Query 044515
Match_columns 167
No_of_seqs 227 out of 1306
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 03:58:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044515.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044515hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 1.8E-15 3.9E-20 92.5 2.4 44 118-161 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 4.6E-14 9.9E-19 119.9 5.6 49 118-166 230-279 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.3 1.1E-12 2.5E-17 88.6 3.5 46 116-161 18-73 (73)
4 COG5540 RING-finger-containing 99.3 3.2E-12 7E-17 106.2 3.8 51 116-166 322-373 (374)
5 COG5243 HRD1 HRD ubiquitin lig 99.2 5E-12 1.1E-16 107.5 3.4 52 114-165 284-345 (491)
6 KOG0317 Predicted E3 ubiquitin 99.2 8.7E-12 1.9E-16 102.9 3.8 59 106-167 228-286 (293)
7 PHA02929 N1R/p28-like protein; 99.2 1.4E-11 3.1E-16 100.3 4.0 51 115-165 172-227 (238)
8 PF13920 zf-C3HC4_3: Zinc fing 99.1 7.4E-11 1.6E-15 73.8 2.6 46 117-165 2-48 (50)
9 PLN03208 E3 ubiquitin-protein 99.1 1.2E-10 2.6E-15 91.8 4.0 50 113-165 14-79 (193)
10 PF12861 zf-Apc11: Anaphase-pr 99.0 2.1E-10 4.6E-15 79.3 3.8 52 114-165 18-82 (85)
11 PF15227 zf-C3HC4_4: zinc fing 99.0 2.2E-10 4.9E-15 69.4 2.6 38 120-160 1-42 (42)
12 cd00162 RING RING-finger (Real 99.0 3.9E-10 8.5E-15 67.2 3.6 44 119-164 1-45 (45)
13 PF13923 zf-C3HC4_2: Zinc fing 99.0 2.7E-10 5.9E-15 67.7 2.5 39 120-160 1-39 (39)
14 KOG0823 Predicted E3 ubiquitin 99.0 3.6E-10 7.8E-15 90.9 3.6 49 114-165 44-95 (230)
15 KOG0802 E3 ubiquitin ligase [P 98.9 6.7E-10 1.5E-14 100.1 2.5 53 113-165 287-341 (543)
16 PHA02926 zinc finger-like prot 98.9 1.2E-09 2.6E-14 87.7 3.0 51 115-165 168-230 (242)
17 smart00504 Ubox Modified RING 98.8 3E-09 6.5E-14 68.9 3.9 45 118-165 2-46 (63)
18 PF00097 zf-C3HC4: Zinc finger 98.8 2.3E-09 5E-14 64.0 2.3 39 120-160 1-41 (41)
19 PF14634 zf-RING_5: zinc-RING 98.8 4.8E-09 1E-13 64.0 3.1 44 119-162 1-44 (44)
20 smart00184 RING Ring finger. E 98.8 6.9E-09 1.5E-13 59.6 3.3 38 120-160 1-39 (39)
21 KOG0320 Predicted E3 ubiquitin 98.7 5.3E-09 1.2E-13 81.2 2.7 49 116-165 130-178 (187)
22 TIGR00599 rad18 DNA repair pro 98.7 8.2E-09 1.8E-13 89.7 3.3 49 114-165 23-71 (397)
23 KOG1734 Predicted RING-contain 98.7 5.7E-09 1.2E-13 85.8 0.8 50 116-165 223-281 (328)
24 COG5574 PEX10 RING-finger-cont 98.6 1.9E-08 4E-13 82.4 3.1 49 115-166 213-263 (271)
25 COG5194 APC11 Component of SCF 98.6 2.9E-08 6.4E-13 67.6 3.2 49 117-165 20-81 (88)
26 KOG2930 SCF ubiquitin ligase, 98.6 1.8E-08 3.8E-13 71.8 1.8 52 113-164 42-107 (114)
27 KOG0287 Postreplication repair 98.5 4.3E-08 9.4E-13 83.0 1.7 47 116-165 22-68 (442)
28 KOG1493 Anaphase-promoting com 98.4 7.2E-08 1.6E-12 65.1 0.5 51 115-165 18-81 (84)
29 KOG2164 Predicted E3 ubiquitin 98.4 1.8E-07 3.9E-12 82.7 2.4 47 117-166 186-237 (513)
30 PF13445 zf-RING_UBOX: RING-ty 98.4 3.1E-07 6.6E-12 55.9 2.7 38 120-158 1-43 (43)
31 KOG0828 Predicted E3 ubiquitin 98.3 2.1E-07 4.5E-12 82.1 2.2 52 115-166 569-635 (636)
32 PF11793 FANCL_C: FANCL C-term 98.3 5.7E-08 1.2E-12 65.1 -1.3 50 117-166 2-67 (70)
33 PF04564 U-box: U-box domain; 98.3 4E-07 8.6E-12 61.3 2.3 46 117-165 4-50 (73)
34 COG5432 RAD18 RING-finger-cont 98.3 3E-07 6.5E-12 76.6 2.0 45 117-164 25-69 (391)
35 smart00744 RINGv The RING-vari 98.3 8.9E-07 1.9E-11 55.3 3.1 42 119-161 1-49 (49)
36 KOG2177 Predicted E3 ubiquitin 98.2 3.5E-07 7.5E-12 73.3 1.5 45 114-161 10-54 (386)
37 COG5219 Uncharacterized conser 98.2 2E-07 4.3E-12 87.4 -0.9 56 110-165 1462-1523(1525)
38 KOG4265 Predicted E3 ubiquitin 98.1 2.4E-06 5.3E-11 72.7 3.8 48 115-165 288-336 (349)
39 KOG0804 Cytoplasmic Zn-finger 98.0 2E-06 4.2E-11 75.2 1.9 50 114-165 172-222 (493)
40 KOG1039 Predicted E3 ubiquitin 97.8 6.5E-06 1.4E-10 70.5 1.6 51 114-164 158-220 (344)
41 PF14835 zf-RING_6: zf-RING of 97.8 2.5E-06 5.5E-11 56.0 -1.0 43 117-164 7-50 (65)
42 KOG0311 Predicted E3 ubiquitin 97.7 4E-06 8.7E-11 71.4 -1.3 49 114-165 40-90 (381)
43 KOG0825 PHD Zn-finger protein 97.6 1.4E-05 3E-10 74.1 -0.2 50 116-165 122-171 (1134)
44 KOG0978 E3 ubiquitin ligase in 97.5 2.4E-05 5.1E-10 72.2 0.4 49 116-167 642-691 (698)
45 KOG4172 Predicted E3 ubiquitin 97.5 2.7E-05 5.8E-10 49.6 0.3 45 118-165 8-54 (62)
46 KOG4445 Uncharacterized conser 97.4 5.1E-05 1.1E-09 63.6 1.5 50 116-165 114-186 (368)
47 KOG4159 Predicted E3 ubiquitin 97.4 8.4E-05 1.8E-09 64.9 2.3 48 115-165 82-129 (398)
48 KOG2660 Locus-specific chromos 97.4 4.3E-05 9.3E-10 64.6 0.4 49 114-165 12-61 (331)
49 KOG1785 Tyrosine kinase negati 97.4 4.1E-05 9E-10 66.4 -0.1 50 113-165 365-416 (563)
50 KOG0297 TNF receptor-associate 97.3 9.9E-05 2.1E-09 64.4 1.4 50 114-166 18-68 (391)
51 KOG1941 Acetylcholine receptor 97.2 8.8E-05 1.9E-09 64.2 0.3 49 114-162 362-413 (518)
52 KOG2879 Predicted E3 ubiquitin 97.2 0.00037 8.1E-09 57.8 3.5 52 112-165 234-287 (298)
53 KOG3970 Predicted E3 ubiquitin 97.1 0.00038 8.2E-09 56.4 3.3 53 113-166 46-106 (299)
54 KOG1428 Inhibitor of type V ad 97.1 0.00031 6.7E-09 69.1 3.2 53 113-165 3482-3544(3738)
55 PF11789 zf-Nse: Zinc-finger o 96.9 0.00051 1.1E-08 44.2 1.4 41 117-159 11-53 (57)
56 KOG4692 Predicted E3 ubiquitin 96.8 0.0007 1.5E-08 58.2 2.1 50 113-165 418-467 (489)
57 COG5152 Uncharacterized conser 96.8 0.00047 1E-08 54.9 0.8 43 118-163 197-239 (259)
58 PF14570 zf-RING_4: RING/Ubox 96.7 0.00073 1.6E-08 42.0 1.1 44 120-164 1-47 (48)
59 KOG1813 Predicted E3 ubiquitin 96.4 0.0011 2.3E-08 55.6 0.5 44 118-164 242-285 (313)
60 KOG1002 Nucleotide excision re 96.4 0.0014 3.1E-08 58.9 1.3 49 113-164 532-585 (791)
61 PF10367 Vps39_2: Vacuolar sor 96.4 0.0015 3.2E-08 46.0 1.1 34 114-148 75-108 (109)
62 KOG3268 Predicted E3 ubiquitin 96.3 0.003 6.5E-08 49.6 2.4 49 117-165 165-228 (234)
63 KOG1814 Predicted E3 ubiquitin 96.2 0.0033 7.2E-08 54.9 2.7 48 115-162 182-237 (445)
64 KOG1952 Transcription factor N 96.2 0.0026 5.7E-08 59.7 2.1 50 113-162 187-244 (950)
65 PF12906 RINGv: RING-variant d 96.2 0.0029 6.4E-08 39.0 1.6 40 120-160 1-47 (47)
66 PHA02825 LAP/PHD finger-like p 96.0 0.0071 1.5E-07 46.6 3.1 48 114-165 5-59 (162)
67 PF05883 Baculo_RING: Baculovi 95.9 0.0048 1E-07 46.2 2.1 36 117-152 26-67 (134)
68 KOG1571 Predicted E3 ubiquitin 95.9 0.0057 1.2E-07 52.5 2.6 47 113-165 301-347 (355)
69 PHA03096 p28-like protein; Pro 95.9 0.0037 8.1E-08 52.5 1.4 44 118-161 179-230 (284)
70 PHA02862 5L protein; Provision 95.8 0.0083 1.8E-07 45.5 2.8 48 117-164 2-52 (156)
71 PF08746 zf-RING-like: RING-li 95.6 0.0042 9.1E-08 37.6 0.4 41 120-160 1-43 (43)
72 PF14447 Prok-RING_4: Prokaryo 95.4 0.0084 1.8E-07 38.2 1.4 45 117-166 7-51 (55)
73 KOG0801 Predicted E3 ubiquitin 95.2 0.0061 1.3E-07 47.2 0.5 31 114-144 174-204 (205)
74 KOG0826 Predicted E3 ubiquitin 95.2 0.015 3.3E-07 49.5 2.7 45 116-163 299-344 (357)
75 COG5236 Uncharacterized conser 95.1 0.02 4.4E-07 49.3 3.2 49 113-164 57-107 (493)
76 KOG2114 Vacuolar assembly/sort 95.0 0.012 2.6E-07 55.5 1.8 43 116-163 839-881 (933)
77 KOG4275 Predicted E3 ubiquitin 94.8 0.0051 1.1E-07 51.7 -1.1 42 117-165 300-342 (350)
78 COG5175 MOT2 Transcriptional r 94.8 0.018 3.8E-07 49.5 2.1 51 115-165 12-64 (480)
79 KOG3039 Uncharacterized conser 94.7 0.032 6.9E-07 46.0 3.3 49 116-164 220-269 (303)
80 KOG1940 Zn-finger protein [Gen 94.7 0.017 3.7E-07 48.3 1.8 47 116-162 157-204 (276)
81 COG5222 Uncharacterized conser 94.6 0.018 4E-07 48.7 1.7 42 118-162 275-318 (427)
82 PF04641 Rtf2: Rtf2 RING-finge 94.5 0.043 9.4E-07 45.3 3.6 51 114-165 110-161 (260)
83 KOG3002 Zn finger protein [Gen 94.4 0.025 5.4E-07 47.9 2.0 44 115-165 46-91 (299)
84 PF14446 Prok-RING_1: Prokaryo 93.5 0.084 1.8E-06 33.5 2.8 34 116-149 4-38 (54)
85 PF05290 Baculo_IE-1: Baculovi 93.0 0.074 1.6E-06 39.9 2.3 48 116-166 79-133 (140)
86 KOG1645 RING-finger-containing 93.0 0.075 1.6E-06 46.6 2.6 32 132-163 21-54 (463)
87 KOG0827 Predicted E3 ubiquitin 92.9 0.0065 1.4E-07 52.8 -4.0 50 116-165 195-245 (465)
88 KOG1001 Helicase-like transcri 92.3 0.057 1.2E-06 50.4 1.1 43 118-164 455-499 (674)
89 KOG2817 Predicted E3 ubiquitin 91.9 0.15 3.2E-06 44.5 3.0 49 116-164 333-384 (394)
90 KOG2034 Vacuolar sorting prote 91.2 0.11 2.3E-06 49.5 1.5 37 114-151 814-850 (911)
91 KOG2932 E3 ubiquitin ligase in 90.3 0.11 2.3E-06 44.2 0.7 43 118-164 91-133 (389)
92 KOG0298 DEAD box-containing he 89.4 0.12 2.6E-06 50.9 0.4 45 116-162 1152-1196(1394)
93 PF10272 Tmpp129: Putative tra 89.4 0.23 5E-06 43.1 2.0 28 138-165 311-351 (358)
94 KOG1100 Predicted E3 ubiquitin 89.2 0.19 4.1E-06 40.4 1.3 39 120-165 161-200 (207)
95 KOG3053 Uncharacterized conser 88.8 0.2 4.4E-06 41.5 1.2 52 113-164 16-81 (293)
96 KOG1812 Predicted E3 ubiquitin 88.6 0.16 3.5E-06 44.4 0.5 38 116-153 145-183 (384)
97 KOG0309 Conserved WD40 repeat- 88.4 0.32 7E-06 45.9 2.3 26 134-159 1044-1069(1081)
98 KOG3161 Predicted E3 ubiquitin 87.9 0.18 3.9E-06 46.7 0.4 43 117-162 11-54 (861)
99 PF03854 zf-P11: P-11 zinc fin 87.6 0.2 4.3E-06 31.0 0.3 32 135-166 15-47 (50)
100 KOG1609 Protein involved in mR 86.8 0.39 8.5E-06 39.8 1.8 48 117-164 78-133 (323)
101 KOG4362 Transcriptional regula 86.7 0.17 3.7E-06 47.1 -0.5 46 116-164 20-68 (684)
102 COG5220 TFB3 Cdk activating ki 85.5 0.53 1.2E-05 38.8 1.9 46 116-161 9-60 (314)
103 KOG4718 Non-SMC (structural ma 85.4 0.44 9.5E-06 38.5 1.3 43 116-161 180-223 (235)
104 KOG3899 Uncharacterized conser 84.7 0.53 1.2E-05 39.8 1.6 27 138-164 325-364 (381)
105 KOG0825 PHD Zn-finger protein 83.6 0.84 1.8E-05 43.4 2.5 49 116-164 95-153 (1134)
106 COG5183 SSM4 Protein involved 82.2 1 2.2E-05 43.0 2.5 51 113-164 8-65 (1175)
107 KOG3579 Predicted E3 ubiquitin 80.9 0.86 1.9E-05 38.5 1.4 37 116-155 267-307 (352)
108 PF01363 FYVE: FYVE zinc finge 79.7 0.81 1.8E-05 29.7 0.7 39 113-151 5-44 (69)
109 KOG1812 Predicted E3 ubiquitin 79.4 0.97 2.1E-05 39.5 1.3 44 117-160 306-351 (384)
110 PF02891 zf-MIZ: MIZ/SP-RING z 78.6 2.4 5.2E-05 26.2 2.6 43 118-163 3-50 (50)
111 KOG4185 Predicted E3 ubiquitin 77.8 1.8 3.9E-05 35.9 2.5 31 133-163 22-53 (296)
112 KOG1815 Predicted E3 ubiquitin 77.4 1.3 2.9E-05 39.2 1.6 37 115-153 68-104 (444)
113 PF07975 C1_4: TFIIH C1-like d 76.4 1.8 3.8E-05 27.2 1.5 42 120-161 2-50 (51)
114 KOG2807 RNA polymerase II tran 73.8 3.4 7.4E-05 35.5 3.0 48 116-163 329-376 (378)
115 KOG1829 Uncharacterized conser 73.3 1.3 2.8E-05 40.8 0.5 22 136-160 535-556 (580)
116 KOG0269 WD40 repeat-containing 71.7 3.9 8.5E-05 38.8 3.2 41 117-159 779-820 (839)
117 smart00064 FYVE Protein presen 69.5 4.1 8.8E-05 26.2 2.1 38 115-152 8-46 (68)
118 KOG2068 MOT2 transcription fac 69.3 3.2 7E-05 35.6 1.9 46 118-164 250-297 (327)
119 COG5109 Uncharacterized conser 69.3 4.4 9.6E-05 34.8 2.7 47 116-162 335-384 (396)
120 TIGR00622 ssl1 transcription f 68.0 6.5 0.00014 28.7 3.0 46 117-162 55-111 (112)
121 KOG0802 E3 ubiquitin ligase [P 67.1 3.3 7.1E-05 37.7 1.7 46 112-164 474-519 (543)
122 PF13901 DUF4206: Domain of un 64.5 4.5 9.9E-05 32.1 1.8 40 117-161 152-196 (202)
123 KOG3113 Uncharacterized conser 64.1 8 0.00017 32.2 3.2 49 115-165 109-158 (293)
124 smart00249 PHD PHD zinc finger 63.8 4.8 0.0001 23.0 1.4 29 120-149 2-31 (47)
