CccCCCcCCccccceee
Confidence 45999999988765433
No 144
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=45.90 E-value=12 Score=31.22 Aligned_cols=43 Identities=23% Similarity=0.428 Sum_probs=34.5
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCccc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNER--SESCPIC 178 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~--~~~CP~C 178 (201)
-...|||=.-.+ .++++-.+|||+|-..=|...+.. .-.||+=
T Consensus 175 fs~rdPis~~~I--~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 175 FSNRDPISKKPI--VNPVISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred hcccCchhhhhh--hchhhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 455688877777 788888999999999999999865 3378873
No 145
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=44.88 E-value=11 Score=35.16 Aligned_cols=36 Identities=28% Similarity=0.719 Sum_probs=25.5
Q ss_pred CCcccccccccccCC-----------CCCeEEcCCCCcccHHHHHHHH
Q 028970 133 EEEDTCPICLEEYDT-----------ENPKLITKCEHHFHLSCILEWN 169 (201)
Q Consensus 133 ~~~~~C~ICle~~~~-----------~~~~~~~~C~H~Fh~~CI~~Wl 169 (201)
+....|+||.|.|+. .+. +-+.=|-+||..|+.+--
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kda-V~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDA-VYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecce-eeeccCceeeccccchHH
Confidence 677889999999944 122 223358899999987643
No 146
>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=43.34 E-value=24 Score=22.46 Aligned_cols=47 Identities=23% Similarity=0.518 Sum_probs=30.8
Q ss_pred cccccccccCCCCCeEEcCCC--CcccHHHHHHHHhcCCCCccccccccccc
Q 028970 137 TCPICLEEYDTENPKLITKCE--HHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~--H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
.|-.|-..+..... -..-|. ..||..|....|. ..||.|.-.|..+.
T Consensus 7 nCE~C~~dLp~~s~-~A~ICSfECTFC~~C~e~~l~--~~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSP-EAYICSFECTFCADCAETMLN--GVCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCC-cceEEeEeCcccHHHHHHHhc--CcCcCCCCccccCC
Confidence 46666666633332 112354 4799999998774 59999988876543
No 147
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=42.23 E-value=11 Score=24.41 Aligned_cols=37 Identities=19% Similarity=0.367 Sum_probs=18.5
Q ss_pred CCcccccccccccCCCCCe-EEcCCCCcccHHHHHHHH
Q 028970 133 EEEDTCPICLEEYDTENPK-LITKCEHHFHLSCILEWN 169 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl 169 (201)
.+...|.+|...|...... .--.||++||..|....+
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3556799999999554433 235699999998876443
No 148
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=41.94 E-value=28 Score=30.14 Aligned_cols=53 Identities=23% Similarity=0.569 Sum_probs=35.2
Q ss_pred CCCccccccccccc---------------CCCCC-eEEcCCCCcccHHHHHHHHhc---------CCCCccccccccc
Q 028970 132 SEEEDTCPICLEEY---------------DTENP-KLITKCEHHFHLSCILEWNER---------SESCPICDQDAVF 184 (201)
Q Consensus 132 ~~~~~~C~ICle~~---------------~~~~~-~~~~~C~H~Fh~~CI~~Wl~~---------~~~CP~Cr~~~~~ 184 (201)
...+..||+|+..- +.+-+ -...||||.--..-..-|-+. +..||.|-..+.-
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 34577899999763 11111 145799997777777777652 4489999876643
No 149
>PLN02189 cellulose synthase
Probab=39.99 E-value=32 Score=34.35 Aligned_cols=50 Identities=20% Similarity=0.466 Sum_probs=33.7
Q ss_pred CcccccccccccCC---CCCeE-EcCCCCcccHHHHHH-HHhcCCCCcccccccc
Q 028970 134 EEDTCPICLEEYDT---ENPKL-ITKCEHHFHLSCILE-WNERSESCPICDQDAV 183 (201)
Q Consensus 134 ~~~~C~ICle~~~~---~~~~~-~~~C~H~Fh~~CI~~-Wl~~~~~CP~Cr~~~~ 183 (201)
....|.||-++++. ++..+ .-.|+--.|..|..- .-+.++.||.|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 44479999999832 23322 234666789999842 2234779999999876
No 150
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=39.85 E-value=17 Score=19.28 Aligned_cols=8 Identities=50% Similarity=1.082 Sum_probs=4.2
Q ss_pred cccccccc
Q 028970 138 CPICLEEY 145 (201)
Q Consensus 138 C~ICle~~ 145 (201)
