Query 028051
Match_columns 214
No_of_seqs 222 out of 2005
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 05:29:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028051.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028051hhsearch_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 99.7 2.8E-17 6.1E-22 103.1 2.5 44 158-201 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 2.9E-15 6.4E-20 130.8 3.7 51 158-208 230-281 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 1.5E-14 3.2E-19 100.4 4.1 47 155-201 17-73 (73)
4 PHA02929 N1R/p28-like protein; 99.3 6.2E-13 1.3E-17 111.4 3.8 53 156-208 173-230 (238)
5 COG5243 HRD1 HRD ubiquitin lig 99.3 6.2E-13 1.3E-17 115.7 3.0 51 155-205 285-345 (491)
6 PF12861 zf-Apc11: Anaphase-pr 99.3 1.4E-12 3.1E-17 91.9 3.3 51 155-205 19-82 (85)
7 PF13920 zf-C3HC4_3: Zinc fing 99.3 2.8E-12 6.1E-17 82.4 3.1 47 157-206 2-49 (50)
8 COG5540 RING-finger-containing 99.2 3.8E-12 8.3E-17 108.2 2.4 51 155-205 321-372 (374)
9 PF13923 zf-C3HC4_2: Zinc fing 99.2 8.4E-12 1.8E-16 76.1 3.1 39 160-200 1-39 (39)
10 cd00162 RING RING-finger (Real 99.2 1.5E-11 3.3E-16 75.9 3.4 44 159-204 1-45 (45)
11 PLN03208 E3 ubiquitin-protein 99.1 5.8E-11 1.3E-15 96.1 4.0 49 155-206 16-80 (193)
12 PF14634 zf-RING_5: zinc-RING 99.1 7.2E-11 1.6E-15 73.9 3.0 44 159-202 1-44 (44)
13 KOG0320 Predicted E3 ubiquitin 99.1 6.8E-11 1.5E-15 93.7 2.5 52 155-207 129-180 (187)
14 COG5194 APC11 Component of SCF 99.0 8.2E-11 1.8E-15 81.2 2.1 51 155-205 18-81 (88)
15 PF15227 zf-C3HC4_4: zinc fing 99.0 1.9E-10 4.2E-15 71.2 3.1 38 160-200 1-42 (42)
16 PHA02926 zinc finger-like prot 99.0 1.8E-10 3.9E-15 94.5 3.0 53 155-207 168-232 (242)
17 KOG0802 E3 ubiquitin ligase [P 99.0 1.2E-10 2.5E-15 109.0 2.0 51 155-205 289-341 (543)
18 KOG0823 Predicted E3 ubiquitin 99.0 1.8E-10 3.9E-15 94.9 2.7 49 155-206 45-96 (230)
19 PF00097 zf-C3HC4: Zinc finger 99.0 3.9E-10 8.5E-15 69.2 3.5 39 160-200 1-41 (41)
20 KOG0317 Predicted E3 ubiquitin 99.0 2.9E-10 6.4E-15 96.3 2.4 49 154-205 236-284 (293)
21 smart00184 RING Ring finger. E 98.9 6.4E-10 1.4E-14 66.2 3.2 38 160-200 1-39 (39)
22 smart00504 Ubox Modified RING 98.9 1.4E-09 3E-14 72.7 3.8 45 158-205 2-46 (63)
23 KOG1493 Anaphase-promoting com 98.9 2.9E-10 6.3E-15 77.8 -0.7 51 155-205 18-81 (84)
24 PF13445 zf-RING_UBOX: RING-ty 98.8 3E-09 6.4E-14 66.1 2.9 34 160-194 1-35 (43)
25 TIGR00599 rad18 DNA repair pro 98.8 2.3E-09 5.1E-14 96.0 3.2 50 154-206 23-72 (397)
26 smart00744 RINGv The RING-vari 98.7 1.2E-08 2.6E-13 65.3 3.1 42 159-201 1-49 (49)
27 PF11793 FANCL_C: FANCL C-term 98.5 2.6E-08 5.7E-13 68.5 0.5 51 157-207 2-68 (70)
28 KOG2930 SCF ubiquitin ligase, 98.5 4.4E-08 9.5E-13 71.0 1.5 64 142-205 30-108 (114)
29 COG5574 PEX10 RING-finger-cont 98.5 7.6E-08 1.7E-12 80.9 2.3 48 155-205 213-262 (271)
30 KOG2164 Predicted E3 ubiquitin 98.4 8.4E-08 1.8E-12 87.2 2.5 47 157-206 186-237 (513)
31 KOG0828 Predicted E3 ubiquitin 98.4 6.1E-08 1.3E-12 87.5 1.5 51 155-205 569-634 (636)
32 TIGR00570 cdk7 CDK-activating 98.3 3.7E-07 8.1E-12 79.1 3.4 51 156-206 2-55 (309)
33 KOG0804 Cytoplasmic Zn-finger 98.3 6.7E-08 1.5E-12 86.4 -1.3 103 99-205 119-222 (493)
34 PF04564 U-box: U-box domain; 98.3 4.6E-07 1E-11 62.7 3.1 48 156-206 3-51 (73)
35 KOG0287 Postreplication repair 98.3 2.9E-07 6.2E-12 79.9 1.3 48 155-205 21-68 (442)
36 KOG1734 Predicted RING-contain 98.2 2.5E-07 5.5E-12 78.0 0.6 51 155-205 222-281 (328)
37 KOG2177 Predicted E3 ubiquitin 98.2 5.8E-07 1.3E-11 75.8 1.4 45 155-202 11-55 (386)
38 COG5219 Uncharacterized conser 98.2 4.6E-07 9.9E-12 87.3 0.6 54 152-205 1464-1523(1525)
39 KOG1039 Predicted E3 ubiquitin 98.2 7.8E-07 1.7E-11 78.5 1.8 51 155-205 159-221 (344)
40 COG5432 RAD18 RING-finger-cont 98.1 1E-06 2.2E-11 75.1 2.0 47 155-204 23-69 (391)
41 KOG1645 RING-finger-containing 98.1 2E-06 4.4E-11 76.3 3.2 50 155-204 2-55 (463)
42 KOG1428 Inhibitor of type V ad 97.9 7.3E-06 1.6E-10 81.9 2.4 56 155-210 3484-3549(3738)
43 KOG0311 Predicted E3 ubiquitin 97.8 1.8E-06 3.8E-11 75.4 -1.9 52 155-208 41-93 (381)
44 KOG0825 PHD Zn-finger protein 97.8 3.1E-06 6.8E-11 80.3 -0.6 53 155-207 121-173 (1134)
45 KOG0827 Predicted E3 ubiquitin 97.8 9.1E-06 2E-10 71.8 1.9 43 159-201 6-52 (465)
46 PF14835 zf-RING_6: zf-RING of 97.8 3.7E-06 7.9E-11 56.2 -0.6 46 155-204 5-50 (65)
47 KOG4265 Predicted E3 ubiquitin 97.8 1.9E-05 4.2E-10 69.2 3.3 52 155-209 288-340 (349)
48 KOG0824 Predicted E3 ubiquitin 97.7 1.2E-05 2.5E-10 69.0 1.4 47 157-206 7-54 (324)
49 PF12906 RINGv: RING-variant d 97.6 3.3E-05 7.2E-10 48.8 2.2 40 160-200 1-47 (47)
50 KOG4445 Uncharacterized conser 97.6 1.3E-05 2.8E-10 68.8 0.4 57 155-211 113-192 (368)
51 KOG0978 E3 ubiquitin ligase in 97.6 1.2E-05 2.7E-10 76.3 0.3 46 157-205 643-689 (698)
52 PF11789 zf-Nse: Zinc-finger o 97.6 3.2E-05 7E-10 50.9 2.2 43 155-199 9-53 (57)
53 KOG0297 TNF receptor-associate 97.4 5.5E-05 1.2E-09 68.3 1.6 52 155-208 19-70 (391)
54 COG5152 Uncharacterized conser 97.4 6.2E-05 1.3E-09 61.1 1.7 48 157-207 196-243 (259)
55 KOG4172 Predicted E3 ubiquitin 97.3 6.1E-05 1.3E-09 48.6 0.4 49 157-208 7-57 (62)
56 PHA02862 5L protein; Provision 97.3 0.00017 3.7E-09 55.7 2.2 45 157-205 2-53 (156)
57 KOG1952 Transcription factor N 97.2 0.00085 1.8E-08 64.7 7.1 48 154-201 188-243 (950)
58 KOG4159 Predicted E3 ubiquitin 97.2 0.00022 4.7E-09 64.4 2.6 49 155-206 82-130 (398)
59 KOG1785 Tyrosine kinase negati 97.1 0.00016 3.5E-09 64.3 0.9 50 157-209 369-420 (563)
60 KOG1941 Acetylcholine receptor 97.1 0.00015 3.2E-09 64.4 0.5 51 155-205 363-416 (518)
61 KOG1813 Predicted E3 ubiquitin 97.1 0.00017 3.6E-09 61.9 0.6 49 157-208 241-289 (313)
62 PHA02825 LAP/PHD finger-like p 97.1 0.00048 1E-08 54.2 3.1 48 154-205 5-59 (162)
63 PF05883 Baculo_RING: Baculovi 97.0 0.00024 5.2E-09 54.5 1.2 35 157-191 26-66 (134)
64 KOG2660 Locus-specific chromos 96.9 0.00021 4.5E-09 62.2 -0.6 49 155-205 13-61 (331)
65 KOG4692 Predicted E3 ubiquitin 96.8 0.00082 1.8E-08 59.1 2.3 48 155-205 420-467 (489)
66 PF03854 zf-P11: P-11 zinc fin 96.7 0.00081 1.7E-08 42.2 1.2 45 159-208 4-49 (50)
67 KOG2879 Predicted E3 ubiquitin 96.5 0.002 4.4E-08 54.8 3.2 50 155-206 237-288 (298)
68 PF10367 Vps39_2: Vacuolar sor 96.3 0.0035 7.5E-08 45.7 3.1 33 155-188 76-108 (109)
69 KOG4275 Predicted E3 ubiquitin 96.3 0.00098 2.1E-08 57.2 0.1 47 155-208 298-345 (350)
70 PF14570 zf-RING_4: RING/Ubox 96.3 0.0034 7.4E-08 39.7 2.5 45 160-204 1-47 (48)
71 PHA03096 p28-like protein; Pro 96.2 0.0027 5.8E-08 55.0 1.9 45 158-202 179-231 (284)
72 KOG3268 Predicted E3 ubiquitin 96.1 0.0037 8E-08 50.1 2.1 53 153-205 161-228 (234)
73 KOG1814 Predicted E3 ubiquitin 96.0 0.0035 7.5E-08 56.2 1.8 46 157-202 184-237 (445)
74 KOG3039 Uncharacterized conser 96.0 0.0054 1.2E-07 51.6 2.8 51 156-206 220-271 (303)
75 KOG1571 Predicted E3 ubiquitin 95.8 0.0066 1.4E-07 53.6 2.8 47 155-207 303-349 (355)
76 KOG2114 Vacuolar assembly/sort 95.6 0.0069 1.5E-07 58.7 2.1 44 157-205 840-883 (933)
77 PF04641 Rtf2: Rtf2 RING-finge 95.4 0.013 2.8E-07 50.1 3.1 50 155-205 111-161 (260)
78 COG5175 MOT2 Transcriptional r 95.3 0.011 2.4E-07 51.9 2.3 54 152-205 9-64 (480)
79 KOG1940 Zn-finger protein [Gen 95.2 0.011 2.3E-07 50.9 1.9 45 158-202 159-204 (276)
80 PF07800 DUF1644: Protein of u 95.0 0.021 4.6E-07 44.9 2.9 34 156-192 1-47 (162)
81 COG5236 Uncharacterized conser 95.0 0.019 4.1E-07 50.6 2.8 50 153-205 57-108 (493)
82 KOG1002 Nucleotide excision re 95.0 0.0096 2.1E-07 55.1 1.0 49 154-205 533-586 (791)
83 KOG3970 Predicted E3 ubiquitin 94.9 0.016 3.4E-07 48.2 2.1 49 156-205 49-105 (299)
84 PF14447 Prok-RING_4: Prokaryo 94.9 0.0097 2.1E-07 38.6 0.7 45 157-206 7-51 (55)
85 KOG4185 Predicted E3 ubiquitin 94.7 0.022 4.7E-07 49.3 2.5 47 158-204 4-54 (296)
86 PF08746 zf-RING-like: RING-li 94.7 0.014 2.9E-07 36.1 0.9 41 160-200 1-43 (43)
87 KOG3053 Uncharacterized conser 94.6 0.015 3.2E-07 49.2 1.1 57 153-210 16-87 (293)
88 KOG0827 Predicted E3 ubiquitin 94.3 0.003 6.6E-08 56.2 -3.7 49 158-206 197-246 (465)
89 KOG1609 Protein involved in mR 94.0 0.031 6.7E-07 48.4 2.0 51 156-206 77-135 (323)
90 KOG0826 Predicted E3 ubiquitin 93.9 0.04 8.7E-07 48.2 2.3 48 155-204 298-345 (357)
91 KOG2817 Predicted E3 ubiquitin 93.7 0.054 1.2E-06 48.5 2.9 47 158-204 335-384 (394)
92 KOG0801 Predicted E3 ubiquitin 93.4 0.025 5.4E-07 44.7 0.2 30 155-184 175-204 (205)
93 KOG1001 Helicase-like transcri 93.3 0.04 8.7E-07 53.2 1.6 44 158-205 455-500 (674)
94 KOG2932 E3 ubiquitin ligase in 92.9 0.045 9.8E-07 47.6 1.1 46 159-208 92-137 (389)
95 KOG0298 DEAD box-containing he 92.8 0.026 5.6E-07 57.1 -0.6 45 156-202 1152-1196(1394)
96 KOG3002 Zn finger protein [Gen 92.8 0.051 1.1E-06 47.5 1.3 45 156-207 47-93 (299)
97 COG5183 SSM4 Protein involved 92.4 0.077 1.7E-06 51.5 2.0 49 155-204 10-65 (1175)
98 PF02891 zf-MIZ: MIZ/SP-RING z 91.6 0.072 1.6E-06 34.0 0.6 42 159-203 4-50 (50)
99 KOG2034 Vacuolar sorting prote 91.2 0.12 2.6E-06 50.7 1.9 38 154-192 814-851 (911)
100 COG5222 Uncharacterized conser 91.1 0.12 2.6E-06 44.8 1.6 43 158-202 275-318 (427)
101 KOG0309 Conserved WD40 repeat- 90.7 0.14 3E-06 49.5 1.8 39 160-199 1031-1069(1081)
102 PF10272 Tmpp129: Putative tra 89.5 0.42 9.1E-06 42.8 3.8 48 155-204 269-350 (358)
103 PF14169 YdjO: Cold-inducible 89.3 0.16 3.4E-06 33.5 0.7 21 194-214 39-59 (59)
104 KOG1812 Predicted E3 ubiquitin 87.3 0.2 4.4E-06 45.2 0.4 39 156-194 145-184 (384)
105 KOG3161 Predicted E3 ubiquitin 87.1 0.21 4.6E-06 47.5 0.4 43 157-202 11-54 (861)
106 KOG4362 Transcriptional regula 85.5 0.21 4.5E-06 48.0 -0.5 46 157-205 21-69 (684)
107 COG5220 TFB3 Cdk activating ki 85.5 0.34 7.4E-06 40.8 0.8 50 156-205 9-64 (314)
108 KOG1829 Uncharacterized conser 84.4 0.34 7.4E-06 45.9 0.4 45 155-202 509-558 (580)
109 smart00249 PHD PHD zinc finger 84.3 0.63 1.4E-05 27.8 1.4 31 159-189 1-31 (47)
110 KOG0825 PHD Zn-finger protein 84.2 0.61 1.3E-05 45.5 1.9 54 155-208 94-157 (1134)
111 PF13901 DUF4206: Domain of un 83.3 0.83 1.8E-05 37.6 2.2 43 155-202 150-197 (202)
112 PF05290 Baculo_IE-1: Baculovi 80.9 1 2.2E-05 34.6 1.7 51 156-206 79-133 (140)
113 KOG3899 Uncharacterized conser 80.2 0.91 2E-05 39.4 1.4 27 178-204 325-364 (381)
114 PF14446 Prok-RING_1: Prokaryo 78.7 2.2 4.7E-05 27.7 2.4 44 156-203 4-50 (54)
115 KOG0802 E3 ubiquitin ligase [P 78.5 0.89 1.9E-05 42.9 0.9 44 155-205 477-520 (543)
116 PF00628 PHD: PHD-finger; Int 78.1 1.1 2.3E-05 28.0 0.9 43 159-201 1-49 (51)
117 KOG1815 Predicted E3 ubiquitin 76.4 1.6 3.5E-05 40.1 1.9 38 155-194 68-105 (444)
118 KOG0824 Predicted E3 ubiquitin 76.1 0.76 1.6E-05 40.0 -0.3 56 155-212 103-158 (324)
119 COG5109 Uncharacterized conser 73.8 2.6 5.7E-05 37.0 2.4 45 158-202 337-384 (396)
120 KOG2066 Vacuolar assembly/sort 73.5 1.3 2.9E-05 43.1 0.6 43 157-200 784-830 (846)
121 KOG3579 Predicted E3 ubiquitin 71.8 1.7 3.8E-05 37.5 0.9 49 156-207 267-330 (352)
122 TIGR03602 streptolysinS bacter 71.4 1.4 3.1E-05 27.8 0.2 8 2-9 24-31 (56)
123 KOG0269 WD40 repeat-containing 70.3 3.2 7E-05 40.4 2.3 40 159-199 781-820 (839)
124 PF01363 FYVE: FYVE zinc finge 65.2 3.7 7.9E-05 27.3 1.2 38 154-191 6-44 (69)
125 KOG4718 Non-SMC (structural ma 64.3 3.5 7.7E-05 34.2 1.2 44 158-203 182-225 (235)
126 PF10571 UPF0547: Uncharacteri 63.8 3.9 8.5E-05 22.3 0.9 23 159-182 2-24 (26)
127 PF07975 C1_4: TFIIH C1-like d 63.6 3.4 7.3E-05 26.4 0.8 42 160-201 2-50 (51)
128 KOG1812 Predicted E3 ubiquitin 63.2 3.8 8.2E-05 37.1 1.3 44 157-200 306-351 (384)
129 TIGR00622 ssl1 transcription f 62.7 8.2 0.00018 28.8 2.8 45 157-201 55-110 (112)
130 PF13717 zinc_ribbon_4: zinc-r 62.7 4 8.8E-05 24.0 0.9 25 159-183 4-36 (36)
131 KOG1100 Predicted E3 ubiquitin 60.6 4 8.7E-05 33.8 0.9 40 160-206 161-201 (207)
132 PF07191 zinc-ribbons_6: zinc- 59.7 0.82 1.8E-05 31.2 -2.8 41 158-206 2-42 (70)
133 PF04710 Pellino: Pellino; In 58.8 3.2 6.9E-05 37.6 0.0 45 156-203 276-337 (416)
134 PF10235 Cript: Microtubule-as 57.6 4.3 9.4E-05 29.1 0.5 38 157-206 44-81 (90)
