Query 039647
Match_columns 290
No_of_seqs 373 out of 2226
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 11:45:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039647.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039647hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.6 6.2E-16 1.3E-20 146.9 5.0 75 135-209 202-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 4E-15 8.6E-20 101.3 2.0 44 157-200 1-44 (44)
3 COG5243 HRD1 HRD ubiquitin lig 99.4 5.7E-13 1.2E-17 126.4 10.0 70 140-209 267-350 (491)
4 PHA02929 N1R/p28-like protein; 99.2 5.7E-12 1.2E-16 115.0 4.7 64 141-204 151-227 (238)
5 COG5540 RING-finger-containing 99.2 4.9E-12 1.1E-16 117.4 3.2 50 156-205 323-373 (374)
6 PF12678 zf-rbx1: RING-H2 zinc 99.2 6.2E-12 1.3E-16 95.0 3.1 45 156-200 19-73 (73)
7 PLN03208 E3 ubiquitin-protein 99.1 9.5E-11 2.1E-15 103.5 7.0 58 151-211 13-86 (193)
8 cd00162 RING RING-finger (Real 99.0 4.9E-10 1.1E-14 74.3 3.4 44 158-203 1-45 (45)
9 PF13920 zf-C3HC4_3: Zinc fing 99.0 3.8E-10 8.2E-15 78.8 2.7 46 156-204 2-48 (50)
10 KOG0823 Predicted E3 ubiquitin 99.0 8.2E-10 1.8E-14 99.4 5.4 52 156-210 47-101 (230)
11 PF13923 zf-C3HC4_2: Zinc fing 98.9 6.4E-10 1.4E-14 73.8 2.6 39 159-199 1-39 (39)
12 KOG0317 Predicted E3 ubiquitin 98.9 5.7E-10 1.2E-14 103.2 2.8 50 156-208 239-288 (293)
13 PF15227 zf-C3HC4_4: zinc fing 98.9 1.4E-09 3E-14 73.7 2.7 38 159-199 1-42 (42)
14 KOG0802 E3 ubiquitin ligase [P 98.9 1E-09 2.2E-14 111.2 2.9 49 156-204 291-341 (543)
15 PF12861 zf-Apc11: Anaphase-pr 98.8 2.2E-09 4.8E-14 83.1 3.4 51 155-205 20-83 (85)
16 smart00504 Ubox Modified RING 98.8 4.7E-09 1E-13 75.8 3.9 48 157-207 2-49 (63)
17 PF14634 zf-RING_5: zinc-RING 98.7 7.1E-09 1.5E-13 70.6 2.7 44 158-201 1-44 (44)
18 KOG0320 Predicted E3 ubiquitin 98.7 5.2E-09 1.1E-13 90.9 2.2 51 156-207 131-181 (187)
19 smart00184 RING Ring finger. E 98.7 1.1E-08 2.4E-13 65.3 3.1 38 159-199 1-39 (39)
20 PF00097 zf-C3HC4: Zinc finger 98.7 9.5E-09 2.1E-13 68.4 2.7 39 159-199 1-41 (41)
21 PHA02926 zinc finger-like prot 98.7 9.8E-09 2.1E-13 92.2 3.3 50 155-204 169-230 (242)
22 TIGR00599 rad18 DNA repair pro 98.7 1.4E-08 3.1E-13 98.9 3.9 51 153-206 23-73 (397)
23 COG5194 APC11 Component of SCF 98.4 1.5E-07 3.3E-12 71.7 2.8 32 176-207 53-84 (88)
24 COG5574 PEX10 RING-finger-cont 98.4 9.4E-08 2E-12 87.7 2.0 60 144-207 204-265 (271)
25 KOG2164 Predicted E3 ubiquitin 98.4 1.1E-07 2.4E-12 94.0 2.5 62 148-212 178-244 (513)
26 PF13445 zf-RING_UBOX: RING-ty 98.3 2.8E-07 6.1E-12 62.8 2.6 34 159-193 1-35 (43)
27 KOG0287 Postreplication repair 98.3 1.4E-07 3.1E-12 89.1 1.1 51 155-208 22-72 (442)
28 COG5219 Uncharacterized conser 98.3 1.8E-07 4E-12 97.6 1.2 54 151-204 1464-1523(1525)
29 KOG1734 Predicted RING-contain 98.3 1.9E-07 4.1E-12 86.0 0.5 61 148-209 217-286 (328)
30 smart00744 RINGv The RING-vari 98.3 6.2E-07 1.4E-11 62.7 2.8 42 158-200 1-49 (49)
31 PF04564 U-box: U-box domain; 98.2 5.7E-07 1.2E-11 67.7 2.2 51 155-208 3-54 (73)
32 KOG1493 Anaphase-promoting com 98.2 2.4E-07 5.2E-12 70.1 -0.0 50 156-205 20-82 (84)
33 KOG2177 Predicted E3 ubiquitin 98.2 6.2E-07 1.3E-11 80.1 1.7 45 153-200 10-54 (386)
34 KOG0828 Predicted E3 ubiquitin 98.2 7.8E-07 1.7E-11 87.7 2.0 50 156-205 571-635 (636)
35 COG5432 RAD18 RING-finger-cont 98.1 9.7E-07 2.1E-11 82.2 1.6 48 155-205 24-71 (391)
36 PF11793 FANCL_C: FANCL C-term 98.0 1.1E-06 2.3E-11 65.9 0.2 49 156-204 2-66 (70)
37 TIGR00570 cdk7 CDK-activating 98.0 3.3E-06 7.2E-11 79.7 3.4 53 156-208 3-58 (309)
38 PF14369 zf-RING_3: zinc-finge 98.0 3.5E-06 7.6E-11 55.0 1.4 14 3-16 22-35 (35)
39 KOG2930 SCF ubiquitin ligase, 97.9 5E-06 1.1E-10 66.4 2.0 29 176-204 80-108 (114)
40 KOG0827 Predicted E3 ubiquitin 97.8 7.7E-06 1.7E-10 78.8 2.2 49 157-205 5-57 (465)
41 KOG4445 Uncharacterized conser 97.8 7.9E-06 1.7E-10 76.4 1.9 89 118-207 75-189 (368)
42 KOG0311 Predicted E3 ubiquitin 97.8 3.3E-06 7.1E-11 80.5 -1.1 53 151-206 38-92 (381)
43 PF14835 zf-RING_6: zf-RING of 97.7 8.4E-06 1.8E-10 60.0 0.1 49 156-209 7-56 (65)
44 KOG0824 Predicted E3 ubiquitin 97.6 2.2E-05 4.9E-10 73.5 2.0 48 156-206 7-55 (324)
45 KOG4265 Predicted E3 ubiquitin 97.6 3.5E-05 7.7E-10 73.6 2.9 48 156-206 290-338 (349)
46 KOG0804 Cytoplasmic Zn-finger 97.6 2.4E-05 5.1E-10 76.7 1.7 54 149-204 168-222 (493)
47 KOG0825 PHD Zn-finger protein 97.6 1.5E-05 3.2E-10 82.4 0.1 52 156-207 123-174 (1134)
48 KOG1039 Predicted E3 ubiquitin 97.5 7.6E-05 1.6E-09 71.8 3.3 62 143-204 148-221 (344)
49 KOG0978 E3 ubiquitin ligase in 97.5 4.1E-05 8.8E-10 79.2 1.2 52 153-207 640-692 (698)
50 KOG1645 RING-finger-containing 97.3 0.00011 2.4E-09 71.3 2.6 47 156-202 4-54 (463)
51 KOG4172 Predicted E3 ubiquitin 97.3 7.3E-05 1.6E-09 53.3 0.5 46 156-204 7-54 (62)
52 KOG4159 Predicted E3 ubiquitin 97.2 0.00019 4.1E-09 70.4 2.3 49 154-205 82-130 (398)
53 KOG0297 TNF receptor-associate 97.1 0.00023 5E-09 69.8 2.4 55 153-209 18-72 (391)
54 KOG2660 Locus-specific chromos 96.9 0.00024 5.2E-09 67.4 0.6 50 154-206 13-63 (331)
55 PF11789 zf-Nse: Zinc-finger o 96.8 0.00047 1E-08 49.7 1.2 41 156-198 11-53 (57)
56 KOG1785 Tyrosine kinase negati 96.7 0.00057 1.2E-08 66.4 1.4 50 157-209 370-421 (563)
57 KOG1941 Acetylcholine receptor 96.7 0.00056 1.2E-08 66.3 0.9 46 156-201 365-413 (518)
58 COG5152 Uncharacterized conser 96.6 0.00071 1.5E-08 60.3 0.9 46 156-204 196-241 (259)
59 KOG0801 Predicted E3 ubiquitin 96.6 0.00048 1E-08 59.5 -0.5 28 156-183 177-204 (205)
60 PF10367 Vps39_2: Vacuolar sor 96.4 0.00095 2.1E-08 52.6 0.4 36 151-187 73-108 (109)
61 KOG1428 Inhibitor of type V ad 96.4 0.0021 4.5E-08 70.6 3.0 50 155-204 3485-3544(3738)
62 PF12906 RINGv: RING-variant d 96.2 0.0032 7E-08 43.5 2.2 40 159-199 1-47 (47)
63 PF05883 Baculo_RING: Baculovi 96.2 0.0017 3.8E-08 54.5 0.7 35 156-190 26-66 (134)
64 KOG1952 Transcription factor N 96.1 0.0033 7.2E-08 66.0 2.4 48 154-201 189-244 (950)
65 KOG3970 Predicted E3 ubiquitin 96.0 0.0047 1E-07 56.1 2.7 51 156-207 50-108 (299)
66 KOG1002 Nucleotide excision re 96.0 0.0031 6.8E-08 63.3 1.6 51 155-208 535-590 (791)