||-|...+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 55555554
No 151
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=39.05 E-value=24 Score=18.93 Aligned_cols=29 Identities=21% Similarity=0.463 Sum_probs=10.5
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHH
Q 028970 137 TCPICLEEYDTENPKLITKCEHHFHLSCI 165 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~H~Fh~~CI 165 (201)
.|.+|...........=..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 47788887733233355778888888885
No 152
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=38.66 E-value=11 Score=23.37 Aligned_cols=13 Identities=23% Similarity=0.631 Sum_probs=6.8
Q ss_pred CCccccccccccc
Q 028970 174 SCPICDQDAVFRY 186 (201)
Q Consensus 174 ~CP~Cr~~~~~~~ 186 (201)
.||+|.++|..++
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999998886543
No 153
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=38.59 E-value=18 Score=25.70 Aligned_cols=33 Identities=21% Similarity=0.316 Sum_probs=22.8
Q ss_pred CcccccccccccCCCCCe--EEcCCCCcccHHHHHHH
Q 028970 134 EEDTCPICLEEYDTENPK--LITKCEHHFHLSCILEW 168 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~--~~~~C~H~Fh~~CI~~W 168 (201)
....|.||.... +-.+ ....|...||..|...+
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHHC
Confidence 456799999885 2222 22347889999998653
No 154
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=37.19 E-value=28 Score=24.60 Aligned_cols=35 Identities=23% Similarity=0.320 Sum_probs=28.4
Q ss_pred cccccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028970 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (201)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~ 170 (201)
+..|.||-..+..++....++ .-..|.+|+.+=..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 456999999998888888888 66689999877543
No 155
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=36.41 E-value=22 Score=25.51 Aligned_cols=24 Identities=21% Similarity=0.484 Sum_probs=18.7
Q ss_pred CCcccHHHHHHHHhc---------CCCCccccc
Q 028970 157 EHHFHLSCILEWNER---------SESCPICDQ 180 (201)
Q Consensus 157 ~H~Fh~~CI~~Wl~~---------~~~CP~Cr~ 180 (201)
.-.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988753 227999976
No 156
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.18 E-value=28 Score=23.32 Aligned_cols=28 Identities=29% Similarity=0.475 Sum_probs=21.9
Q ss_pred CCcccHHHHHHHHhcCCCCccccccccccc
Q 028970 157 EHHFHLSCILEWNERSESCPICDQDAVFRY 186 (201)
Q Consensus 157 ~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~ 186 (201)
.|.||..|...-|. ..||.|...+....
T Consensus 28 EcTFCadCae~~l~--g~CPnCGGelv~RP 55 (84)
T COG3813 28 ECTFCADCAENRLH--GLCPNCGGELVARP 55 (84)
T ss_pred eeehhHhHHHHhhc--CcCCCCCchhhcCc
Confidence 37899999987665 49999988776554
No 157
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=35.64 E-value=22 Score=24.09 Aligned_cols=34 Identities=21% Similarity=0.429 Sum_probs=23.9
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHH
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILE 167 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~ 167 (201)
....|.+|.......-.-....|...||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 4457999998853323334567899999999754
No 158
>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=35.14 E-value=29 Score=21.26 Aligned_cols=35 Identities=14% Similarity=0.327 Sum_probs=24.8
Q ss_pred ccccccccccCCCCCe-EEcCCCCcccHHHHHHHHh
Q 028970 136 DTCPICLEEYDTENPK-LITKCEHHFHLSCILEWNE 170 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~-~~~~C~H~Fh~~CI~~Wl~ 170 (201)
..|.+|-..|...... .-..||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 4689998888543322 3457999999999876544
No 159
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=33.98 E-value=7.1 Score=33.25 Aligned_cols=39 Identities=23% Similarity=0.422 Sum_probs=28.2
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERS 172 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~ 172 (201)
...+|.+|++++..+...-.+.|.-+||..|+..|+...