135 KOG3005 GIY-YIG type nuclease 56.6 5.8 0.00013 34.0 1.2 48 158-205 183-243 (276)
136 smart00064 FYVE Protein presen 56.1 5.4 0.00012 26.4 0.8 38 155-192 8-46 (68)
137 KOG2807 RNA polymerase II tran 55.9 9.2 0.0002 33.8 2.3 46 156-201 329-374 (378)
138 PF07649 C1_3: C1-like domain; 54.3 9.4 0.0002 21.2 1.5 29 159-187 2-30 (30)
139 PF04423 Rad50_zn_hook: Rad50 54.1 3 6.5E-05 26.6 -0.7 11 196-206 22-32 (54)
140 KOG2068 MOT2 transcription fac 53.2 9 0.00019 33.9 1.9 49 158-206 250-299 (327)
141 PF02318 FYVE_2: FYVE-type zin 52.6 10 0.00022 28.3 1.8 46 156-203 53-103 (118)
142 PF05605 zf-Di19: Drought indu 52.5 3 6.4E-05 26.6 -0.9 39 157-205 2-42 (54)
143 PF13719 zinc_ribbon_5: zinc-r 51.9 9.4 0.0002 22.4 1.3 25 159-183 4-36 (37)
144 PF06844 DUF1244: Protein of u 51.2 9.8 0.00021 25.6 1.4 11 182-192 12-22 (68)
145 smart00132 LIM Zinc-binding do 51.1 8.6 0.00019 21.7 1.0 37 159-204 1-37 (39)
146 KOG2071 mRNA cleavage and poly 51.0 9.3 0.0002 36.3 1.7 36 155-190 511-556 (579)
147 PF14311 DUF4379: Domain of un 50.8 9.9 0.00021 24.2 1.4 24 176-200 32-55 (55)
148 cd00350 rubredoxin_like Rubred 50.0 12 0.00025 21.4 1.4 10 194-203 17-26 (33)
149 PF13832 zf-HC5HC2H_2: PHD-zin 48.1 11 0.00023 27.5 1.3 33 156-190 54-88 (110)
150 PF14569 zf-UDP: Zinc-binding 46.4 25 0.00055 24.5 2.9 52 156-207 8-64 (80)
151 PF09723 Zn-ribbon_8: Zinc rib 43.5 4.3 9.3E-05 24.6 -1.2 30 175-205 8-38 (42)
152 PLN02189 cellulose synthase 43.4 24 0.00052 36.0 3.3 52 156-207 33-89 (1040)
153 PHA02610 uvsY.-2 hypothetical 43.3 9.7 0.00021 24.4 0.4 16 195-210 2-17 (53)
154 KOG1729 FYVE finger containing 42.1 4.3 9.3E-05 35.4 -1.8 36 159-194 216-251 (288)
155 cd00065 FYVE FYVE domain; Zinc 40.0 23 0.00049 22.3 1.8 35 158-192 3-38 (57)
156 smart00734 ZnF_Rad18 Rad18-lik 39.0 12 0.00027 20.2 0.4 9 196-204 3-11 (26)
157 PF06906 DUF1272: Protein of u 38.0 24 0.00052 23.0 1.6 26 180-207 29-54 (57)
158 PF13771 zf-HC5HC2H: PHD-like 37.0 21 0.00046 24.7 1.4 33 157-189 36-68 (90)
159 KOG3039 Uncharacterized conser 36.9 30 0.00065 29.6 2.4 37 154-193 40-76 (303)
160 KOG4185 Predicted E3 ubiquitin 36.6 5.6 0.00012 34.3 -2.0 47 157-203 207-265 (296)
161 KOG1814 Predicted E3 ubiquitin 36.5 22 0.00047 32.5 1.7 37 154-190 365-404 (445)
162 KOG3842 Adaptor protein Pellin 35.5 30 0.00064 30.7 2.3 51 157-207 341-416 (429)
163 PF12660 zf-TFIIIC: Putative z 34.2 2.9 6.4E-05 30.4 -3.5 50 158-209 15-70 (99)
164 COG2824 PhnA Uncharacterized Z 33.9 12 0.00026 27.7 -0.3 29 158-192 4-32 (112)
165 KOG3113 Uncharacterized conser 33.8 33 0.00071 29.4 2.2 48 156-205 110-158 (293)
166 PRK01343 zinc-binding protein; 33.7 19 0.0004 23.6 0.6 11 195-205 10-20 (57)
167 smart00647 IBR In Between Ring 32.9 14 0.0003 23.7 -0.1 32 159-190 20-58 (64)
168 cd00729 rubredoxin_SM Rubredox 32.1 28 0.00062 20.0 1.2 9 195-203 19-27 (34)
169 KOG4218 Nuclear hormone recept 31.1 17 0.00036 32.6 0.1 48 155-203 13-76 (475)
170 PLN02436 cellulose synthase A 30.9 45 0.00097 34.2 3.0 52 156-207 35-91 (1094)
171 KOG3799 Rab3 effector RIM1 and 30.9 11 0.00025 29.0 -0.8 50 154-203 62-116 (169)
172 PF03119 DNA_ligase_ZBD: NAD-d 29.8 16 0.00035 20.2 -0.2 12 196-207 1-12 (28)
173 KOG1512 PHD Zn-finger protein 29.3 52 0.0011 28.7 2.8 52 156-207 257-327 (381)
174 PRK05978 hypothetical protein; 29.1 23 0.00051 27.7 0.6 18 189-206 47-64 (148)
175 TIGR02605 CxxC_CxxC_SSSS putat 28.4 15 0.00033 22.8 -0.5 24 174-202 7-34 (52)
176 PF10886 DUF2685: Protein of u 28.3 21 0.00045 23.1 0.1 15 195-209 2-16 (54)
177 COG3364 Zn-ribbon containing p 28.3 35 0.00075 25.1 1.3 27 173-203 3-29 (112)
178 PLN02638 cellulose synthase A 27.8 58 0.0012 33.5 3.2 52 156-207 16-72 (1079)
179 COG3492 Uncharacterized protei 25.7 35 0.00076 24.5 0.9 12 182-193 43-54 (104)
180 PF00412 LIM: LIM domain; Int 24.9 50 0.0011 20.5 1.5 38 160-206 1-38 (58)
181 PF09477 Type_III_YscG: Bacter 24.6 47 0.001 24.8 1.5 18 178-195 17-36 (116)
182 PRK00418 DNA gyrase inhibitor; 24.3 30 0.00064 23.1 0.3 11 195-205 7-17 (62)
183 PF02444 HEV_ORF1: Hepatitis E 23.3 28 0.00062 25.2 0.1 8 2-9 9-16 (114)
184 PF05715 zf-piccolo: Piccolo Z 23.1 39 0.00086 22.3 0.7 12 194-205 2-13 (61)
185 PF03884 DUF329: Domain of unk 22.8 26 0.00056 22.9 -0.2 12 195-206 3-14 (57)
186 PF04710 Pellino: Pellino; In 22.7 28 0.00061 31.6 0.0 50 157-206 328-402 (416)
187 PTZ00303 phosphatidylinositol 22.3 99 0.0021 31.0 3.5 61 148-208 450-533 (1374)
188 PF09237 GAGA: GAGA factor; I 22.0 27 0.0006 22.4 -0.2 9 196-204 26-34 (54)
189 PRK11827 hypothetical protein; 21.1 29 0.00064 22.9 -0.2 19 188-206 2-20 (60)
190 PF10497 zf-4CXXC_R1: Zinc-fin 20.8 65 0.0014 23.6 1.6 24 179-202 37-69 (105)
191 COG5141 PHD zinc finger-contai 20.8 46 0.001 31.2 1.0 54 147-200 183-253 (669)
192 KOG1245 Chromatin remodeling c 20.6 32 0.0007 36.5 -0.1 50 155-204 1106-1159(1404)
193 KOG1356 Putative transcription 20.4 32 0.00069 34.3 -0.2 45 157-202 229-279 (889)
194 PF04216 FdhE: Protein involve 20.1 7.6 0.00016 33.6 -4.1 48 156-203 171-220 (290)
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=99.66 E-value=2.8e-17 Score=103.11 Aligned_cols=44 Identities=45% Similarity=1.152 Sum_probs=40.1
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccc
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (214)
+.|+||+++|..++..+.++|||.||.+||.+|++++.+||+||
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 46999999998888899999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=2.9e-15 Score=130.77 Aligned_cols=51 Identities=37% Similarity=0.874 Sum_probs=46.2
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCc-ccccccchhhhc
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDT-CPVCNQVRLKIF 208 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~t-CPvCr~~~~~~~ 208 (214)
++|+||||+|..++.+++|||+|.||..||++||....+ ||+||+.+.+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 489999999999999999999999999999999987755 999999876544
No 3
>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=99.50 E-value=1.5e-14 Score=100.44 Aligned_cols=47 Identities=36% Similarity=0.965 Sum_probs=38.0
Q ss_pred cCCCccccccccccC----------CCCeEecCCCCcccHHHHHHHHhcCCcccccc
Q 028051 155 EEEDVCPTCLEEYDA----------ENPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (214)
Q Consensus 155 ee~~~C~ICle~~~~----------~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (214)
..++.|+||++.+.. +..+...+|||.||..||.+||+.+.+||+||
T Consensus 17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 455669999999932 23456678999999999999999999999997
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.34 E-value=6.2e-13 Score=111.43 Aligned_cols=53 Identities=28% Similarity=0.785 Sum_probs=43.8
Q ss_pred CCCccccccccccCCCC-----eEecCCCCcccHHHHHHHHhcCCcccccccchhhhc
Q 028051 156 EEDVCPTCLEEYDAENP-----RIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKIF 208 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~-----~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~~ 208 (214)
.+..|+||++.+..... .++++|+|.||..||.+|++++.+||+||+.+..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEe
Confidence 45789999998754321 356789999999999999999999999999887544
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.32 E-value=6.2e-13 Score=115.70 Aligned_cols=51 Identities=29% Similarity=0.905 Sum_probs=43.7
Q ss_pred cCCCcccccccc-ccCCC---------CeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEE-YDAEN---------PRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~-~~~~~---------~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
..+..|.||+|+ +..++ .++.+||||.||.+|++.||+|+.+||+||.+++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 467789999999 45442 4567999999999999999999999999999954
No 6
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.30 E-value=1.4e-12 Score=91.93 Aligned_cols=51 Identities=35% Similarity=0.925 Sum_probs=41.8
Q ss_pred cCCCccccccccccCC----------CCeEecCCCCcccHHHHHHHHhc---CCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAE----------NPRIITKCEHHFHLACIFEWMER---SDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~----------~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~~~ 205 (214)
.++++|.||+..|+.. .+++.-.|+|.||.+||.+||+. +..||+||+...
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 3578899999999752 25566689999999999999975 478999999864
No 7
>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=99.27 E-value=2.8e-12 Score=82.43 Aligned_cols=47 Identities=28% Similarity=0.721 Sum_probs=40.2
Q ss_pred CCccccccccccCCCCeEecCCCCc-ccHHHHHHHHhcCCcccccccchhh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
+..|.||++.... .+.++|||. ||..|+.+|++++.+||+||+.+..
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4679999998644 788999999 9999999999999999999998854
No 8
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=3.8e-12 Score=108.22 Aligned_cols=51 Identities=25% Similarity=0.775 Sum_probs=45.3
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHh-cCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~~~ 205 (214)
..+-.|+|||+.|..++..+.+||.|.||..||++||. .+..||+||.++.
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 34457999999998888899999999999999999997 7889999998764
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=99.22 E-value=8.4e-12 Score=76.10 Aligned_cols=39 Identities=44% Similarity=1.142 Sum_probs=33.8
Q ss_pred cccccccccCCCCeEecCCCCcccHHHHHHHHhcCCccccc
Q 028051 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVC 200 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 200 (214)
|+||++.+.. +.+.++|||.||..||.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999998855 55789999999999999999999999998
No 10
>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=99.19 E-value=1.5e-11 Score=75.90 Aligned_cols=44 Identities=39% Similarity=1.045 Sum_probs=37.7
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhc-CCcccccccch
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQVR 204 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~~ 204 (214)
.|+||++.+ .+...+++|||.||..|+.+|++. +..||+||+.+
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 499999988 445666779999999999999988 77899999764
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.10 E-value=5.8e-11 Score=96.08 Aligned_cols=49 Identities=29% Similarity=0.705 Sum_probs=40.0
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc----------------CCcccccccchhh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER----------------SDTCPVCNQVRLK 206 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~----------------~~tCPvCr~~~~~ 206 (214)
.++..|+||++.+.. +++++|||.||..||.+|+.. ..+||+||..+..
T Consensus 16 ~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 346779999998754 567899999999999999853 2479999998854
No 12
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.09 E-value=7.2e-11 Score=73.88 Aligned_cols=44 Identities=32% Similarity=0.785 Sum_probs=39.6
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCccccccc
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (214)
.|+||++.|.......+++|||.||..||..++.....||+||+
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 39999999966677899999999999999999977788999986
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=6.8e-11 Score=93.74 Aligned_cols=52 Identities=29% Similarity=0.658 Sum_probs=43.6
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~ 207 (214)
+.-..|||||+.|.... +.-++|||.||..||+..++...+||+|++.|.+.
T Consensus 129 ~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 34578999999985433 35589999999999999999999999999977643
No 14
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.04 E-value=8.2e-11 Score=81.21 Aligned_cols=51 Identities=31% Similarity=0.746 Sum_probs=40.1
Q ss_pred cCCCccccccccccC-------------CCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDA-------------ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~-------------~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
..-++|+||..-|.. +-++..-.|.|.||.+||++||..++.||++||.+.