125 KOG3005 GIY-YIG type nuclease 63.8 3.8 8.3E-05 34.2 1.3 48 117-164 182-242 (276)
126 KOG3039 Uncharacterized conser 63.0 5.7 0.00012 33.0 2.2 37 113-152 39-75 (303)
127 KOG2066 Vacuolar assembly/sort 60.5 3.8 8.3E-05 39.0 0.8 43 117-160 784-830 (846)
128 cd00065 FYVE FYVE domain; Zinc 56.5 7.8 0.00017 23.8 1.5 35 118-152 3-38 (57)
129 PF00628 PHD: PHD-finger; Int 55.8 5.3 0.00012 24.0 0.7 43 119-162 1-50 (51)
130 PF07191 zinc-ribbons_6: zinc- 54.2 1.1 2.5E-05 29.9 -2.7 39 118-164 2-40 (70)
131 PF06844 DUF1244: Protein of u 53.3 8.9 0.00019 25.4 1.4 12 141-152 11-22 (68)
132 KOG0824 Predicted E3 ubiquitin 52.2 5.4 0.00012 34.0 0.3 49 115-165 103-151 (324)
133 PF06906 DUF1272: Protein of u 51.0 36 0.00079 21.7 3.9 47 118-166 6-53 (57)
134 PF06937 EURL: EURL protein; 49.1 21 0.00046 29.9 3.3 44 115-158 28-74 (285)
135 PF04710 Pellino: Pellino; In 49.1 5.7 0.00012 35.0 0.0 29 132-163 303-337 (416)
136 KOG0956 PHD finger protein AF1 48.6 8.3 0.00018 36.5 1.0 52 113-164 113-181 (900)
137 PF13719 zinc_ribbon_5: zinc-r 46.4 11 0.00024 21.6 1.0 13 119-131 4-16 (37)
138 COG4847 Uncharacterized protei 45.1 31 0.00067 24.5 3.2 35 117-152 6-40 (103)
139 PF10497 zf-4CXXC_R1: Zinc-fin 44.1 19 0.00042 25.7 2.1 24 139-162 37-69 (105)
140 PLN02638 cellulose synthase A 43.3 23 0.00049 35.2 3.1 48 117-164 17-69 (1079)
141 PLN02189 cellulose synthase 43.0 22 0.00047 35.1 2.9 49 117-165 34-87 (1040)
142 smart00132 LIM Zinc-binding do 42.4 25 0.00054 19.1 2.1 36 120-164 2-37 (39)
143 PF13717 zinc_ribbon_4: zinc-r 41.7 17 0.00038 20.7 1.3 12 119-130 4-15 (36)
144 PF14353 CpXC: CpXC protein 41.4 29 0.00063 25.1 2.8 45 118-165 2-49 (128)
145 PF10571 UPF0547: Uncharacteri 39.6 15 0.00033 19.6 0.8 9 156-164 2-10 (26)
146 PF14569 zf-UDP: Zinc-binding 39.3 32 0.00069 23.5 2.5 49 116-164 8-61 (80)
147 PLN02436 cellulose synthase A 37.9 29 0.00062 34.5 2.8 49 117-165 36-89 (1094)
148 PHA02096 hypothetical protein 37.5 35 0.00076 23.6 2.5 44 25-68 12-55 (103)
149 PF13771 zf-HC5HC2H: PHD-like 37.4 17 0.00037 24.4 1.0 34 116-149 35-68 (90)
150 PF13832 zf-HC5HC2H_2: PHD-zin 37.2 18 0.0004 25.3 1.1 34 117-150 55-88 (110)
151 PF04423 Rad50_zn_hook: Rad50 36.9 12 0.00026 23.2 0.1 10 156-165 22-31 (54)
152 KOG3799 Rab3 effector RIM1 and 35.6 15 0.00032 27.9 0.4 48 115-162 63-115 (169)
153 KOG1245 Chromatin remodeling c 35.5 13 0.00029 37.8 0.2 50 114-163 1105-1158(1404)
154 PF07649 C1_3: C1-like domain; 34.4 23 0.00049 19.1 1.0 29 119-147 2-30 (30)
155 PF14311 DUF4379: Domain of un 34.2 26 0.00056 21.6 1.3 22 138-160 34-55 (55)
156 PLN02195 cellulose synthase A 34.0 46 0.00099 32.8 3.5 49 116-164 5-58 (977)
157 KOG1815 Predicted E3 ubiquitin 33.4 11 0.00024 33.4 -0.6 40 114-153 223-267 (444)
158 PLN02400 cellulose synthase 32.4 29 0.00063 34.5 1.9 48 117-164 36-88 (1085)
159 PF02318 FYVE_2: FYVE-type zin 32.3 20 0.00043 25.9 0.6 45 116-161 53-101 (118)
160 KOG4185 Predicted E3 ubiquitin 32.2 7.1 0.00015 32.3 -2.0 47 116-162 206-264 (296)
161 PF05605 zf-Di19: Drought indu 32.0 19 0.00042 22.1 0.5 12 118-129 3-14 (54)
162 cd00350 rubredoxin_like Rubred 30.7 24 0.00052 19.6 0.7 9 154-162 17-25 (33)
163 KOG3842 Adaptor protein Pellin 30.1 52 0.0011 28.5 2.9 50 115-164 339-413 (429)
164 PF10146 zf-C4H2: Zinc finger- 28.8 38 0.00082 27.6 1.8 22 142-163 196-217 (230)
165 KOG1729 FYVE finger containing 28.6 9.6 0.00021 32.2 -1.7 36 118-153 215-250 (288)
166 KOG1842 FYVE finger-containing 28.6 16 0.00034 32.8 -0.5 37 113-149 176-213 (505)
167 KOG2071 mRNA cleavage and poly 28.2 31 0.00067 31.9 1.3 37 115-151 511-557 (579)
168 KOG2113 Predicted RNA binding 28.2 48 0.001 28.6 2.3 43 117-164 343-386 (394)
169 PF09943 DUF2175: Uncharacteri 28.0 57 0.0012 23.3 2.3 33 118-151 3-35 (101)
170 PF00412 LIM: LIM domain; Int 27.6 36 0.00079 20.5 1.2 30 117-148 26-55 (58)
171 COG3492 Uncharacterized protei 26.9 35 0.00075 24.1 1.1 12 141-152 42-53 (104)
172 PLN02915 cellulose synthase A 26.6 66 0.0014 32.0 3.2 50 116-165 14-68 (1044)
173 PF13240 zinc_ribbon_2: zinc-r 26.1 9 0.0002 19.8 -1.5 7 156-162 15-21 (23)
174 COG5627 MMS21 DNA repair prote 24.5 37 0.00081 28.1 1.0 40 117-158 189-230 (275)
175 KOG3726 Uncharacterized conser 24.2 39 0.00085 31.9 1.2 42 117-161 654-696 (717)
176 KOG4451 Uncharacterized conser 23.8 49 0.0011 27.3 1.5 22 142-163 251-272 (286)
177 KOG4218 Nuclear hormone recept 23.4 70 0.0015 28.1 2.5 25 113-138 11-35 (475)
178 PF09237 GAGA: GAGA factor; I 23.3 19 0.00041 22.7 -0.7 8 118-125 25-32 (54)
179 smart00734 ZnF_Rad18 Rad18-lik 23.3 40 0.00087 17.8 0.7 9 156-164 3-11 (26)
180 KOG1729 FYVE finger containing 23.0 23 0.0005 29.9 -0.5 52 113-164 164-224 (288)
181 smart00647 IBR In Between Ring 22.9 20 0.00044 22.1 -0.7 19 132-150 39-58 (64)
182 PF06750 DiS_P_DiS: Bacterial 22.8 69 0.0015 22.2 2.0 37 118-166 34-70 (92)
183 COG5151 SSL1 RNA polymerase II 22.5 88 0.0019 27.1 2.9 47 117-163 362-419 (421)
184 COG4647 AcxC Acetone carboxyla 21.1 64 0.0014 24.3 1.6 22 121-145 61-82 (165)
185 PF10235 Cript: Microtubule-as 20.8 55 0.0012 22.9 1.1 36 117-164 44-79 (90)
186 PRK03564 formate dehydrogenase 20.7 53 0.0011 28.1 1.2 42 116-162 186-234 (309)
187 PF11023 DUF2614: Protein of u 20.6 80 0.0017 23.1 2.0 16 150-165 81-96 (114)
188 PF03119 DNA_ligase_ZBD: NAD-d 20.5 36 0.00079 18.3 0.2 10 156-165 1-10 (28)
189 KOG4299 PHD Zn-finger protein 20.5 27 0.00059 32.4 -0.5 47 117-164 253-306 (613)
190 PF09723 Zn-ribbon_8: Zinc rib 20.2 18 0.0004 21.3 -1.2 25 137-162 10-34 (42)
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=99.55 E-value=1.8e-15 Score=92.45 Aligned_cols=44 Identities=43% Similarity=1.123 Sum_probs=40.2
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCR 161 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 161 (167)
++|+||++.|..++.++.++|+|.||.+||..|++.+.+||+||
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 36999999999888899999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=4.6e-14 Score=119.87 Aligned_cols=49 Identities=37% Similarity=1.057 Sum_probs=45.1
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCC-CCCCcccCccC
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHP-HCPYCRTPVLV 166 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~-~CP~CR~~v~~ 166 (167)
..|+||+|+|..+++++.|||+|.||..||.+|+.+.. .||+|+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 58999999999999999999999999999999998775 59999998753
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=99.32 E-value=1.1e-12 Score=88.60 Aligned_cols=46 Identities=35% Similarity=0.891 Sum_probs=36.4
Q ss_pred cccccceeccccccC----------CceEEecCCCcccHHhHHHHHhcCCCCCCcc
Q 044515 116 CRKICSVCLEGFQDK----------QQIAKLSCSHKFHLDCVLPWLAAHPHCPYCR 161 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~----------~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 161 (167)
.++.|+||++.|.+. -.+...+|+|.||..||.+|+..+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 355699999999432 2344457999999999999999999999997
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=3.2e-12 Score=106.22 Aligned_cols=51 Identities=33% Similarity=0.864 Sum_probs=47.0
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHh-cCCCCCCcccCccC
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLA-AHPHCPYCRTPVLV 166 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~-~~~~CP~CR~~v~~ 166 (167)
..-+|+|||+.|...+++..+||.|.||..|+.+|+. -+..||+||.+++|
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 4578999999999999999999999999999999997 57799999999986
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=5e-12 Score=107.55 Aligned_cols=52 Identities=31% Similarity=0.933 Sum_probs=44.1
Q ss_pred cccccccceecccc-ccC---------CceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGF-QDK---------QQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~-~~~---------~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
..++..|.||++++ ..+ .+...|||||+||.+|++.|++.+++||+||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 45678999999994 433 14578999999999999999999999999999854
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=8.7e-12 Score=102.91 Aligned_cols=59 Identities=29% Similarity=0.658 Sum_probs=49.7
Q ss_pred CccccccccccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCccCC
Q 044515 106 WPLKLRRCRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVLVS 167 (167)
Q Consensus 106 ~~~~~~~~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~~s 167 (167)
|.............|.||++...++ ..+||||+||++||..|......||+||.++.|+
T Consensus 228 ~s~~~~~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 228 DSNSLSSIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred hccCCccCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 4434444556678999999998877 7789999999999999999999999999998764
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.19 E-value=1.4e-11 Score=100.32 Aligned_cols=51 Identities=35% Similarity=0.809 Sum_probs=41.7
Q ss_pred ccccccceeccccccCCc-----eEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDKQQ-----IAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~-----~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
..+.+|+||++.+..+.. .+..+|+|.||..||..|+..+.+||+||.++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 346789999999875431 233469999999999999999999999998764
No 8
>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=99.07 E-value=7.4e-11 Score=73.80 Aligned_cols=46 Identities=33% Similarity=0.821 Sum_probs=39.2
Q ss_pred ccccceeccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcccCcc
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHK-FHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~-Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
+..|.||++...+ .+.+||+|. ||..|+..|+.....||+||.+|.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5689999998655 488899999 999999999999999999999874
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.06 E-value=1.2e-10 Score=91.82 Aligned_cols=50 Identities=30% Similarity=0.718 Sum_probs=41.6
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHhc----------------CCCCCCcccCcc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA----------------HPHCPYCRTPVL 165 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~----------------~~~CP~CR~~v~ 165 (167)
...++..|+||++.+.++ +.++|+|.||..||..|+.. ...||+||..|.
T Consensus 14 ~~~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred cCCCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 334567899999998877 77889999999999999852 247999999875
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.03 E-value=2.1e-10 Score=79.28 Aligned_cols=52 Identities=33% Similarity=0.876 Sum_probs=40.4
Q ss_pred cccccccceecccccc--------CC--ceEEecCCCcccHHhHHHHHhc---CCCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQD--------KQ--QIAKLSCSHKFHLDCVLPWLAA---HPHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~--------~~--~~~~lpC~H~Fh~~Ci~~Wl~~---~~~CP~CR~~v~ 165 (167)
..+++.|.||+..|.. ++ .++.-.|+|.||.+||.+|+.+ +..||+||++..