T Consensus 213 ~~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 213 PIRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred CceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 333899999999543344445666699999999999753
No 160
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=33.59 E-value=11 Score=32.02 Aligned_cols=53 Identities=17% Similarity=0.407 Sum_probs=33.9
Q ss_pred CcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCccccccccccceeeccCCCc
Q 028970 134 EEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFRYVIVATDHSK 195 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~~~~~~~~~~~ 195 (201)
-...|..|.+-+-+.+- +.-.=.|+||..|+ .|-+|++.+...+...+..+..
T Consensus 91 fGTKCsaC~~GIpPtqV-VRkAqd~VYHl~CF--------~C~iC~R~L~TGdEFYLmeD~r 143 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQV-VRKAQDFVYHLHCF--------ACFICKRQLATGDEFYLMEDAR 143 (383)
T ss_pred hCCcchhhcCCCChHHH-HHHhhcceeehhhh--------hhHhhhcccccCCeeEEeccce
Confidence 34468888777633332 32345689999996 6889988877665555544443
No 161
>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 PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=31.64 E-value=33 Score=19.47 Aligned_cols=11 Identities=45% Similarity=1.204 Sum_probs=7.5
Q ss_pred cccccccccCC
Q 028970 137 TCPICLEEYDT 147 (201)
Q Consensus 137 ~C~ICle~~~~ 147 (201)
.|+-|.-.|..
T Consensus 4 ~Cp~C~~~y~i 14 (36)
T PF13717_consen 4 TCPNCQAKYEI 14 (36)
T ss_pred ECCCCCCEEeC
Confidence 57778777733
No 163
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=31.07 E-value=35 Score=19.43 Aligned_cols=10 Identities=40% Similarity=1.125 Sum_probs=7.3
Q ss_pred cccccccccC
Q 028970 137 TCPICLEEYD 146 (201)
Q Consensus 137 ~C~ICle~~~ 146 (201)
.||-|...|.
T Consensus 4 ~CP~C~~~f~ 13 (37)
T PF13719_consen 4 TCPNCQTRFR 13 (37)
T ss_pred ECCCCCceEE
Confidence 5888887773
No 164
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.07 E-value=8.2 Score=32.53 Aligned_cols=48 Identities=25% Similarity=0.480 Sum_probs=36.1
Q ss_pred CcccccccccccCCC---CCeEEcC--------CCCcccHHHHHHHHhcCC-CCcccccc
Q 028970 134 EEDTCPICLEEYDTE---NPKLITK--------CEHHFHLSCILEWNERSE-SCPICDQD 181 (201)
Q Consensus 134 ~~~~C~ICle~~~~~---~~~~~~~--------C~H~Fh~~CI~~Wl~~~~-~CP~Cr~~ 181 (201)
....|.||...|+.. ....++. |+|..|..|+..-+.+.. .||.|+..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 346699999999532 1113455 999999999999987654 99999874
No 165
>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=31.00 E-value=24 Score=24.67 Aligned_cols=39 Identities=15% Similarity=0.522 Sum_probs=27.9
Q ss_pred cccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 028970 135 EDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSESCPICDQDAVFR 185 (201)
Q Consensus 135 ~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~~~~~~ 185 (201)
...|.||-... -.=+|+||..|-. ....|.||-+.|...