T Consensus 18 i~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 18 IPIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred cccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 335778888776533 124455679999999999999999999999999865
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.03 E-value=1.9e-10 Score=71.23 Aligned_cols=38 Identities=29% Similarity=0.838 Sum_probs=29.8
Q ss_pred cccccccccCCCCeEecCCCCcccHHHHHHHHhcC----Cccccc
Q 028051 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVC 200 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----~tCPvC 200 (214)
|+||++.|.. ++.++|||.|+..||.+|++.. ..||+|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999866 7789999999999999999765 369987
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=99.01 E-value=1.8e-10 Score=94.52 Aligned_cols=53 Identities=28% Similarity=0.683 Sum_probs=40.3
Q ss_pred cCCCccccccccccCC------CCeEecCCCCcccHHHHHHHHhcC------Ccccccccchhhh
Q 028051 155 EEEDVCPTCLEEYDAE------NPRIITKCEHHFHLACIFEWMERS------DTCPVCNQVRLKI 207 (214)
Q Consensus 155 ee~~~C~ICle~~~~~------~~~~~l~C~H~FH~~CI~~Wl~~~------~tCPvCr~~~~~~ 207 (214)
.++.+|+||||..-.. ...++.+|+|.||..||.+|.+.+ .+||+||+.+..+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 3467899999986221 124567899999999999999753 4699999987643
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.2e-10 Score=109.04 Aligned_cols=51 Identities=35% Similarity=0.817 Sum_probs=44.0
Q ss_pred cCCCccccccccccCCCC--eEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENP--RIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~--~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
..++.|+||+|+...+.. ..+++|+|.||..|++.|++++.+||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 347789999999966543 678999999999999999999999999999443
No 18
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.8e-10 Score=94.94 Aligned_cols=49 Identities=29% Similarity=0.714 Sum_probs=39.9
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc---CCcccccccchhh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQVRLK 206 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~~~~ 206 (214)
.....|-||||.-.. ++++.|||.||-.||++||.. ++.|||||..|..
T Consensus 45 ~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 456679999996433 678889999999999999965 4679999987753
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.99 E-value=3.9e-10 Score=69.19 Aligned_cols=39 Identities=44% Similarity=1.182 Sum_probs=33.8
Q ss_pred cccccccccCCCCeEecCCCCcccHHHHHHHHh--cCCccccc
Q 028051 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME--RSDTCPVC 200 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~--~~~tCPvC 200 (214)
|+||++.+.. +..+++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~--~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999998855 346899999999999999998 55789998
No 20
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=2.9e-10 Score=96.34 Aligned_cols=49 Identities=33% Similarity=0.745 Sum_probs=42.4
Q ss_pred ccCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
.+....|.||||.... +..+||||.||-.||.+|...+.-||+||..+-
T Consensus 236 ~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 3566799999997543 668999999999999999999999999998764
No 21
>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=98.95 E-value=6.4e-10 Score=66.15 Aligned_cols=38 Identities=42% Similarity=1.164 Sum_probs=33.0
Q ss_pred cccccccccCCCCeEecCCCCcccHHHHHHHHh-cCCccccc
Q 028051 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVC 200 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvC 200 (214)
|+||++. ....+.++|+|.||..||..|++ .+.+||+|
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899997 34577889999999999999998 66789987
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.90 E-value=1.4e-09 Score=72.71 Aligned_cols=45 Identities=24% Similarity=0.387 Sum_probs=39.8
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
..|+||++.+.. +.+++|||.|+..||.+|++.+.+||+|++.+.
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 469999998854 467899999999999999999999999998873
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=2.9e-10 Score=77.85 Aligned_cols=51 Identities=29% Similarity=0.808 Sum_probs=40.0
Q ss_pred cCCCccccccccccCC----------CCeEecCCCCcccHHHHHHHHhc---CCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAE----------NPRIITKCEHHFHLACIFEWMER---SDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~----------~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~~~ 205 (214)
..+++|.||...|+.- -+++.-.|.|.||..||.+|+.. +..||+||+.+.
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 4556899999999762 24444569999999999999955 367999999763
No 24
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.82 E-value=3e-09 Score=66.14 Aligned_cols=34 Identities=35% Similarity=0.875 Sum_probs=23.5
Q ss_pred cccccccc-cCCCCeEecCCCCcccHHHHHHHHhcC
Q 028051 160 CPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERS 194 (214)
Q Consensus 160 C~ICle~~-~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 194 (214)
|+||+| | +.++++++|+|||.|+.+||.+|++.+
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 557778899999999999999999854
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.81 E-value=2.3e-09 Score=95.98 Aligned_cols=50 Identities=24% Similarity=0.663 Sum_probs=43.1
Q ss_pred ccCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
.+....|+||++.|.. +++++|||.||..||..|+.....||+||..+..
T Consensus 23 Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 23 LDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 3567789999998854 4578999999999999999998899999998753
No 26
>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=98.70 E-value=1.2e-08 Score=65.29 Aligned_cols=42 Identities=31% Similarity=0.905 Sum_probs=33.1
Q ss_pred ccccccccccCCCCeEecCCC-----CcccHHHHHHHHhcC--Ccccccc
Q 028051 159 VCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCN 201 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~~~--~tCPvCr 201 (214)
.|.||++..+ ++.....||. |+||..|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~~~-~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGD-EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCC-CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4999999434 4445678885 999999999999554 5899995
No 27
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.50 E-value=2.6e-08 Score=68.47 Aligned_cols=51 Identities=27% Similarity=0.591 Sum_probs=25.0
Q ss_pred CCcccccccccc-CCC-C-eEe--cCCCCcccHHHHHHHHhcC-----------Ccccccccchhhh
Q 028051 157 EDVCPTCLEEYD-AEN-P-RII--TKCEHHFHLACIFEWMERS-----------DTCPVCNQVRLKI 207 (214)
Q Consensus 157 ~~~C~ICle~~~-~~~-~-~~~--l~C~H~FH~~CI~~Wl~~~-----------~tCPvCr~~~~~~ 207 (214)
+..|.||+.... .+. + ++. ..|++.||..||.+||... ++||.|++.|...
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 456999999865 322 2 222 3699999999999999631 4699999987543
No 28
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=4.4e-08 Score=71.01 Aligned_cols=64 Identities=28% Similarity=0.496 Sum_probs=45.9
Q ss_pred HHhhcccc-ccccccCCCccccccccccC-------------CC-CeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 142 ELSKSVHH-VVAVIEEEDVCPTCLEEYDA-------------EN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 142 ~~~~~~~~-~~~~~ee~~~C~ICle~~~~-------------~~-~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
+++|+... +..-+..-+.|+||..-+.. ++ .+.--.|+|.||..||.+||+.++.||+|.++..
T Consensus 30 ~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 30 ELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred EEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 35555433 33445678889999754311 12 2344679999999999999999999999998764
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=7.6e-08 Score=80.88 Aligned_cols=48 Identities=31% Similarity=0.701 Sum_probs=40.2
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHH-HHhcCC-cccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFE-WMERSD-TCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~-Wl~~~~-tCPvCr~~~~ 205 (214)
+.+..|+||++... .+..++|||.||..||.. |-+++- .||+||+.+.
T Consensus 213 ~~d~kC~lC~e~~~---~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 213 LADYKCFLCLEEPE---VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccccceeeeecccC---CcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 55778999999753 477999999999999999 987765 4999998764
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=8.4e-08 Score=87.15 Aligned_cols=47 Identities=32% Similarity=0.725 Sum_probs=38.5
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcC-----Ccccccccchhh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-----DTCPVCNQVRLK 206 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~-----~tCPvCr~~~~~ 206 (214)
+..|||||+.... ..++.|||.||..||.+.+... ..||+|+..|..
T Consensus 186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 6789999997644 5567799999999999988654 679999887753
No 31
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=6.1e-08 Score=87.51 Aligned_cols=51 Identities=29% Similarity=0.759 Sum_probs=40.1
Q ss_pred cCCCccccccccccCC---C-----------CeEecCCCCcccHHHHHHHHh-cCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAE---N-----------PRIITKCEHHFHLACIFEWME-RSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~---~-----------~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~~~ 205 (214)
+....|+|||..++.- . .-..+||.|.||..|+.+||. .+--||+||..+.
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 3445799999887441 1 235579999999999999999 5669999999864
No 32
>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=98.32 E-value=3.7e-07 Score=79.07 Aligned_cols=51 Identities=24% Similarity=0.642 Sum_probs=36.9
Q ss_pred CCCcccccccc-ccCCCCe-EecCCCCcccHHHHHHHH-hcCCcccccccchhh
Q 028051 156 EEDVCPTCLEE-YDAENPR-IITKCEHHFHLACIFEWM-ERSDTCPVCNQVRLK 206 (214)
Q Consensus 156 e~~~C~ICle~-~~~~~~~-~~l~C~H~FH~~CI~~Wl-~~~~tCPvCr~~~~~ 206 (214)
++..||||+.. |...+-+ .+.+|||.||..||...+ .....||+|++.+..
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 35679999996 3333322 223799999999999955 556789999987753
No 33
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.32 E-value=6.7e-08 Score=86.37 Aligned_cols=103 Identities=21% Similarity=0.474 Sum_probs=61.8
Q ss_pred CCccccccCCCCcccccccCCCCCchhhhhhhhhhcchhhHHHHHhhccccccccccCCCccccccccccCCCCe-EecC
Q 028051 99 PVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPR-IITK 177 (214)
Q Consensus 99 s~sl~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~ee~~~C~ICle~~~~~~~~-~~l~ 177 (214)
...++++.+.+.|.....+..++..+.+...-.....-.-....-.... + ....-|-.+||||||.++..... +.+.
T Consensus 119 LIkFr~q~da~~Fy~efNGk~Fn~le~e~Chll~V~~ve~~~s~d~as~-~-~~~~tELPTCpVCLERMD~s~~gi~t~~ 196 (493)
T KOG0804|consen 119 LIKFRDQADADTFYEEFNGKQFNSLEPEVCHLLYVDRVEVTESEDGASE-P-PTGLTELPTCPVCLERMDSSTTGILTIL 196 (493)
T ss_pred EEEeccchhHHHHHHHcCCCcCCCCCccceeEEEEEEEEEEecccCCCC-C-CCCcccCCCcchhHhhcCccccceeeee
Confidence 5566667666666666666666666665443322221111100000000 0 11124567899999999776543 4467
Q ss_pred CCCcccHHHHHHHHhcCCcccccccchh
Q 028051 178 CEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 178 C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
|.|.||..|+.+|.- .+|||||....
T Consensus 197 c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 197 CNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred cccccchHHHhhccc--CcChhhhhhcC
Confidence 999999999999954 45999996543
No 34
>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=98.32 E-value=4.6e-07 Score=62.70 Aligned_cols=48 Identities=25% Similarity=0.412 Sum_probs=37.8
Q ss_pred CCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc-CCcccccccchhh
Q 028051 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQVRLK 206 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~~~~ 206 (214)
++..|+|+.+-+.. ++++++||.|...+|.+|++. ..+||+|++.+..
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 46689999998865 778899999999999999998 8999999988764
No 35
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.26 E-value=2.9e-07 Score=79.88 Aligned_cols=48 Identities=27% Similarity=0.665 Sum_probs=42.5
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
+.-..|.||.|.|.. +.+++|+|.||.-||...|..+..||.|+..+.
T Consensus 21 D~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 345579999999976 678899999999999999999999999998764
No 36
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=2.5e-07 Score=77.96 Aligned_cols=51 Identities=29% Similarity=0.668 Sum_probs=41.0
Q ss_pred cCCCccccccccccCCC-------CeEecCCCCcccHHHHHHHH--hcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAEN-------PRIITKCEHHFHLACIFEWM--ERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~-------~~~~l~C~H~FH~~CI~~Wl--~~~~tCPvCr~~~~ 205 (214)
.++.+|+||=..++... +.-.+.|+|.||..||+-|- ..+.+||.||..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 46778999988775433 45568899999999999998 45689999988764
No 37
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=5.8e-07 Score=75.83 Aligned_cols=45 Identities=38% Similarity=0.849 Sum_probs=39.7
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCccccccc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (214)
+++..|+||++.|... .+++|+|.||..||..|+...-.||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 5677899999999764 78999999999999999986678999993
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.17 E-value=4.6e-07 Score=87.25 Aligned_cols=54 Identities=22% Similarity=0.736 Sum_probs=41.1
Q ss_pred ccccCCCccccccccccC-C---CCeEecCCCCcccHHHHHHHHhcC--Ccccccccchh
Q 028051 152 AVIEEEDVCPTCLEEYDA-E---NPRIITKCEHHFHLACIFEWMERS--DTCPVCNQVRL 205 (214)
Q Consensus 152 ~~~ee~~~C~ICle~~~~-~---~~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~~~~ 205 (214)
..-+..++|+||+..... + -.+++..|.|.||..|+++|++.+ ++||+||.++.
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 334566789999987752 1 124566799999999999999765 68999997763
No 39
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=7.8e-07 Score=78.46 Aligned_cols=51 Identities=31% Similarity=0.782 Sum_probs=39.9
Q ss_pred cCCCccccccccccCCC-----CeEecCCCCcccHHHHHHHH--hc-----CCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAEN-----PRIITKCEHHFHLACIFEWM--ER-----SDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~-----~~~~l~C~H~FH~~CI~~Wl--~~-----~~tCPvCr~~~~ 205 (214)
-.+.+|.||+|...... -.|+.+|.|.||..||..|- ++ ++.||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 34778999999874433 33457799999999999998 44 578999998653
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.14 E-value=1e-06 Score=75.15 Aligned_cols=47 Identities=26% Similarity=0.488 Sum_probs=41.4
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccch
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVR 204 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~ 204 (214)
+.-..|.||-+.+.. +..++|||.||.-||...|..+.-||+||.+.
T Consensus 23 Ds~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 23 DSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred hhHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccH
Confidence 345679999998876 66899999999999999999999999999865
No 41
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=2e-06 Score=76.25 Aligned_cols=50 Identities=32% Similarity=0.827 Sum_probs=38.9
Q ss_pred cCCCccccccccc-cCCC-CeEecCCCCcccHHHHHHHHhc--CCcccccccch
Q 028051 155 EEEDVCPTCLEEY-DAEN-PRIITKCEHHFHLACIFEWMER--SDTCPVCNQVR 204 (214)
Q Consensus 155 ee~~~C~ICle~~-~~~~-~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~~ 204 (214)
+...+|||||+.| ..++ ....+.|||.|...||.+||-. +..||.|+.+.
T Consensus 2 d~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 2 DCGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred CccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3467899999999 3344 4455889999999999999942 35799997654
No 42
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.86 E-value=7.3e-06 Score=81.91 Aligned_cols=56 Identities=30% Similarity=0.675 Sum_probs=48.3
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcC----------Ccccccccchhhhccc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----------DTCPVCNQVRLKIFAS 210 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----------~tCPvCr~~~~~~~~~ 210 (214)
+.+|.|.||+.+--...+.+.+.|+|.||..|...-|+++ -.||+|++.+.++.-.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~Lk 3549 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLK 3549 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHH
Confidence 5678999999988788889999999999999999888775 4799999998876543
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=1.8e-06 Score=75.40 Aligned_cols=52 Identities=23% Similarity=0.657 Sum_probs=40.8
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc-CCcccccccchhhhc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQVRLKIF 208 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~~~~~~ 208 (214)
..+..|+|||+-+.. ......|.|.||..||.+-|+. .+.||.||+.+....
T Consensus 41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 345679999998743 2334569999999999999966 578999999887554
No 44
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.82 E-value=3.1e-06 Score=80.25 Aligned_cols=53 Identities=25% Similarity=0.505 Sum_probs=44.3
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~ 207 (214)
.....|+||+..|..+......+|+|.||..||..|-+.-.+||+||.++..+
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 34567999999986655555677999999999999999999999999987644
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=9.1e-06 Score=71.80 Aligned_cols=43 Identities=28% Similarity=0.832 Sum_probs=32.8
Q ss_pred ccccccccccCCCCeEec-CCCCcccHHHHHHHHhcC---Ccccccc
Q 028051 159 VCPTCLEEYDAENPRIIT-KCEHHFHLACIFEWMERS---DTCPVCN 201 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l-~C~H~FH~~CI~~Wl~~~---~tCPvCr 201 (214)
.|.||-+-+.....+.-+ .|||.||..|+.+|++.- ..||+|+
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 599995555444444444 499999999999999874 4799998
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.78 E-value=3.7e-06 Score=56.21 Aligned_cols=46 Identities=33% Similarity=0.734 Sum_probs=23.9
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccch
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVR 204 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~ 204 (214)
++-..|++|.+.+.. ++.+..|.|.||..||.+-+. ..||+|+.+.