T Consensus 18 ~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 18 VANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred cCCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 3458899999999973 11 2333359999999999999975 468999998764
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.00 E-value=2.2e-10 Score=69.43 Aligned_cols=38 Identities=34% Similarity=0.864 Sum_probs=30.4
Q ss_pred cceeccccccCCceEEecCCCcccHHhHHHHHhcC----CCCCCc
Q 044515 120 CSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH----PHCPYC 160 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~----~~CP~C 160 (167)
|+||++.|.++ +.|+|||+|+..||..|+... ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 999999999999999999754 369987
No 12
>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=99.00 E-value=3.9e-10 Score=67.22 Aligned_cols=44 Identities=41% Similarity=1.087 Sum_probs=35.8
Q ss_pred ccceeccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcccCc
Q 044515 119 ICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA-HPHCPYCRTPV 164 (167)
Q Consensus 119 ~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~v 164 (167)
.|+||++.+... ....+|+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~~~~--~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREP--VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCc--eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998433 344459999999999999987 67899998764
No 13
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.99 E-value=2.7e-10 Score=67.72 Aligned_cols=39 Identities=33% Similarity=1.048 Sum_probs=32.9
Q ss_pred cceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCc
Q 044515 120 CSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYC 160 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~C 160 (167)
|+||++.+.++ ++.++|||.||..||..|++.+..||+|
T Consensus 1 C~iC~~~~~~~--~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999998764 3567899999999999999998899998
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=3.6e-10 Score=90.87 Aligned_cols=49 Identities=29% Similarity=0.689 Sum_probs=41.7
Q ss_pred cccccccceeccccccCCceEEecCCCcccHHhHHHHHhcC---CCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH---PHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~---~~CP~CR~~v~ 165 (167)
.....+|.||++.-.++ ++..|||.||+.||.+|+..+ +.||+|+..|.
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45577899999997777 777899999999999999753 47999998774
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=6.7e-10 Score=100.12 Aligned_cols=53 Identities=30% Similarity=0.807 Sum_probs=45.1
Q ss_pred ccccccccceeccccccCCc--eEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 113 CRSCRKICSVCLEGFQDKQQ--IAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~--~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
....+..|+||++.+..+.. ...++|+|+||..|+..|++.+++||+||..+.
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 33457899999999987543 478999999999999999999999999998543
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=98.87 E-value=1.2e-09 Score=87.67 Aligned_cols=51 Identities=35% Similarity=0.757 Sum_probs=38.3
Q ss_pred ccccccceeccccccC-----CceEEe-cCCCcccHHhHHHHHhcC------CCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDK-----QQIAKL-SCSHKFHLDCVLPWLAAH------PHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~-----~~~~~l-pC~H~Fh~~Ci~~Wl~~~------~~CP~CR~~v~ 165 (167)
+.+.+|+||++....+ .....| +|+|.||..||..|.... .+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4568899999986432 122345 599999999999998753 36999998653
No 17
>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=98.85 E-value=3e-09 Score=68.90 Aligned_cols=45 Identities=22% Similarity=0.487 Sum_probs=41.0
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
..|+||.+.+.++ +.++|||+|+..||..|+..+.+||+|+.++.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4699999999987 78899999999999999988889999998774
No 18
>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=98.82 E-value=2.3e-09 Score=63.99 Aligned_cols=39 Identities=44% Similarity=1.109 Sum_probs=33.6
Q ss_pred cceeccccccCCceEEecCCCcccHHhHHHHHh--cCCCCCCc
Q 044515 120 CSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLA--AHPHCPYC 160 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~--~~~~CP~C 160 (167)
|+||++.+..+. ..++|+|.||..||..|+. ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988772 3788999999999999998 45589988
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.79 E-value=4.8e-09 Score=63.96 Aligned_cols=44 Identities=27% Similarity=0.739 Sum_probs=37.5
Q ss_pred ccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCccc
Q 044515 119 ICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRT 162 (167)
Q Consensus 119 ~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 162 (167)
.|.||++.|........++|+|+||..|+..+......||+|++
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 48999999955556778889999999999998856679999984
No 20
>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=98.77 E-value=6.9e-09 Score=59.63 Aligned_cols=38 Identities=37% Similarity=1.051 Sum_probs=32.2
Q ss_pred cceeccccccCCceEEecCCCcccHHhHHHHHh-cCCCCCCc
Q 044515 120 CSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLA-AHPHCPYC 160 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~-~~~~CP~C 160 (167)
|+||++... ....++|+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789998843 347889999999999999998 56689987
No 21
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=5.3e-09 Score=81.21 Aligned_cols=49 Identities=27% Similarity=0.660 Sum_probs=41.0
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
....|+|||+.+..... +-..|||+||..||+.-+.....||+|+..|.
T Consensus 130 ~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 45789999999876521 33569999999999999999999999997664
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.71 E-value=8.2e-09 Score=89.69 Aligned_cols=49 Identities=31% Similarity=0.631 Sum_probs=43.2
Q ss_pred cccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
......|+||.+.|..+ +.++|+|.||..||..|+.....||+|+..+.
T Consensus 23 Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred cccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 34567899999999877 67899999999999999988889999998764
No 23
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=5.7e-09 Score=85.80 Aligned_cols=50 Identities=34% Similarity=0.784 Sum_probs=42.1
Q ss_pred cccccceeccccccCC-------ceEEecCCCcccHHhHHHHH--hcCCCCCCcccCcc
Q 044515 116 CRKICSVCLEGFQDKQ-------QIAKLSCSHKFHLDCVLPWL--AAHPHCPYCRTPVL 165 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~-------~~~~lpC~H~Fh~~Ci~~Wl--~~~~~CP~CR~~v~ 165 (167)
++..|+||-..+.... ++.+|.|+|+||..||.-|. ...++||+|+..|+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 4668999998887554 56789999999999999996 46779999998876
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=1.9e-08 Score=82.45 Aligned_cols=49 Identities=33% Similarity=0.695 Sum_probs=42.2
Q ss_pred ccccccceeccccccCCceEEecCCCcccHHhHHH-HHhcCCC-CCCcccCccC
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLP-WLAAHPH-CPYCRTPVLV 166 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~-Wl~~~~~-CP~CR~~v~~ 166 (167)
..+..|+||++....+ ..++|||+||..||.. |-..+.. ||+||+.+.+
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence 4578899999997777 7889999999999999 8766654 9999998865
No 25
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.62 E-value=2.9e-08 Score=67.55 Aligned_cols=49 Identities=24% Similarity=0.676 Sum_probs=38.5
Q ss_pred ccccceecccccc-----------CCce-EEe-cCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 117 RKICSVCLEGFQD-----------KQQI-AKL-SCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 117 ~~~C~IC~e~~~~-----------~~~~-~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
-+.|+||...|.. ++.. +.. -|+|.||.+||..||..+..||+++++..
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 4789999988753 2222 222 39999999999999999999999998764
No 26
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1.8e-08 Score=71.78 Aligned_cols=52 Identities=23% Similarity=0.614 Sum_probs=39.9
Q ss_pred ccccccccceecccccc------------CCceEE-e-cCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 113 CRSCRKICSVCLEGFQD------------KQQIAK-L-SCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~------------~~~~~~-l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
.+...+.|+||...+.+ .+.... . .|+|.||..||..|+++++.||+|..+-
T Consensus 42 WDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 42 WDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred eeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 45567899999987642 112222 2 3999999999999999999999997754
No 27
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.49 E-value=4.3e-08 Score=82.96 Aligned_cols=47 Identities=32% Similarity=0.664 Sum_probs=43.1
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
.-..|.||.+.|..+ .+.||+|.||.-||..+|..+..||.|..++.
T Consensus 22 ~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 456799999999999 88899999999999999999999999998765
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=7.2e-08 Score=65.14 Aligned_cols=51 Identities=29% Similarity=0.767 Sum_probs=38.0
Q ss_pred ccccccceecccccc--------CCc-eEEec-CCCcccHHhHHHHHhc---CCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQD--------KQQ-IAKLS-CSHKFHLDCVLPWLAA---HPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~--------~~~-~~~lp-C~H~Fh~~Ci~~Wl~~---~~~CP~CR~~v~ 165 (167)
..++.|.||...|.. ++. ..++. |.|.||..||.+|+.. +..||+||+...
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 345699999999874 222 12233 9999999999999964 458999998754
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=1.8e-07 Score=82.72 Aligned_cols=47 Identities=28% Similarity=0.682 Sum_probs=39.1
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHhcC-----CCCCCcccCccC
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH-----PHCPYCRTPVLV 166 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~-----~~CP~CR~~v~~ 166 (167)
+..|+||++....+ ..+.|||+||..||.++|... ..||+|+..|.+
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 77899999997766 556699999999999988654 389999987753
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.36 E-value=3.1e-07 Score=55.94 Aligned_cols=38 Identities=32% Similarity=0.737 Sum_probs=22.4
Q ss_pred cceecccccc-CCceEEecCCCcccHHhHHHHHhcC----CCCC
Q 044515 120 CSVCLEGFQD-KQQIAKLSCSHKFHLDCVLPWLAAH----PHCP 158 (167)
Q Consensus 120 C~IC~e~~~~-~~~~~~lpC~H~Fh~~Ci~~Wl~~~----~~CP 158 (167)
|+||.+ |.. .+..+.|+|||.|+.+||..++..+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 755 3345889999999999999998743 2676
No 31
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=2.1e-07 Score=82.07 Aligned_cols=52 Identities=27% Similarity=0.713 Sum_probs=40.7
Q ss_pred ccccccceeccccccCC--------------ceEEecCCCcccHHhHHHHHhcC-CCCCCcccCccC
Q 044515 115 SCRKICSVCLEGFQDKQ--------------QIAKLSCSHKFHLDCVLPWLAAH-PHCPYCRTPVLV 166 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~--------------~~~~lpC~H~Fh~~Ci~~Wl~~~-~~CP~CR~~v~~ 166 (167)
.....|+|||..+.-.. .....||.|+||..|+.+|+..- -.||+||.++++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 34568999999875311 13446899999999999999854 499999999875
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.32 E-value=5.7e-08 Score=65.10 Aligned_cols=50 Identities=32% Similarity=0.752 Sum_probs=23.4
Q ss_pred ccccceeccccc-cCCceE-Ee---cCCCcccHHhHHHHHhc---C--------CCCCCcccCccC
Q 044515 117 RKICSVCLEGFQ-DKQQIA-KL---SCSHKFHLDCVLPWLAA---H--------PHCPYCRTPVLV 166 (167)
Q Consensus 117 ~~~C~IC~e~~~-~~~~~~-~l---pC~H~Fh~~Ci~~Wl~~---~--------~~CP~CR~~v~~ 166 (167)
+..|.||+..+. .++... .- .|+..||..||..|+.. . ..||+|+.+|..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 457999999876 332211 11 38999999999999863 1 159999998754
No 33
>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=98.29 E-value=4e-07 Score=61.30 Aligned_cols=46 Identities=22% Similarity=0.470 Sum_probs=37.5
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcccCcc
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA-HPHCPYCRTPVL 165 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~v~ 165 (167)
+..|+|+.+.+.++ +.+++||.|...||..|+.. ..+||+|+.++.
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 56799999999999 89999999999999999988 789999988765
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.29 E-value=3e-07 Score=76.57 Aligned_cols=45 Identities=27% Similarity=0.623 Sum_probs=41.5
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
-..|-||-+.|..+ ...+|||.||.-||...|..+..||+||.+.
T Consensus 25 ~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 25 MLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred HHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccH
Confidence 45799999999988 7888999999999999999999999999864
No 35
>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=98.26 E-value=8.9e-07 Score=55.32 Aligned_cols=42 Identities=24% Similarity=0.723 Sum_probs=32.3
Q ss_pred ccceeccccccCCceEEecCC-----CcccHHhHHHHHhcC--CCCCCcc
Q 044515 119 ICSVCLEGFQDKQQIAKLSCS-----HKFHLDCVLPWLAAH--PHCPYCR 161 (167)
Q Consensus 119 ~C~IC~e~~~~~~~~~~lpC~-----H~Fh~~Ci~~Wl~~~--~~CP~CR 161 (167)
.|.||++ ...++.....||. |.||..|+..|+... .+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899998 3344445678874 889999999999654 4899995
No 36
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=3.5e-07 Score=73.28 Aligned_cols=45 Identities=31% Similarity=0.710 Sum_probs=40.0
Q ss_pred cccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcc
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCR 161 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 161 (167)
..+...|+||++.|..+ ..++|+|.||..||..++.....||.||
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 34677899999999998 7899999999999999988556899999
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.21 E-value=2e-07 Score=87.38 Aligned_cols=56 Identities=25% Similarity=0.711 Sum_probs=41.1
Q ss_pred cccccccccccceeccccccCC---ceEEec-CCCcccHHhHHHHHhc--CCCCCCcccCcc
Q 044515 110 LRRCRSCRKICSVCLEGFQDKQ---QIAKLS-CSHKFHLDCVLPWLAA--HPHCPYCRTPVL 165 (167)
Q Consensus 110 ~~~~~~~~~~C~IC~e~~~~~~---~~~~lp-C~H~Fh~~Ci~~Wl~~--~~~CP~CR~~v~ 165 (167)
.....++..+|+||+..+..-+ .-...+ |.|.||..|+.+|+.. +.+||+||..+.
T Consensus 1462 i~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1462 IDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3344567889999998776211 012233 9999999999999975 458999998875
No 38
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=2.4e-06 Score=72.72 Aligned_cols=48 Identities=29% Similarity=0.659 Sum_probs=40.3
Q ss_pred ccccccceeccccccCCceEEecCCC-cccHHhHHHHHhcCCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLSCSH-KFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lpC~H-~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
+...+|.||+.+..+- .+|||.| -.|..|.+...-+.+.||+||++|.
T Consensus 288 ~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 4467899999986554 8999999 5799999887767889999999875
No 39
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.04 E-value=2e-06 Score=75.21 Aligned_cols=50 Identities=32% Similarity=0.765 Sum_probs=39.2
Q ss_pred cccccccceeccccccCC-ceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQDKQ-QIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~-~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
..+-.+|+||+|.+...- .+....|.|.||..|+..| ...+||+||....
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence 345689999999987653 3344569999999999999 5578999987544
No 40
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=6.5e-06 Score=70.52 Aligned_cols=51 Identities=35% Similarity=0.981 Sum_probs=38.8
Q ss_pred cccccccceeccccccCC----ceEEec-CCCcccHHhHHHHHh--c-----CCCCCCcccCc
Q 044515 114 RSCRKICSVCLEGFQDKQ----QIAKLS-CSHKFHLDCVLPWLA--A-----HPHCPYCRTPV 164 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~----~~~~lp-C~H~Fh~~Ci~~Wl~--~-----~~~CP~CR~~v 164 (167)
...+..|.||++.+.... ...+|| |.|.||..||..|-. + .+.||.||...
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 356789999999876553 123345 999999999999973 3 46899999754
No 41
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.81 E-value=2.5e-06 Score=55.96 Aligned_cols=43 Identities=30% Similarity=0.805 Sum_probs=22.8
Q ss_pred ccccceeccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
-..|++|.+.+..+ +.+ .|.|+||..||..-+. ..||+|..+.
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 34699999998877 544 5999999999988554 3499998765
No 42
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=4e-06 Score=71.39 Aligned_cols=49 Identities=29% Similarity=0.748 Sum_probs=40.0
Q ss_pred cccccccceeccccccCCceEEec-CCCcccHHhHHHHHh-cCCCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLPWLA-AHPHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~Wl~-~~~~CP~CR~~v~ 165 (167)
...+..|+||++.+... +..+ |.|.||.+||..-+. .++.||.||..+.