T Consensus 44 ~~~C~~CK~~v--------~q~g~~YCq~CAY----kkGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKV--------HQPGAKYCQTCAY----KKGICAMCGKKILDT 82 (90)
T ss_pred Ccccccccccc--------ccCCCccChhhhc----ccCcccccCCeeccc
Confidence 44699996665 2236789999953 367999998877543
No 166
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=30.73 E-value=31 Score=25.07 Aligned_cols=46 Identities=17% Similarity=0.569 Sum_probs=29.5
Q ss_pred CcccccccccccCC--CCCeEEcCCCCcccHHHHHHHHhcCC--CCccccc
Q 028970 134 EEDTCPICLEEYDT--ENPKLITKCEHHFHLSCILEWNERSE--SCPICDQ 180 (201)
Q Consensus 134 ~~~~C~ICle~~~~--~~~~~~~~C~H~Fh~~CI~~Wl~~~~--~CP~Cr~ 180 (201)
.+..|.+|...|.. .....-..|.|.+|..|-.. ..... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 66789999998733 23446688999999999644 11111 6888855
No 167
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.44 E-value=40 Score=32.12 Aligned_cols=45 Identities=22% Similarity=0.561 Sum_probs=34.1
Q ss_pred cccccccccCCCCCeEEcCCCC-cccHHHHHHHHh--c----CCCCccccccccc
Q 028970 137 TCPICLEEYDTENPKLITKCEH-HFHLSCILEWNE--R----SESCPICDQDAVF 184 (201)
Q Consensus 137 ~C~ICle~~~~~~~~~~~~C~H-~Fh~~CI~~Wl~--~----~~~CP~Cr~~~~~ 184 (201)
.|.||-..+ +-...-.|+| ..|..|..+... . .+.||+||..+..
T Consensus 2 ~c~ic~~s~---~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSP---DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCc---cccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 599998887 4445578999 999999987653 2 4578999986543
No 168
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.12 E-value=30 Score=24.25 Aligned_cols=13 Identities=23% Similarity=0.761 Sum_probs=11.3
Q ss_pred cccHHHHHHHHhc
Q 028970 159 HFHLSCILEWNER 171 (201)
Q Consensus 159 ~Fh~~CI~~Wl~~ 171 (201)
.||..|+..|+..
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999863
No 169
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=28.25 E-value=15 Score=22.94 Aligned_cols=19 Identities=26% Similarity=0.850 Sum_probs=14.6
Q ss_pred CeEEc-CCCCcccHHHHHHH
Q 028970 150 PKLIT-KCEHHFHLSCILEW 168 (201)
Q Consensus 150 ~~~~~-~C~H~Fh~~CI~~W 168 (201)
..+.- .|++.||..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 33444 78999999998888
No 170
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=27.86 E-value=23 Score=36.75 Aligned_cols=53 Identities=25% Similarity=0.515 Sum_probs=41.0
Q ss_pred ccCCCcccccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCC----CCccccccc
Q 028970 130 AASEEEDTCPICLEEYDTENPKLITKCEHHFHLSCILEWNERSE----SCPICDQDA 182 (201)
Q Consensus 130 ~~~~~~~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~~~~----~CP~Cr~~~ 182 (201)
........|.||.........+.-..|.-.||..|+..-+.... .||-||..-
T Consensus 1103 ~~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1103 DRSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 34456778999999985555545567889999999999887544 999998765
No 171
>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=27.85 E-value=50 Score=18.20 Aligned_cols=9 Identities=33% Similarity=1.062 Sum_probs=6.3
Q ss_pred CCCCccccc
Q 028970 172 SESCPICDQ 180 (201)
Q Consensus 172 ~~~CP~Cr~ 180 (201)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 348888865
No 172
>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=26.91 E-value=30 Score=18.16 Aligned_cols=10 Identities=30% Similarity=1.059 Sum_probs=7.6
Q ss_pred CCCccccccc
Q 028970 173 ESCPICDQDA 182 (201)
Q Consensus 173 ~~CP~Cr~~~ 182 (201)
..||+|.+.+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 3699997776
No 173
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.68 E-value=18 Score=32.54 Aligned_cols=37 Identities=19% Similarity=0.577 Sum_probs=25.9
Q ss_pred cccccccccccCCCCC---eE--EcCCCCcccHHHHHHHHhc
Q 028970 135 EDTCPICLEEYDTENP---KL--ITKCEHHFHLSCILEWNER 171 (201)
Q Consensus 135 ~~~C~ICle~~~~~~~---~~--~~~C~H~Fh~~CI~~Wl~~ 171 (201)
...||.|...+..... .. ...|.|.||..|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 3349999988843321 11 2249999999999888765
No 174
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=25.45 E-value=27 Score=25.19 Aligned_cols=29 Identities=38% Similarity=0.788 Sum_probs=19.9
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~ 170 (201)
..|+.|..+|.-.+.. +.+|..|..+|-.