T Consensus 5 e~lLrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 5 EELLRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp HHTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred HHhcCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 345679999998744 667789999999999988554 3499998865
No 47
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=1.9e-05 Score=69.17 Aligned_cols=52 Identities=23% Similarity=0.581 Sum_probs=42.2
Q ss_pred cCCCccccccccccCCCCeEecCCCCc-ccHHHHHHHHhcCCcccccccchhhhcc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQVRLKIFA 209 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~~~~~~~ 209 (214)
+....|.|||.+-.. ..++||-|. .|.+|.+...-..+.||+||+.+...+.
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~ 340 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLE 340 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchHhhhe
Confidence 446789999997644 778999995 7889999977678889999999875543
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=1.2e-05 Score=69.04 Aligned_cols=47 Identities=26% Similarity=0.461 Sum_probs=38.7
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcC-Ccccccccchhh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQVRLK 206 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~-~tCPvCr~~~~~ 206 (214)
...|+||+.. .+.+..++|+|.||.-||+--..+. .+|+|||+++.+
T Consensus 7 ~~eC~IC~nt---~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNT---GNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeecc---CCcCccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 4569999885 4556889999999999999877665 569999999864
No 49
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.64 E-value=3.3e-05 Score=48.82 Aligned_cols=40 Identities=28% Similarity=0.893 Sum_probs=28.4
Q ss_pred cccccccccCCCCeEecCCC-----CcccHHHHHHHHh--cCCccccc
Q 028051 160 CPTCLEEYDAENPRIITKCE-----HHFHLACIFEWME--RSDTCPVC 200 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~--~~~tCPvC 200 (214)
|-||++....+. ..+.||. ...|..|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 789999876655 5667875 5889999999997 45679987
No 50
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.64 E-value=1.3e-05 Score=68.77 Aligned_cols=57 Identities=26% Similarity=0.606 Sum_probs=45.6
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc-----------------------CCcccccccchhhhcccc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----------------------SDTCPVCNQVRLKIFASL 211 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-----------------------~~tCPvCr~~~~~~~~~~ 211 (214)
.....|.|||..|..+...+.+.|-|+||..|+.+.|.. ...|||||..|......+
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~sl 192 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSL 192 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccce
Confidence 345569999999988888899999999999999987731 246999999887555443
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=1.2e-05 Score=76.28 Aligned_cols=46 Identities=33% Similarity=0.650 Sum_probs=39.3
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHh-cCCcccccccchh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQVRL 205 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~~~ 205 (214)
--.|+.|-..|.. .++++|+|.||..||..-++ |..+||.|...+.
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFG 689 (698)
T ss_pred ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence 3489999988865 67899999999999999995 4578999998774
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.64 E-value=3.2e-05 Score=50.92 Aligned_cols=43 Identities=35% Similarity=0.765 Sum_probs=29.7
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc--CCcccc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPV 199 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPv 199 (214)
.-...|||.+..| .++++...|+|.|-...|.+||++ ...||+
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 4567899999988 457777899999999999999944 467998
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.43 E-value=5.5e-05 Score=68.33 Aligned_cols=52 Identities=31% Similarity=0.722 Sum_probs=42.7
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhhc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKIF 208 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~~ 208 (214)
++...|+||...... +...+.|||.||..||.+|+..+..||+|++.+..+.
T Consensus 19 ~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred cccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 456789999998754 3333689999999999999999999999998876443
No 54
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.43 E-value=6.2e-05 Score=61.13 Aligned_cols=48 Identities=25% Similarity=0.693 Sum_probs=42.0
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~ 207 (214)
...|.||-..|.. ++++.|||+||..|...-++....|-+|.+.+-..
T Consensus 196 PF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~ 243 (259)
T COG5152 196 PFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGR 243 (259)
T ss_pred ceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhccc
Confidence 3589999999977 67899999999999999999999999998876443
No 55
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=6.1e-05 Score=48.58 Aligned_cols=49 Identities=22% Similarity=0.565 Sum_probs=35.1
Q ss_pred CCccccccccccCCCCeEecCCCCc-ccHHHHHHHHh-cCCcccccccchhhhc
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWME-RSDTCPVCNQVRLKIF 208 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~-~~~tCPvCr~~~~~~~ 208 (214)
.++|.||+|.--. -++-.|||. .|..|-.+-++ .+..||+||.++-...
T Consensus 7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvI 57 (62)
T KOG4172|consen 7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVI 57 (62)
T ss_pred ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHH
Confidence 3779999986422 335569995 57777665444 7889999999886554
No 56
>PHA02862 5L protein; Provisional
Probab=97.25 E-value=0.00017 Score=55.75 Aligned_cols=45 Identities=24% Similarity=0.631 Sum_probs=34.8
Q ss_pred CCccccccccccCCCCeEecCCC-----CcccHHHHHHHHhcC--Ccccccccchh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCNQVRL 205 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~~~--~tCPvCr~~~~ 205 (214)
.+.|-||+++.+.+ .-||. ...|..|+.+|++.+ ..|++|+.+..
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 46799999986433 24553 789999999999654 67999998764
No 57
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.23 E-value=0.00085 Score=64.70 Aligned_cols=48 Identities=33% Similarity=0.731 Sum_probs=37.2
Q ss_pred ccCCCccccccccccCCCCe-EecCCCCcccHHHHHHHHhcC-------Ccccccc
Q 028051 154 IEEEDVCPTCLEEYDAENPR-IITKCEHHFHLACIFEWMERS-------DTCPVCN 201 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~-~~l~C~H~FH~~CI~~Wl~~~-------~tCPvCr 201 (214)
.....+|.||++.+..-.++ ....|-|+||+.||.+|-+.. -.||.|.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 34567899999999664443 345689999999999999653 2599997
No 58
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.00022 Score=64.37 Aligned_cols=49 Identities=24% Similarity=0.636 Sum_probs=42.2
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
..+..|.||+..+-. ++.++|||.||..||.+-|..+.-||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCccccccccc
Confidence 456789999887644 6678999999999999999999999999998875
No 59
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.11 E-value=0.00016 Score=64.34 Aligned_cols=50 Identities=24% Similarity=0.610 Sum_probs=39.7
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhc--CCcccccccchhhhcc
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQVRLKIFA 209 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~~~~~~~ 209 (214)
-..|-||-|. +..+.+.||||..|..|+..|-.. ..+||.||.++-.-..
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 4579999884 334778999999999999999743 4799999998864433
No 60
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.08 E-value=0.00015 Score=64.39 Aligned_cols=51 Identities=33% Similarity=0.673 Sum_probs=41.1
Q ss_pred cCCCccccccccccCC-CCeEecCCCCcccHHHHHHHHhcC--Ccccccccchh
Q 028051 155 EEEDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERS--DTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~~~~ 205 (214)
+.+..|..|=+.+... +....+||.|+||..|+.+.|+++ .+||-||+-.-
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 4566899999998554 346679999999999999999776 57999995443
No 61
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00017 Score=61.91 Aligned_cols=49 Identities=27% Similarity=0.559 Sum_probs=42.5
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhhc
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKIF 208 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~~ 208 (214)
.+.|-||...|.. ++++.|+|.||..|-..-+++...|.+|.+.+-.++
T Consensus 241 Pf~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~ 289 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSF 289 (313)
T ss_pred Ccccccccccccc---chhhcCCceeehhhhccccccCCcceeccccccccc
Confidence 3469999999966 678999999999999999999999999998775443
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.06 E-value=0.00048 Score=54.16 Aligned_cols=48 Identities=29% Similarity=0.690 Sum_probs=35.9
Q ss_pred ccCCCccccccccccCCCCeEecCCC--C---cccHHHHHHHHhcC--Ccccccccchh
Q 028051 154 IEEEDVCPTCLEEYDAENPRIITKCE--H---HFHLACIFEWMERS--DTCPVCNQVRL 205 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~--H---~FH~~CI~~Wl~~~--~tCPvCr~~~~ 205 (214)
...+..|-||.++.+.. .-||. . ..|.+|+.+|+..+ .+|++|+++..
T Consensus 5 s~~~~~CRIC~~~~~~~----~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 5 SLMDKCCWICKDEYDVV----TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCCeeEecCCCCCCc----cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 45677899999986432 24654 3 77999999999654 67999998764
No 63
>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=97.04 E-value=0.00024 Score=54.46 Aligned_cols=35 Identities=17% Similarity=0.429 Sum_probs=29.7
Q ss_pred CCccccccccccCCCCeEecCCC------CcccHHHHHHHH
Q 028051 157 EDVCPTCLEEYDAENPRIITKCE------HHFHLACIFEWM 191 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~------H~FH~~CI~~Wl 191 (214)
..+|.||++.+.....++.+.|+ |.||..|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 55699999999775567777887 999999999994
No 64
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.86 E-value=0.00021 Score=62.19 Aligned_cols=49 Identities=31% Similarity=0.615 Sum_probs=39.7
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
....+|.+|-..+-.. ..++-|-|.||.+||.+.|+.+++||+|+..+-
T Consensus 13 n~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred ccceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 3566899998877432 335679999999999999999999999987654
No 65
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.76 E-value=0.00082 Score=59.10 Aligned_cols=48 Identities=21% Similarity=0.636 Sum_probs=41.5
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
.|++.|+||.- .....+..||+|.-|..||.+.|-+++.|=.|+.-+.
T Consensus 420 sEd~lCpICyA---~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYA---GPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceec---ccchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 57788999965 3445678999999999999999999999999998765
No 66
>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=96.67 E-value=0.00081 Score=42.15 Aligned_cols=45 Identities=29% Similarity=0.689 Sum_probs=27.3
Q ss_pred ccccccccccCCCCeEecCCC-CcccHHHHHHHHhcCCcccccccchhhhc
Q 028051 159 VCPTCLEEYDAENPRIITKCE-HHFHLACIFEWMERSDTCPVCNQVRLKIF 208 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~-H~FH~~CI~~Wl~~~~tCPvCr~~~~~~~ 208 (214)
.|--|+-+... +..|. |..|..|+...|.+++.||+|++++....
T Consensus 4 nCKsCWf~~k~-----Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtki 49 (50)
T PF03854_consen 4 NCKSCWFANKG-----LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTKI 49 (50)
T ss_dssp ---SS-S--SS-----EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----S
T ss_pred cChhhhhcCCC-----eeeecchhHHHHHHHHHhccccCCCcccCcCcccc
Confidence 36667665433 66795 99999999999999999999999987543
No 67
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.55 E-value=0.002 Score=54.81 Aligned_cols=50 Identities=32% Similarity=0.590 Sum_probs=40.2
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc--CCcccccccchhh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQVRLK 206 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~~~~ 206 (214)
..+.+|++|-+.- ..+.+..+|+|.||.-||..-+.- +-+||.|..++..
T Consensus 237 t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 237 TSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred cCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 5667899998864 456778889999999999987653 4789999887653
No 68
>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=96.34 E-value=0.0035 Score=45.74 Aligned_cols=33 Identities=24% Similarity=0.555 Sum_probs=27.2
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHH
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIF 188 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~ 188 (214)
.++..|+||-..+.. ....+.||||.||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 446679999999865 457778999999999975
No 69
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.33 E-value=0.00098 Score=57.18 Aligned_cols=47 Identities=19% Similarity=0.612 Sum_probs=34.3
Q ss_pred cCCCccccccccccCCCCeEecCCCCcc-cHHHHHHHHhcCCcccccccchhhhc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHF-HLACIFEWMERSDTCPVCNQVRLKIF 208 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~F-H~~CI~~Wl~~~~tCPvCr~~~~~~~ 208 (214)
+.+..|.||++.... -..|.|||.. |.+|=.. -+.|||||+-|.+..
T Consensus 298 ~~~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi~rvv 345 (350)
T KOG4275|consen 298 ATRRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYIVRVV 345 (350)
T ss_pred hHHHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHHHHHH
Confidence 447789999996543 7789999965 5566433 347999999887543
No 70
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.33 E-value=0.0034 Score=39.70 Aligned_cols=45 Identities=27% Similarity=0.624 Sum_probs=22.8
Q ss_pred cccccccccCCC-CeEecCCCCcccHHHHHHHHh-cCCcccccccch
Q 028051 160 CPTCLEEYDAEN-PRIITKCEHHFHLACIFEWME-RSDTCPVCNQVR 204 (214)
Q Consensus 160 C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~~ 204 (214)
||+|.++++... ...-=+|++.++..|...-++ ..+.||-||++.
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 799999994433 222235799999999999886 478999999864
No 71
>PHA03096 p28-like protein; Provisional
Probab=96.17 E-value=0.0027 Score=55.00 Aligned_cols=45 Identities=33% Similarity=0.696 Sum_probs=31.5
Q ss_pred CccccccccccCC-----CCeEecCCCCcccHHHHHHHHhcC---Cccccccc
Q 028051 158 DVCPTCLEEYDAE-----NPRIITKCEHHFHLACIFEWMERS---DTCPVCNQ 202 (214)
Q Consensus 158 ~~C~ICle~~~~~-----~~~~~l~C~H~FH~~CI~~Wl~~~---~tCPvCr~ 202 (214)
.+|.||+|..... .--++..|.|.||..||..|...+ .+||.||.
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 6799999987432 112345699999999999999553 34444443
No 72
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0037 Score=50.13 Aligned_cols=53 Identities=21% Similarity=0.493 Sum_probs=37.3
Q ss_pred cccCCCccccccccccCCC----CeEecCCCCcccHHHHHHHHhcC-----------Ccccccccchh
Q 028051 153 VIEEEDVCPTCLEEYDAEN----PRIITKCEHHFHLACIFEWMERS-----------DTCPVCNQVRL 205 (214)
Q Consensus 153 ~~ee~~~C~ICle~~~~~~----~~~~l~C~H~FH~~CI~~Wl~~~-----------~tCPvCr~~~~ 205 (214)
.+++-..|.||+-.--.+. ..-...||.-||.-|+..||+.- ..||.|-+++.
T Consensus 161 kdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 161 KDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 3455567999975432222 12236799999999999999641 57999988875
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.00 E-value=0.0035 Score=56.21 Aligned_cols=46 Identities=22% Similarity=0.384 Sum_probs=38.4
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcC--------Cccccccc
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--------DTCPVCNQ 202 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~--------~tCPvCr~ 202 (214)
-..|.||+++..+....+.+||+|.||+.|+...+... -.||-++-
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 45699999999887889999999999999999988542 46877654
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.99 E-value=0.0054 Score=51.59 Aligned_cols=51 Identities=14% Similarity=0.319 Sum_probs=43.7
Q ss_pred CCCccccccccccCCCCeEe-cCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 156 EEDVCPTCLEEYDAENPRII-TKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~-l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
....||||.+.+....+... -+|||.|+..|+.+.++.-..||||.+++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 56789999999977666555 4799999999999999999999999988753
No 75
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.83 E-value=0.0066 Score=53.59 Aligned_cols=47 Identities=28% Similarity=0.636 Sum_probs=34.9
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~ 207 (214)
...+.|.||+++... .+.++|||.-| |+.-- +.-.+||+||+.+.-.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~~~ 349 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIRLV 349 (355)
T ss_pred CCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHHHH
Confidence 445689999998754 77899999866 66654 3334599999988643
No 76
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.59 E-value=0.0069 Score=58.68 Aligned_cols=44 Identities=27% Similarity=0.646 Sum_probs=35.5
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
..+|.+|-...+ -|.+...|||.||.+|+. .....||-|+-++.
T Consensus 840 ~skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 840 VSKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 358999977664 477888999999999998 45678999988543
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.43 E-value=0.013 Score=50.12 Aligned_cols=50 Identities=24% Similarity=0.527 Sum_probs=40.3
Q ss_pred cCCCccccccccccCCCCeEe-cCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENPRII-TKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~-l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
.....|||...+|......+. -+|||.|-..+|.+- +....||+|.+++.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 566799999999965554444 589999999999996 34668999999876
No 78
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.31 E-value=0.011 Score=51.93 Aligned_cols=54 Identities=24% Similarity=0.494 Sum_probs=36.9
Q ss_pred ccccCCCccccccccccCCCC-eEecCCCCcccHHHHHHHHh-cCCcccccccchh
Q 028051 152 AVIEEEDVCPTCLEEYDAENP-RIITKCEHHFHLACIFEWME-RSDTCPVCNQVRL 205 (214)
Q Consensus 152 ~~~ee~~~C~ICle~~~~~~~-~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~~~ 205 (214)
.+++++|.||.|+|+++..+. ..--+||-..|.-|...--+ -++.||-||+...