T Consensus 40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 34567899999998765 4555 999999999998875 5679999998765
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.59 E-value=1.4e-05 Score=74.05 Aligned_cols=50 Identities=24% Similarity=0.500 Sum_probs=43.0
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
....|++|+..+.+.......+|+|.||..||..|....++||+||..+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 45679999999887765566679999999999999999999999998764
No 44
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=2.4e-05 Score=72.17 Aligned_cols=49 Identities=27% Similarity=0.564 Sum_probs=40.1
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcccCccCC
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA-HPHCPYCRTPVLVS 167 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~v~~s 167 (167)
+-..|+.|-..+.+. ++..|+|.||..|+..-+.. +..||.|..+|.++
T Consensus 642 ~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred hceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 456899999776655 66679999999999999864 56999999988653
No 45
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=2.7e-05 Score=49.58 Aligned_cols=45 Identities=31% Similarity=0.708 Sum_probs=34.4
Q ss_pred cccceeccccccCCceEEecCCC-cccHHhHHHHHh-cCCCCCCcccCcc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSH-KFHLDCVLPWLA-AHPHCPYCRTPVL 165 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H-~Fh~~Ci~~Wl~-~~~~CP~CR~~v~ 165 (167)
++|.||++.-.+. +...||| -+|..|-...+. .+..||+||++|.
T Consensus 8 dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 6899999985544 5556999 468888766554 6789999999863
No 46
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.45 E-value=5.1e-05 Score=63.64 Aligned_cols=50 Identities=28% Similarity=0.746 Sum_probs=41.8
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhc-----------------------CCCCCCcccCcc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA-----------------------HPHCPYCRTPVL 165 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~-----------------------~~~CP~CR~~v~ 165 (167)
....|.||+-.|.++...++.+|.|.||..|+..+|.. ...||+||..|.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 45689999999999998899999999999999877641 126999998764
No 47
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=8.4e-05 Score=64.92 Aligned_cols=48 Identities=27% Similarity=0.656 Sum_probs=43.1
Q ss_pred ccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
..+..|.||+..+..+ +.+||||.||..||..-+.....||.||..+.
T Consensus 82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence 4577899999999888 78899999999999998888889999999875
No 48
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.40 E-value=4.3e-05 Score=64.63 Aligned_cols=49 Identities=22% Similarity=0.585 Sum_probs=41.5
Q ss_pred cccccccceeccccccCCceEEec-CCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
......|.+|--.|.+. .++. |-|.||.+||...+....+||.|...|-
T Consensus 12 ~n~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred cccceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 34567899999999887 4444 9999999999999999999999987653
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.36 E-value=4.1e-05 Score=66.43 Aligned_cols=50 Identities=24% Similarity=0.738 Sum_probs=38.8
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHhc--CCCCCCcccCcc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA--HPHCPYCRTPVL 165 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~--~~~CP~CR~~v~ 165 (167)
+...-..|-||-+. ...+.+-||||..|..|+..|-.. .++||.||..|.
T Consensus 365 MgsTFeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 365 MGSTFELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred ccchHHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 34455679999987 233466789999999999999743 569999998763
No 50
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.29 E-value=9.9e-05 Score=64.43 Aligned_cols=50 Identities=28% Similarity=0.763 Sum_probs=42.9
Q ss_pred cccccccceeccccccCCceEE-ecCCCcccHHhHHHHHhcCCCCCCcccCccC
Q 044515 114 RSCRKICSVCLEGFQDKQQIAK-LSCSHKFHLDCVLPWLAAHPHCPYCRTPVLV 166 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~-lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~~ 166 (167)
..++..|+||+..+.++ .. ..|+|.||..|+..|+..+..||.|+..+..
T Consensus 18 ~~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred CcccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccch
Confidence 34578899999999988 44 4799999999999999999999999887653
No 51
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.21 E-value=8.8e-05 Score=64.24 Aligned_cols=49 Identities=35% Similarity=0.769 Sum_probs=39.9
Q ss_pred cccccccceeccccccC-CceEEecCCCcccHHhHHHHHhcC--CCCCCccc
Q 044515 114 RSCRKICSVCLEGFQDK-QQIAKLSCSHKFHLDCVLPWLAAH--PHCPYCRT 162 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~-~~~~~lpC~H~Fh~~Ci~~Wl~~~--~~CP~CR~ 162 (167)
.+.+..|..|-+.+.-. +.+-.|||.|+||..|+...+.++ .+||-||.
T Consensus 362 ~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 362 EETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 34567899999988654 456678999999999999999765 48999983
No 52
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00037 Score=57.80 Aligned_cols=52 Identities=23% Similarity=0.358 Sum_probs=40.5
Q ss_pred cccccccccceeccccccCCceEEecCCCcccHHhHHHHHh--cCCCCCCcccCcc
Q 044515 112 RCRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLA--AHPHCPYCRTPVL 165 (167)
Q Consensus 112 ~~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~--~~~~CP~CR~~v~ 165 (167)
.....+.+|++|-+.=..+ .+..+|+|+||..||..-+. ...+||.|..++.
T Consensus 234 s~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3445678999999985555 24456999999999998764 4579999988775
No 53
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00038 Score=56.43 Aligned_cols=53 Identities=23% Similarity=0.545 Sum_probs=42.9
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHhc--------CCCCCCcccCccC
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA--------HPHCPYCRTPVLV 166 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~--------~~~CP~CR~~v~~ 166 (167)
+.+....|..|-..+..++. +.|-|-|.||+.|+..|-.+ ...||.|..+|+|
T Consensus 46 DsDY~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 46 DSDYNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred hcCCCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 34456789999999988764 66889999999999999753 2379999998875
No 54
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.15 E-value=0.00031 Score=69.09 Aligned_cols=53 Identities=26% Similarity=0.653 Sum_probs=41.9
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHhcC----------CCCCCcccCcc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH----------PHCPYCRTPVL 165 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~----------~~CP~CR~~v~ 165 (167)
....++.|.||+.+--.....+.|.|+|+||..|...-+++. ..||+|+.+|-
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 344678999999886666667889999999999998766542 27999998763
No 55
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.87 E-value=0.00051 Score=44.18 Aligned_cols=41 Identities=24% Similarity=0.692 Sum_probs=27.7
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHhc--CCCCCC
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA--HPHCPY 159 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~--~~~CP~ 159 (167)
...|+|.+..|.++ +....|+|.|-+..|.+|+.. ...||+
T Consensus 11 ~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 56799999999988 233469999999999999944 347998
No 56
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.0007 Score=58.15 Aligned_cols=50 Identities=26% Similarity=0.617 Sum_probs=42.4
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
.+.++..|+||+-.-... +..||+|.=|..||.+.+-+.+.|=+|+..+.
T Consensus 418 p~sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CCcccccCcceecccchh---hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 446788999999874444 67899999999999999999999999998764
No 57
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.76 E-value=0.00047 Score=54.93 Aligned_cols=43 Identities=19% Similarity=0.576 Sum_probs=38.2
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccC
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTP 163 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 163 (167)
..|.||-++|..+ +...|||.||..|...-++....|-+|...
T Consensus 197 F~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 3799999999988 778899999999999988888899999653
No 58
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.69 E-value=0.00073 Score=41.97 Aligned_cols=44 Identities=25% Similarity=0.583 Sum_probs=21.9
Q ss_pred cceeccccccCCceEEec--CCCcccHHhHHHHHh-cCCCCCCcccCc
Q 044515 120 CSVCLEGFQDKQQIAKLS--CSHKFHLDCVLPWLA-AHPHCPYCRTPV 164 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lp--C~H~Fh~~Ci~~Wl~-~~~~CP~CR~~v 164 (167)
|++|.+++...+ ...+| |++.++..|...-+. ....||-||.+.
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984432 23455 899999999888775 467999999875
No 59
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.37 E-value=0.0011 Score=55.65 Aligned_cols=44 Identities=23% Similarity=0.431 Sum_probs=39.3
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
..|-||..+|..+ ++..|+|.||..|...-++....|++|.+..
T Consensus 242 f~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred ccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccc
Confidence 3599999999999 8888999999999999888889999997654
No 60
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.37 E-value=0.0014 Score=58.92 Aligned_cols=49 Identities=24% Similarity=0.586 Sum_probs=39.0
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHhc-----CCCCCCcccCc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA-----HPHCPYCRTPV 164 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~-----~~~CP~CR~~v 164 (167)
...++..|.+|.+.-.+. +...|.|.||..||..++.. +-+||+|...+
T Consensus 532 enk~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cccCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 445677899999986665 67789999999999988752 34899997654
No 61
>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=96.37 E-value=0.0015 Score=46.04 Aligned_cols=34 Identities=24% Similarity=0.556 Sum_probs=27.9
Q ss_pred cccccccceeccccccCCceEEecCCCcccHHhHH
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVL 148 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~ 148 (167)
..++..|++|...+.. ......||+|.||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 3456679999999987 466778999999999974
No 62
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.26 E-value=0.003 Score=49.64 Aligned_cols=49 Identities=29% Similarity=0.790 Sum_probs=33.7
Q ss_pred ccccceeccccccCC----ceEEecCCCcccHHhHHHHHhc----C-------CCCCCcccCcc
Q 044515 117 RKICSVCLEGFQDKQ----QIAKLSCSHKFHLDCVLPWLAA----H-------PHCPYCRTPVL 165 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~----~~~~lpC~H~Fh~~Ci~~Wl~~----~-------~~CP~CR~~v~ 165 (167)
-..|.||+..--++. ..-...|+..||.-|+..||.. . ..||+|..+|-
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 345777776543332 2223569999999999999863 1 26999998874
No 63
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.0033 Score=54.86 Aligned_cols=48 Identities=23% Similarity=0.501 Sum_probs=37.9
Q ss_pred ccccccceeccccccCCceEEecCCCcccHHhHHHHHhc--------CCCCCCccc
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA--------HPHCPYCRT 162 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~--------~~~CP~CR~ 162 (167)
.....|.||+++.....-...+||+|.||..|+..++.. .-.||-+.-
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 345689999999877677888999999999999999752 126876643
No 64
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.20 E-value=0.0026 Score=59.73 Aligned_cols=50 Identities=28% Similarity=0.749 Sum_probs=36.5
Q ss_pred ccccccccceeccccccCCceEE-ecCCCcccHHhHHHHHhcCC-------CCCCccc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAK-LSCSHKFHLDCVLPWLAAHP-------HCPYCRT 162 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~-lpC~H~Fh~~Ci~~Wl~~~~-------~CP~CR~ 162 (167)
......+|.||++.+.....+-. -.|-|+||..||..|..+.. .||.|..
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 34456889999999876543222 23899999999999975421 6999984
No 65
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.17 E-value=0.0029 Score=38.96 Aligned_cols=40 Identities=28% Similarity=0.803 Sum_probs=26.5
Q ss_pred cceeccccccCCceEEecC--CC---cccHHhHHHHHhc--CCCCCCc
Q 044515 120 CSVCLEGFQDKQQIAKLSC--SH---KFHLDCVLPWLAA--HPHCPYC 160 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC--~H---~Fh~~Ci~~Wl~~--~~~CP~C 160 (167)
|-||++.-.+.. ....|| .- ..|..|+..|+.. +..|++|
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 678998866554 345675 44 7899999999974 4579887
No 66
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.95 E-value=0.0071 Score=46.57 Aligned_cols=48 Identities=21% Similarity=0.609 Sum_probs=34.5
Q ss_pred cccccccceeccccccCCceEEec--CCC---cccHHhHHHHHhcC--CCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLS--CSH---KFHLDCVLPWLAAH--PHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lp--C~H---~Fh~~Ci~~Wl~~~--~~CP~CR~~v~ 165 (167)
...+..|-||+++-.+ ..-| |.. ..|.+|+..|+..+ ..|++|+.++.
T Consensus 5 s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 5 SLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 3456789999988432 1246 444 55999999999754 48999988653
No 67
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=95.94 E-value=0.0048 Score=46.24 Aligned_cols=36 Identities=17% Similarity=0.530 Sum_probs=30.0
Q ss_pred ccccceeccccccCCceEEecCC------CcccHHhHHHHHh
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCS------HKFHLDCVLPWLA 152 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~------H~Fh~~Ci~~Wl~ 152 (167)
..+|.||++.+.....++.++|+ |.||.+|+..|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 45799999999985667777775 8999999999943
No 68
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0057 Score=52.51 Aligned_cols=47 Identities=28% Similarity=0.613 Sum_probs=34.7
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
.......|.||.+...+. +.+||||.-| |..-- +....||+||..|.
T Consensus 301 ~~~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccce---eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 444567899999987664 8899999876 55443 33456999998764
No 69
>PHA03096 p28-like protein; Provisional
Probab=95.88 E-value=0.0037 Score=52.46 Aligned_cols=44 Identities=34% Similarity=0.718 Sum_probs=31.3
Q ss_pred cccceeccccccC----CceEEec-CCCcccHHhHHHHHhcC---CCCCCcc
Q 044515 118 KICSVCLEGFQDK----QQIAKLS-CSHKFHLDCVLPWLAAH---PHCPYCR 161 (167)
Q Consensus 118 ~~C~IC~e~~~~~----~~~~~lp-C~H~Fh~~Ci~~Wl~~~---~~CP~CR 161 (167)
..|.||++..... ..-..|+ |.|.||..|+..|.... .+||.|+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 6899999986543 2334566 99999999999997532 2444443
No 70
>PHA02862 5L protein; Provisional
Probab=95.77 E-value=0.0083 Score=45.55 Aligned_cols=48 Identities=19% Similarity=0.569 Sum_probs=31.2
Q ss_pred ccccceeccccccCCceEEe-cCCCcccHHhHHHHHhcC--CCCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLAAH--PHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~~~--~~CP~CR~~v 164 (167)
.+.|-||++.-.+....-.- .-....|..|+..|+... ..|+.|+.++
T Consensus 2 ~diCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 2 SDICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CCEEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 35799999984333100000 003567999999999643 4899999865
No 71
>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=95.57 E-value=0.0042 Score=37.60 Aligned_cols=41 Identities=27% Similarity=0.729 Sum_probs=22.9
Q ss_pred cceeccccccCCceEEecCCCcccHHhHHHHHhcCC--CCCCc
Q 044515 120 CSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHP--HCPYC 160 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~--~CP~C 160 (167)
|.+|.+....+..-....|+-.+|..|+..++.... .||.|
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 667777777663222224999999999999997655 79987
No 72
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.42 E-value=0.0084 Score=38.21 Aligned_cols=45 Identities=24% Similarity=0.457 Sum_probs=33.0
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCccC
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVLV 166 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~~ 166 (167)
...|..|...-..+ ..+||+|..+..|..-+ .-+.||+|..++..
T Consensus 7 ~~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVGTKG---TVLPCGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEcccccccc---ccccccceeeccccChh--hccCCCCCCCcccC
Confidence 34566666654444 78999999999996553 55689999988764
No 73
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.25 E-value=0.0061 Score=47.19 Aligned_cols=31 Identities=29% Similarity=0.682 Sum_probs=27.6
Q ss_pred cccccccceeccccccCCceEEecCCCcccH
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLSCSHKFHL 144 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~ 144 (167)
.....+|.||+|++..++.+..|||-.+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 3456789999999999999999999999996
No 74
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.16 E-value=0.015 Score=49.46 Aligned_cols=45 Identities=29% Similarity=0.664 Sum_probs=37.0
Q ss_pred cccccceeccccccCCceEEec-CCCcccHHhHHHHHhcCCCCCCcccC
Q 044515 116 CRKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLPWLAAHPHCPYCRTP 163 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 163 (167)
....|+||+....++ ..+. -|-+||..||...+.+.+.||+=..+
T Consensus 299 ~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 456899999998877 4444 69999999999999999999975433
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.09 E-value=0.02 Score=49.27 Aligned_cols=49 Identities=24% Similarity=0.573 Sum_probs=38.4
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHH--HhcCCCCCCcccCc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPW--LAAHPHCPYCRTPV 164 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~W--l~~~~~CP~CR~~v 164 (167)
.++++..|.||-+.+.-. ..+||+|..|.-|.... |-..+.||+||..-
T Consensus 57 tDEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 57 TDEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 445667899999986544 67899999999997664 45678999999753
No 76
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.04 E-value=0.012 Score=55.49 Aligned_cols=43 Identities=23% Similarity=0.605 Sum_probs=35.4
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccC
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTP 163 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 163 (167)
....|.+|--.+.-| .++..|+|.||.+|+. .....||-|+..