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 3599999998444432 4477788888864
No 175
>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=25.28 E-value=9.7 Score=32.19 Aligned_cols=47 Identities=21% Similarity=0.352 Sum_probs=21.1
Q ss_pred CCcccccccccccCCCCCeEEcC----CCCcccHHHHHHHHhcCCCCcccccc
Q 028970 133 EEEDTCPICLEEYDTENPKLITK----CEHHFHLSCILEWNERSESCPICDQD 181 (201)
Q Consensus 133 ~~~~~C~ICle~~~~~~~~~~~~----C~H~Fh~~CI~~Wl~~~~~CP~Cr~~ 181 (201)
.....||||=..... .++.-. =.|.+|..|-.+|-.....||.|...
T Consensus 170 w~~g~CPvCGs~P~~--s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVL--SVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEE--EEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCce--EEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 345689999776511 001111 13568888999998888899999654
No 176
>PLN02400 cellulose synthase
Probab=25.14 E-value=66 Score=32.45 Aligned_cols=50 Identities=18% Similarity=0.472 Sum_probs=33.4
Q ss_pred CcccccccccccCC---CCCe-EEcCCCCcccHHHHH-HHHhcCCCCcccccccc
Q 028970 134 EEDTCPICLEEYDT---ENPK-LITKCEHHFHLSCIL-EWNERSESCPICDQDAV 183 (201)
Q Consensus 134 ~~~~C~ICle~~~~---~~~~-~~~~C~H~Fh~~CI~-~Wl~~~~~CP~Cr~~~~ 183 (201)
....|-||=+++.. ++.. ..-.|+--.|..|.. +.-+.++.||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 44479999999833 3332 224566669999973 22234669999998876
No 177
>PRK11827 hypothetical protein; Provisional
Probab=23.07 E-value=29 Score=22.39 Aligned_cols=19 Identities=16% Similarity=0.475 Sum_probs=11.5
Q ss_pred HHHhcCCCCcccccccccc
Q 028970 167 EWNERSESCPICDQDAVFR 185 (201)
Q Consensus 167 ~Wl~~~~~CP~Cr~~~~~~ 185 (201)
+||..--.||+|+..+..+
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 3454455677777766544
No 178
>PLN02436 cellulose synthase A
Probab=22.76 E-value=96 Score=31.33 Aligned_cols=50 Identities=24% Similarity=0.527 Sum_probs=33.1
Q ss_pred CcccccccccccCC---CCCeE-EcCCCCcccHHHHHHHH-hcCCCCcccccccc
Q 028970 134 EEDTCPICLEEYDT---ENPKL-ITKCEHHFHLSCILEWN-ERSESCPICDQDAV 183 (201)
Q Consensus 134 ~~~~C~ICle~~~~---~~~~~-~~~C~H~Fh~~CI~~Wl-~~~~~CP~Cr~~~~ 183 (201)
....|.||-+++.. ++..+ --.|+--.|..|..-=- +.++.||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34479999999822 33322 23466668999984322 34679999999876
No 179
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=22.74 E-value=94 Score=29.53 Aligned_cols=46 Identities=22% Similarity=0.448 Sum_probs=26.9
Q ss_pred ccccccccccCCCCCeEEcCCCCcccH--HHHHH-HHhcC---C---CCcccccccccccee
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHL--SCILE-WNERS---E---SCPICDQDAVFRYVI 188 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~--~CI~~-Wl~~~---~---~CP~Cr~~~~~~~~~ 188 (201)
..|+|+.-. ..+||.++.|. .|... |+... + .||+|.+.+.++.+.