T Consensus 9 ~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 9 NSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 344566679999999977553 33356898888777554321 2467999998654
No 79
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.21 E-value=0.011 Score=50.93 Aligned_cols=45 Identities=31% Similarity=0.608 Sum_probs=38.0
Q ss_pred Cccccccccc-cCCCCeEecCCCCcccHHHHHHHHhcCCccccccc
Q 028051 158 DVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (214)
Q Consensus 158 ~~C~ICle~~-~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (214)
..||||.+.+ .....+..++|||.-|..|..+.....=+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3499999987 44455677999999999999998877789999988
No 80
>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=95.01 E-value=0.021 Score=44.95 Aligned_cols=34 Identities=24% Similarity=0.627 Sum_probs=23.5
Q ss_pred CCCccccccccccCCCCeEecCCC-------------CcccHHHHHHHHh
Q 028051 156 EEDVCPTCLEEYDAENPRIITKCE-------------HHFHLACIFEWME 192 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~-------------H~FH~~CI~~Wl~ 192 (214)
|+-.||||||-. .+.++|-|. -.-|.-|+++.-+
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 356799999954 335566664 3457889998764
No 81
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.98 E-value=0.019 Score=50.62 Aligned_cols=50 Identities=22% Similarity=0.408 Sum_probs=40.0
Q ss_pred cccCCCccccccccccCCCCeEecCCCCcccHHHHHH--HHhcCCcccccccchh
Q 028051 153 VIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFE--WMERSDTCPVCNQVRL 205 (214)
Q Consensus 153 ~~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~--Wl~~~~tCPvCr~~~~ 205 (214)
.+|+...|.||-+..+. ..++||+|..|.-|-.+ .|=..+.||+||.+..
T Consensus 57 tDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 57 TDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 45778899999987655 56899999999999765 3445688999998764
No 82
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.95 E-value=0.0096 Score=55.08 Aligned_cols=49 Identities=33% Similarity=0.610 Sum_probs=38.3
Q ss_pred ccCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc-----CCcccccccchh
Q 028051 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----SDTCPVCNQVRL 205 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-----~~tCPvCr~~~~ 205 (214)
..++.+|.+|-+.-. ..+...|.|.||.-||.++++. +-+||+|-..+.
T Consensus 533 nk~~~~C~lc~d~ae---d~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAE---DYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccCceeecccCChhh---hhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 355668999988643 3678889999999999998843 468999977654
No 83
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.94 E-value=0.016 Score=48.21 Aligned_cols=49 Identities=24% Similarity=0.515 Sum_probs=39.3
Q ss_pred CCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc--------CCcccccccchh
Q 028051 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--------SDTCPVCNQVRL 205 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--------~~tCPvCr~~~~ 205 (214)
-...|..|-.....++ .+.+.|-|.||-.|+.+|--. .-.||.|.++|+
T Consensus 49 Y~pNC~LC~t~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCceeCCccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3456899988887777 456779999999999999843 247999999886
No 84
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.94 E-value=0.0097 Score=38.60 Aligned_cols=45 Identities=22% Similarity=0.356 Sum_probs=33.7
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
+..|..|... +....+++|+|..+..|..-| +-+-||+|.+.+..
T Consensus 7 ~~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCcccC
Confidence 3445555543 445678999999999998864 77889999887753
No 85
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.71 E-value=0.022 Score=49.31 Aligned_cols=47 Identities=28% Similarity=0.641 Sum_probs=38.6
Q ss_pred CccccccccccCC---CCeEecCCCCcccHHHHHHHHhcC-Ccccccccch
Q 028051 158 DVCPTCLEEYDAE---NPRIITKCEHHFHLACIFEWMERS-DTCPVCNQVR 204 (214)
Q Consensus 158 ~~C~ICle~~~~~---~~~~~l~C~H~FH~~CI~~Wl~~~-~tCPvCr~~~ 204 (214)
..|-||-++|..+ ..++.+.|||.|+..|+.+-+... ..||.||...
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 4699999999554 456778899999999999988665 5799999874
No 86
>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=94.69 E-value=0.014 Score=36.12 Aligned_cols=41 Identities=22% Similarity=0.600 Sum_probs=21.9
Q ss_pred cccccccccCCCCeEecCCCCcccHHHHHHHHhcCC--ccccc
Q 028051 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVC 200 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~--tCPvC 200 (214)
|.+|-+....+..-....|+=.+|..|+..+++... .||.|
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 566777654433222235888999999999997765 79987
No 87
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.58 E-value=0.015 Score=49.20 Aligned_cols=57 Identities=23% Similarity=0.614 Sum_probs=39.8
Q ss_pred cccCCCccccccccccCCCCe--EecCC-----CCcccHHHHHHHHhcC--------Ccccccccchhhhccc
Q 028051 153 VIEEEDVCPTCLEEYDAENPR--IITKC-----EHHFHLACIFEWMERS--------DTCPVCNQVRLKIFAS 210 (214)
Q Consensus 153 ~~ee~~~C~ICle~~~~~~~~--~~l~C-----~H~FH~~CI~~Wl~~~--------~tCPvCr~~~~~~~~~ 210 (214)
+.+.+..|=||+..= .++.. -+-|| .|-.|..|+..|+..+ -+||.|+.+....+..
T Consensus 16 ~~e~eR~CWiCF~Td-eDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~ 87 (293)
T KOG3053|consen 16 NQELERCCWICFATD-EDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQ 87 (293)
T ss_pred ccccceeEEEEeccC-cccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccc
Confidence 346677899999853 22322 23566 3999999999999554 3699999987655443
No 88
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.28 E-value=0.003 Score=56.17 Aligned_cols=49 Identities=18% Similarity=0.441 Sum_probs=40.7
Q ss_pred CccccccccccCC-CCeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 158 DVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 158 ~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
..|+||.+.|... +....+.|||.+|.+||.+||.....||-|+.++..
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 3699999988553 344557799999999999999999999999988753
No 89
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.01 E-value=0.031 Score=48.38 Aligned_cols=51 Identities=25% Similarity=0.676 Sum_probs=38.8
Q ss_pred CCCccccccccccCCCC-eEecCCC-----CcccHHHHHHHHh--cCCcccccccchhh
Q 028051 156 EEDVCPTCLEEYDAENP-RIITKCE-----HHFHLACIFEWME--RSDTCPVCNQVRLK 206 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~-~~~l~C~-----H~FH~~CI~~Wl~--~~~tCPvCr~~~~~ 206 (214)
++..|.||.++....+. ....+|. +..|..|+..|+. .+..|.+|.+....
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 35679999998754332 4567775 7889999999997 66789999886543
No 90
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.86 E-value=0.04 Score=48.18 Aligned_cols=48 Identities=29% Similarity=0.729 Sum_probs=38.5
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccch
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVR 204 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~ 204 (214)
.+...||||+-.- .|+..+.-=|-.||..||...+...++|||=..+.
T Consensus 298 ~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 3556899999865 45555566799999999999999999999965544
No 91
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.70 E-value=0.054 Score=48.52 Aligned_cols=47 Identities=23% Similarity=0.492 Sum_probs=40.2
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhcC---Ccccccccch
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS---DTCPVCNQVR 204 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~---~tCPvCr~~~ 204 (214)
.+|||=.+.-..+|++..+.|||+...+=|.+.-+.. -+||.|-.+.
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 4899999999999999999999999999999966543 4799996543
No 92
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.37 E-value=0.025 Score=44.74 Aligned_cols=30 Identities=23% Similarity=0.545 Sum_probs=26.3
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccH
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHL 184 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~ 184 (214)
++.-+|.||||++..++....|||--+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 344579999999999999999999999986
No 93
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.31 E-value=0.04 Score=53.19 Aligned_cols=44 Identities=30% Similarity=0.763 Sum_probs=37.1
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhcC--Ccccccccchh
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--DTCPVCNQVRL 205 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~~~~ 205 (214)
..|.||++ .+...++.|+|.||..|+.+-++.. ..||+||..+.
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 67999999 4457789999999999999988654 46999998765
No 94
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.88 E-value=0.045 Score=47.59 Aligned_cols=46 Identities=24% Similarity=0.543 Sum_probs=31.9
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhhc
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKIF 208 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~~ 208 (214)
.|--|=-.+ ..--++.+|.|.||++|-.. ..-+.||.|...|.+|.
T Consensus 92 fCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~VqrIe 137 (389)
T KOG2932|consen 92 FCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQRIE 137 (389)
T ss_pred eecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHHHHHH
Confidence 466663322 22345789999999999654 34578999988887654
No 95
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.79 E-value=0.026 Score=57.10 Aligned_cols=45 Identities=29% Similarity=0.618 Sum_probs=37.6
Q ss_pred CCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCccccccc
Q 028051 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (214)
+...|.||++.... ...+..|||.||..|+..|+..+..||+|+.
T Consensus 1152 ~~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 34489999998742 2446779999999999999999999999974
No 96
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.79 E-value=0.051 Score=47.45 Aligned_cols=45 Identities=27% Similarity=0.560 Sum_probs=34.4
Q ss_pred CCCccccccccccCCCCeEecCC--CCcccHHHHHHHHhcCCcccccccchhhh
Q 028051 156 EEDVCPTCLEEYDAENPRIITKC--EHHFHLACIFEWMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C--~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~ 207 (214)
+-..||||.+.+.. + +.+| ||..|..|=. +.++.||.||.+|..+
T Consensus 47 ~lleCPvC~~~l~~---P-i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~~ 93 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSP---P-IFQCDNGHLACSSCRT---KVSNKCPTCRLPIGNI 93 (299)
T ss_pred hhccCchhhccCcc---c-ceecCCCcEehhhhhh---hhcccCCccccccccH
Confidence 34469999998854 2 4568 6888888865 5678899999998744
No 97
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.38 E-value=0.077 Score=51.52 Aligned_cols=49 Identities=31% Similarity=0.758 Sum_probs=38.0
Q ss_pred cCCCccccccccccCCCCeEecCCC-----CcccHHHHHHHHhcC--Ccccccccch
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCNQVR 204 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~~~--~tCPvCr~~~ 204 (214)
++...|.||..+-..+++. .-||. ...|.+|+.+||.-+ .+|-+|+.++
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 5567899999987666654 44554 678999999999765 5799998764
No 98
>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=91.57 E-value=0.072 Score=33.95 Aligned_cols=42 Identities=24% Similarity=0.628 Sum_probs=22.1
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhcCC-----cccccccc
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-----TCPVCNQV 203 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~-----tCPvCr~~ 203 (214)
.|||....+ ..+.+...|.|.-+.+ +..||+... .||+|+++
T Consensus 4 ~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 588888776 4477778899986655 556664432 59999874
No 99
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.16 E-value=0.12 Score=50.69 Aligned_cols=38 Identities=26% Similarity=0.600 Sum_probs=31.0
Q ss_pred ccCCCccccccccccCCCCeEecCCCCcccHHHHHHHHh
Q 028051 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME 192 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~ 192 (214)
-+-++.|.||.-.+-. .+..+.+|||.||.+||.+-+.
T Consensus 814 ~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence 3667889999887744 3677889999999999998763
No 100
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.06 E-value=0.12 Score=44.81 Aligned_cols=43 Identities=30% Similarity=0.558 Sum_probs=31.8
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhc-CCccccccc
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQ 202 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~ 202 (214)
..|+.|---. .++....-|+|.||..||...|.. -..||.|-.
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 5799986644 344444458999999999988755 468999943
No 101
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.69 E-value=0.14 Score=49.54 Aligned_cols=39 Identities=28% Similarity=0.769 Sum_probs=28.9
Q ss_pred cccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccc
Q 028051 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPV 199 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv 199 (214)
|.||--.+. +...+...|+|..|.+|..+|++....||-
T Consensus 1031 C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 444433332 334556789999999999999999999984
No 102
>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=89.48 E-value=0.42 Score=42.78 Aligned_cols=48 Identities=23% Similarity=0.722 Sum_probs=32.2
Q ss_pred cCCCccccccccccCCCCeEecCC----------------C-----CcccHHHHHHHHhc-------------CCccccc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKC----------------E-----HHFHLACIFEWMER-------------SDTCPVC 200 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C----------------~-----H~FH~~CI~~Wl~~-------------~~tCPvC 200 (214)
++.+.|--|+.+- .+.++.-.| . -..|.+|+.+|+-. +-.||+|
T Consensus 269 ~e~e~CigC~~~~--~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtC 346 (358)
T PF10272_consen 269 QELEPCIGCMQAQ--PNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTC 346 (358)
T ss_pred cccCCccccccCC--CCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCC
Confidence 6777899999853 232333223 2 44589999999833 3579999
Q ss_pred ccch
Q 028051 201 NQVR 204 (214)
Q Consensus 201 r~~~ 204 (214)
|+.+
T Consensus 347 Ra~F 350 (358)
T PF10272_consen 347 RAKF 350 (358)
T ss_pred cccc
Confidence 9875
No 103
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=89.30 E-value=0.16 Score=33.54 Aligned_cols=21 Identities=19% Similarity=0.472 Sum_probs=18.1
Q ss_pred CCcccccccchhhhccccccC
Q 028051 194 SDTCPVCNQVRLKIFASLVIV 214 (214)
Q Consensus 194 ~~tCPvCr~~~~~~~~~~~~~ 214 (214)
..+||+|+.+|....++|..|
T Consensus 39 ~p~CPlC~s~M~~~~r~Lp~l 59 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGTRMLPVL 59 (59)
T ss_pred CccCCCcCCccccceeecccC
Confidence 368999999999999988764
No 104
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.33 E-value=0.2 Score=45.24 Aligned_cols=39 Identities=28% Similarity=0.588 Sum_probs=29.4
Q ss_pred CCCccccccccc-cCCCCeEecCCCCcccHHHHHHHHhcC
Q 028051 156 EEDVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERS 194 (214)
Q Consensus 156 e~~~C~ICle~~-~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 194 (214)
...+|.||+.++ ..+.......|+|.||..|+.+-++.+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 356799999444 443434468899999999999988754
No 105
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.09 E-value=0.21 Score=47.47 Aligned_cols=43 Identities=19% Similarity=0.480 Sum_probs=32.2
Q ss_pred CCccccccccccCC-CCeEecCCCCcccHHHHHHHHhcCCccccccc
Q 028051 157 EDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (214)
Q Consensus 157 ~~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (214)
-..|.||+..|..+ -.++-+.|||..|..|+..-..+ +|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~--scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA--SCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc--cCC-CCc
Confidence 34699999888443 34567889999999999986554 488 544
No 106
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=85.51 E-value=0.21 Score=47.98 Aligned_cols=46 Identities=28% Similarity=0.617 Sum_probs=36.5
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhc---CCcccccccchh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQVRL 205 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~~~ 205 (214)
..+|+||++-|.. ++.++|.|.|+..|+..-++. ...||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 4569999999865 368899999999998876644 457999986554
No 107
>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=85.49 E-value=0.34 Score=40.85 Aligned_cols=50 Identities=26% Similarity=0.697 Sum_probs=36.7
Q ss_pred CCCcccccccc-ccCCCCeEe-cC-CCCcccHHHHHHHHhcC-Cccc--ccccchh
Q 028051 156 EEDVCPTCLEE-YDAENPRII-TK-CEHHFHLACIFEWMERS-DTCP--VCNQVRL 205 (214)
Q Consensus 156 e~~~C~ICle~-~~~~~~~~~-l~-C~H~FH~~CI~~Wl~~~-~tCP--vCr~~~~ 205 (214)
++..||||..+ |-..+.+++ -| |-|..|.+|+++-+.+. ..|| -|.+-+-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 45579999965 444444444 34 99999999999999765 5799 8876554
No 108
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=84.41 E-value=0.34 Score=45.86 Aligned_cols=45 Identities=27% Similarity=0.720 Sum_probs=30.8
Q ss_pred cCCCcccccccc-----ccCCCCeEecCCCCcccHHHHHHHHhcCCccccccc
Q 028051 155 EEEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (214)
Q Consensus 155 ee~~~C~ICle~-----~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (214)
.....|.||... |...+......|++.||..|+.. .+.-||.|-+
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 345688888432 33455567788999999999544 3444999943
No 109
>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 KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=84.24 E-value=0.61 Score=45.47 Aligned_cols=54 Identities=15% Similarity=0.196 Sum_probs=38.1
Q ss_pred cCCCccccccccccC----CCCeEecCCCCcccHHHHHHHHhc------CCcccccccchhhhc
Q 028051 155 EEEDVCPTCLEEYDA----ENPRIITKCEHHFHLACIFEWMER------SDTCPVCNQVRLKIF 208 (214)
Q Consensus 155 ee~~~C~ICle~~~~----~~~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr~~~~~~~ 208 (214)
.+.+.|.||..++.. -....+-.|+|.||..||..|+.+ .-.|+.|..-|....