T Consensus 839 q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence 346899999988877 4778899999999988 456789999863
No 77
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.83 E-value=0.0051 Score=51.67 Aligned_cols=42 Identities=26% Similarity=0.748 Sum_probs=31.5
Q ss_pred ccccceeccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcccCcc
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHK-FHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~-Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
...|.|||+.-. ..+.|+|||. -|..|-... +.||+||+.|.
T Consensus 300 ~~LC~ICmDaP~---DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPR---DCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCc---ceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 678999998744 4489999994 477775442 38999998654
No 78
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.80 E-value=0.018 Score=49.50 Aligned_cols=51 Identities=18% Similarity=0.363 Sum_probs=36.3
Q ss_pred ccccccceeccccccCCce-EEecCCCcccHHhHHHHHh-cCCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDKQQI-AKLSCSHKFHLDCVLPWLA-AHPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~-~~lpC~H~Fh~~Ci~~Wl~-~~~~CP~CR~~v~ 165 (167)
.+++.|++|++.+...++- .-.+||...|..|...--+ -+..||-||....
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 3455699999998766542 2245899999999666433 3568999998654
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.75 E-value=0.032 Score=46.01 Aligned_cols=49 Identities=22% Similarity=0.354 Sum_probs=43.0
Q ss_pred cccccceeccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 116 CRKICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
....|+||.+.+.+......| ||||+|+..|+...+.....||+|-.++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl 269 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL 269 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence 457899999999988777777 4999999999999999999999997765
No 80
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.74 E-value=0.017 Score=48.28 Aligned_cols=47 Identities=23% Similarity=0.504 Sum_probs=38.0
Q ss_pred cccccceeccccccCC-ceEEecCCCcccHHhHHHHHhcCCCCCCccc
Q 044515 116 CRKICSVCLEGFQDKQ-QIAKLSCSHKFHLDCVLPWLAAHPHCPYCRT 162 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~-~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 162 (167)
....|+||.+.+-... .+..++|+|..|..|+........+||+|..
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3455999999876543 4456889999999999998877799999977
No 81
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.62 E-value=0.018 Score=48.65 Aligned_cols=42 Identities=26% Similarity=0.622 Sum_probs=35.0
Q ss_pred cccceeccccccCCceEEec-CCCcccHHhHHHHH-hcCCCCCCccc
Q 044515 118 KICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLPWL-AAHPHCPYCRT 162 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~Wl-~~~~~CP~CR~ 162 (167)
..|+.|...+..+ ...+ |+|.||..||..-| .....||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799999998877 5556 89999999999876 45679999954
No 82
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.47 E-value=0.043 Score=45.29 Aligned_cols=51 Identities=25% Similarity=0.509 Sum_probs=40.2
Q ss_pred cccccccceeccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
......|||....|......+.| +|||+|...+|... .....||+|-.++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 34567899999999666555555 69999999999996 23568999988764
No 83
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.36 E-value=0.025 Score=47.87 Aligned_cols=44 Identities=25% Similarity=0.545 Sum_probs=35.6
Q ss_pred ccccccceeccccccCCceEEecC--CCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLSC--SHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lpC--~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
.+-.+|+||.+.+..+ +..| ||.-|..|-.+ ....||.|+.++.
T Consensus 46 ~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCccc----ceecCCCcEehhhhhhh---hcccCCccccccc
Confidence 3456899999999888 4566 79999999654 5779999998875
No 84
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=93.54 E-value=0.084 Score=33.54 Aligned_cols=34 Identities=29% Similarity=0.573 Sum_probs=28.5
Q ss_pred cccccceeccccccCCceEEec-CCCcccHHhHHH
Q 044515 116 CRKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLP 149 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~ 149 (167)
....|.+|-+.|.+++.+++-| |+-.+|+.|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 3457999999998888888888 999999999543
No 85
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.05 E-value=0.074 Score=39.87 Aligned_cols=48 Identities=23% Similarity=0.452 Sum_probs=36.9
Q ss_pred cccccceeccccccCCceEEe-c---CCCcccHHhHHHHHhc---CCCCCCcccCccC
Q 044515 116 CRKICSVCLEGFQDKQQIAKL-S---CSHKFHLDCVLPWLAA---HPHCPYCRTPVLV 166 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~l-p---C~H~Fh~~Ci~~Wl~~---~~~CP~CR~~v~~ 166 (167)
.-.+|.||.|...+. ..| | ||-..|.-|-...|+. ...||+|+..+-.
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 456899999986655 334 3 8999999998887664 4589999988754
No 86
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.00 E-value=0.075 Score=46.64 Aligned_cols=32 Identities=34% Similarity=0.913 Sum_probs=25.3
Q ss_pred ceEEecCCCcccHHhHHHHHhc--CCCCCCcccC
Q 044515 132 QIAKLSCSHKFHLDCVLPWLAA--HPHCPYCRTP 163 (167)
Q Consensus 132 ~~~~lpC~H~Fh~~Ci~~Wl~~--~~~CP~CR~~ 163 (167)
.++.+.|+|.|..+||..|+.+ ...||.|...
T Consensus 21 r~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 21 RIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred EEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 3456779999999999999953 2379999754
No 87
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.89 E-value=0.0065 Score=52.80 Aligned_cols=50 Identities=26% Similarity=0.608 Sum_probs=42.4
Q ss_pred cccccceeccccccC-CceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 116 CRKICSVCLEGFQDK-QQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~-~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
....|+||.+.+... +.+..+-|+|.+|..||.+|+.....||.|+..++
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 356899999998765 45556779999999999999999889999998775
No 88
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.33 E-value=0.057 Score=50.44 Aligned_cols=43 Identities=23% Similarity=0.722 Sum_probs=34.3
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcC--CCCCCcccCc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH--PHCPYCRTPV 164 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~--~~CP~CR~~v 164 (167)
..|.||++ .+.....+|+|.||..|+..-+... ..||.|+..+
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 78999999 2334777899999999999987543 3699998755
No 89
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.89 E-value=0.15 Score=44.53 Aligned_cols=49 Identities=27% Similarity=0.412 Sum_probs=40.2
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcC---CCCCCcccCc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH---PHCPYCRTPV 164 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~---~~CP~CR~~v 164 (167)
....|||=.+.-.+.+.+..|.|||+...+-|.....+. ..||+|-...
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 456799999888888888999999999999999976543 4799996543
No 90
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.16 E-value=0.11 Score=49.53 Aligned_cols=37 Identities=24% Similarity=0.513 Sum_probs=29.4
Q ss_pred cccccccceeccccccCCceEEecCCCcccHHhHHHHH
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWL 151 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl 151 (167)
.+.++.|.+|...+... .-...||+|.||.+||..-.
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 34567899999987654 45678999999999998764
No 91
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.34 E-value=0.11 Score=44.24 Aligned_cols=43 Identities=26% Similarity=0.578 Sum_probs=29.9
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
-.|.-|--.+..- -..+||.|+||.+|... ...+.||.|-..|
T Consensus 91 HfCd~Cd~PI~IY--GRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAIY--GRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCcceee--ecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 4566665544321 25679999999999765 3467999997765
No 92
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=89.44 E-value=0.12 Score=50.93 Aligned_cols=45 Identities=27% Similarity=0.738 Sum_probs=38.1
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCccc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRT 162 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 162 (167)
....|.||.+.+..-. .+..|+|.+|..|+..|+..+..||.|+.
T Consensus 1152 ~~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 4558999999987321 56679999999999999999999999974
No 93
>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=89.42 E-value=0.23 Score=43.08 Aligned_cols=28 Identities=32% Similarity=0.915 Sum_probs=21.6
Q ss_pred CCCcccHHhHHHHHhcCC-------------CCCCcccCcc
Q 044515 138 CSHKFHLDCVLPWLAAHP-------------HCPYCRTPVL 165 (167)
Q Consensus 138 C~H~Fh~~Ci~~Wl~~~~-------------~CP~CR~~v~ 165 (167)
|.-.+|.+|+.+|+...+ .||+||+.+-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 556679999999986432 7999999763
No 94
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.17 E-value=0.19 Score=40.35 Aligned_cols=39 Identities=31% Similarity=0.628 Sum_probs=27.8
Q ss_pred cceeccccccCCceEEecCCC-cccHHhHHHHHhcCCCCCCcccCcc
Q 044515 120 CSVCLEGFQDKQQIAKLSCSH-KFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC~H-~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
|-+|-+. ...+..+||.| .+|..|-.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 8888776 34467789988 667777433 457999987653
No 95
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.83 E-value=0.2 Score=41.50 Aligned_cols=52 Identities=21% Similarity=0.595 Sum_probs=34.9
Q ss_pred ccccccccceeccccccCCce-EEecC-----CCcccHHhHHHHHhcCC--------CCCCcccCc
Q 044515 113 CRSCRKICSVCLEGFQDKQQI-AKLSC-----SHKFHLDCVLPWLAAHP--------HCPYCRTPV 164 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~-~~lpC-----~H~Fh~~Ci~~Wl~~~~--------~CP~CR~~v 164 (167)
..+.+..|-||+..=++.... -+-|| .|=.|..|+..|+..++ +||.|+...
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 344577899999864443211 12255 47789999999985322 699998764
No 96
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.64 E-value=0.16 Score=44.39 Aligned_cols=38 Identities=24% Similarity=0.610 Sum_probs=27.5
Q ss_pred cccccceeccccccC-CceEEecCCCcccHHhHHHHHhc
Q 044515 116 CRKICSVCLEGFQDK-QQIAKLSCSHKFHLDCVLPWLAA 153 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~-~~~~~lpC~H~Fh~~Ci~~Wl~~ 153 (167)
...+|.||+.+.... .......|+|.||..|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 356899999544433 33334569999999999998864
No 97
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=88.41 E-value=0.32 Score=45.91 Aligned_cols=26 Identities=27% Similarity=0.678 Sum_probs=22.6
Q ss_pred EEecCCCcccHHhHHHHHhcCCCCCC
Q 044515 134 AKLSCSHKFHLDCVLPWLAAHPHCPY 159 (167)
Q Consensus 134 ~~lpC~H~Fh~~Ci~~Wl~~~~~CP~ 159 (167)
+...|+|..|.+|...|+.....||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 34569999999999999999999983
No 98
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.93 E-value=0.18 Score=46.73 Aligned_cols=43 Identities=26% Similarity=0.612 Sum_probs=31.5
Q ss_pred ccccceeccccccCC-ceEEecCCCcccHHhHHHHHhcCCCCCCccc
Q 044515 117 RKICSVCLEGFQDKQ-QIAKLSCSHKFHLDCVLPWLAAHPHCPYCRT 162 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~-~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 162 (167)
-..|.||+..|.... ..+.|.|||..|..|+..- -+.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 457999988876543 3355679999999999875 456777 543
No 99
>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=87.55 E-value=0.2 Score=31.04 Aligned_cols=32 Identities=28% Similarity=0.756 Sum_probs=23.2
Q ss_pred EecC-CCcccHHhHHHHHhcCCCCCCcccCccC
Q 044515 135 KLSC-SHKFHLDCVLPWLAAHPHCPYCRTPVLV 166 (167)
Q Consensus 135 ~lpC-~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~~ 166 (167)
.+.| .|..|..|+...+.....||+|..+++.
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 4457 5899999999999999999999998864
No 100
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.81 E-value=0.39 Score=39.77 Aligned_cols=48 Identities=23% Similarity=0.627 Sum_probs=35.0
Q ss_pred ccccceeccccccCCc-eEEecCC-----CcccHHhHHHHHh--cCCCCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQ-IAKLSCS-----HKFHLDCVLPWLA--AHPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~-~~~lpC~-----H~Fh~~Ci~~Wl~--~~~~CP~CR~~v 164 (167)
+..|-||.++...... ....||. +..|..|+..|+. ....|.+|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 5689999997654321 3456653 5679999999997 556899997754
No 101
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=86.74 E-value=0.17 Score=47.12 Aligned_cols=46 Identities=24% Similarity=0.631 Sum_probs=37.4
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcC---CCCCCcccCc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH---PHCPYCRTPV 164 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~---~~CP~CR~~v 164 (167)
...+|+||...+..+ ..+.|.|.|+..|+..-+... ..||+|+..+
T Consensus 20 k~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hhccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 366899999999888 778899999999987765433 4799998655
No 102
>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=85.50 E-value=0.53 Score=38.83 Aligned_cols=46 Identities=26% Similarity=0.635 Sum_probs=33.3
Q ss_pred cccccceeccc-cccCC-ceEEec-CCCcccHHhHHHHHhcCC-CCC--Ccc
Q 044515 116 CRKICSVCLEG-FQDKQ-QIAKLS-CSHKFHLDCVLPWLAAHP-HCP--YCR 161 (167)
Q Consensus 116 ~~~~C~IC~e~-~~~~~-~~~~lp-C~H~Fh~~Ci~~Wl~~~~-~CP--~CR 161 (167)
.+..|+||..+ |-.++ ++.+-| |-|.+|.+|+..-+.... .|| -|.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 35689999986 34444 333336 999999999999887654 799 564
No 103
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=85.41 E-value=0.44 Score=38.48 Aligned_cols=43 Identities=26% Similarity=0.617 Sum_probs=35.8
Q ss_pred cccccceeccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcc
Q 044515 116 CRKICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLAAHPHCPYCR 161 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR 161 (167)
.-..|.+|.+-...+ +.. .|+-.+|..|+...++....||.|.
T Consensus 180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 346899999987766 333 4889999999999999999999994
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.66 E-value=0.53 Score=39.85 Aligned_cols=27 Identities=22% Similarity=0.673 Sum_probs=21.3
Q ss_pred CCCcccHHhHHHHHhc-------------CCCCCCcccCc
Q 044515 138 CSHKFHLDCVLPWLAA-------------HPHCPYCRTPV 164 (167)
Q Consensus 138 C~H~Fh~~Ci~~Wl~~-------------~~~CP~CR~~v 164 (167)
|...+|.+|+.+|+.. +-+||+||+.+
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 5677889999999853 23799999875
No 105
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=83.59 E-value=0.84 Score=43.40 Aligned_cols=49 Identities=12% Similarity=0.159 Sum_probs=34.4
Q ss_pred cccccceeccccccCC-ceEEec---CCCcccHHhHHHHHhc------CCCCCCcccCc
Q 044515 116 CRKICSVCLEGFQDKQ-QIAKLS---CSHKFHLDCVLPWLAA------HPHCPYCRTPV 164 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~-~~~~lp---C~H~Fh~~Ci~~Wl~~------~~~CP~CR~~v 164 (167)
....|.||..++.++. ....+| |.|.||..||..|..+ .-.|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4567888887777632 223344 9999999999999753 23688887654
No 106
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.17 E-value=1 Score=42.98 Aligned_cols=51 Identities=16% Similarity=0.559 Sum_probs=36.5
Q ss_pred ccccccccceeccccccCCceEEecCC-----CcccHHhHHHHHhcC--CCCCCcccCc
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCS-----HKFHLDCVLPWLAAH--PHCPYCRTPV 164 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~-----H~Fh~~Ci~~Wl~~~--~~CP~CR~~v 164 (167)
..+++..|-||..+-..++.+- -||. ...|.+|+.+|+.-. ..|-+|..++
T Consensus 8 mN~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 8 MNEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred CCccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 4455688999998865554433 3543 357999999999744 4799998765
No 107
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.93 E-value=0.86 Score=38.45 Aligned_cols=37 Identities=27% Similarity=0.595 Sum_probs=29.4
Q ss_pred cccccceeccccccCCceEEecC----CCcccHHhHHHHHhcCC
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSC----SHKFHLDCVLPWLAAHP 155 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC----~H~Fh~~Ci~~Wl~~~~ 155 (167)
.-..|.+|.|.+++. ..+.| .|.||..|-.+.++.+.