67 KOG1814 Predicted E3 ubiquitin 96.0 0.0034 7.3E-08 61.3 1.7 36 156-191 184-219 (445)
68 COG5222 Uncharacterized conser 96.0 0.0058 1.3E-07 57.6 3.2 42 157-201 275-318 (427)
69 KOG1571 Predicted E3 ubiquitin 95.9 0.0038 8.1E-08 60.0 1.7 44 155-204 304-347 (355)
70 KOG1813 Predicted E3 ubiquitin 95.9 0.0026 5.6E-08 59.7 0.6 46 157-205 242-287 (313)
71 PF14570 zf-RING_4: RING/Ubox 95.8 0.006 1.3E-07 42.5 2.1 45 159-203 1-47 (48)
72 KOG4692 Predicted E3 ubiquitin 95.8 0.0098 2.1E-07 57.3 4.0 51 154-207 420-470 (489)
73 KOG2879 Predicted E3 ubiquitin 95.7 0.009 1.9E-07 55.7 3.2 49 155-205 238-288 (298)
74 KOG3039 Uncharacterized conser 95.5 0.011 2.4E-07 54.4 3.0 54 157-210 222-276 (303)
75 PHA02862 5L protein; Provision 95.4 0.01 2.3E-07 50.4 2.5 46 156-205 2-54 (156)
76 PF08746 zf-RING-like: RING-li 95.4 0.0074 1.6E-07 41.0 1.2 41 159-199 1-43 (43)
77 KOG0827 Predicted E3 ubiquitin 95.2 0.0018 4E-08 62.7 -3.1 49 157-205 197-246 (465)
78 PHA03096 p28-like protein; Pro 94.8 0.015 3.2E-07 54.9 1.9 45 157-201 179-231 (284)
79 PHA02825 LAP/PHD finger-like p 94.7 0.025 5.4E-07 48.9 2.8 48 155-206 7-61 (162)
80 KOG3268 Predicted E3 ubiquitin 94.7 0.022 4.7E-07 50.2 2.4 51 157-207 166-231 (234)
81 KOG4185 Predicted E3 ubiquitin 94.3 0.026 5.7E-07 52.7 2.3 47 157-203 4-54 (296)
82 PF04641 Rtf2: Rtf2 RING-finge 94.2 0.057 1.2E-06 50.1 4.3 88 119-209 58-166 (260)
83 KOG4739 Uncharacterized protei 94.0 0.017 3.6E-07 52.9 0.3 48 157-207 4-51 (233)
84 PF10272 Tmpp129: Putative tra 93.9 0.064 1.4E-06 52.1 4.1 66 142-207 253-354 (358)
85 PF14446 Prok-RING_1: Prokaryo 93.6 0.055 1.2E-06 38.7 2.2 32 156-187 5-37 (54)
86 KOG2932 E3 ubiquitin ligase in 93.4 0.032 6.8E-07 53.0 1.0 43 157-203 91-133 (389)
87 KOG1940 Zn-finger protein [Gen 93.4 0.046 9.9E-07 51.3 2.0 46 156-201 158-204 (276)
88 KOG2114 Vacuolar assembly/sort 93.3 0.034 7.4E-07 58.7 1.2 44 156-204 840-883 (933)
89 COG5236 Uncharacterized conser 93.2 0.068 1.5E-06 51.5 2.9 47 155-204 60-108 (493)
90 KOG4275 Predicted E3 ubiquitin 93.1 0.019 4.1E-07 54.0 -0.9 42 156-204 300-342 (350)
91 KOG0826 Predicted E3 ubiquitin 92.9 0.12 2.7E-06 49.3 4.2 48 155-205 299-347 (357)
92 COG5175 MOT2 Transcriptional r 92.7 0.076 1.6E-06 51.1 2.4 53 155-207 13-67 (480)
93 KOG0298 DEAD box-containing he 92.1 0.079 1.7E-06 58.3 1.9 45 155-201 1152-1196(1394)
94 KOG1001 Helicase-like transcri 91.2 0.078 1.7E-06 55.6 0.8 50 157-210 455-506 (674)
95 PF14447 Prok-RING_4: Prokaryo 91.1 0.13 2.8E-06 36.9 1.6 46 157-207 8-53 (55)
96 KOG2034 Vacuolar sorting prote 89.7 0.15 3.3E-06 54.3 1.3 38 152-190 813-850 (911)
97 PF07800 DUF1644: Protein of u 89.5 0.33 7.2E-06 42.0 3.1 52 155-209 1-96 (162)
98 KOG1812 Predicted E3 ubiquitin 88.8 0.46 1E-05 46.6 3.9 38 156-193 146-184 (384)
99 PF05290 Baculo_IE-1: Baculovi 88.7 0.29 6.2E-06 41.3 2.1 53 156-208 80-136 (140)
100 KOG2817 Predicted E3 ubiquitin 88.4 0.36 7.9E-06 47.2 2.8 48 155-202 333-383 (394)
101 KOG4367 Predicted Zn-finger pr 88.2 0.23 4.9E-06 49.4 1.3 36 154-192 2-37 (699)
102 KOG0309 Conserved WD40 repeat- 88.2 0.3 6.4E-06 51.4 2.2 27 172-198 1043-1069(1081)
103 COG5183 SSM4 Protein involved 87.7 0.33 7.1E-06 51.5 2.2 52 155-207 11-69 (1175)
104 PF03854 zf-P11: P-11 zinc fin 86.3 0.22 4.7E-06 34.7 -0.0 32 175-206 16-48 (50)
105 KOG1100 Predicted E3 ubiquitin 86.3 0.39 8.4E-06 43.3 1.6 40 159-205 161-201 (207)
106 KOG3161 Predicted E3 ubiquitin 84.8 0.32 6.9E-06 50.4 0.4 43 156-201 11-54 (861)
107 KOG3002 Zn finger protein [Gen 84.6 0.72 1.6E-05 43.9 2.6 45 153-204 45-91 (299)
108 KOG3800 Predicted E3 ubiquitin 83.6 0.83 1.8E-05 43.1 2.5 47 158-204 2-51 (300)
109 KOG0802 E3 ubiquitin ligase [P 82.3 0.62 1.3E-05 47.6 1.3 49 155-210 478-526 (543)
110 KOG1609 Protein involved in mR 82.2 0.62 1.3E-05 43.3 1.1 52 156-207 78-137 (323)
111 PF13719 zinc_ribbon_5: zinc-r 82.0 0.54 1.2E-05 30.7 0.5 13 1-13 1-13 (37)
112 KOG3899 Uncharacterized conser 81.8 0.61 1.3E-05 44.2 0.9 32 177-208 325-369 (381)
113 KOG4718 Non-SMC (structural ma 80.7 0.81 1.8E-05 41.4 1.3 46 157-204 182-227 (235)
114 KOG0269 WD40 repeat-containing 80.0 1.4 3.1E-05 46.5 2.9 43 157-201 780-825 (839)
115 KOG0825 PHD Zn-finger protein 79.1 1.1 2.3E-05 47.6 1.7 51 156-206 96-156 (1134)
116 KOG4362 Transcriptional regula 78.8 0.42 9E-06 50.0 -1.3 49 156-207 21-72 (684)
117 PF02891 zf-MIZ: MIZ/SP-RING z 74.4 3.8 8.3E-05 28.5 3.0 42 157-201 3-49 (50)
118 KOG2807 RNA polymerase II tran 74.2 2.8 6E-05 40.4 2.9 46 156-201 330-375 (378)
119 COG5220 TFB3 Cdk activating ki 73.2 1.7 3.6E-05 40.3 1.1 46 156-201 10-61 (314)
120 PF10571 UPF0547: Uncharacteri 73.2 1.9 4E-05 26.2 1.0 22 158-181 2-24 (26)
121 KOG3053 Uncharacterized conser 73.1 1.5 3.2E-05 40.9 0.8 49 156-204 20-82 (293)
122 PF13901 DUF4206: Domain of un 71.1 2.5 5.5E-05 37.7 1.8 39 156-200 152-196 (202)
123 KOG1815 Predicted E3 ubiquitin 70.6 2.2 4.8E-05 42.5 1.4 37 154-192 68-104 (444)
124 KOG3005 GIY-YIG type nuclease 69.8 2.4 5.2E-05 39.7 1.4 48 156-203 182-242 (276)
125 smart00249 PHD PHD zinc finger 69.1 2.6 5.7E-05 27.2 1.1 31 158-188 1-31 (47)
126 PF07975 C1_4: TFIIH C1-like d 68.9 2.8 6E-05 29.6 1.2 42 159-200 2-50 (51)
127 KOG1829 Uncharacterized conser 68.5 1.7 3.6E-05 45.0 0.1 42 156-200 511-557 (580)
128 KOG1812 Predicted E3 ubiquitin 68.5 2.3 5E-05 41.8 1.1 43 157-199 307-351 (384)
129 TIGR02098 MJ0042_CXXC MJ0042 f 68.2 2 4.4E-05 27.7 0.4 12 1-12 1-12 (38)
130 KOG2066 Vacuolar assembly/sort 66.8 2.8 6.1E-05 44.5 1.3 49 151-200 779-831 (846)
131 KOG2068 MOT2 transcription fac 66.3 5.3 0.00011 38.5 2.9 49 157-205 250-299 (327)
132 PF13248 zf-ribbon_3: zinc-rib 66.0 3.2 6.9E-05 24.9 0.9 10 1-10 1-10 (26)
133 PF13717 zinc_ribbon_4: zinc-r 65.6 2.4 5.2E-05 27.6 0.3 12 1-12 1-12 (36)
134 PF06906 DUF1272: Protein of u 64.1 11 0.00024 27.1 3.6 47 157-205 6-53 (57)
135 TIGR00622 ssl1 transcription f 63.3 7.6 0.00016 31.8 2.9 45 156-200 55-110 (112)
136 KOG3579 Predicted E3 ubiquitin 62.3 4.9 0.00011 38.1 1.9 37 156-193 268-306 (352)