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 345678888888844 122233459999999999999954 245899988776543
No 111
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.27 E-value=0.83 Score=37.58 Aligned_cols=43 Identities=23% Similarity=0.728 Sum_probs=32.3
Q ss_pred cCCCcccccccc-----ccCCCCeEecCCCCcccHHHHHHHHhcCCccccccc
Q 028051 155 EEEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (214)
Q Consensus 155 ee~~~C~ICle~-----~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (214)
..+..|-||-.. |+.++..+...|+-.||..|..+ ..||-|.+
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 346788898753 45556677788999999999762 67999943
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=80.89 E-value=1 Score=34.60 Aligned_cols=51 Identities=22% Similarity=0.301 Sum_probs=35.8
Q ss_pred CCCccccccccccCCCCeEe-cCCCCcccHHHHHHHHhcC---Ccccccccchhh
Q 028051 156 EEDVCPTCLEEYDAENPRII-TKCEHHFHLACIFEWMERS---DTCPVCNQVRLK 206 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~-l~C~H~FH~~CI~~Wl~~~---~tCPvCr~~~~~ 206 (214)
.-..|-||.|.-..+.-..- .-||-..|..|....++.. ..||+|+.++-.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 45689999997644331111 2289999999887766554 679999988754
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.21 E-value=0.91 Score=39.39 Aligned_cols=27 Identities=22% Similarity=0.603 Sum_probs=20.7
Q ss_pred CCCcccHHHHHHHHh-------------cCCcccccccch
Q 028051 178 CEHHFHLACIFEWME-------------RSDTCPVCNQVR 204 (214)
Q Consensus 178 C~H~FH~~CI~~Wl~-------------~~~tCPvCr~~~ 204 (214)
|.-..|.+|+.+|+. .+-+||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 446678899998873 346899999875
No 114
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=78.72 E-value=2.2 Score=27.67 Aligned_cols=44 Identities=20% Similarity=0.576 Sum_probs=31.7
Q ss_pred CCCcccccccccc-CCCCeEecCCCCcccHHHHHHHHhcCCcccc--cccc
Q 028051 156 EEDVCPTCLEEYD-AENPRIITKCEHHFHLACIFEWMERSDTCPV--CNQV 203 (214)
Q Consensus 156 e~~~C~ICle~~~-~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv--Cr~~ 203 (214)
+...|++|-+.|. .++.++...|+--+|..|..+ ...|-. |...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 4567999999996 445566678999999999654 455654 5443
No 115
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.49 E-value=0.89 Score=42.94 Aligned_cols=44 Identities=34% Similarity=0.868 Sum_probs=36.9
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
+..+.|.||+++. ..+..+|. |.-|+.+|+-.+..||.|.+.+.
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~ 520 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMK 520 (543)
T ss_pred cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhh
Confidence 5567899999988 24466777 99999999999999999988765
No 116
>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=78.13 E-value=1.1 Score=28.05 Aligned_cols=43 Identities=23% Similarity=0.533 Sum_probs=29.4
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhc------CCcccccc
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER------SDTCPVCN 201 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr 201 (214)
.|.||......+.-+..-.|+..||..|+..=.+. .=.||.|+
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 48899884444444455679999999998765431 23577775
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.35 E-value=1.6 Score=40.12 Aligned_cols=38 Identities=26% Similarity=0.565 Sum_probs=31.7
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcC
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS 194 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 194 (214)
.....|.||.+.+.. ..+.+.|+|.|+..|+..-++++
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 445679999999865 56678999999999999999764
No 118
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.05 E-value=0.76 Score=39.99 Aligned_cols=56 Identities=21% Similarity=0.518 Sum_probs=43.2
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhhhccccc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLKIFASLV 212 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~~~~~~~ 212 (214)
...+.|-||.--+.... ....|+|.|+..|...|.++.+.||.|+......++-+.
T Consensus 103 ~~~~~~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv~aG~p 158 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISPVLAGMP 158 (324)
T ss_pred CCccceeeeeeeEEecc--cccCceeeeeecCCchhhhhhhccchhhcCcCceeccCc
Confidence 45677999988775522 234499999999999999999999999987765554443
No 119
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=73.77 E-value=2.6 Score=37.01 Aligned_cols=45 Identities=27% Similarity=0.547 Sum_probs=36.6
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhc---CCccccccc
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQ 202 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~ 202 (214)
..||+=-+.-..+|++.++.|||..-..-++..-+. +-.||.|-.
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 489999898899999999999999988877774333 246999954
No 120
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.49 E-value=1.3 Score=43.13 Aligned_cols=43 Identities=23% Similarity=0.616 Sum_probs=32.5
Q ss_pred CCccccccccccC-C---CCeEecCCCCcccHHHHHHHHhcCCccccc
Q 028051 157 EDVCPTCLEEYDA-E---NPRIITKCEHHFHLACIFEWMERSDTCPVC 200 (214)
Q Consensus 157 ~~~C~ICle~~~~-~---~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 200 (214)
+..|.-|.+.... + +..+.+.|+|.||..|+.--+.+++ |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 4479999988742 2 4577899999999999988776665 5444
No 121
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.82 E-value=1.7 Score=37.54 Aligned_cols=49 Identities=22% Similarity=0.541 Sum_probs=36.6
Q ss_pred CCCccccccccccCCCCeEecCC----CCcccHHHHHHHHhcC-----------Ccccccccchhhh
Q 028051 156 EEDVCPTCLEEYDAENPRIITKC----EHHFHLACIFEWMERS-----------DTCPVCNQVRLKI 207 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C----~H~FH~~CI~~Wl~~~-----------~tCPvCr~~~~~~ 207 (214)
....|.+|.|.++.-. ..+| .|.||.-|-.+-+|+. .+||+=...|.++
T Consensus 267 apLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vPWA 330 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVPWA 330 (352)
T ss_pred CceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcccHH
Confidence 4468999999986644 4557 5999999999999875 4677766555443
No 122
>TIGR03602 streptolysinS bacteriocin protoxin, streptolysin S family. Members of this family are bacteriocin precursors. These small, ribosomally produced polypeptide precursors are extensively processed post-translationally. This family belongs to a class of heterocycle-containing bacteriocins, including streptolysin S from Streptococcus pyogenes, and related bacteriocins from Streptococcus iniae and Clostridium botulinum. Streptolysin S is hemolytic. Bacteriocin genes in general are small and highly diverse, with odd sequence composition, and are easily missed by many gene-finding programs.
Probab=71.42 E-value=1.4 Score=27.81 Aligned_cols=8 Identities=75% Similarity=2.469 Sum_probs=5.3
Q ss_pred CCcccCCC
Q 028051 2 GGCCCCSS 9 (214)
Q Consensus 2 g~~c~~~~ 9 (214)
||||||..
T Consensus 24 ggcccccc 31 (56)
T TIGR03602 24 GGCCCCCC 31 (56)
T ss_pred CCeEEEec
Confidence 78776653
No 123
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=70.27 E-value=3.2 Score=40.42 Aligned_cols=40 Identities=18% Similarity=0.341 Sum_probs=30.3
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccc
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPV 199 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv 199 (214)
.|.+|-..+.. .-.-...|||.-|.+|+++|+.....||.
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 68888665532 22334669999999999999999888766
No 124
>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=65.15 E-value=3.7 Score=27.31 Aligned_cols=38 Identities=16% Similarity=0.297 Sum_probs=20.8
Q ss_pred ccCCCccccccccccCCCCeEe-cCCCCcccHHHHHHHH
Q 028051 154 IEEEDVCPTCLEEYDAENPRII-TKCEHHFHLACIFEWM 191 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~-l~C~H~FH~~CI~~Wl 191 (214)
+.+...|.+|...|..-..+.. -.||+.|+..|...++
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4567789999999966443333 5699999999987655
No 125
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=64.33 E-value=3.5 Score=34.18 Aligned_cols=44 Identities=25% Similarity=0.609 Sum_probs=34.8
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccc
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQV 203 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~ 203 (214)
..|.+|-.-.-. ..+.-.|+-.+|..||...+.+...||.|..-
T Consensus 182 k~Cn~Ch~LvIq--g~rCg~c~i~~h~~c~qty~q~~~~cphc~d~ 225 (235)
T KOG4718|consen 182 KNCNLCHCLVIQ--GIRCGSCNIQYHRGCIQTYLQRRDICPHCGDL 225 (235)
T ss_pred HHHhHhHHHhhe--eeccCcccchhhhHHHHHHhcccCcCCchhcc
Confidence 479998775522 24567788999999999999999999999543
No 126
>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=63.78 E-value=3.9 Score=22.31 Aligned_cols=23 Identities=26% Similarity=0.690 Sum_probs=12.8
Q ss_pred ccccccccccCCCCeEecCCCCcc
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHF 182 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~F 182 (214)
.||-|..++... .....-|||.|
T Consensus 2 ~CP~C~~~V~~~-~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES-AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh-cCcCCCCCCCC
Confidence 477777666322 23344477766
No 127
>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=63.63 E-value=3.4 Score=26.44 Aligned_cols=42 Identities=26% Similarity=0.618 Sum_probs=19.7
Q ss_pred cccccccccCC-------CCeEecCCCCcccHHHHHHHHhcCCcccccc
Q 028051 160 CPTCLEEYDAE-------NPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (214)
Q Consensus 160 C~ICle~~~~~-------~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (214)
|--|+..|... ..-....|+++|+.+|=.--=+.=..||-|.
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 44566666443 2234477999999999322113346788873
No 128
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.19 E-value=3.8 Score=37.11 Aligned_cols=44 Identities=23% Similarity=0.585 Sum_probs=30.2
Q ss_pred CCccccccccc--cCCCCeEecCCCCcccHHHHHHHHhcCCccccc
Q 028051 157 EDVCPTCLEEY--DAENPRIITKCEHHFHLACIFEWMERSDTCPVC 200 (214)
Q Consensus 157 ~~~C~ICle~~--~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 200 (214)
-..|++|.-.+ ..|-..+.=.|||.|+..|...|...+..|.-|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 34588877655 223333333399999999999998888777554
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=62.72 E-value=8.2 Score=28.82 Aligned_cols=45 Identities=20% Similarity=0.467 Sum_probs=34.4
Q ss_pred CCccccccccccCC-----------CCeEecCCCCcccHHHHHHHHhcCCcccccc
Q 028051 157 EDVCPTCLEEYDAE-----------NPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (214)
Q Consensus 157 ~~~C~ICle~~~~~-----------~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (214)
...|--|+..|... ..-....|++.|+.+|=.-|-+.=..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 34699999988532 1123578999999999888878878899995
No 130
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=62.71 E-value=4 Score=23.95 Aligned_cols=25 Identities=32% Similarity=0.873 Sum_probs=16.0
Q ss_pred ccccccccccCCC--------CeEecCCCCccc
Q 028051 159 VCPTCLEEYDAEN--------PRIITKCEHHFH 183 (214)
Q Consensus 159 ~C~ICle~~~~~~--------~~~~l~C~H~FH 183 (214)
+|+=|.-.|...+ .+....|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 4788887775543 244466778774
No 131
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.61 E-value=4 Score=33.76 Aligned_cols=40 Identities=25% Similarity=0.611 Sum_probs=27.8
Q ss_pred cccccccccCCCCeEecCCCCc-ccHHHHHHHHhcCCcccccccchhh
Q 028051 160 CPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
|-+|-+. +..+.++||.|+ +|..|=.. -..||+|+.....
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence 8888774 344888999875 56667432 4569999876653
No 132
>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=59.67 E-value=0.82 Score=31.23 Aligned_cols=41 Identities=27% Similarity=0.583 Sum_probs=22.1
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
..||+|..+++..+ +|.+|..|-.. ++....||-|.+++..
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 35999988764322 66666667554 4556789999888753
No 133
>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=58.84 E-value=3.2 Score=37.57 Aligned_cols=45 Identities=31% Similarity=0.679 Sum_probs=0.0
Q ss_pred CCCccccccccccC-----------CCCeEecCCCCcccHHHHHHHHhc------CCcccccccc
Q 028051 156 EEDVCPTCLEEYDA-----------ENPRIITKCEHHFHLACIFEWMER------SDTCPVCNQV 203 (214)
Q Consensus 156 e~~~C~ICle~~~~-----------~~~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr~~ 203 (214)
....||+=|..... ..+-+-+.|||.+..+ .|-.+ ..+||+||+.
T Consensus 276 ~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 276 GRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred cCCCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCcccc
Confidence 44568887655422 2244568999988754 77632 4689999975
No 134
>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=57.61 E-value=4.3 Score=29.10 Aligned_cols=38 Identities=16% Similarity=0.554 Sum_probs=28.8
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
...|-||-.... +=||+||..|-++ +..|.+|.+.|+.
T Consensus 44 ~~~C~~CK~~v~--------q~g~~YCq~CAYk----kGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVH--------QPGAKYCQTCAYK----KGICAMCGKKILD 81 (90)
T ss_pred Cccccccccccc--------cCCCccChhhhcc----cCcccccCCeecc
Confidence 456999966432 2378899999876 7899999998854
No 135
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=56.56 E-value=5.8 Score=34.05 Aligned_cols=48 Identities=23% Similarity=0.443 Sum_probs=33.7
Q ss_pred CccccccccccCCCCeEe----cCCCCcccHHHHHHHHh-c--------CCcccccccchh
Q 028051 158 DVCPTCLEEYDAENPRII----TKCEHHFHLACIFEWME-R--------SDTCPVCNQVRL 205 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~----l~C~H~FH~~CI~~Wl~-~--------~~tCPvCr~~~~ 205 (214)
.+|-||..++......+. ..|+-++|..|+..-+. . ...||.|++.+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 579999999943222222 34888999999999432 2 368999998654
No 136
>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 KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=55.92 E-value=9.2 Score=33.85 Aligned_cols=46 Identities=24% Similarity=0.466 Sum_probs=35.0
Q ss_pred CCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccc
Q 028051 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (214)
....|-.|.++...........|.|.||.+|=.--=+.=..||.|.
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 3445999988887777788889999999999443334446799996
No 138
>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=54.33 E-value=9.4 Score=21.16 Aligned_cols=29 Identities=21% Similarity=0.476 Sum_probs=11.4
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHH
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACI 187 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI 187 (214)
.|-+|......+..-....|.-.+|..|+
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 47888887755444566889999999886
No 139
>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=54.12 E-value=3 Score=26.61 Aligned_cols=11 Identities=27% Similarity=0.818 Sum_probs=4.9
Q ss_pred cccccccchhh
Q 028051 196 TCPVCNQVRLK 206 (214)
Q Consensus 196 tCPvCr~~~~~ 206 (214)
.||+|.++|..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 78888777653
No 140
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=53.23 E-value=9 Score=33.85 Aligned_cols=49 Identities=22% Similarity=0.538 Sum_probs=37.8
Q ss_pred CccccccccccCCC-CeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 158 DVCPTCLEEYDAEN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 158 ~~C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
..|+||-+..+... ..+--+|++..|+.|...-......||.||+....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 57999999774332 33445689999999998888888999999976653
No 141
>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=52.62 E-value=10 Score=28.32 Aligned_cols=46 Identities=22% Similarity=0.584 Sum_probs=31.7
Q ss_pred CCCccccccccccC--CCCeEecCCCCcccHHHHHHHHhcCC---cccccccc
Q 028051 156 EEDVCPTCLEEYDA--ENPRIITKCEHHFHLACIFEWMERSD---TCPVCNQV 203 (214)
Q Consensus 156 e~~~C~ICle~~~~--~~~~~~l~C~H~FH~~CI~~Wl~~~~---tCPvCr~~ 203 (214)
.+..|.+|...|.. +.......|.|.+|..|-.. ..+. .|-+|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHHH
Confidence 56689999998733 34577789999999999665 2222 48888664
No 142
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=52.51 E-value=3 Score=26.62 Aligned_cols=39 Identities=21% Similarity=0.508 Sum_probs=21.1
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHHh--cCCcccccccchh
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME--RSDTCPVCNQVRL 205 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~--~~~tCPvCr~~~~ 205 (214)
...||.|-+.++... +-..|..+--. +.-.||+|...+.