T Consensus 267 apLcCTLC~ERLEDT---HFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDT---HFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccC---ceeecCCCcccceecccCHHHHHhhc
Confidence 447899999999877 44455 79999999999887543
No 108
>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=79.70 E-value=0.81 Score=29.67 Aligned_cols=39 Identities=15% Similarity=0.249 Sum_probs=20.4
Q ss_pred ccccccccceeccccccCCceEEec-CCCcccHHhHHHHH
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLPWL 151 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~Wl 151 (167)
.+.+...|.+|...|..-..-..-. ||++||..|.....
T Consensus 5 ~d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 5 PDSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp SGGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4455678999999997654434444 99999999976543
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.44 E-value=0.97 Score=39.54 Aligned_cols=44 Identities=20% Similarity=0.476 Sum_probs=31.3
Q ss_pred ccccceeccccccCCceEE--ecCCCcccHHhHHHHHhcCCCCCCc
Q 044515 117 RKICSVCLEGFQDKQQIAK--LSCSHKFHLDCVLPWLAAHPHCPYC 160 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~--lpC~H~Fh~~Ci~~Wl~~~~~CP~C 160 (167)
-..|++|.-.+.-.....+ -.|+|.||..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 4478888877654443333 3499999999999998777766443
No 110
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=78.60 E-value=2.4 Score=26.21 Aligned_cols=43 Identities=23% Similarity=0.640 Sum_probs=19.4
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhc---CC--CCCCcccC
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA---HP--HCPYCRTP 163 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~---~~--~CP~CR~~ 163 (167)
..|+|....+..+ +....|.|.-|.+ +..|+.. .. .||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3688888887766 2334599985543 3445432 22 69999764
No 111
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.82 E-value=1.8 Score=35.90 Aligned_cols=31 Identities=29% Similarity=0.706 Sum_probs=25.4
Q ss_pred eEEecCCCcccHHhHHHHHhcC-CCCCCcccC
Q 044515 133 IAKLSCSHKFHLDCVLPWLAAH-PHCPYCRTP 163 (167)
Q Consensus 133 ~~~lpC~H~Fh~~Ci~~Wl~~~-~~CP~CR~~ 163 (167)
+..|.|||.|+..|+.+.+... ..||.||..
T Consensus 22 p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 22 PRVLKCGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred CcccccCceehHhHHHHHhcCceeeccCCCCc
Confidence 4556799999999999877654 479999987
No 112
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.38 E-value=1.3 Score=39.20 Aligned_cols=37 Identities=27% Similarity=0.685 Sum_probs=30.3
Q ss_pred ccccccceeccccccCCceEEecCCCcccHHhHHHHHhc
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA 153 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~ 153 (167)
.....|.||.+.+.. .+..+.|+|.||..|+...+..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 446789999999876 4466789999999999998864
No 113
>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=76.36 E-value=1.8 Score=27.18 Aligned_cols=42 Identities=26% Similarity=0.616 Sum_probs=21.2
Q ss_pred cceeccccccCC------ceEEec-CCCcccHHhHHHHHhcCCCCCCcc
Q 044515 120 CSVCLEGFQDKQ------QIAKLS-CSHKFHLDCVLPWLAAHPHCPYCR 161 (167)
Q Consensus 120 C~IC~e~~~~~~------~~~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~CR 161 (167)
|--|+..|.... ....-+ |++.||.+|=.---+.-..||-|.
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 555666666542 122334 999999999554334556899884
No 114
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=73.79 E-value=3.4 Score=35.54 Aligned_cols=48 Identities=23% Similarity=0.481 Sum_probs=34.4
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccC
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTP 163 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 163 (167)
....|-.|...........--.|.+.||.+|-.---++-..||.|...
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 344599997776665544444599999999966654555689999754
No 115
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=73.31 E-value=1.3 Score=40.77 Aligned_cols=22 Identities=36% Similarity=0.945 Sum_probs=17.3
Q ss_pred ecCCCcccHHhHHHHHhcCCCCCCc
Q 044515 136 LSCSHKFHLDCVLPWLAAHPHCPYC 160 (167)
Q Consensus 136 lpC~H~Fh~~Ci~~Wl~~~~~CP~C 160 (167)
..|+++||..|+.. .+..||-|
T Consensus 535 ~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 535 STCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred HHHHHHHHHHHHhc---cCCCCCch
Confidence 34999999999554 45569999
No 116
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=71.75 E-value=3.9 Score=38.75 Aligned_cols=41 Identities=20% Similarity=0.344 Sum_probs=30.0
Q ss_pred ccccceeccccccCCceEEec-CCCcccHHhHHHHHhcCCCCCC
Q 044515 117 RKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLPWLAAHPHCPY 159 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~ 159 (167)
...|.+|-..+..- ...-+ |+|.-|.+|+.+|+.....||.
T Consensus 779 ~~~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGV--DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceeeee--EeecccccccccHHHHHHHHhcCCCCcc
Confidence 34688887665422 13334 9999999999999998887765
No 117
>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 KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=69.35 E-value=3.2 Score=35.58 Aligned_cols=46 Identities=26% Similarity=0.613 Sum_probs=35.1
Q ss_pred cccceeccccccCCceEEec--CCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 118 KICSVCLEGFQDKQQIAKLS--CSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lp--C~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
..|+||.+.....+. ..+| |++..|..|+..-...+..||.||.+.
T Consensus 250 ~s~p~~~~~~~~~d~-~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDS-NFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCccccccc-ccccccccccchhhhhhcccccCCCCCccCCcc
Confidence 689999998744332 3344 788888888888778888999999764
No 119
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=69.29 E-value=4.4 Score=34.78 Aligned_cols=47 Identities=26% Similarity=0.441 Sum_probs=35.6
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHHHHhc---CCCCCCccc
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA---HPHCPYCRT 162 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~---~~~CP~CR~ 162 (167)
.-..||+=-+.-.+.+....+.|||+.-..-+....++ ...||+|-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 34578887777666677788999999999988886543 237999953
No 120
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=68.01 E-value=6.5 Score=28.65 Aligned_cols=46 Identities=22% Similarity=0.446 Sum_probs=33.8
Q ss_pred ccccceeccccccCC----------ceEEe-cCCCcccHHhHHHHHhcCCCCCCccc
Q 044515 117 RKICSVCLEGFQDKQ----------QIAKL-SCSHKFHLDCVLPWLAAHPHCPYCRT 162 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~----------~~~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 162 (167)
...|--|+..|.... ....- .|.+.||.+|-..+-+.-..||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 346999999886531 01122 39999999998888777788999963
No 121
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.13 E-value=3.3 Score=37.72 Aligned_cols=46 Identities=28% Similarity=0.750 Sum_probs=36.3
Q ss_pred cccccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 112 RCRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 112 ~~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
........|.||+... . ....+|. |..|+..|+..+..||+|...+
T Consensus 474 ~l~~~~~~~~~~~~~~-~---~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 474 QLREPNDVCAICYQEM-S---ARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred hhhcccCcchHHHHHH-H---hcccccc---chhHHHhhhhhccccCCCchhh
Confidence 3445678899999998 2 2456677 8999999999999999997654
No 122
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=64.48 E-value=4.5 Score=32.13 Aligned_cols=40 Identities=25% Similarity=0.646 Sum_probs=24.8
Q ss_pred ccccceeccc-cccC---CceEEec-CCCcccHHhHHHHHhcCCCCCCcc
Q 044515 117 RKICSVCLEG-FQDK---QQIAKLS-CSHKFHLDCVLPWLAAHPHCPYCR 161 (167)
Q Consensus 117 ~~~C~IC~e~-~~~~---~~~~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~CR 161 (167)
...|-||.++ +.-+ +.+..-+ |+..||..|.. ...||-|-
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 3456677642 1111 1334444 99999999965 26799994
No 123
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.11 E-value=8 Score=32.24 Aligned_cols=49 Identities=20% Similarity=0.333 Sum_probs=36.6
Q ss_pred ccccccceeccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
.....|+|---+|........+ +|||+|-..-+.+. ....|++|.+.+.
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 3456799888887766554444 59999998887774 4678999988764
No 124
>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 KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=63.76 E-value=3.8 Score=34.21 Aligned_cols=48 Identities=21% Similarity=0.462 Sum_probs=33.4
Q ss_pred ccccceeccccccCCceEE-e---cCCCcccHHhHHHHHh-c--------CCCCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQIAK-L---SCSHKFHLDCVLPWLA-A--------HPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~-l---pC~H~Fh~~Ci~~Wl~-~--------~~~CP~CR~~v 164 (167)
...|-+|.+++...+..+. . .|.-.+|..|+..-+. . ...||.|+..+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 3589999999954443222 1 2899999999998442 2 23799998744
No 126
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.01 E-value=5.7 Score=33.01 Aligned_cols=37 Identities=16% Similarity=0.231 Sum_probs=31.1
Q ss_pred ccccccccceeccccccCCceEEecCCCcccHHhHHHHHh
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLA 152 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~ 152 (167)
....-+.|+.|+..+.++ ++.+=||+|+..||.+.+.
T Consensus 39 siK~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDP---VITPDGYLFDREAILEYIL 75 (303)
T ss_pred ccCCcceeeeecccccCC---ccCCCCeeeeHHHHHHHHH
Confidence 334566899999999988 7888999999999999864
No 127
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.47 E-value=3.8 Score=38.97 Aligned_cols=43 Identities=21% Similarity=0.532 Sum_probs=30.7
Q ss_pred ccccceeccccccC----CceEEecCCCcccHHhHHHHHhcCCCCCCc
Q 044515 117 RKICSVCLEGFQDK----QQIAKLSCSHKFHLDCVLPWLAAHPHCPYC 160 (167)
Q Consensus 117 ~~~C~IC~e~~~~~----~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~C 160 (167)
+..|.-|.+..... +.++.+-|+|.||..|+..-...+. |-.|
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 44799999876532 3567788999999999987655443 5444
No 128
>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=56.46 E-value=7.8 Score=23.80 Aligned_cols=35 Identities=17% Similarity=0.365 Sum_probs=25.1
Q ss_pred cccceeccccccCCceEEe-cCCCcccHHhHHHHHh
Q 044515 118 KICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLA 152 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~ 152 (167)
..|.+|...|..-..-..- .||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 4699999888764432333 4999999999876543
No 129
>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=55.84 E-value=5.3 Score=24.01 Aligned_cols=43 Identities=30% Similarity=0.650 Sum_probs=27.1
Q ss_pred ccceeccccccCCceEEe-cCCCcccHHhHHHHHh------cCCCCCCccc
Q 044515 119 ICSVCLEGFQDKQQIAKL-SCSHKFHLDCVLPWLA------AHPHCPYCRT 162 (167)
Q Consensus 119 ~C~IC~e~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~------~~~~CP~CR~ 162 (167)
.|.||..... ...++.- .|+..||..|+..-.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~-~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDD-DGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCT-TSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCC-CCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3788888333 3333433 3999999999866432 1336887753
No 130
>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=54.16 E-value=1.1 Score=29.88 Aligned_cols=39 Identities=21% Similarity=0.541 Sum_probs=15.9
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
..|+.|..++.... ++.+|..|-.. +.....||-|..++
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHH
Confidence 35777777754332 33444444332 23344677776654
No 131
>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=53.27 E-value=8.9 Score=25.36 Aligned_cols=12 Identities=25% Similarity=0.800 Sum_probs=8.7
Q ss_pred cccHHhHHHHHh
Q 044515 141 KFHLDCVLPWLA 152 (167)
Q Consensus 141 ~Fh~~Ci~~Wl~ 152 (167)
-||+.|+..|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999985
No 132
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.20 E-value=5.4 Score=33.97 Aligned_cols=49 Identities=24% Similarity=0.514 Sum_probs=38.5
Q ss_pred ccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCcc
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVL 165 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~ 165 (167)
.....|.||+..+..+. ..-.|.|.|+..|...|......||.|+....
T Consensus 103 ~~~~~~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecc--cccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 35678999998887662 11239999999999999999999999987554
No 133
>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=51.02 E-value=36 Score=21.75 Aligned_cols=47 Identities=21% Similarity=0.436 Sum_probs=32.3
Q ss_pred cccceeccccccCC-ceEEecCCCcccHHhHHHHHhcCCCCCCcccCccC
Q 044515 118 KICSVCLEGFQDKQ-QIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVLV 166 (167)
Q Consensus 118 ~~C~IC~e~~~~~~-~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~~ 166 (167)
..|-.|-.++.... ...+-.=...||..|....+ +..||-|...++.
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 46888888877654 22222223579999998865 6799999887764
No 134
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=49.08 E-value=21 Score=29.94 Aligned_cols=44 Identities=25% Similarity=0.462 Sum_probs=27.6
Q ss_pred ccccccceeccccccCCceEEec-C-CCcccHHhHHHHH-hcCCCCC
Q 044515 115 SCRKICSVCLEGFQDKQQIAKLS-C-SHKFHLDCVLPWL-AAHPHCP 158 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~~~~~~lp-C-~H~Fh~~Ci~~Wl-~~~~~CP 158 (167)
..-..|.||++....+-.-..|. - +-.=|++|..+|- ..++.||
T Consensus 28 ~tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 28 ETLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred cceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 34457888888765543222222 1 1245799999994 6788898
No 135
>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=49.05 E-value=5.7 Score=35.02 Aligned_cols=29 Identities=28% Similarity=0.620 Sum_probs=0.0
Q ss_pred ceEEecCCCcccHHhHHHHHh------cCCCCCCcccC
Q 044515 132 QIAKLSCSHKFHLDCVLPWLA------AHPHCPYCRTP 163 (167)
Q Consensus 132 ~~~~lpC~H~Fh~~Ci~~Wl~------~~~~CP~CR~~ 163 (167)
..+.|.|||++.. ..|-. ...+||+|+..