T Consensus 307 L~CPl~~~R-------m~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~ 361 (636)
T KOG2169|consen 307 LNCPLSKMR-------MSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLI 361 (636)
T ss_pred ecCCcccce-------eecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchh
Confidence 446555444 34566655555 56553 43321 1 999999988776643
No 180
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.73 E-value=54 Score=20.19 Aligned_cols=9 Identities=44% Similarity=1.368 Sum_probs=6.1
Q ss_pred hcCCCCccc
Q 028970 170 ERSESCPIC 178 (201)
Q Consensus 170 ~~~~~CP~C 178 (201)
.....||.|
T Consensus 47 ~~~~~CP~C 55 (55)
T PF14311_consen 47 RRGKGCPYC 55 (55)
T ss_pred cCCCCCCCC
Confidence 455678877
No 181
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.25 E-value=22 Score=26.81 Aligned_cols=45 Identities=27% Similarity=0.614 Sum_probs=26.5
Q ss_pred cCCCcccccccccccCCCCCeEEcCCCC-------cccHHHHHHHHhcCC----CCcccccc
Q 028970 131 ASEEEDTCPICLEEYDTENPKLITKCEH-------HFHLSCILEWNERSE----SCPICDQD 181 (201)
Q Consensus 131 ~~~~~~~C~ICle~~~~~~~~~~~~C~H-------~Fh~~CI~~Wl~~~~----~CP~Cr~~ 181 (201)
...++..|.||+..- ...-||| .||..|-.+.-.+++ .|-+|++.
T Consensus 61 Gv~ddatC~IC~KTK------FADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 61 GVGDDATCGICHKTK------FADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred ccCcCcchhhhhhcc------cccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 346778899998652 2234555 455555544433333 78888663
No 182
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=22.16 E-value=63 Score=26.73 Aligned_cols=25 Identities=28% Similarity=0.630 Sum_probs=16.9
Q ss_pred ccccccccccCCCCCeEEcCCCCcc
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHF 160 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~F 160 (201)
..||||...+........-..+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 4799999999554443334446888
No 183
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=22.14 E-value=50 Score=21.17 Aligned_cols=15 Identities=20% Similarity=0.618 Sum_probs=11.1
Q ss_pred cCCCCcccccccccc
Q 028970 171 RSESCPICDQDAVFR 185 (201)
Q Consensus 171 ~~~~CP~Cr~~~~~~ 185 (201)
.++.||+|.+++..+
T Consensus 2 ~HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD 16 (59)
T ss_pred CCCcCCcCCCcCCcc
Confidence 356888998887755
No 184
>PF11809 DUF3330: Domain of unknown function (DUF3330); InterPro: IPR021767 This family of proteins are functionally uncharacterised. This family is only found in bacteria.
Probab=21.93 E-value=28 Score=22.93 Aligned_cols=37 Identities=27% Similarity=0.621 Sum_probs=23.7
Q ss_pred CcccccccccccCCCCCeEEcCCC----Cccc-HHHHHHHHhcC
Q 028970 134 EEDTCPICLEEYDTENPKLITKCE----HHFH-LSCILEWNERS 172 (201)
Q Consensus 134 ~~~~C~ICle~~~~~~~~~~~~C~----H~Fh-~~CI~~Wl~~~ 172 (201)
....|-+|+.++ .-....++=+ ++|| ++|..+|..+.