137 PF05605 zf-Di19: Drought indu 60.2 4.7 0.0001 28.2 1.1 12 2-13 2-13 (54)
138 COG5109 Uncharacterized conser 60.0 6.1 0.00013 38.0 2.1 45 156-200 336-383 (396)
139 PF01363 FYVE: FYVE zinc finge 58.9 4.3 9.4E-05 29.4 0.8 36 155-190 8-44 (69)
140 PF00628 PHD: PHD-finger; Int 58.3 4.8 0.0001 27.3 0.8 43 158-200 1-49 (51)
141 KOG3039 Uncharacterized conser 57.6 9 0.00019 35.7 2.7 39 150-191 37-75 (303)
142 PF03811 Zn_Tnp_IS1: InsA N-te 56.7 4.7 0.0001 26.3 0.6 9 2-10 5-13 (36)
143 smart00132 LIM Zinc-binding do 56.7 9.3 0.0002 23.6 2.0 37 158-203 1-37 (39)
144 cd00065 FYVE FYVE domain; Zinc 48.1 13 0.00028 25.7 1.7 34 157-190 3-37 (57)
145 PHA00616 hypothetical protein 47.8 5 0.00011 27.5 -0.4 13 3-15 2-14 (44)
146 KOG2169 Zn-finger transcriptio 47.4 24 0.00052 37.0 4.3 89 110-206 251-358 (636)
147 PF13913 zf-C2HC_2: zinc-finge 46.6 7.4 0.00016 23.1 0.2 13 3-15 3-15 (25)
148 PF08271 TF_Zn_Ribbon: TFIIB z 46.0 11 0.00024 25.1 1.1 12 3-14 1-12 (43)
149 PF04710 Pellino: Pellino; In 45.8 5.6 0.00012 39.3 -0.6 31 172-205 304-340 (416)
150 PF14569 zf-UDP: Zinc-binding 44.8 25 0.00055 27.0 2.9 50 155-204 8-62 (80)
151 PF14353 CpXC: CpXC protein 44.7 12 0.00027 30.5 1.4 18 2-19 1-18 (128)
152 PF06844 DUF1244: Protein of u 44.0 14 0.0003 27.6 1.4 12 180-191 11-22 (68)
153 smart00064 FYVE Protein presen 43.6 19 0.00042 25.8 2.1 36 156-191 10-46 (68)
154 KOG3842 Adaptor protein Pellin 42.8 11 0.00024 36.4 0.8 44 156-204 290-352 (429)
155 PF13465 zf-H2C2_2: Zinc-finge 42.1 5.1 0.00011 23.8 -1.0 11 3-13 15-25 (26)
156 PF07191 zinc-ribbons_6: zinc- 40.7 2.8 6.1E-05 31.5 -2.7 40 157-204 2-41 (70)
157 smart00647 IBR In Between Ring 39.3 17 0.00038 25.3 1.3 20 170-189 38-58 (64)
158 PRK11088 rrmA 23S rRNA methylt 38.6 18 0.0004 33.2 1.7 25 157-181 3-27 (272)
159 PF00096 zf-C2H2: Zinc finger, 38.4 6.5 0.00014 22.1 -0.9 11 3-13 1-11 (23)
160 PLN02189 cellulose synthase 37.8 24 0.00053 39.0 2.6 49 156-204 34-87 (1040)
161 KOG3842 Adaptor protein Pellin 37.7 26 0.00056 33.9 2.5 52 156-207 341-417 (429)
162 KOG1729 FYVE finger containing 37.2 9 0.0002 36.4 -0.6 33 158-190 216-248 (288)
163 KOG0824 Predicted E3 ubiquitin 36.9 54 0.0012 31.5 4.5 46 156-203 105-150 (324)
164 PF00412 LIM: LIM domain; Int 36.4 24 0.00052 24.1 1.6 40 159-207 1-40 (58)
165 PF10122 Mu-like_Com: Mu-like 35.7 13 0.00028 26.3 0.1 9 2-10 24-32 (51)
166 KOG1815 Predicted E3 ubiquitin 35.6 11 0.00025 37.5 -0.2 37 157-193 227-268 (444)
167 PF07649 C1_3: C1-like domain; 35.5 23 0.0005 21.6 1.2 29 158-186 2-30 (30)
168 PRK00398 rpoP DNA-directed RNA 35.0 16 0.00035 24.6 0.5 11 2-12 3-13 (46)
169 KOG4185 Predicted E3 ubiquitin 34.7 8.6 0.00019 35.8 -1.2 46 157-202 208-265 (296)
170 PRK00464 nrdR transcriptional 34.4 21 0.00046 30.8 1.3 16 3-18 1-16 (154)
171 PF04216 FdhE: Protein involve 34.3 4.8 0.0001 37.7 -3.0 45 156-201 172-219 (290)
172 KOG3113 Uncharacterized conser 34.2 33 0.00072 32.1 2.5 51 157-209 112-163 (293)
173 PLN02638 cellulose synthase A 33.0 33 0.00071 38.2 2.6 49 156-204 17-70 (1079)
174 PF03884 DUF329: Domain of unk 32.3 13 0.00028 26.9 -0.4 15 1-15 1-15 (57)
175 PF14255 Cys_rich_CPXG: Cystei 32.1 22 0.00048 25.1 0.8 17 3-19 1-17 (52)
176 KOG0956 PHD finger protein AF1 32.0 13 0.00029 39.2 -0.4 58 144-203 107-181 (900)
177 PF14787 zf-CCHC_5: GAG-polypr 31.8 23 0.0005 23.2 0.8 11 3-13 3-13 (36)
178 PLN02436 cellulose synthase A 31.2 36 0.00077 37.9 2.6 49 156-204 36-89 (1094)
179 KOG1729 FYVE finger containing 30.9 21 0.00045 33.9 0.7 52 154-205 166-226 (288)
180 PF13832 zf-HC5HC2H_2: PHD-zin 30.7 35 0.00075 26.9 1.9 31 156-188 55-87 (110)
181 KOG3726 Uncharacterized conser 29.9 29 0.00062 36.7 1.5 40 157-199 655-695 (717)
182 PF10497 zf-4CXXC_R1: Zinc-fin 29.8 41 0.0009 27.0 2.2 24 178-201 37-69 (105)
183 COG2093 DNA-directed RNA polym 29.8 25 0.00053 26.0 0.8 15 4-18 20-35 (64)
184 PF13894 zf-C2H2_4: C2H2-type 29.8 16 0.00034 20.0 -0.2 11 3-13 1-11 (24)
185 KOG2462 C2H2-type Zn-finger pr 29.3 24 0.00052 33.3 0.8 51 156-206 161-228 (279)
186 PF06750 DiS_P_DiS: Bacterial 29.3 55 0.0012 25.6 2.7 40 155-206 32-71 (92)
187 KOG2113 Predicted RNA binding 28.6 47 0.001 32.1 2.6 44 155-203 342-386 (394)
188 TIGR00627 tfb4 transcription f 28.3 1.1E+02 0.0024 28.9 5.1 18 112-129 202-219 (279)
189 PRK06835 DNA replication prote 28.3 30 0.00065 33.3 1.3 14 1-14 97-111 (329)
190 KOG1245 Chromatin remodeling c 28.3 21 0.00045 40.9 0.3 48 156-203 1108-1159(1404)
191 cd00729 rubredoxin_SM Rubredox 27.9 33 0.00072 21.8 1.1 8 194-201 19-26 (34)
192 COG1996 RPC10 DNA-directed RNA 27.9 28 0.00061 24.4 0.8 11 1-11 23-33 (49)
193 COG4847 Uncharacterized protei 27.0 56 0.0012 26.1 2.4 34 157-191 7-40 (103)
194 KOG2071 mRNA cleavage and poly 26.8 32 0.00069 35.7 1.2 46 144-189 499-556 (579)
195 KOG4323 Polycomb-like PHD Zn-f 26.8 31 0.00067 34.9 1.1 46 156-201 168-223 (464)
196 PF07754 DUF1610: Domain of un 26.8 27 0.00058 20.9 0.4 8 2-9 16-23 (24)
197 PLN02248 cellulose synthase-li 26.2 69 0.0015 35.9 3.7 54 156-209 124-182 (1135)
198 PRK06921 hypothetical protein; 26.1 34 0.00073 31.7 1.2 14 2-15 32-46 (266)
199 PF07860 CCD: WisP family C-Te 25.7 30 0.00066 28.1 0.7 24 245-268 50-73 (141)
200 TIGR01206 lysW lysine biosynth 25.6 34 0.00074 24.4 0.9 12 1-12 1-12 (54)
201 PRK05978 hypothetical protein; 25.3 44 0.00096 28.7 1.7 34 157-208 34-67 (148)
202 PRK11827 hypothetical protein; 24.8 28 0.0006 25.4 0.3 18 188-205 3-20 (60)
203 PLN02400 cellulose synthase 24.7 44 0.00095 37.2 1.9 49 156-204 36-89 (1085)
204 COG4416 Com Mu-like prophage p 24.3 30 0.00065 24.9 0.4 9 2-10 24-32 (60)
205 PF11023 DUF2614: Protein of u 24.1 61 0.0013 26.7 2.2 21 189-209 81-101 (114)
206 COG3813 Uncharacterized protei 23.6 71 0.0015 24.3 2.3 47 158-206 7-54 (84)
207 PLN02195 cellulose synthase A 23.5 76 0.0016 35.1 3.3 50 156-205 6-60 (977)
208 PF01667 Ribosomal_S27e: Ribos 23.3 21 0.00046 25.6 -0.6 9 1-9 6-14 (55)
209 PRK00415 rps27e 30S ribosomal 23.3 27 0.00058 25.5 -0.1 8 2-9 11-18 (59)