T Consensus 303 P~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 303 PWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp --------------------------------------
T ss_pred ceeeccccceeee---cccccccccccccccCCCcccc
Confidence 3456789998875 35643 24589999863
No 136
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=48.63 E-value=8.3 Score=36.45 Aligned_cols=52 Identities=21% Similarity=0.468 Sum_probs=33.2
Q ss_pred ccccccccceeccccccCC----ceEE---ecCCCcccHHhHHHH----------HhcCCCCCCcccCc
Q 044515 113 CRSCRKICSVCLEGFQDKQ----QIAK---LSCSHKFHLDCVLPW----------LAAHPHCPYCRTPV 164 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~----~~~~---lpC~H~Fh~~Ci~~W----------l~~~~~CP~CR~~v 164 (167)
.+.-...|.||.|.-...+ .... -.|...||..|.+.- +.+.+.|-+|+..+
T Consensus 113 ~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 113 HDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred hhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHH
Confidence 3344678999999844322 1112 238899999998764 11345799998654
No 137
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=46.45 E-value=11 Score=21.64 Aligned_cols=13 Identities=23% Similarity=0.611 Sum_probs=8.8
Q ss_pred ccceeccccccCC
Q 044515 119 ICSVCLEGFQDKQ 131 (167)
Q Consensus 119 ~C~IC~e~~~~~~ 131 (167)
.|+-|...|..++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5788887776543
No 138
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=45.15 E-value=31 Score=24.51 Aligned_cols=35 Identities=17% Similarity=0.270 Sum_probs=28.6
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHh
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLA 152 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~ 152 (167)
...|.||-+.+..++.....+ .-..|.+|+..-..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 456999999999998877777 77789999977543
No 139
>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=44.11 E-value=19 Score=25.68 Aligned_cols=24 Identities=29% Similarity=0.570 Sum_probs=18.6
Q ss_pred CCcccHHhHHHHHhcC---------CCCCCccc
Q 044515 139 SHKFHLDCVLPWLAAH---------PHCPYCRT 162 (167)
Q Consensus 139 ~H~Fh~~Ci~~Wl~~~---------~~CP~CR~ 162 (167)
.-.||..||..++... -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 7789999998887432 26999985
No 140
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=43.33 E-value=23 Score=35.16 Aligned_cols=48 Identities=17% Similarity=0.470 Sum_probs=32.8
Q ss_pred ccccceecccccc---CCceEEec-CCCcccHHhHHHH-HhcCCCCCCcccCc
Q 044515 117 RKICSVCLEGFQD---KQQIAKLS-CSHKFHLDCVLPW-LAAHPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~---~~~~~~lp-C~H~Fh~~Ci~~W-l~~~~~CP~CR~~v 164 (167)
...|-||-+++.. ++.-+... |+--.|..|..-= -+.++.||.|+...
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 4589999998653 33333333 7777999998432 24567999998764
No 141
>PLN02189 cellulose synthase
Probab=42.96 E-value=22 Score=35.15 Aligned_cols=49 Identities=16% Similarity=0.396 Sum_probs=33.7
Q ss_pred ccccceecccccc---CCceEEec-CCCcccHHhHHHHH-hcCCCCCCcccCcc
Q 044515 117 RKICSVCLEGFQD---KQQIAKLS-CSHKFHLDCVLPWL-AAHPHCPYCRTPVL 165 (167)
Q Consensus 117 ~~~C~IC~e~~~~---~~~~~~lp-C~H~Fh~~Ci~~Wl-~~~~~CP~CR~~v~ 165 (167)
...|.||-+++.. ++.-+... |+--.|..|..-=. +.++.||.|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4589999998753 33333334 77789999984322 35679999988653
No 142
>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=42.42 E-value=25 Score=19.09 Aligned_cols=36 Identities=19% Similarity=0.560 Sum_probs=22.0
Q ss_pred cceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 120 CSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 120 C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
|..|.+.+..... ....=+..||..| ..|..|..+|
T Consensus 2 C~~C~~~i~~~~~-~~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGEL-VLRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcE-EEEeCCccccccC--------CCCcccCCcC
Confidence 7778877765422 2222467788766 3577776655
No 143
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=41.71 E-value=17 Score=20.74 Aligned_cols=12 Identities=17% Similarity=0.595 Sum_probs=8.3
Q ss_pred ccceeccccccC
Q 044515 119 ICSVCLEGFQDK 130 (167)
Q Consensus 119 ~C~IC~e~~~~~ 130 (167)
.|+-|...|..+
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 577777777644
No 144
>PF14353 CpXC: CpXC protein
Probab=41.39 E-value=29 Score=25.09 Aligned_cols=45 Identities=18% Similarity=0.220 Sum_probs=23.9
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcC---CCCCCcccCcc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH---PHCPYCRTPVL 165 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~---~~CP~CR~~v~ 165 (167)
.+|+-|...|... +...-.-.....-...-+... .+||.|...+.
T Consensus 2 itCP~C~~~~~~~---v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFE---VWTSINADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEE---EEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 3688888877654 222223333333334434322 37999977653
No 145
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=39.59 E-value=15 Score=19.58 Aligned_cols=9 Identities=44% Similarity=1.113 Sum_probs=4.6
Q ss_pred CCCCcccCc
Q 044515 156 HCPYCRTPV 164 (167)
Q Consensus 156 ~CP~CR~~v 164 (167)
+||.|...|
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 455555544
No 146
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=39.25 E-value=32 Score=23.49 Aligned_cols=49 Identities=18% Similarity=0.398 Sum_probs=19.6
Q ss_pred cccccceecccccc---CCceEEe-cCCCcccHHhHHHHH-hcCCCCCCcccCc
Q 044515 116 CRKICSVCLEGFQD---KQQIAKL-SCSHKFHLDCVLPWL-AAHPHCPYCRTPV 164 (167)
Q Consensus 116 ~~~~C~IC~e~~~~---~~~~~~l-pC~H~Fh~~Ci~~Wl-~~~~~CP~CR~~v 164 (167)
....|.||-+.+.. ++..+.. -|+--.|+.|..-=. ..++.||.|+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 34579999998653 3222222 278888999976544 3567999998765
No 147
>PLN02436 cellulose synthase A
Probab=37.94 E-value=29 Score=34.49 Aligned_cols=49 Identities=18% Similarity=0.464 Sum_probs=33.8
Q ss_pred ccccceeccccc---cCCceEEec-CCCcccHHhHHHHH-hcCCCCCCcccCcc
Q 044515 117 RKICSVCLEGFQ---DKQQIAKLS-CSHKFHLDCVLPWL-AAHPHCPYCRTPVL 165 (167)
Q Consensus 117 ~~~C~IC~e~~~---~~~~~~~lp-C~H~Fh~~Ci~~Wl-~~~~~CP~CR~~v~ 165 (167)
...|.||-+++. +++.-+... |+--.|..|..-=. ..++.||.|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 458999999864 344333334 77789999984422 34679999998653
No 148
>PHA02096 hypothetical protein
Probab=37.49 E-value=35 Score=23.57 Aligned_cols=44 Identities=16% Similarity=0.109 Sum_probs=37.6
Q ss_pred cccccccCCCcccccccCCcccccccchHHHHHHHHHHHHHhcc
Q 044515 25 VSLCRRCESPLMVTDRRQPLVTRISDLDANALRARKRLEQKLGY 68 (167)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~rl~~rlr~ 68 (167)
-|||-|.++++-|++.-+-..+.-++-+.....|++-+++.|.+
T Consensus 12 egfchfv~gnl~g~~~gv~fh~swe~a~~~~~~ak~~i~eylkg 55 (103)
T PHA02096 12 EGFCHFVSGNLHGAFGGVMFHDSWEEADVSLKNAKKSIEEYLKG 55 (103)
T ss_pred CceeEeecCcccccccceEEeccHHHhhhHHHHHHHHHHHHhcc
Confidence 47899999999999887777777778888899999999999983
No 149
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=37.37 E-value=17 Score=24.38 Aligned_cols=34 Identities=24% Similarity=0.456 Sum_probs=22.3
Q ss_pred cccccceeccccccCCceEEecCCCcccHHhHHH
Q 044515 116 CRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLP 149 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~ 149 (167)
....|.+|.......-....-.|...||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 3557999997733221122224899999999765
No 150
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=37.23 E-value=18 Score=25.30 Aligned_cols=34 Identities=24% Similarity=0.412 Sum_probs=21.5
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHH
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPW 150 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~W 150 (167)
...|.||......--....-.|...||..|....
T Consensus 55 ~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHHC
Confidence 5689999988222111111227889999998663
No 151
>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=36.91 E-value=12 Score=23.15 Aligned_cols=10 Identities=40% Similarity=1.115 Sum_probs=4.2
Q ss_pred CCCCcccCcc
Q 044515 156 HCPYCRTPVL 165 (167)
Q Consensus 156 ~CP~CR~~v~ 165 (167)
.||+|..++.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 6777776654
No 152
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.61 E-value=15 Score=27.86 Aligned_cols=48 Identities=21% Similarity=0.423 Sum_probs=25.9
Q ss_pred ccccccceecc-ccccCCceEEecCCCcccHHhHHHHH-hcCC---CCCCccc
Q 044515 115 SCRKICSVCLE-GFQDKQQIAKLSCSHKFHLDCVLPWL-AAHP---HCPYCRT 162 (167)
Q Consensus 115 ~~~~~C~IC~e-~~~~~~~~~~lpC~H~Fh~~Ci~~Wl-~~~~---~CP~CR~ 162 (167)
.++..|.||+. .|.++-.....-|.-.||..|--... .+++ .|-.|+.
T Consensus 63 ~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred CcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 45778999997 46655222222255555555543322 2222 5777754
No 153
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=35.51 E-value=13 Score=37.83 Aligned_cols=50 Identities=34% Similarity=0.715 Sum_probs=37.3
Q ss_pred cccccccceeccccccCCceEEecCCCcccHHhHHHHHhcCC----CCCCcccC
Q 044515 114 RSCRKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHP----HCPYCRTP 163 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~----~CP~CR~~ 163 (167)
......|.+|.....+...+...-|...||..|+.+-+.... .||-|+..
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 345678999999877653333334899999999999876543 79999864
No 154
>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=34.38 E-value=23 Score=19.11 Aligned_cols=29 Identities=17% Similarity=0.437 Sum_probs=9.5
Q ss_pred ccceeccccccCCceEEecCCCcccHHhH
Q 044515 119 ICSVCLEGFQDKQQIAKLSCSHKFHLDCV 147 (167)
Q Consensus 119 ~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci 147 (167)
.|.+|.+.........-..|.-.+|..|+
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 47888887665222222348888898885
No 155
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=34.21 E-value=26 Score=21.63 Aligned_cols=22 Identities=32% Similarity=0.806 Sum_probs=12.5
Q ss_pred CCCcccHHhHHHHHhcCCCCCCc
Q 044515 138 CSHKFHLDCVLPWLAAHPHCPYC 160 (167)
Q Consensus 138 C~H~Fh~~Ci~~Wl~~~~~CP~C 160 (167)
|+|.|-.. |..-......||.|
T Consensus 34 Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEcc-HhhhccCCCCCCCC
Confidence 56666443 22222456689988
No 156
>PLN02195 cellulose synthase A
Probab=34.01 E-value=46 Score=32.79 Aligned_cols=49 Identities=20% Similarity=0.381 Sum_probs=33.1
Q ss_pred cccccceecccccc---CCceEEec-CCCcccHHhHHHHH-hcCCCCCCcccCc
Q 044515 116 CRKICSVCLEGFQD---KQQIAKLS-CSHKFHLDCVLPWL-AAHPHCPYCRTPV 164 (167)
Q Consensus 116 ~~~~C~IC~e~~~~---~~~~~~lp-C~H~Fh~~Ci~~Wl-~~~~~CP~CR~~v 164 (167)
....|.||-+.+.. ++.-+... |+--.|+.|..-=- +.++.||.|+...
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Y 58 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPY 58 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcc
Confidence 44579999997653 33333333 88889999984322 3467999998765
No 157
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.44 E-value=11 Score=33.38 Aligned_cols=40 Identities=20% Similarity=0.371 Sum_probs=28.2
Q ss_pred cccccccceeccccccCCceE-----EecCCCcccHHhHHHHHhc
Q 044515 114 RSCRKICSVCLEGFQDKQQIA-----KLSCSHKFHLDCVLPWLAA 153 (167)
Q Consensus 114 ~~~~~~C~IC~e~~~~~~~~~-----~lpC~H~Fh~~Ci~~Wl~~ 153 (167)
......|+.|...+....... ..+|.|.||..|+..|-..
T Consensus 223 ~~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 223 LANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred hccCccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 334456999999887654211 1249999999998888654
No 158
>PLN02400 cellulose synthase
Probab=32.36 E-value=29 Score=34.45 Aligned_cols=48 Identities=19% Similarity=0.419 Sum_probs=32.3
Q ss_pred ccccceecccccc---CCceEEec-CCCcccHHhHHHH-HhcCCCCCCcccCc
Q 044515 117 RKICSVCLEGFQD---KQQIAKLS-CSHKFHLDCVLPW-LAAHPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~---~~~~~~lp-C~H~Fh~~Ci~~W-l~~~~~CP~CR~~v 164 (167)
...|-||-+++.. ++.-+... |+--.|+.|..-= -..++.||.|+...
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrY 88 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRY 88 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcc
Confidence 4589999998753 33322233 7777999997321 23467999998765
No 159
>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=32.31 E-value=20 Score=25.87 Aligned_cols=45 Identities=20% Similarity=0.494 Sum_probs=26.3
Q ss_pred cccccceecccccc--CCceEEecCCCcccHHhHHHHHhcCC--CCCCcc
Q 044515 116 CRKICSVCLEGFQD--KQQIAKLSCSHKFHLDCVLPWLAAHP--HCPYCR 161 (167)
Q Consensus 116 ~~~~C~IC~e~~~~--~~~~~~lpC~H~Fh~~Ci~~Wl~~~~--~CP~CR 161 (167)
++..|.+|...|.. +....-..|.|.+|..|-.. ..... .|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhH
Confidence 45689999987642 23334445999999998544 11111 466664
No 160
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.17 E-value=7.1 Score=32.34 Aligned_cols=47 Identities=23% Similarity=0.571 Sum_probs=35.6
Q ss_pred cccccceeccccccCC---ceEEec--------CCCcccHHhHHHHHhcC-CCCCCccc
Q 044515 116 CRKICSVCLEGFQDKQ---QIAKLS--------CSHKFHLDCVLPWLAAH-PHCPYCRT 162 (167)
Q Consensus 116 ~~~~C~IC~e~~~~~~---~~~~lp--------C~H~Fh~~Ci~~Wl~~~-~~CP~CR~ 162 (167)
.+..|.||...+...+ ....+. |+|..+..|+..-+.+. ..||.|+.
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~ 264 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence 3467999999988322 234456 99999999999987544 58999975
No 161
>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=32.04 E-value=19 Score=22.12 Aligned_cols=12 Identities=33% Similarity=0.880 Sum_probs=8.2
Q ss_pred cccceecccccc
Q 044515 118 KICSVCLEGFQD 129 (167)
Q Consensus 118 ~~C~IC~e~~~~ 129 (167)
..||.|.+.|..
T Consensus 3 f~CP~C~~~~~~ 14 (54)
T PF05605_consen 3 FTCPYCGKGFSE 14 (54)
T ss_pred cCCCCCCCccCH
Confidence 468888886543
No 162
>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=30.73 E-value=24 Score=19.60 Aligned_cols=9 Identities=33% Similarity=0.778 Sum_probs=6.5
Q ss_pred CCCCCCccc
Q 044515 154 HPHCPYCRT 162 (167)
Q Consensus 154 ~~~CP~CR~ 162 (167)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 447898865
No 163
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=30.07 E-value=52 Score=28.48 Aligned_cols=50 Identities=24% Similarity=0.466 Sum_probs=32.2
Q ss_pred ccccccceeccccc---------------cC-CceEEecCCCcccHHhHHHHHhc---------CCCCCCcccCc
Q 044515 115 SCRKICSVCLEGFQ---------------DK-QQIAKLSCSHKFHLDCVLPWLAA---------HPHCPYCRTPV 164 (167)
Q Consensus 115 ~~~~~C~IC~e~~~---------------~~-~~~~~lpC~H~Fh~~Ci~~Wl~~---------~~~CP~CR~~v 164 (167)
..+..|++|+..-. .+ -....-||||.--..-..-|.+. +..||.|-..+
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 34678999997521 01 01233579998877777778652 23799997655
No 164
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=28.84 E-value=38 Score=27.65 Aligned_cols=22 Identities=23% Similarity=0.552 Sum_probs=16.6
Q ss_pred ccHHhHHHHHhcCCCCCCcccC
Q 044515 142 FHLDCVLPWLAAHPHCPYCRTP 163 (167)
Q Consensus 142 Fh~~Ci~~Wl~~~~~CP~CR~~ 163 (167)
-|.+|-.+--.+-..||+|++.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccc
Confidence 4677777765677899999874
No 165
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=28.63 E-value=9.6 Score=32.19 Aligned_cols=36 Identities=22% Similarity=0.631 Sum_probs=28.0
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhc
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAA 153 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~ 153 (167)
..|.+|+++|..+.......|...||..|+..|+..