T Consensus 2 ~f~CP~C~~~~~~~~----------L~~H~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGKGFSESS----------LVEHCEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCCccCHHH----------HHHHHHhHCcCCCCCccCCCchhhhh
Confidence 457999988554322 12223333221 2356999987554
No 143
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=51.85 E-value=9.4 Score=22.44 Aligned_cols=25 Identities=28% Similarity=0.745 Sum_probs=16.2
Q ss_pred ccccccccccCCC--------CeEecCCCCccc
Q 028051 159 VCPTCLEEYDAEN--------PRIITKCEHHFH 183 (214)
Q Consensus 159 ~C~ICle~~~~~~--------~~~~l~C~H~FH 183 (214)
.||-|.-.|...+ .++...|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 4888888775533 344466778775
No 144
>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=51.20 E-value=9.8 Score=25.64 Aligned_cols=11 Identities=27% Similarity=0.918 Sum_probs=8.3
Q ss_pred ccHHHHHHHHh
Q 028051 182 FHLACIFEWME 192 (214)
Q Consensus 182 FH~~CI~~Wl~ 192 (214)
||..|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999995
No 145
>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=51.10 E-value=8.6 Score=21.73 Aligned_cols=37 Identities=16% Similarity=0.499 Sum_probs=22.1
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccch
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVR 204 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~ 204 (214)
.|..|-..+.... ..+..=+..||..|. .|..|++.|
T Consensus 1 ~C~~C~~~i~~~~-~~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCc-EEEEeCCccccccCC--------CCcccCCcC
Confidence 3777877765442 222223677888774 477776655
No 146
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=50.99 E-value=9.3 Score=36.28 Aligned_cols=36 Identities=28% Similarity=0.648 Sum_probs=25.1
Q ss_pred cCCCccccccccccC----CC------CeEecCCCCcccHHHHHHH
Q 028051 155 EEEDVCPTCLEEYDA----EN------PRIITKCEHHFHLACIFEW 190 (214)
Q Consensus 155 ee~~~C~ICle~~~~----~~------~~~~l~C~H~FH~~CI~~W 190 (214)
+....|+||.|.|+. +. ..+-+.=|-+||..|+.+-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 677889999999855 11 1122225789999998774
No 147
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=50.79 E-value=9.9 Score=24.23 Aligned_cols=24 Identities=29% Similarity=0.825 Sum_probs=16.0
Q ss_pred cCCCCcccHHHHHHHHhcCCccccc
Q 028051 176 TKCEHHFHLACIFEWMERSDTCPVC 200 (214)
Q Consensus 176 l~C~H~FH~~CI~~Wl~~~~tCPvC 200 (214)
..|||.|-.. |..-..+...||.|
T Consensus 32 ~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 32 PKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCCeeEcc-HhhhccCCCCCCCC
Confidence 3477777665 44444667889988
No 148
>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=50.00 E-value=12 Score=21.40 Aligned_cols=10 Identities=40% Similarity=0.920 Sum_probs=6.8
Q ss_pred CCcccccccc
Q 028051 194 SDTCPVCNQV 203 (214)
Q Consensus 194 ~~tCPvCr~~ 203 (214)
...||+|...
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 4478888653
No 149
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=48.06 E-value=11 Score=27.45 Aligned_cols=33 Identities=21% Similarity=0.290 Sum_probs=22.9
Q ss_pred CCCccccccccccCCCCeEec--CCCCcccHHHHHHH
Q 028051 156 EEDVCPTCLEEYDAENPRIIT--KCEHHFHLACIFEW 190 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l--~C~H~FH~~CI~~W 190 (214)
....|.||...... .+... .|...||..|...+
T Consensus 54 ~~~~C~iC~~~~G~--~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGGA--CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCce--eEEcCCCCCCcCCCHHHHHHC
Confidence 35679999987432 23333 38889999998763
No 150
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=46.44 E-value=25 Score=24.50 Aligned_cols=52 Identities=15% Similarity=0.364 Sum_probs=20.4
Q ss_pred CCCccccccccccC---CCCe-EecCCCCcccHHHHHH-HHhcCCcccccccchhhh
Q 028051 156 EEDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIFE-WMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 156 e~~~C~ICle~~~~---~~~~-~~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~~~~~ 207 (214)
...+|-||=+++.. ++.. ..-.|+--.|..|..- .-+.++.||.|+......
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence 46679999998733 3322 2245777888888753 334568899999776543
No 151
>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=43.47 E-value=4.3 Score=24.61 Aligned_cols=30 Identities=20% Similarity=0.457 Sum_probs=16.8
Q ss_pred ecCCCCcccHHHHHHHHhcCCccccccc-chh
Q 028051 175 ITKCEHHFHLACIFEWMERSDTCPVCNQ-VRL 205 (214)
Q Consensus 175 ~l~C~H~FH~~CI~~Wl~~~~tCPvCr~-~~~ 205 (214)
...|||.|-..--..= .....||.|+. .+.
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~~~ 38 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE-DDPVPCPECGSTEVR 38 (42)
T ss_pred eCCCCCEEEEEEEcCC-CCCCcCCCCCCCceE
Confidence 4568887764321110 22457999988 443
No 152
>PLN02189 cellulose synthase
Probab=43.41 E-value=24 Score=35.96 Aligned_cols=52 Identities=19% Similarity=0.425 Sum_probs=34.9
Q ss_pred CCCccccccccccC---CCCe-EecCCCCcccHHHHHH-HHhcCCcccccccchhhh
Q 028051 156 EEDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIFE-WMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 156 e~~~C~ICle~~~~---~~~~-~~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~~~~~ 207 (214)
...+|.||-++... ++.- .+--|+--.|..|..- .-+.++.||.||+.....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~ 89 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRL 89 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence 45589999999743 3332 2234777789999832 223457899999887643
No 153
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=43.29 E-value=9.7 Score=24.35 Aligned_cols=16 Identities=31% Similarity=0.511 Sum_probs=12.4
Q ss_pred Ccccccccchhhhccc
Q 028051 195 DTCPVCNQVRLKIFAS 210 (214)
Q Consensus 195 ~tCPvCr~~~~~~~~~ 210 (214)
+.|.+||++|..+++.
T Consensus 2 ~iCvvCK~Pi~~al~v 17 (53)
T PHA02610 2 KICVVCKQPIEKALVV 17 (53)
T ss_pred ceeeeeCCchhhceEE
Confidence 3599999999876653
No 154
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=42.09 E-value=4.3 Score=35.35 Aligned_cols=36 Identities=25% Similarity=0.512 Sum_probs=27.5
Q ss_pred ccccccccccCCCCeEecCCCCcccHHHHHHHHhcC
Q 028051 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS 194 (214)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 194 (214)
+|.||+++|..+.....+.|--+||..|+..|+...
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 899999999653334455565599999999999654
No 155
>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=39.97 E-value=23 Score=22.29 Aligned_cols=35 Identities=14% Similarity=0.353 Sum_probs=26.0
Q ss_pred CccccccccccCCCC-eEecCCCCcccHHHHHHHHh
Q 028051 158 DVCPTCLEEYDAENP-RIITKCEHHFHLACIFEWME 192 (214)
Q Consensus 158 ~~C~ICle~~~~~~~-~~~l~C~H~FH~~CI~~Wl~ 192 (214)
..|.+|-..|..-.. ...-.||+.|+..|....+.
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 469999888866432 23356999999999887764
No 156
>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=38.97 E-value=12 Score=20.22 Aligned_cols=9 Identities=44% Similarity=1.054 Sum_probs=7.2
Q ss_pred cccccccch
Q 028051 196 TCPVCNQVR 204 (214)
Q Consensus 196 tCPvCr~~~ 204 (214)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 599997776
No 157
>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=37.96 E-value=24 Score=23.01 Aligned_cols=26 Identities=19% Similarity=0.487 Sum_probs=21.5
Q ss_pred CcccHHHHHHHHhcCCcccccccchhhh
Q 028051 180 HHFHLACIFEWMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 180 H~FH~~CI~~Wl~~~~tCPvCr~~~~~~ 207 (214)
..||..|...-| .+.||-|.-+++..
T Consensus 29 CTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 29 CTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CcccHHHHHHHh--cCcCcCCCCccccC
Confidence 569999999977 66799999888754
No 158
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=36.99 E-value=21 Score=24.74 Aligned_cols=33 Identities=21% Similarity=0.389 Sum_probs=22.9
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHH
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFE 189 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~ 189 (214)
...|.+|......-..-....|.-.||..|..+
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 456999998743322223356999999999765
No 159
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.85 E-value=30 Score=29.58 Aligned_cols=37 Identities=24% Similarity=0.345 Sum_probs=30.0
Q ss_pred ccCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhc
Q 028051 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER 193 (214)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~ 193 (214)
...-+.|..||..+.. +++++=||.|+..||.+.+-.
T Consensus 40 iK~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRD---PVITPDGYLFDREAILEYILA 76 (303)
T ss_pred cCCcceeeeecccccC---CccCCCCeeeeHHHHHHHHHH
Confidence 3556789999998855 567888999999999998743
No 160
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.56 E-value=5.6 Score=34.26 Aligned_cols=47 Identities=21% Similarity=0.490 Sum_probs=36.3
Q ss_pred CCccccccccccCC---CCeEecC--------CCCcccHHHHHHHHhcC-Ccccccccc
Q 028051 157 EDVCPTCLEEYDAE---NPRIITK--------CEHHFHLACIFEWMERS-DTCPVCNQV 203 (214)
Q Consensus 157 ~~~C~ICle~~~~~---~~~~~l~--------C~H~FH~~CI~~Wl~~~-~tCPvCr~~ 203 (214)
+..|.||...|... ..++++. |+|..+..|+..-+... -.||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 35799999999632 2344455 99999999999988665 489999874
No 161
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.50 E-value=22 Score=32.48 Aligned_cols=37 Identities=24% Similarity=0.371 Sum_probs=27.1
Q ss_pred ccCCCccccccccc---cCCCCeEecCCCCcccHHHHHHH
Q 028051 154 IEEEDVCPTCLEEY---DAENPRIITKCEHHFHLACIFEW 190 (214)
Q Consensus 154 ~ee~~~C~ICle~~---~~~~~~~~l~C~H~FH~~CI~~W 190 (214)
......||-|.-.+ ++-++...+.|+|.||.-|-.--
T Consensus 365 ~~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l 404 (445)
T KOG1814|consen 365 ESNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELL 404 (445)
T ss_pred HhcCCCCCcccceeecCCCccceeeccccccceeehhhhc
Confidence 34566799998776 33456677999999999886553
No 162
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=35.54 E-value=30 Score=30.67 Aligned_cols=51 Identities=20% Similarity=0.384 Sum_probs=34.4
Q ss_pred CCccccccccccC---------------CC-CeEecCCCCcccHHHHHHHHhc---------CCcccccccchhhh
Q 028051 157 EDVCPTCLEEYDA---------------EN-PRIITKCEHHFHLACIFEWMER---------SDTCPVCNQVRLKI 207 (214)
Q Consensus 157 ~~~C~ICle~~~~---------------~~-~~~~l~C~H~FH~~CI~~Wl~~---------~~tCPvCr~~~~~~ 207 (214)
+..||+|+..-.. +- .....||||.--.+=..-|-+. ...||.|-+.+...
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 5589999976321 11 1234689998777777778754 35799998877643
No 163
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=34.19 E-value=2.9 Score=30.40 Aligned_cols=50 Identities=20% Similarity=0.416 Sum_probs=13.8
Q ss_pred CccccccccccCCCCeEecCC--CCcccHHHHHHHH----hcCCcccccccchhhhcc
Q 028051 158 DVCPTCLEEYDAENPRIITKC--EHHFHLACIFEWM----ERSDTCPVCNQVRLKIFA 209 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C--~H~FH~~CI~~Wl----~~~~tCPvCr~~~~~~~~ 209 (214)
+.|+||.+.+...+.. ...| ||.|-.-.+.--. .. +.|++|++.++....
T Consensus 15 E~C~~C~~~i~~~~~~-~~~C~~GH~w~RC~lT~l~i~~~~~-r~C~~C~~~~l~~~~ 70 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLD-EAQCENGHVWPRCALTFLPIQTPGV-RVCPVCGRRALDPEP 70 (99)
T ss_dssp --------------SS-EEE-TTS-EEEB-SSS-SBS-SS-E-EE-TTT--EEE-GGG
T ss_pred ccccccccccccCCcC-EeECCCCCEEeeeeeeeeeeccCCe-eEcCCCCCEEecCcc
Confidence 5699999877544422 2336 6876543322211 11 679999887765443
No 164
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=33.87 E-value=12 Score=27.67 Aligned_cols=29 Identities=34% Similarity=0.739 Sum_probs=20.8
Q ss_pred CccccccccccCCCCeEecCCCCcccHHHHHHHHh
Q 028051 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME 192 (214)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~ 192 (214)
..|+.|-.+|..++.. +++|-.|..+|-.
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 3599999999765532 4467778888863
No 165
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.79 E-value=33 Score=29.42 Aligned_cols=48 Identities=19% Similarity=0.358 Sum_probs=34.0
Q ss_pred CCCccccccccccCCCC-eEecCCCCcccHHHHHHHHhcCCcccccccchh
Q 028051 156 EEDVCPTCLEEYDAENP-RIITKCEHHFHLACIFEWMERSDTCPVCNQVRL 205 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~-~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~ 205 (214)
....|||=--++..... ..+-.|||.|-..-+.+- ...+|++|.+.+-
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 34589997766644332 334679999998877774 3678999987653
No 166
>PRK01343 zinc-binding protein; Provisional
Probab=33.74 E-value=19 Score=23.62 Aligned_cols=11 Identities=27% Similarity=0.821 Sum_probs=5.7
Q ss_pred Ccccccccchh
Q 028051 195 DTCPVCNQVRL 205 (214)
Q Consensus 195 ~tCPvCr~~~~ 205 (214)
..||+|++.+.
T Consensus 10 ~~CP~C~k~~~ 20 (57)
T PRK01343 10 RPCPECGKPST 20 (57)
T ss_pred CcCCCCCCcCc
Confidence 34555555543
No 167
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=32.91 E-value=14 Score=23.66 Aligned_cols=32 Identities=28% Similarity=0.721 Sum_probs=20.6
Q ss_pred ccc--cccccccC----CCCeEe-cCCCCcccHHHHHHH
Q 028051 159 VCP--TCLEEYDA----ENPRII-TKCEHHFHLACIFEW 190 (214)
Q Consensus 159 ~C~--ICle~~~~----~~~~~~-l~C~H~FH~~CI~~W 190 (214)
-|| -|...+.. +...+. ..|+|.||..|-.+|
T Consensus 20 ~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 20 WCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 477 56444322 233333 479999999999888
No 168
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, 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), 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=32.11 E-value=28 Score=20.01 Aligned_cols=9 Identities=33% Similarity=1.291 Sum_probs=6.2
Q ss_pred Ccccccccc
Q 028051 195 DTCPVCNQV 203 (214)
Q Consensus 195 ~tCPvCr~~ 203 (214)
..||+|...
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 468888664
No 169
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=31.10 E-value=17 Score=32.57 Aligned_cols=48 Identities=21% Similarity=0.544 Sum_probs=26.1
Q ss_pred cCCCccccccccccCCCCeEecCC---CCcc--------cHHHHHHHH-----hcCCcccccccc
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKC---EHHF--------HLACIFEWM-----ERSDTCPVCNQV 203 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C---~H~F--------H~~CI~~Wl-----~~~~tCPvCr~~ 203 (214)
+.++.||+|=+.... -.-.++.| .-+| |..|+.+-- ..++.||.||..