210 PF02318 FYVE_2: FYVE-type zin 23.0 45 0.00097 27.0 1.2 45 155-201 53-102 (118)
211 PF07282 OrfB_Zn_ribbon: Putat 23.0 62 0.0013 23.2 1.9 31 156-186 28-61 (69)
212 PF12760 Zn_Tnp_IS1595: Transp 23.0 43 0.00092 22.5 0.9 9 3-11 19-27 (46)
213 KOG2041 WD40 repeat protein [G 23.0 45 0.00097 35.8 1.5 23 177-203 1162-1184(1189)
214 PRK00432 30S ribosomal protein 22.9 37 0.0008 23.7 0.6 12 4-15 22-33 (50)
215 PF04423 Rad50_zn_hook: Rad50 22.6 21 0.00046 24.8 -0.7 12 4-15 22-33 (54)
216 PRK03564 formate dehydrogenase 22.4 31 0.00067 33.1 0.2 44 156-201 187-234 (309)
217 PF00130 C1_1: Phorbol esters/ 22.4 56 0.0012 22.1 1.4 36 153-188 8-45 (53)
218 TIGR03655 anti_R_Lar restricti 22.3 40 0.00087 23.4 0.7 7 4-10 3-9 (53)
219 smart00834 CxxC_CXXC_SSSS Puta 22.1 30 0.00066 22.1 0.1 14 2-15 5-18 (41)
220 PF01485 IBR: IBR domain; Int 22.0 13 0.00029 25.8 -1.8 32 158-189 20-58 (64)
221 KOG2487 RNA polymerase II tran 21.6 53 0.0011 31.2 1.5 54 111-168 219-285 (314)
222 COG5627 MMS21 DNA repair prote 21.5 45 0.00098 31.0 1.0 40 156-197 189-230 (275)
223 PF13771 zf-HC5HC2H: PHD-like 21.1 48 0.001 24.9 1.0 31 156-188 36-68 (90)
224 PF14354 Lar_restr_allev: Rest 20.7 57 0.0012 22.9 1.3 14 5-18 6-19 (61)
225 smart00355 ZnF_C2H2 zinc finge 20.7 50 0.0011 17.9 0.8 11 3-13 1-11 (26)
226 PLN02915 cellulose synthase A 20.2 93 0.002 34.6 3.2 49 156-204 15-68 (1044)
227 KOG1074 Transcriptional repres 20.1 47 0.001 36.0 0.9 61 155-215 604-690 (958)
228 COG3492 Uncharacterized protei 20.1 52 0.0011 26.1 1.0 11 181-191 43-53 (104)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=6.2e-16 Score=146.94 Aligned_cols=75 Identities=29% Similarity=0.674 Sum_probs=64.5
Q ss_pred CCCCcchHHHHHhCCccccCCc------ccccccccccccCCcceecCCCCcccHhhHHHHHhcCC-CCCcccccCCCCC
Q 039647 135 YGSLSAQKEVVKALPMVAIDQD------LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPICRYQLPSDN 207 (290)
Q Consensus 135 ~~~~pa~~~~i~~lp~~~~~~~------~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~~~ 207 (290)
+.-..+.|..++++|..++... ..|+||+|+|+.|++++.|||+|.||..||++||.++. .||+||.++....
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 3556788999999999988741 28999999999999999999999999999999997765 5999999887655
Q ss_pred cc
Q 039647 208 LK 209 (290)
Q Consensus 208 ~~ 209 (290)
..
T Consensus 282 ~~ 283 (348)
T KOG4628|consen 282 GS 283 (348)
T ss_pred CC
Confidence 43
No 2
>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=99.52 E-value=4e-15 Score=101.31 Aligned_cols=44 Identities=41% Similarity=0.985 Sum_probs=40.5
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
++|+||++.|..++.++.|+|+|.||..||..|++.+.+||+||
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 47999999999889999999999999999999999999999997
No 3
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=5.7e-13 Score=126.36 Aligned_cols=70 Identities=31% Similarity=0.640 Sum_probs=56.4
Q ss_pred chHHHHHhCCccccC----Ccccccccccc-cccC---------CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 140 AQKEVVKALPMVAID----QDLQCAVWLEE-FVMG---------NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 140 a~~~~i~~lp~~~~~----~~~~C~ICle~-f~~~---------~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
+.|+.-+.+|++..+ ++-.|.||+|+ |+.+ .+++.|||||+||.+|++.|++++++||+||.++.-
T Consensus 267 ~~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~if 346 (491)
T COG5243 267 ATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF 346 (491)
T ss_pred HhhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccc
Confidence 456666667776654 47899999999 5544 257999999999999999999999999999999765
Q ss_pred CCcc
Q 039647 206 DNLK 209 (290)
Q Consensus 206 ~~~~ 209 (290)
+...
T Consensus 347 d~~~ 350 (491)
T COG5243 347 DQSS 350 (491)
T ss_pred ccCC
Confidence 5444
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.24 E-value=5.7e-12 Score=114.97 Aligned_cols=64 Identities=27% Similarity=0.541 Sum_probs=52.1
Q ss_pred hHHHHHhCCccccC--------CcccccccccccccCCc-----ceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 141 QKEVVKALPMVAID--------QDLQCAVWLEEFVMGNE-----AKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 141 ~~~~i~~lp~~~~~--------~~~~C~ICle~f~~~~~-----~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
.+..++.+|.+..+ .+.+|+||++.+..... ++.++|+|.||..||.+|++.+.+||+||..+.
T Consensus 151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 68888999987533 35799999999875431 234469999999999999999999999999775
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=4.9e-12 Score=117.37 Aligned_cols=50 Identities=30% Similarity=0.941 Sum_probs=46.6
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcccccCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPS 205 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 205 (290)
..+|+|||+.|..+++.+.|||+|.||..||.+|+. -+..||+||.++++
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 479999999999999999999999999999999997 67789999999875
No 6
>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=99.22 E-value=6.2e-12 Score=94.97 Aligned_cols=45 Identities=33% Similarity=0.682 Sum_probs=36.0
Q ss_pred cccccccccccccC----------CcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647 156 DLQCAVWLEEFVMG----------NEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 156 ~~~C~ICle~f~~~----------~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
+..|+||++.|... -.+...+|+|.||..||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 45699999999322 2244557999999999999999999999997
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.13 E-value=9.5e-11 Score=103.47 Aligned_cols=58 Identities=21% Similarity=0.454 Sum_probs=45.9
Q ss_pred cccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc----------------CCCCCcccccCCCCCcccC
Q 039647 151 VAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF----------------HSSCPICRYQLPSDNLKVQ 211 (290)
Q Consensus 151 ~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~----------------~~~CP~CR~~l~~~~~~~~ 211 (290)
+...++.+|+||++.+++ ++.++|||.||..||..|+.. +..||+||..+........