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTT 250 (288)
T ss_pred eecHHHHHHHhcccccchhhcccccccccccccccc
Confidence 389999999986444455556669999999999864
No 166
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=28.60 E-value=16 Score=32.83 Aligned_cols=37 Identities=19% Similarity=0.361 Sum_probs=28.5
Q ss_pred ccccccccceeccccccCCceEEec-CCCcccHHhHHH
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLP 149 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~ 149 (167)
++.....|++|-+.|.-...-.+.. ||-+.|.+|-..
T Consensus 176 DDs~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~ 213 (505)
T KOG1842|consen 176 DDSSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKF 213 (505)
T ss_pred CCCcccccccccchhhhHHHhhhhhhcchHHHHHHHHh
Confidence 5667789999999998654333444 999999999765
No 167
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=28.23 E-value=31 Score=31.95 Aligned_cols=37 Identities=22% Similarity=0.420 Sum_probs=25.8
Q ss_pred ccccccceeccccccC-----C-----ceEEecCCCcccHHhHHHHH
Q 044515 115 SCRKICSVCLEGFQDK-----Q-----QIAKLSCSHKFHLDCVLPWL 151 (167)
Q Consensus 115 ~~~~~C~IC~e~~~~~-----~-----~~~~lpC~H~Fh~~Ci~~Wl 151 (167)
+....|+||.|.|..- + ..+.+.=|-+||..|+..-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 5677899999998631 0 12334358899999987643
No 168
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=28.15 E-value=48 Score=28.64 Aligned_cols=43 Identities=9% Similarity=-0.096 Sum_probs=31.0
Q ss_pred ccccceeccccccCCceEEecCCC-cccHHhHHHHHhcCCCCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSH-KFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H-~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
...|..|-+.+... +..+|+| .|+..|.. +....+||+|...+
T Consensus 343 ~~~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGLLST---IWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hcccccccCceeee---EeecCCcccChhhhhh--cccCCccccccccc
Confidence 45677777765544 6678998 57888876 45677999997654
No 169
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=28.05 E-value=57 Score=23.34 Aligned_cols=33 Identities=15% Similarity=0.215 Sum_probs=25.0
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHH
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWL 151 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl 151 (167)
..|.||-+++..++....+ =+-..|..|+..-.
T Consensus 3 WkC~iCg~~I~~gqlFTF~-~kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFT-KKGPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEe-cCCcEeHHHHHHHH
Confidence 3599999999988754444 44778999987754
No 170
>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=27.63 E-value=36 Score=20.52 Aligned_cols=30 Identities=20% Similarity=0.264 Sum_probs=14.2
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHH
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVL 148 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~ 148 (167)
-..|..|...+.... ....=+..||..|..
T Consensus 26 Cf~C~~C~~~l~~~~--~~~~~~~~~C~~c~~ 55 (58)
T PF00412_consen 26 CFKCSKCGKPLNDGD--FYEKDGKPYCKDCYQ 55 (58)
T ss_dssp TSBETTTTCBTTTSS--EEEETTEEEEHHHHH
T ss_pred ccccCCCCCccCCCe--eEeECCEEECHHHHh
Confidence 445666665555443 222233455555543
No 171
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.86 E-value=35 Score=24.08 Aligned_cols=12 Identities=25% Similarity=0.791 Sum_probs=10.2
Q ss_pred cccHHhHHHHHh
Q 044515 141 KFHLDCVLPWLA 152 (167)
Q Consensus 141 ~Fh~~Ci~~Wl~ 152 (167)
-||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 389999999975
No 172
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=26.57 E-value=66 Score=31.96 Aligned_cols=50 Identities=22% Similarity=0.349 Sum_probs=33.7
Q ss_pred cccccceecccccc---CCceEEec-CCCcccHHhHHHHH-hcCCCCCCcccCcc
Q 044515 116 CRKICSVCLEGFQD---KQQIAKLS-CSHKFHLDCVLPWL-AAHPHCPYCRTPVL 165 (167)
Q Consensus 116 ~~~~C~IC~e~~~~---~~~~~~lp-C~H~Fh~~Ci~~Wl-~~~~~CP~CR~~v~ 165 (167)
....|.||-+++.. ++.-+... |+--.|..|..-=. ..++.||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 35579999998653 33333333 77779999984322 34679999987653
No 173
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=26.12 E-value=9 Score=19.79 Aligned_cols=7 Identities=57% Similarity=1.455 Sum_probs=3.0
Q ss_pred CCCCccc
Q 044515 156 HCPYCRT 162 (167)
Q Consensus 156 ~CP~CR~ 162 (167)
.||.|-.
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 3444433
No 174
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=24.46 E-value=37 Score=28.06 Aligned_cols=40 Identities=25% Similarity=0.394 Sum_probs=29.4
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHhcC--CCCC
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAH--PHCP 158 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~--~~CP 158 (167)
+..|+|-+..+..+ +....|+|.|-.+-|...++.. ..||
T Consensus 189 ~nrCpitl~p~~~p--ils~kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSSKCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred cccCCcccCcchhH--HHHhhhcccccHHHHHHHhcCCceeecc
Confidence 45799988876655 1222399999999999998844 4577
No 175
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.21 E-value=39 Score=31.91 Aligned_cols=42 Identities=17% Similarity=0.349 Sum_probs=28.8
Q ss_pred ccccceeccccc-cCCceEEecCCCcccHHhHHHHHhcCCCCCCcc
Q 044515 117 RKICSVCLEGFQ-DKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCR 161 (167)
Q Consensus 117 ~~~C~IC~e~~~-~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 161 (167)
...|-+|...=. .......+.|+..||..| |+.-.+.||+|-
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccC
Confidence 457889986533 222334566999999998 555677899994
No 176
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=23.81 E-value=49 Score=27.29 Aligned_cols=22 Identities=27% Similarity=0.671 Sum_probs=15.5
Q ss_pred ccHHhHHHHHhcCCCCCCcccC
Q 044515 142 FHLDCVLPWLAAHPHCPYCRTP 163 (167)
Q Consensus 142 Fh~~Ci~~Wl~~~~~CP~CR~~ 163 (167)
.|.+|-.+--.+-..||+|+..
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaK 272 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAK 272 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhc
Confidence 4556666655567899999864
No 177
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=23.43 E-value=70 Score=28.07 Aligned_cols=25 Identities=20% Similarity=0.505 Sum_probs=15.3
Q ss_pred ccccccccceeccccccCCceEEecC
Q 044515 113 CRSCRKICSVCLEGFQDKQQIAKLSC 138 (167)
Q Consensus 113 ~~~~~~~C~IC~e~~~~~~~~~~lpC 138 (167)
++..+..|++|-+.... -....|.|
T Consensus 11 dedl~ElCPVCGDkVSG-YHYGLLTC 35 (475)
T KOG4218|consen 11 DEDLGELCPVCGDKVSG-YHYGLLTC 35 (475)
T ss_pred ccccccccccccCcccc-ceeeeeeh
Confidence 34456789999987653 23344543
No 178
>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=23.28 E-value=19 Score=22.71 Aligned_cols=8 Identities=25% Similarity=0.879 Sum_probs=2.6
Q ss_pred cccceecc
Q 044515 118 KICSVCLE 125 (167)
Q Consensus 118 ~~C~IC~e 125 (167)
..|+||.-
T Consensus 25 atCP~C~a 32 (54)
T PF09237_consen 25 ATCPICGA 32 (54)
T ss_dssp EE-TTT--
T ss_pred CCCCcchh
Confidence 45555543
No 179
>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=23.26 E-value=40 Score=17.80 Aligned_cols=9 Identities=44% Similarity=1.117 Sum_probs=5.8
Q ss_pred CCCCcccCc
Q 044515 156 HCPYCRTPV 164 (167)
Q Consensus 156 ~CP~CR~~v 164 (167)
.||+|...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 477776554
No 180
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=23.04 E-value=23 Score=29.94 Aligned_cols=52 Identities=17% Similarity=0.266 Sum_probs=32.1
Q ss_pred ccccccccceecc-ccccCCceEEe-cCCCcccHHhHHHHHh-----c--CCCCCCcccCc
Q 044515 113 CRSCRKICSVCLE-GFQDKQQIAKL-SCSHKFHLDCVLPWLA-----A--HPHCPYCRTPV 164 (167)
Q Consensus 113 ~~~~~~~C~IC~e-~~~~~~~~~~l-pC~H~Fh~~Ci~~Wl~-----~--~~~CP~CR~~v 164 (167)
.+.+...|.+|.. .|..-+.-.+. .||++||..|-..-+. . ...|+.|-..+
T Consensus 164 PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 164 PDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred CcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 4556778999999 66543322233 4999999988654221 1 12577775433
No 181
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=22.90 E-value=20 Score=22.09 Aligned_cols=19 Identities=26% Similarity=0.873 Sum_probs=14.8
Q ss_pred ceEEe-cCCCcccHHhHHHH
Q 044515 132 QIAKL-SCSHKFHLDCVLPW 150 (167)
Q Consensus 132 ~~~~l-pC~H~Fh~~Ci~~W 150 (167)
..+.- .|++.||..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 34555 48999999998887
No 182
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=22.81 E-value=69 Score=22.18 Aligned_cols=37 Identities=24% Similarity=0.539 Sum_probs=27.7
Q ss_pred cccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCccC
Q 044515 118 KICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPVLV 166 (167)
Q Consensus 118 ~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v~~ 166 (167)
..|+-|...+.--+.+- |..|+-.+..|..|++++..
T Consensus 34 S~C~~C~~~L~~~~lIP------------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLIP------------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CcCcCCCCcCcccccch------------HHHHHHhCCCCcccCCCCCh
Confidence 46888888776543222 56788899999999998864
No 183
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=22.49 E-value=88 Score=27.09 Aligned_cols=47 Identities=23% Similarity=0.422 Sum_probs=31.7
Q ss_pred ccccceeccccccCC----------ceEEe-cCCCcccHHhHHHHHhcCCCCCCcccC
Q 044515 117 RKICSVCLEGFQDKQ----------QIAKL-SCSHKFHLDCVLPWLAAHPHCPYCRTP 163 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~----------~~~~l-pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 163 (167)
...|-.|+..|..+. .-... .|...||.+|-..--+.-..||.|..+
T Consensus 362 s~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~~ 419 (421)
T COG5151 362 STHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCELP 419 (421)
T ss_pred CccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcCC
Confidence 456999999876431 11122 389999999976655556689999643
No 184
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.09 E-value=64 Score=24.31 Aligned_cols=22 Identities=18% Similarity=0.545 Sum_probs=14.6
Q ss_pred ceeccccccCCceEEecCCCcccHH
Q 044515 121 SVCLEGFQDKQQIAKLSCSHKFHLD 145 (167)
Q Consensus 121 ~IC~e~~~~~~~~~~lpC~H~Fh~~ 145 (167)
-||+.. ...++...|||.|+..
T Consensus 61 fi~qs~---~~rv~rcecghsf~d~ 82 (165)
T COG4647 61 FICQSA---QKRVIRCECGHSFGDY 82 (165)
T ss_pred EEEecc---cccEEEEeccccccCh
Confidence 466654 2345667799999853
No 185
>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=20.82 E-value=55 Score=22.89 Aligned_cols=36 Identities=17% Similarity=0.554 Sum_probs=26.5
Q ss_pred ccccceeccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~v 164 (167)
...|-||-..+... +|.||..|..+ ...|.+|-..|
T Consensus 44 ~~~C~~CK~~v~q~--------g~~YCq~CAYk----kGiCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVHQP--------GAKYCQTCAYK----KGICAMCGKKI 79 (90)
T ss_pred CccccccccccccC--------CCccChhhhcc----cCcccccCCee
Confidence 45799998775543 67899999544 67899997766
No 186
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=20.71 E-value=53 Score=28.07 Aligned_cols=42 Identities=24% Similarity=0.457 Sum_probs=26.6
Q ss_pred cccccceeccccc-------cCCceEEecCCCcccHHhHHHHHhcCCCCCCccc
Q 044515 116 CRKICSVCLEGFQ-------DKQQIAKLSCSHKFHLDCVLPWLAAHPHCPYCRT 162 (167)
Q Consensus 116 ~~~~C~IC~e~~~-------~~~~~~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 162 (167)
....|++|-..=. ..+....| +|..|-..|--....||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL-----~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYL-----HCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEE-----EcCCCCCcccccCccCCCCCC
Confidence 4578999987521 11222333 455577778777889999964
No 187
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=20.65 E-value=80 Score=23.05 Aligned_cols=16 Identities=25% Similarity=0.594 Sum_probs=11.6
Q ss_pred HHhcCCCCCCcccCcc
Q 044515 150 WLAAHPHCPYCRTPVL 165 (167)
Q Consensus 150 Wl~~~~~CP~CR~~v~ 165 (167)
.+.....|++|++++.
T Consensus 81 mLGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 81 MLGRVDACMHCKEPLT 96 (114)
T ss_pred hhchhhccCcCCCcCc
Confidence 3455668999998864
No 188
>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=20.54 E-value=36 Score=18.33 Aligned_cols=10 Identities=30% Similarity=1.089 Sum_probs=5.0
Q ss_pred CCCCcccCcc
Q 044515 156 HCPYCRTPVL 165 (167)
Q Consensus 156 ~CP~CR~~v~ 165 (167)
.||.|...+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4888887765
No 189
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.53 E-value=27 Score=32.44 Aligned_cols=47 Identities=28% Similarity=0.587 Sum_probs=31.0
Q ss_pred ccccceeccccccCCceEEec-CCCcccHHhHHHHHhcCC------CCCCcccCc
Q 044515 117 RKICSVCLEGFQDKQQIAKLS-CSHKFHLDCVLPWLAAHP------HCPYCRTPV 164 (167)
Q Consensus 117 ~~~C~IC~e~~~~~~~~~~lp-C~H~Fh~~Ci~~Wl~~~~------~CP~CR~~v 164 (167)
+..|..|-..=.. ..++... |...||..||.+=+.... .||.|...+
T Consensus 253 ~~fCsaCn~~~~F-~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~ 306 (613)
T KOG4299|consen 253 EDFCSACNGSGLF-NDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKS 306 (613)
T ss_pred HHHHHHhCCcccc-ccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeee
Confidence 3489988764222 2223333 999999999998654332 699997654
No 190
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=20.16 E-value=18 Score=21.26 Aligned_cols=25 Identities=24% Similarity=0.585 Sum_probs=13.4
Q ss_pred cCCCcccHHhHHHHHhcCCCCCCccc
Q 044515 137 SCSHKFHLDCVLPWLAAHPHCPYCRT 162 (167)
Q Consensus 137 pC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 162 (167)
.|+|.|-...-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47777754211110 13447999987
Done!