T Consensus 13 dl~ElCPVCGDkVSG-YHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 13 DLGELCPVCGDKVSG-YHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred ccccccccccCcccc-ceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 446679999887643 23344444 3333 233433211 123679999864
No 170
>PLN02436 cellulose synthase A
Probab=30.92 E-value=45 Score=34.24 Aligned_cols=52 Identities=21% Similarity=0.471 Sum_probs=34.5
Q ss_pred CCCccccccccccC---CCCe-EecCCCCcccHHHHHH-HHhcCCcccccccchhhh
Q 028051 156 EEDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIFE-WMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 156 e~~~C~ICle~~~~---~~~~-~~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~~~~~ 207 (214)
...+|.||-++... ++.- .+--|+--.|..|..- .-+.++.||.||+....-
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~ 91 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRI 91 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence 45589999999733 3332 2234777799999842 223457899999887643
No 171
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.89 E-value=11 Score=29.03 Aligned_cols=50 Identities=18% Similarity=0.467 Sum_probs=28.9
Q ss_pred ccCCCcccccccc-ccCCCCeEecCCCCcccHHHHHHHHhcCC----cccccccc
Q 028051 154 IEEEDVCPTCLEE-YDAENPRIITKCEHHFHLACIFEWMERSD----TCPVCNQV 203 (214)
Q Consensus 154 ~ee~~~C~ICle~-~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~----tCPvCr~~ 203 (214)
.+++.+|.||+-. |..+...+..-|.-.||..|--+--.+++ .|-.|++.
T Consensus 62 v~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 3667789999875 34433334444555566666544333332 48888664
No 172
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=29.85 E-value=16 Score=20.17 Aligned_cols=12 Identities=42% Similarity=0.971 Sum_probs=6.0
Q ss_pred cccccccchhhh
Q 028051 196 TCPVCNQVRLKI 207 (214)
Q Consensus 196 tCPvCr~~~~~~ 207 (214)
+||+|...++..
T Consensus 1 ~CP~C~s~l~~~ 12 (28)
T PF03119_consen 1 TCPVCGSKLVRE 12 (28)
T ss_dssp B-TTT--BEEE-
T ss_pred CcCCCCCEeEcC
Confidence 489998887743
No 173
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=29.34 E-value=52 Score=28.74 Aligned_cols=52 Identities=13% Similarity=0.247 Sum_probs=33.4
Q ss_pred CCCccccccccccC-----CCC-eEecCCCCcccHHHHHHHHh-------------cCCcccccccchhhh
Q 028051 156 EEDVCPTCLEEYDA-----ENP-RIITKCEHHFHLACIFEWME-------------RSDTCPVCNQVRLKI 207 (214)
Q Consensus 156 e~~~C~ICle~~~~-----~~~-~~~l~C~H~FH~~CI~~Wl~-------------~~~tCPvCr~~~~~~ 207 (214)
-...|.|||+.-+. .+. ...-+|...+|-.||.--++ .-.+|-+|.++....
T Consensus 257 ~~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~ 327 (381)
T KOG1512|consen 257 RRNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIES 327 (381)
T ss_pred chhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccch
Confidence 34579999985422 122 23467999999999864332 126788888876543
No 174
>PRK05978 hypothetical protein; Provisional
Probab=29.08 E-value=23 Score=27.73 Aligned_cols=18 Identities=17% Similarity=0.534 Sum_probs=15.6
Q ss_pred HHHhcCCcccccccchhh
Q 028051 189 EWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 189 ~Wl~~~~tCPvCr~~~~~ 206 (214)
.+|+.+..||.|..++..
T Consensus 47 g~Lkv~~~C~~CG~~~~~ 64 (148)
T PRK05978 47 AFLKPVDHCAACGEDFTH 64 (148)
T ss_pred cccccCCCccccCCcccc
Confidence 788999999999988753
No 175
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=28.41 E-value=15 Score=22.85 Aligned_cols=24 Identities=33% Similarity=0.721 Sum_probs=15.0
Q ss_pred EecCCCCcccHHHHHHHHh----cCCccccccc
Q 028051 174 IITKCEHHFHLACIFEWME----RSDTCPVCNQ 202 (214)
Q Consensus 174 ~~l~C~H~FH~~CI~~Wl~----~~~tCPvCr~ 202 (214)
+...|||.|-. |.. ....||.|..
T Consensus 7 ~C~~Cg~~fe~-----~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 7 RCTACGHRFEV-----LQKMSDDPLATCPECGG 34 (52)
T ss_pred EeCCCCCEeEE-----EEecCCCCCCCCCCCCC
Confidence 34568887763 322 2246999987
No 176
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=28.33 E-value=21 Score=23.10 Aligned_cols=15 Identities=27% Similarity=0.530 Sum_probs=11.5
Q ss_pred Ccccccccchhhhcc
Q 028051 195 DTCPVCNQVRLKIFA 209 (214)
Q Consensus 195 ~tCPvCr~~~~~~~~ 209 (214)
..|.+||+++...+.
T Consensus 2 ~~CvVCKqpi~~a~~ 16 (54)
T PF10886_consen 2 EICVVCKQPIDDALV 16 (54)
T ss_pred CeeeeeCCccCcceE
Confidence 359999999887644
No 177
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=28.33 E-value=35 Score=25.10 Aligned_cols=27 Identities=26% Similarity=0.457 Sum_probs=17.8
Q ss_pred eEecCCCCcccHHHHHHHHhcCCcccccccc
Q 028051 173 RIITKCEHHFHLACIFEWMERSDTCPVCNQV 203 (214)
Q Consensus 173 ~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~ 203 (214)
.+.++|||.|-.. ++-|.+. ||-|.-.
T Consensus 3 H~CtrCG~vf~~g--~~~il~G--Cp~CG~n 29 (112)
T COG3364 3 HQCTRCGEVFDDG--SEEILSG--CPKCGCN 29 (112)
T ss_pred ceecccccccccc--cHHHHcc--Cccccch
Confidence 4578899999876 3433333 8888544
No 178
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=27.76 E-value=58 Score=33.51 Aligned_cols=52 Identities=19% Similarity=0.445 Sum_probs=34.9
Q ss_pred CCCccccccccccC---CCC-eEecCCCCcccHHHHH-HHHhcCCcccccccchhhh
Q 028051 156 EEDVCPTCLEEYDA---ENP-RIITKCEHHFHLACIF-EWMERSDTCPVCNQVRLKI 207 (214)
Q Consensus 156 e~~~C~ICle~~~~---~~~-~~~l~C~H~FH~~CI~-~Wl~~~~tCPvCr~~~~~~ 207 (214)
...+|-||=++... ++. +.+--|+-=.|..|.. +.-+.+..||.||...-..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~ 72 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRH 72 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhh
Confidence 45589999998733 332 2334577779999983 2334467899999877643
No 179
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.68 E-value=35 Score=24.52 Aligned_cols=12 Identities=25% Similarity=0.844 Sum_probs=10.7
Q ss_pred ccHHHHHHHHhc
Q 028051 182 FHLACIFEWMER 193 (214)
Q Consensus 182 FH~~CI~~Wl~~ 193 (214)
||..|+..|.+.
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999954
No 180
>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=24.87 E-value=50 Score=20.53 Aligned_cols=38 Identities=18% Similarity=0.504 Sum_probs=19.1
Q ss_pred cccccccccCCCCeEecCCCCcccHHHHHHHHhcCCcccccccchhh
Q 028051 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~~~~ 206 (214)
|..|...+.... .++..-+..||..|. +|-.|++.|..
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~Cf--------~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPECF--------KCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTTS--------BETTTTCBTTT
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEcccc--------ccCCCCCccCC
Confidence 455555554322 222335566666552 46666665543
No 181
>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.
Probab=24.58 E-value=47 Score=24.82 Aligned_cols=18 Identities=33% Similarity=0.752 Sum_probs=13.8
Q ss_pred CCCcccHH--HHHHHHhcCC
Q 028051 178 CEHHFHLA--CIFEWMERSD 195 (214)
Q Consensus 178 C~H~FH~~--CI~~Wl~~~~ 195 (214)
=||+.|.. ||..||+...
T Consensus 17 tG~HcH~EA~tIa~wL~~~~ 36 (116)
T PF09477_consen 17 TGHHCHQEANTIADWLEQEG 36 (116)
T ss_dssp HTTT-HHHHHHHHHHHHHTT
T ss_pred hhhHHHHHHHHHHHHHHhCC
Confidence 37888876 9999998764
No 182
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=24.33 E-value=30 Score=23.06 Aligned_cols=11 Identities=27% Similarity=0.712 Sum_probs=9.0
Q ss_pred Ccccccccchh
Q 028051 195 DTCPVCNQVRL 205 (214)
Q Consensus 195 ~tCPvCr~~~~ 205 (214)
..||+|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 46999999875
No 183
>PF02444 HEV_ORF1: Hepatitis E virus ORF-2 (Putative capsid protein); InterPro: IPR003384 The Hepatitis E virus(HEV) genome is a single-stranded, positive-sense RNA molecule of approximately 7.5 kb []. Three open reading frames (ORF) were identified within the HEV genome: ORF1 encodes nonstructural proteins, ORF2 encodes the putative structural protein(s), and ORF3 encodes a protein of unknown function. ORF2 contains a consensus signal peptide sequence at its amino terminus and a capsid-like region with a high content of basic amino acids similar to that seen with other virus capsid proteins [].; GO: 0030430 host cell cytoplasm
Probab=23.33 E-value=28 Score=25.24 Aligned_cols=8 Identities=75% Similarity=1.676 Sum_probs=5.9
Q ss_pred CCcccCCC
Q 028051 2 GGCCCCSS 9 (214)
Q Consensus 2 g~~c~~~~ 9 (214)
|-||||++
T Consensus 9 glfc~css 16 (114)
T PF02444_consen 9 GLFCCCSS 16 (114)
T ss_pred hhhheccc
Confidence 45888876
No 184
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=23.10 E-value=39 Score=22.28 Aligned_cols=12 Identities=25% Similarity=0.758 Sum_probs=8.6
Q ss_pred CCcccccccchh
Q 028051 194 SDTCPVCNQVRL 205 (214)
Q Consensus 194 ~~tCPvCr~~~~ 205 (214)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 456888887764
No 185
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=22.77 E-value=26 Score=22.90 Aligned_cols=12 Identities=25% Similarity=0.631 Sum_probs=6.1
Q ss_pred Ccccccccchhh
Q 028051 195 DTCPVCNQVRLK 206 (214)
Q Consensus 195 ~tCPvCr~~~~~ 206 (214)
..||+|++.+..
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 359999998765
No 186
>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=22.72 E-value=28 Score=31.64 Aligned_cols=50 Identities=18% Similarity=0.377 Sum_probs=0.0
Q ss_pred CCccccccccccC---------------CC-CeEecCCCCcccHHHHHHHHhcC---------Ccccccccchhh
Q 028051 157 EDVCPTCLEEYDA---------------EN-PRIITKCEHHFHLACIFEWMERS---------DTCPVCNQVRLK 206 (214)
Q Consensus 157 ~~~C~ICle~~~~---------------~~-~~~~l~C~H~FH~~CI~~Wl~~~---------~tCPvCr~~~~~ 206 (214)
..+||+|+..... +. ....-||||.-=.....-|-+.. ..||.|-..+..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 5689999975311 11 12346899998888888897542 579999888763
No 187
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=22.27 E-value=99 Score=31.03 Aligned_cols=61 Identities=16% Similarity=0.322 Sum_probs=38.7
Q ss_pred ccccccccC-CCccccccccccCC------CCeEecCCCCcccHHHHHHHHhc----------------CCcccccccch
Q 028051 148 HHVVAVIEE-EDVCPTCLEEYDAE------NPRIITKCEHHFHLACIFEWMER----------------SDTCPVCNQVR 204 (214)
Q Consensus 148 ~~~~~~~ee-~~~C~ICle~~~~~------~~~~~l~C~H~FH~~CI~~Wl~~----------------~~tCPvCr~~~ 204 (214)
.+.+..+++ .+.|..|-..|..- ...-.=.||..||..|-..+... ..+|-.|-+++
T Consensus 450 APvWqpDDEaSdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs~yp~aKLpKPgsseE~ppRRVCD~CYdq~ 529 (1374)
T PTZ00303 450 NPSWQKDDESSDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRAHYSFAKLAKPGSSDEAEERLVCDTCYKEY 529 (1374)
T ss_pred CCCCCCCcccCCcccCcCCcccccccccccccccccCCccccCccccCCcccCcccccCCCCCcccccccchhHHHHHHH
Confidence 344444444 37899999999531 11224569999999999876521 13788886655
Q ss_pred hhhc
Q 028051 205 LKIF 208 (214)
Q Consensus 205 ~~~~ 208 (214)
....
T Consensus 530 EnLl 533 (1374)
T PTZ00303 530 ETVS 533 (1374)
T ss_pred HhHH
Confidence 4443
No 188
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=22.02 E-value=27 Score=22.39 Aligned_cols=9 Identities=56% Similarity=1.383 Sum_probs=3.2
Q ss_pred cccccccch
Q 028051 196 TCPVCNQVR 204 (214)
Q Consensus 196 tCPvCr~~~ 204 (214)
+||+|...+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 566665443
No 189
>PRK11827 hypothetical protein; Provisional
Probab=21.13 E-value=29 Score=22.90 Aligned_cols=19 Identities=26% Similarity=0.349 Sum_probs=13.6
Q ss_pred HHHHhcCCcccccccchhh
Q 028051 188 FEWMERSDTCPVCNQVRLK 206 (214)
Q Consensus 188 ~~Wl~~~~tCPvCr~~~~~ 206 (214)
++||..--.||+|+..+..
T Consensus 2 d~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWY 20 (60)
T ss_pred ChHHHhheECCCCCCcCeE
Confidence 4566666779999887753
No 190
>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=20.83 E-value=65 Score=23.60 Aligned_cols=24 Identities=21% Similarity=0.490 Sum_probs=18.8
Q ss_pred CCcccHHHHHHHHhcC---------Cccccccc
Q 028051 179 EHHFHLACIFEWMERS---------DTCPVCNQ 202 (214)
Q Consensus 179 ~H~FH~~CI~~Wl~~~---------~tCPvCr~ 202 (214)
.=.||..||..++... -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 6779999999988432 36999975
No 191
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=20.77 E-value=46 Score=31.24 Aligned_cols=54 Identities=24% Similarity=0.563 Sum_probs=35.4
Q ss_pred cccccccccCCCccccccccccCCCCe--EecCCCCcccHHHHH-------HHHhcC--------Cccccc
Q 028051 147 VHHVVAVIEEEDVCPTCLEEYDAENPR--IITKCEHHFHLACIF-------EWMERS--------DTCPVC 200 (214)
Q Consensus 147 ~~~~~~~~ee~~~C~ICle~~~~~~~~--~~l~C~H~FH~~CI~-------~Wl~~~--------~tCPvC 200 (214)
.+++...++-++.|.||.+.-...... ..-.|.-..|..|.- .||=++ .+|-+|
T Consensus 183 vepi~~~d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~~~i~~C~fC 253 (669)
T COG5141 183 VEPIEPSDEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGEYQIRCCSFC 253 (669)
T ss_pred ccccCCchhhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccccceeEEEec
Confidence 445556666788999999876432233 335688888888863 688443 346666
No 192
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=20.61 E-value=32 Score=36.45 Aligned_cols=50 Identities=22% Similarity=0.523 Sum_probs=39.7
Q ss_pred cCCCccccccccccCCCCeEecCCCCcccHHHHHHHHhcC----Ccccccccch
Q 028051 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQVR 204 (214)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----~tCPvCr~~~ 204 (214)
...-.|.||+...+...-....-|.-.||..|+..-|... -.||-|+..-
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 4556799999988776655556788999999999988654 4699998765
No 193
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.44 E-value=32 Score=34.25 Aligned_cols=45 Identities=16% Similarity=0.422 Sum_probs=29.5
Q ss_pred CCccccccccccCCCCeEecCCCCcccHHHHHHHH-h-----cCCccccccc
Q 028051 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWM-E-----RSDTCPVCNQ 202 (214)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl-~-----~~~tCPvCr~ 202 (214)
...|-.|.-..- ...-+...|++.||..|+..|. + .-..|+.|+.
T Consensus 229 ~~mC~~C~~tlf-n~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 229 REMCDRCETTLF-NIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred chhhhhhccccc-ceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 345777765321 1245678899999999999995 1 1245666654
No 194
>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=20.07 E-value=7.6 Score=33.57 Aligned_cols=48 Identities=21% Similarity=0.283 Sum_probs=19.9
Q ss_pred CCCccccccccccCCCCeEec--CCCCcccHHHHHHHHhcCCcccccccc
Q 028051 156 EEDVCPTCLEEYDAENPRIIT--KCEHHFHLACIFEWMERSDTCPVCNQV 203 (214)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l--~C~H~FH~~CI~~Wl~~~~tCPvCr~~ 203 (214)
....||||=.......-.... .=-|.+|.-|=.+|--....||.|...
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 345899996653221000000 013567778888998788899999653
Done!