T Consensus 13 ~~~~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 13 VDSGGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred ccCCCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 334457899999999865 677899999999999999852 2479999999977655443
No 8
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.97 E-value=4.9e-10 Score=74.29 Aligned_cols=44 Identities=34% Similarity=0.879 Sum_probs=36.3
Q ss_pred cccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccC
Q 039647 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQL 203 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l 203 (290)
+|+||++.+. +....++|+|.||..|+..|++. ...||+|+..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999983 33445559999999999999987 77899998754
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.96 E-value=3.8e-10 Score=78.77 Aligned_cols=46 Identities=30% Similarity=0.598 Sum_probs=40.0
Q ss_pred cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
+..|.||++.+.. +..+||+|. ||..|+..|++....||+||.++.
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 5789999998654 788999999 999999999999999999999874
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=8.2e-10 Score=99.42 Aligned_cols=52 Identities=23% Similarity=0.507 Sum_probs=42.5
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhc---CCCCCcccccCCCCCccc
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF---HSSCPICRYQLPSDNLKV 210 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~~~~~~ 210 (290)
..+|.||||.-++ +++..|||.||+.||.+||.. .+.||+||..+..+....
T Consensus 47 ~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP 101 (230)
T KOG0823|consen 47 FFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP 101 (230)
T ss_pred ceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence 5799999998554 667779999999999999974 456999999887665443
No 11
>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=98.92 E-value=6.4e-10 Score=73.78 Aligned_cols=39 Identities=33% Similarity=0.793 Sum_probs=33.3
Q ss_pred ccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcc
Q 039647 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPIC 199 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~C 199 (290)
|+||++.+.. .++.++|||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999875 34788999999999999999988899998
No 12
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=5.7e-10 Score=103.21 Aligned_cols=50 Identities=24% Similarity=0.640 Sum_probs=44.3
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL 208 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~ 208 (290)
.-.|.+||+.... +..+||||+||..||..|+..+..||+||..+...+.
T Consensus 239 ~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 239 TRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 4799999998654 7789999999999999999999999999998876653
No 13
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.86 E-value=1.4e-09 Score=73.73 Aligned_cols=38 Identities=32% Similarity=0.644 Sum_probs=30.0
Q ss_pred ccccccccccCCcceecCCCCcccHhhHHHHHhcC----CCCCcc
Q 039647 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH----SSCPIC 199 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~----~~CP~C 199 (290)
|+||++.|.. ++.|+|||.|+..||..|++.. ..||+|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999986 8899999999999999999643 369988
No 14
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1e-09 Score=111.18 Aligned_cols=49 Identities=41% Similarity=0.874 Sum_probs=44.7
Q ss_pred cccccccccccccCCc--ceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNE--AKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~--~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
+..|+||+|++..+.+ ++.|||+|+||..|+..|++++++||+||..+.
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 6899999999988765 889999999999999999999999999999443
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.83 E-value=2.2e-09 Score=83.11 Aligned_cols=51 Identities=27% Similarity=0.599 Sum_probs=39.3
Q ss_pred Ccccccccccccc--------cCC--cceecCCCCcccHhhHHHHHhc---CCCCCcccccCCC
Q 039647 155 QDLQCAVWLEEFV--------MGN--EAKQMPYKHKFHGECLMPWLEF---HSSCPICRYQLPS 205 (290)
Q Consensus 155 ~~~~C~ICle~f~--------~~~--~~~~lpC~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~ 205 (290)
+++.|.||+..|. .|+ .++.-.|+|.||..||.+||.. +..||+||..+..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 4789999999997 222 1233359999999999999974 5689999997653
No 16
>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=98.80 E-value=4.7e-09 Score=75.80 Aligned_cols=48 Identities=19% Similarity=0.411 Sum_probs=42.3
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
..|+||++.+.. ++.++|||+|+..||.+|++.+..||+|+..+...+
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 579999999876 578899999999999999988899999998885544
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.72 E-value=7.1e-09 Score=70.62 Aligned_cols=44 Identities=25% Similarity=0.573 Sum_probs=38.7
Q ss_pred cccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY 201 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~ 201 (290)
.|.||++.|.....+..++|||+||..||..+......||+||+
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 59999999965567889999999999999999966778999985
No 18
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.72 E-value=5.2e-09 Score=90.92 Aligned_cols=51 Identities=20% Similarity=0.482 Sum_probs=42.7
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
...|+|||+.|.... +....|||+||..||+.-++....||+|++.|..+.
T Consensus 131 ~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 379999999998532 345679999999999999999999999998776543
No 19
>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=98.70 E-value=1.1e-08 Score=65.33 Aligned_cols=38 Identities=37% Similarity=0.981 Sum_probs=33.0
Q ss_pred ccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcc
Q 039647 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPIC 199 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~C 199 (290)
|+||++.. ..+..++|+|.||..|+..|++ ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 88999983 3478899999999999999998 66679987
No 20
>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=98.70 E-value=9.5e-09 Score=68.39 Aligned_cols=39 Identities=38% Similarity=0.874 Sum_probs=33.5
Q ss_pred ccccccccccCCcceecCCCCcccHhhHHHHHh--cCCCCCcc
Q 039647 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE--FHSSCPIC 199 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~--~~~~CP~C 199 (290)
|+||++.+... ...++|+|.||..||..|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998762 35889999999999999998 55679998
No 21
>PHA02926 zinc finger-like protein; Provisional
Probab=98.69 E-value=9.8e-09 Score=92.23 Aligned_cols=50 Identities=22% Similarity=0.529 Sum_probs=37.9
Q ss_pred CcccccccccccccCC-----cceec-CCCCcccHhhHHHHHhcC------CCCCcccccCC
Q 039647 155 QDLQCAVWLEEFVMGN-----EAKQM-PYKHKFHGECLMPWLEFH------SSCPICRYQLP 204 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~-----~~~~l-pC~H~FH~~CI~~Wl~~~------~~CP~CR~~l~ 204 (290)
.+.+|+||+|..-... ....| +|+|.||..||..|.+.+ .+||+||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4689999999863321 12344 599999999999999753 45999998765
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=98.67 E-value=1.4e-08 Score=98.89 Aligned_cols=51 Identities=24% Similarity=0.537 Sum_probs=43.9
Q ss_pred cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD 206 (290)
Q Consensus 153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 206 (290)
+.....|+||++.|.. ++.++|+|.||..||..|+.....||+|+..+...
T Consensus 23 Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 4456899999999975 56789999999999999998888999999877643
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.42 E-value=1.5e-07 Score=71.72 Aligned_cols=32 Identities=28% Similarity=0.714 Sum_probs=28.5
Q ss_pred CCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 176 PYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 176 pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
-|.|.||..||.+||..+..||++|+++...+
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 39999999999999999999999999775543
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=9.4e-08 Score=87.70 Aligned_cols=60 Identities=28% Similarity=0.587 Sum_probs=46.7
Q ss_pred HHHhCCccccCCcccccccccccccCCcceecCCCCcccHhhHHH-HHhcCCC-CCcccccCCCCC
Q 039647 144 VVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMP-WLEFHSS-CPICRYQLPSDN 207 (290)
Q Consensus 144 ~i~~lp~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~-Wl~~~~~-CP~CR~~l~~~~ 207 (290)
..+.+|... ..+..|.||++..+. +..++|||+||..||.. |-.++.. ||+||..+..++
T Consensus 204 ~kn~~pfip-~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 204 KKNGLPFIP-LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccCCccc-ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 334444444 457899999998664 78899999999999999 8876665 999998776544
No 25
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=1.1e-07 Score=94.03 Aligned_cols=62 Identities=27% Similarity=0.526 Sum_probs=47.1
Q ss_pred CCccccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-----CCCCCcccccCCCCCcccCC
Q 039647 148 LPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-----HSSCPICRYQLPSDNLKVQG 212 (290)
Q Consensus 148 lp~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~~~~~~~~ 212 (290)
++.+.+..+..|+||++.... +..+.|||+||..||.++|.. ...||+|+..+..++.....
T Consensus 178 i~qv~~~t~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~ 244 (513)
T KOG2164|consen 178 IFQVYGSTDMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVF 244 (513)
T ss_pred hhhhhcCcCCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeee
Confidence 333444448899999998765 556669999999999998854 35799999988887655443
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.35 E-value=2.8e-07 Score=62.81 Aligned_cols=34 Identities=26% Similarity=0.490 Sum_probs=21.9
Q ss_pred cccccccccc-CCcceecCCCCcccHhhHHHHHhcC
Q 039647 159 CAVWLEEFVM-GNEAKQMPYKHKFHGECLMPWLEFH 193 (290)
Q Consensus 159 C~ICle~f~~-~~~~~~lpC~H~FH~~CI~~Wl~~~ 193 (290)
|+||++ |.. ...++.|+|||+|+.+||.+|++..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 754 4457899999999999999999743
No 27
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.33 E-value=1.4e-07 Score=89.13 Aligned_cols=51 Identities=25% Similarity=0.662 Sum_probs=45.3
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL 208 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~ 208 (290)
.-+.|.||.+.|.+ +..+||+|.||.-||..+|..+..||.|+.++.+...