T Consensus 10 ~~~sC~vC~KEI--Pl~~a~t~E~~eYV~hFCGLeCY~~w~a~~ 51 (70)
T PF11809_consen 10 KTTSCCVCCKEI--PLDAAFTPEAAEYVEHFCGLECYQRWQARA 51 (70)
T ss_pred ccchHHHHhhhC--ChhhccCcchHHHHHHHhhHHHHHHHHHHH
Confidence 345799999988 2222334444 3454 67999999764
No 185
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=21.41 E-value=81 Score=22.54 Aligned_cols=34 Identities=24% Similarity=0.222 Sum_probs=26.0
Q ss_pred ccccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028970 136 DTCPICLEEYDTENPKLITKCEHHFHLSCILEWNE 170 (201)
Q Consensus 136 ~~C~ICle~~~~~~~~~~~~C~H~Fh~~CI~~Wl~ 170 (201)
..|.||-..+-.++....++= -..|+.|+.+=..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k-G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK-GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC-CcEeHHHHHHHHh
Confidence 469999999977777666665 5689999887543
No 186
>PF12773 DZR: Double zinc ribbon
Probab=21.26 E-value=74 Score=18.94 Aligned_cols=12 Identities=25% Similarity=0.772 Sum_probs=7.6
Q ss_pred CCCCcccccccc
Q 028970 172 SESCPICDQDAV 183 (201)
Q Consensus 172 ~~~CP~Cr~~~~ 183 (201)
...||.|...+.
T Consensus 29 ~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 29 KKICPNCGAENP 40 (50)
T ss_pred CCCCcCCcCCCc
Confidence 346888876544
No 187
>PHA03328 nuclear egress lamina protein UL31; Provisional
Probab=20.93 E-value=48 Score=28.55 Aligned_cols=11 Identities=55% Similarity=1.500 Sum_probs=7.8
Q ss_pred CCCcc--cCCCCC
Q 028970 1 MGGCC--CSSRKP 11 (201)
Q Consensus 1 mg~cc--~~~~~~ 11 (201)
||||| |.+.+.
T Consensus 119 ~G~~C~~C~~~g~ 131 (316)
T PHA03328 119 IGGCCPTCSVSGE 131 (316)
T ss_pred cCccCCCCCCCCC
Confidence 78988 885433
No 188
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=20.49 E-value=18 Score=21.25 Aligned_cols=27 Identities=22% Similarity=0.596 Sum_probs=15.2
Q ss_pred EcCCCCcccHHHHHHHHhcCCCCccccc
Q 028970 153 ITKCEHHFHLSCILEWNERSESCPICDQ 180 (201)
Q Consensus 153 ~~~C~H~Fh~~CI~~Wl~~~~~CP~Cr~ 180 (201)
-..|||.|-..--..= .....||.|..
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred eCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 3567777764321110 23448999987
No 189
>PF02718 Herpes_UL31: Herpesvirus UL31-like protein; InterPro: IPR021152 This is a family of Herpesvirus proteins, belong to the UL31 family, which including UL31, UL53, and the product of ORF69 in some strains. The proteins in this family have no known function.
Probab=20.42 E-value=58 Score=27.31 Aligned_cols=12 Identities=33% Similarity=0.695 Sum_probs=8.0
Q ss_pred cccHHHHHHHHh
Q 028970 159 HFHLSCILEWNE 170 (201)
Q Consensus 159 ~Fh~~CI~~Wl~ 170 (201)
|.|..||+..+.
T Consensus 183 Hl~~~~i~~ll~ 194 (258)
T PF02718_consen 183 HLHERCIRQLLD 194 (258)
T ss_pred cchHHHHHHHHH
Confidence 356777777665
No 190
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=20.26 E-value=1.1e+02 Score=31.02 Aligned_cols=50 Identities=22% Similarity=0.502 Sum_probs=33.7
Q ss_pred CcccccccccccCC---CCCe-EEcCCCCcccHHHHH-HHHhcCCCCcccccccc
Q 028970 134 EEDTCPICLEEYDT---ENPK-LITKCEHHFHLSCIL-EWNERSESCPICDQDAV 183 (201)
Q Consensus 134 ~~~~C~ICle~~~~---~~~~-~~~~C~H~Fh~~CI~-~Wl~~~~~CP~Cr~~~~ 183 (201)
....|-||=++++. ++.. .--.|+--.|..|.. +.-+.++.||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34479999999833 3332 223466669999984 23345779999998876
Done!