T Consensus 22 ~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 22 DLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 34799999999997 7889999999999999999999999999988765543
No 28
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.30 E-value=1.8e-07 Score=97.59 Aligned_cols=54 Identities=30% Similarity=0.684 Sum_probs=41.7
Q ss_pred cccCCcccccccccccccCC---cceecC-CCCcccHhhHHHHHhc--CCCCCcccccCC
Q 039647 151 VAIDQDLQCAVWLEEFVMGN---EAKQMP-YKHKFHGECLMPWLEF--HSSCPICRYQLP 204 (290)
Q Consensus 151 ~~~~~~~~C~ICle~f~~~~---~~~~lp-C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~ 204 (290)
.++++..+|+||+..+..-+ .-+.++ |+|.||..|+.+|++. ..+||+||.+++
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34556789999999887322 123444 9999999999999974 568999998775
No 29
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=1.9e-07 Score=85.96 Aligned_cols=61 Identities=23% Similarity=0.522 Sum_probs=47.1
Q ss_pred CCccccCCcccccccccccccCC-------cceecCCCCcccHhhHHHHH--hcCCCCCcccccCCCCCcc
Q 039647 148 LPMVAIDQDLQCAVWLEEFVMGN-------EAKQMPYKHKFHGECLMPWL--EFHSSCPICRYQLPSDNLK 209 (290)
Q Consensus 148 lp~~~~~~~~~C~ICle~f~~~~-------~~~~lpC~H~FH~~CI~~Wl--~~~~~CP~CR~~l~~~~~~ 209 (290)
+|+.-+ ++..|+||-..+.... +.-+|.|+|+||..||+-|- ..+++||.|+..+..+..-
T Consensus 217 lPtkhl-~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf 286 (328)
T KOG1734|consen 217 LPTKHL-SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF 286 (328)
T ss_pred CCCCCC-CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence 444333 3679999998886554 56789999999999999997 4678999999877655433
No 30
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.26 E-value=6.2e-07 Score=62.70 Aligned_cols=42 Identities=24% Similarity=0.595 Sum_probs=33.4
Q ss_pred cccccccccccCCcceecCCC-----CcccHhhHHHHHhc--CCCCCccc
Q 039647 158 QCAVWLEEFVMGNEAKQMPYK-----HKFHGECLMPWLEF--HSSCPICR 200 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~Wl~~--~~~CP~CR 200 (290)
.|-||++ +..++.+..+||. |.+|..|+.+|+.. +.+||+|+
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 4899999 4444556788985 88999999999954 45899995
No 31
>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=98.23 E-value=5.7e-07 Score=67.72 Aligned_cols=51 Identities=22% Similarity=0.409 Sum_probs=40.1
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCCc
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDNL 208 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~~ 208 (290)
+...|+||.+.|.+ ++.+||||.|.+.||..||+. +.+||+|+..+...+.
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence 35789999999986 789999999999999999988 8899999988876543
No 32
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=2.4e-07 Score=70.07 Aligned_cols=50 Identities=28% Similarity=0.650 Sum_probs=37.1
Q ss_pred cccccccccccc--------cCC-cceecC-CCCcccHhhHHHHHhc---CCCCCcccccCCC
Q 039647 156 DLQCAVWLEEFV--------MGN-EAKQMP-YKHKFHGECLMPWLEF---HSSCPICRYQLPS 205 (290)
Q Consensus 156 ~~~C~ICle~f~--------~~~-~~~~lp-C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~ 205 (290)
++.|-||.-.|. .|+ -+.++- |.|.||..||.+|+.. +..||+||+++..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 468999998885 222 233333 9999999999999953 4579999987643
No 33
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=6.2e-07 Score=80.06 Aligned_cols=45 Identities=36% Similarity=0.704 Sum_probs=39.9
Q ss_pred cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
+.+...|+||++.|... +.+||+|.||..||..++.....||.||
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 34568999999999874 8999999999999999998666899999
No 34
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=7.8e-07 Score=87.66 Aligned_cols=50 Identities=28% Similarity=0.822 Sum_probs=39.6
Q ss_pred cccccccccccccCCc--------------ceecCCCCcccHhhHHHHHh-cCCCCCcccccCCC
Q 039647 156 DLQCAVWLEEFVMGNE--------------AKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPS 205 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~--------------~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 205 (290)
...|+||+..+..-.. -...||.|+||..|+.+|.. .+-.||+||..++.
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4699999988752211 13458999999999999998 56699999999874
No 35
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.12 E-value=9.7e-07 Score=82.15 Aligned_cols=48 Identities=21% Similarity=0.419 Sum_probs=42.7
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
.-+.|-||.+.|.+ +...+|||.||.-||...|..+..||+||.+...
T Consensus 24 s~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 24 SMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence 34799999999987 6778899999999999999999999999986653
No 36
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.03 E-value=1.1e-06 Score=65.94 Aligned_cols=49 Identities=24% Similarity=0.553 Sum_probs=22.9
Q ss_pred cccccccccccc-cCCcc-eec---CCCCcccHhhHHHHHhc----C-------CCCCcccccCC
Q 039647 156 DLQCAVWLEEFV-MGNEA-KQM---PYKHKFHGECLMPWLEF----H-------SSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~-~~~~~-~~l---pC~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~ 204 (290)
+.+|.||+..+. .++.+ +.. .|++.||..||..||.. + ..||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999876 33222 233 49999999999999962 1 14999998774
No 37
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.03 E-value=3.3e-06 Score=79.74 Aligned_cols=53 Identities=19% Similarity=0.250 Sum_probs=39.1
Q ss_pred cccccccccc--cccCCcceecCCCCcccHhhHHHHH-hcCCCCCcccccCCCCCc
Q 039647 156 DLQCAVWLEE--FVMGNEAKQMPYKHKFHGECLMPWL-EFHSSCPICRYQLPSDNL 208 (290)
Q Consensus 156 ~~~C~ICle~--f~~~~~~~~lpC~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~~~~ 208 (290)
+..|+||+.. +...-+..+.+|||.||..||...| .....||+|+..+.....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~f 58 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNF 58 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhc
Confidence 4689999995 3332223333799999999999976 455689999988876653
No 38
>PF14369 zf-RING_3: zinc-finger
Probab=97.95 E-value=3.5e-06 Score=54.96 Aligned_cols=14 Identities=43% Similarity=0.899 Sum_probs=12.8
Q ss_pred cCCCCCCCCceeec
Q 039647 3 SKFPFCETGFVEQM 16 (290)
Q Consensus 3 ~~Cp~C~~GFvEe~ 16 (290)
++||+|++||||||
T Consensus 22 ~~CP~C~~gFvEei 35 (35)
T PF14369_consen 22 VACPRCHGGFVEEI 35 (35)
T ss_pred cCCcCCCCcEeEeC
Confidence 45999999999998
No 39
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=5e-06 Score=66.42 Aligned_cols=29 Identities=28% Similarity=0.668 Sum_probs=26.3
Q ss_pred CCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 176 PYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 176 pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
-|.|.||..||.+||+.++.||+|.++..
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 49999999999999999999999977653
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=7.7e-06 Score=78.77 Aligned_cols=49 Identities=29% Similarity=0.679 Sum_probs=36.6
Q ss_pred ccccccccccccCCcceecC-CCCcccHhhHHHHHhc---CCCCCcccccCCC
Q 039647 157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEF---HSSCPICRYQLPS 205 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~ 205 (290)
..|.||.+-+-....+..+. |||+||..|+.+|++. ...||+|+-.++.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~ 57 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE 57 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence 58999965555444454454 9999999999999974 3579999844443
No 41
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.82 E-value=7.9e-06 Score=76.42 Aligned_cols=89 Identities=18% Similarity=0.369 Sum_probs=63.7
Q ss_pred ccHHHHHHHHHhcCCCCCCCCcchHHHHHhCCccccCC---cccccccccccccCCcceecCCCCcccHhhHHHHHhc--
Q 039647 118 PGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQ---DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-- 192 (290)
Q Consensus 118 ~~l~~ll~~l~~~~~~~~~~~pa~~~~i~~lp~~~~~~---~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-- 192 (290)
+-|.+|.+++.+.-....| -|.--+.|+......-.. .-.|.|||--|..++...+++|-|.||..|+..+|..
T Consensus 75 ~~~~~i~~~~~~iikq~~g-~pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~ 153 (368)
T KOG4445|consen 75 PEFREIQRQIQEIIKQNSG-MPIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECL 153 (368)
T ss_pred HHHHHHHHHHHHHHHhcCC-CchhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHH
Confidence 4667777776554333445 455566666655443332 4799999999999998899999999999999887631
Q ss_pred ---------------------CCCCCcccccCCCCC
Q 039647 193 ---------------------HSSCPICRYQLPSDN 207 (290)
Q Consensus 193 ---------------------~~~CP~CR~~l~~~~ 207 (290)
..+||+||..|..+.
T Consensus 154 ~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 154 TGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred HHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 226999999876543
No 42
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=3.3e-06 Score=80.47 Aligned_cols=53 Identities=25% Similarity=0.473 Sum_probs=42.3
Q ss_pred cccCCcccccccccccccCCcceecC-CCCcccHhhHHHHHh-cCCCCCcccccCCCC
Q 039647 151 VAIDQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLE-FHSSCPICRYQLPSD 206 (290)
Q Consensus 151 ~~~~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~ 206 (290)
..+..+..|+|||+.++. .+..+ |.|.||.+||..-++ ..+.||.||+.+..+
T Consensus 38 ~~~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred HHhhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 344557899999999875 33444 999999999999985 577999999987654
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.70 E-value=8.4e-06 Score=59.98 Aligned_cols=49 Identities=16% Similarity=0.455 Sum_probs=25.3
Q ss_pred cccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647 156 DLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK 209 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 209 (290)
-..|++|.+.++. ++.| .|.|+||..||..-+.. .||+|+.+...++..
T Consensus 7 lLrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 7 LLRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS--
T ss_pred hcCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHH
Confidence 4789999999875 4444 49999999999885543 499999887766643
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=2.2e-05 Score=73.47 Aligned_cols=48 Identities=19% Similarity=0.382 Sum_probs=39.9
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSD 206 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~ 206 (290)
..+|+||+.... .++.|+|+|+||..||+--.+. +.+|++||.++...
T Consensus 7 ~~eC~IC~nt~n---~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGN---CPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCC---cCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 469999998754 4689999999999999987754 55699999998764
No 45
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=3.5e-05 Score=73.62 Aligned_cols=48 Identities=23% Similarity=0.460 Sum_probs=41.3
Q ss_pred cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPSD 206 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~ 206 (290)
..+|.|||.+-.+ +..|||-|. .|..|.+..--+++.||+||..+..-
T Consensus 290 gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 290 GKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred CCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 5799999998665 889999998 79999988777889999999987543
No 46
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.61 E-value=2.4e-05 Score=76.68 Aligned_cols=54 Identities=35% Similarity=0.746 Sum_probs=40.5
Q ss_pred CccccCCcccccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 149 PMVAIDQDLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 149 p~~~~~~~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
|...+.+-.+|+||||-+.... -++...|.|.||-.|+.+|.. .+||+||.-..
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 4444455679999999986533 234555999999999999974 46999998554
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.59 E-value=1.5e-05 Score=82.43 Aligned_cols=52 Identities=23% Similarity=0.399 Sum_probs=45.4
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
...|++|+..|.++......+|+|.||..||..|-+..++||+||..+....
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 3689999999988776677789999999999999999999999999875543
No 48
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=7.6e-05 Score=71.80 Aligned_cols=62 Identities=19% Similarity=0.458 Sum_probs=43.1
Q ss_pred HHHHhCCccccCCcccccccccccccCC----cceecC-CCCcccHhhHHHHH--hc-----CCCCCcccccCC
Q 039647 143 EVVKALPMVAIDQDLQCAVWLEEFVMGN----EAKQMP-YKHKFHGECLMPWL--EF-----HSSCPICRYQLP 204 (290)
Q Consensus 143 ~~i~~lp~~~~~~~~~C~ICle~f~~~~----~~~~lp-C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~l~ 204 (290)
..++..-...-..+.+|.||++...... .-..|| |.|.||..||..|- .+ ...||.||....
T Consensus 148 ~~~e~~~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 148 SAMERSFALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred HhhhhccCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 3344433333466789999999865422 013445 99999999999999 44 468999987553
No 49
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=4.1e-05 Score=79.17 Aligned_cols=52 Identities=23% Similarity=0.434 Sum_probs=42.6
Q ss_pred cCCcccccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcccccCCCCC
Q 039647 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPSDN 207 (290)
Q Consensus 153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~ 207 (290)
|.+-+.|++|-.-+++ ++...|+|+||..||..-+. ++..||.|...|-.-+
T Consensus 640 yK~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 640 YKELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HHhceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 3456899999977765 56667999999999999995 6778999998886654
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=0.00011 Score=71.32 Aligned_cols=47 Identities=21% Similarity=0.658 Sum_probs=36.9
Q ss_pred cccccccccccccCC--cceecCCCCcccHhhHHHHHh--cCCCCCccccc
Q 039647 156 DLQCAVWLEEFVMGN--EAKQMPYKHKFHGECLMPWLE--FHSSCPICRYQ 202 (290)
Q Consensus 156 ~~~C~ICle~f~~~~--~~~~lpC~H~FH~~CI~~Wl~--~~~~CP~CR~~ 202 (290)
..+|+||++.|+... .+..+.|+|.|...||.+||. ....||.|..+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 368999999997433 345566999999999999995 24479999753
No 51
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=7.3e-05 Score=53.31 Aligned_cols=46 Identities=24% Similarity=0.472 Sum_probs=35.4
Q ss_pred cccccccccccccCCcceecCCCCc-ccHhhHHHHHh-cCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLE-FHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~-~~~~CP~CR~~l~ 204 (290)
+++|.||+|.-.+ .+...|||. .|.+|-...++ .+..||+||.++.
T Consensus 7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 4799999987432 345569997 68888777665 7899999998764
No 52
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=0.00019 Score=70.38 Aligned_cols=49 Identities=29% Similarity=0.578 Sum_probs=43.2
Q ss_pred CCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
..+.+|.||+..|.. ++.+||||.||..||..-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCccccccccc
Confidence 346899999998875 6778999999999999988888899999998875
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.14 E-value=0.00023 Score=69.76 Aligned_cols=55 Identities=25% Similarity=0.581 Sum_probs=45.5
Q ss_pred cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK 209 (290)
Q Consensus 153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 209 (290)
+++++.|++|...+.+.. ....|+|.||..|+..|+..+..||.|+..+...+..
T Consensus 18 ~~~~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred CcccccCccccccccCCC--CCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 566799999999988632 2257999999999999999999999998877665544
No 54
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.95 E-value=0.00024 Score=67.35 Aligned_cols=50 Identities=20% Similarity=0.500 Sum_probs=41.4
Q ss_pred CCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647 154 DQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLPSD 206 (290)
Q Consensus 154 ~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 206 (290)
....+|.+|...|-+ +.... |-|.||+.||...|+....||+|...+-..
T Consensus 13 n~~itC~LC~GYliD---ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLID---ATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeec---chhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 346899999999976 33444 999999999999999999999998766544
No 55
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.84 E-value=0.00047 Score=49.72 Aligned_cols=41 Identities=24% Similarity=0.596 Sum_probs=28.3
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhc--CCCCCc
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--HSSCPI 198 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~ 198 (290)
...|+|.+..|+. .++...|+|.|-+..|..||+. ...||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 5799999999885 4566679999999999999943 446998
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.74 E-value=0.00057 Score=66.40 Aligned_cols=50 Identities=24% Similarity=0.599 Sum_probs=41.6
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhc--CCCCCcccccCCCCCcc
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--HSSCPICRYQLPSDNLK 209 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~~~~ 209 (290)
..|.||-|. +..+++=||||..|..|+..|-.. .++||.||.++...+..
T Consensus 370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 589999976 344888899999999999999943 67999999999876543
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.69 E-value=0.00056 Score=66.29 Aligned_cols=46 Identities=37% Similarity=0.671 Sum_probs=38.0
Q ss_pred cccccccccccccCC-cceecCCCCcccHhhHHHHHhc--CCCCCcccc
Q 039647 156 DLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEF--HSSCPICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~CR~ 201 (290)
.+-|..|-+.+-..+ ....|||.|+||..|+...|+. ..+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 478999999886443 4677899999999999999975 458999984
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.61 E-value=0.00071 Score=60.30 Aligned_cols=46 Identities=13% Similarity=0.321 Sum_probs=40.1
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
...|.||.++|+. ++...|||.||..|...-++....|-+|-+...
T Consensus 196 PF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred ceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 3689999999986 677789999999999999999999999976543
No 59
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.55 E-value=0.00048 Score=59.52 Aligned_cols=28 Identities=21% Similarity=0.532 Sum_probs=26.4
Q ss_pred cccccccccccccCCcceecCCCCcccH
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHG 183 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~ 183 (290)
.-+|.||||+++.|+++..|||-.+||+
T Consensus 177 kGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred CCcEEEEhhhccCCCceeccceEEEeec
Confidence 3699999999999999999999999997
No 60
>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=96.41 E-value=0.00095 Score=52.59 Aligned_cols=36 Identities=22% Similarity=0.356 Sum_probs=30.6
Q ss_pred cccCCcccccccccccccCCcceecCCCCcccHhhHH
Q 039647 151 VAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLM 187 (290)
Q Consensus 151 ~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~ 187 (290)
+.+++...|+||...+.. ......||+|+||..|+.
T Consensus 73 v~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 73 VVITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EEECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 456778899999999876 557888999999999975
No 61
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.41 E-value=0.0021 Score=70.59 Aligned_cols=50 Identities=32% Similarity=0.562 Sum_probs=40.6
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcC----------CCCCcccccCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH----------SSCPICRYQLP 204 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~----------~~CP~CR~~l~ 204 (290)
.++.|.||.-+--.....+.|-|+|+||..|...-|+.. -+||+|+.++.
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 468999999876665678899999999999998777642 26999998774
No 62
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.23 E-value=0.0032 Score=43.52 Aligned_cols=40 Identities=28% Similarity=0.600 Sum_probs=27.2
Q ss_pred ccccccccccCCcceecCCC--C---cccHhhHHHHHh--cCCCCCcc
Q 039647 159 CAVWLEEFVMGNEAKQMPYK--H---KFHGECLMPWLE--FHSSCPIC 199 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~--H---~FH~~CI~~Wl~--~~~~CP~C 199 (290)
|-||++.-.... ....||. - .-|..|+..|+. ....|++|
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 779999876544 5667854 3 679999999996 45679887
No 63
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.17 E-value=0.0017 Score=54.48 Aligned_cols=35 Identities=11% Similarity=0.377 Sum_probs=29.8
Q ss_pred cccccccccccccCCcceecCCC------CcccHhhHHHHH
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYK------HKFHGECLMPWL 190 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~------H~FH~~CI~~Wl 190 (290)
..+|.||++.+...+-++.++|+ |.||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 47999999999874557777876 889999999994
No 64
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.07 E-value=0.0033 Score=66.02 Aligned_cols=48 Identities=21% Similarity=0.534 Sum_probs=35.9
Q ss_pred CCcccccccccccccCCcceec-CCCCcccHhhHHHHHhcCC-------CCCcccc
Q 039647 154 DQDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHS-------SCPICRY 201 (290)
Q Consensus 154 ~~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~-------~CP~CR~ 201 (290)
....+|.||++.+.....+=.. .|-|+||..||..|..... .||.|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 3457999999998764433222 3899999999999996421 4999984
No 65
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.00 E-value=0.0047 Score=56.12 Aligned_cols=51 Identities=20% Similarity=0.401 Sum_probs=41.3
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhc--------CCCCCcccccCCCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--------HSSCPICRYQLPSDN 207 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--------~~~CP~CR~~l~~~~ 207 (290)
..-|..|.-.+..|+. +.|-|-|.||..|+..|-.. ...||.|..++....
T Consensus 50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 4689999999998875 56779999999999999853 336999998876543
No 66
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.97 E-value=0.0031 Score=63.33 Aligned_cols=51 Identities=22% Similarity=0.486 Sum_probs=40.9
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhc-----CCCCCcccccCCCCCc
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-----HSSCPICRYQLPSDNL 208 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~~~~ 208 (290)
+..+|.+|.+.-++ .....|.|.||+.||..+... ..+||+|...+..+..
T Consensus 535 ~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 535 GEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred CceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 45799999988554 677889999999999998852 4589999887766543
No 67
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.95 E-value=0.0034 Score=61.34 Aligned_cols=36 Identities=25% Similarity=0.479 Sum_probs=31.8
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHh
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE 191 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~ 191 (290)
...|.||+++..-....+.+||+|+||+.|+..++.
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 369999999976547789999999999999999996
No 68
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.95 E-value=0.0058 Score=57.61 Aligned_cols=42 Identities=26% Similarity=0.510 Sum_probs=34.5
Q ss_pred ccccccccccccCCcceecC-CCCcccHhhHHHHH-hcCCCCCcccc
Q 039647 157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWL-EFHSSCPICRY 201 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl-~~~~~CP~CR~ 201 (290)
+.|+.|...+.. +...| |+|.||.+||..-| .....||.|..
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 899999988765 44556 99999999999877 56778999944
No 69
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.89 E-value=0.0038 Score=60.04 Aligned_cols=44 Identities=30% Similarity=0.496 Sum_probs=33.7
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
....|.||+++.+. .+.+||||.-| |+.--.. ..+||+||..+.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 35899999999775 88999999976 6655333 334999998764
No 70
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.88 E-value=0.0026 Score=59.71 Aligned_cols=46 Identities=17% Similarity=0.314 Sum_probs=40.3
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
..|-||...|.. +++..|+|.||..|...-++....|.+|-+.+..
T Consensus 242 f~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred cccccccccccc---chhhcCCceeehhhhccccccCCcceeccccccc
Confidence 579999999986 6778899999999999999998999999776543
No 71
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.83 E-value=0.006 Score=42.53 Aligned_cols=45 Identities=22% Similarity=0.323 Sum_probs=22.1
Q ss_pred ccccccccccCC-cceecCCCCcccHhhHHHHHh-cCCCCCcccccC
Q 039647 159 CAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQL 203 (290)
Q Consensus 159 C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l 203 (290)
|++|.+++...+ ...-.+|++..+..|...-++ ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984322 333444899999999777775 577899999864
No 72
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.79 E-value=0.0098 Score=57.27 Aligned_cols=51 Identities=18% Similarity=0.259 Sum_probs=42.5
Q ss_pred CCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
.++..|+||+-.- -.++..||+|.-|..||.+.|...+.|=.|+..+....
T Consensus 420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~~ 470 (489)
T KOG4692|consen 420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDVI 470 (489)
T ss_pred cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeeehh
Confidence 3678999998652 23678899999999999999999999999998876543
No 73
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.67 E-value=0.009 Score=55.68 Aligned_cols=49 Identities=18% Similarity=0.273 Sum_probs=37.8
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHh--cCCCCCcccccCCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE--FHSSCPICRYQLPS 205 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~--~~~~CP~CR~~l~~ 205 (290)
.+.+|++|.+.-... -...+|+|+||.-||..-+. ..-+||.|-..+..
T Consensus 238 ~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 238 SDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred CCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 468999999885542 34556999999999998765 34689999876653
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.46 E-value=0.011 Score=54.35 Aligned_cols=54 Identities=15% Similarity=0.230 Sum_probs=46.6
Q ss_pred ccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCCCccc
Q 039647 157 LQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKV 210 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~~ 210 (290)
..|+||.+.+........| ||||+|+.+|+.+.+..-..||+|-.++...+...
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence 6899999999876655555 59999999999999999999999999888877654
No 75
>PHA02862 5L protein; Provisional
Probab=95.42 E-value=0.01 Score=50.44 Aligned_cols=46 Identities=13% Similarity=0.312 Sum_probs=34.6
Q ss_pred cccccccccccccCCcceecCCC-----CcccHhhHHHHHh--cCCCCCcccccCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYK-----HKFHGECLMPWLE--FHSSCPICRYQLPS 205 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~Wl~--~~~~CP~CR~~l~~ 205 (290)
+..|=||+++-++ . .-||. ..-|..|+.+|+. ++..|++|+.++.-
T Consensus 2 ~diCWIC~~~~~e--~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDE--R--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCC--C--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 3589999998432 2 35654 4689999999996 46689999987753
No 76
>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=95.38 E-value=0.0074 Score=41.01 Aligned_cols=41 Identities=22% Similarity=0.614 Sum_probs=24.4
Q ss_pred ccccccccccCCcceecCCCCcccHhhHHHHHhcCC--CCCcc
Q 039647 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS--SCPIC 199 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~--~CP~C 199 (290)
|.+|.+....|..-..-.|.=.+|..|+..+++... .||.|
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 788999888765433334999999999999997655 79988
No 77
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.18 E-value=0.0018 Score=62.73 Aligned_cols=49 Identities=22% Similarity=0.444 Sum_probs=43.2
Q ss_pred ccccccccccccC-CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 157 LQCAVWLEEFVMG-NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 157 ~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
..|+||.+.|+.. ++...+-|||.+|.+||.+||.....||.|+.+++.
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 5899999998865 567778899999999999999988899999988764
No 78
>PHA03096 p28-like protein; Provisional
Probab=94.82 E-value=0.015 Score=54.86 Aligned_cols=45 Identities=22% Similarity=0.358 Sum_probs=32.3
Q ss_pred ccccccccccccCC----cceecC-CCCcccHhhHHHHHhc---CCCCCcccc
Q 039647 157 LQCAVWLEEFVMGN----EAKQMP-YKHKFHGECLMPWLEF---HSSCPICRY 201 (290)
Q Consensus 157 ~~C~ICle~f~~~~----~~~~lp-C~H~FH~~CI~~Wl~~---~~~CP~CR~ 201 (290)
..|.||++...... .-..|+ |.|.||..||..|-.. ..+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 68999999876432 224566 9999999999999853 334555543
No 79
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.72 E-value=0.025 Score=48.87 Aligned_cols=48 Identities=25% Similarity=0.464 Sum_probs=34.7
Q ss_pred CcccccccccccccCCcceecCCC--C---cccHhhHHHHHhc--CCCCCcccccCCCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYK--H---KFHGECLMPWLEF--HSSCPICRYQLPSD 206 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~--H---~FH~~CI~~Wl~~--~~~CP~CR~~l~~~ 206 (290)
.+..|=||.++.. .. .-||. . .-|.+|+..|+.. ...|++|+.++.-.
T Consensus 7 ~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 7 MDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 3579999998843 22 34654 4 4599999999963 55799998877543
No 80
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.68 E-value=0.022 Score=50.19 Aligned_cols=51 Identities=22% Similarity=0.483 Sum_probs=36.9
Q ss_pred ccccccccccccCCcc----eecCCCCcccHhhHHHHHhc----C-------CCCCcccccCCCCC
Q 039647 157 LQCAVWLEEFVMGNEA----KQMPYKHKFHGECLMPWLEF----H-------SSCPICRYQLPSDN 207 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~----~~lpC~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~~~~ 207 (290)
..|-||+-.--.|..+ -...|+.-||.-|+..||+. + ..||.|..++..+.
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 5799998765554432 23459999999999999973 1 14999988876543
No 81
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.30 E-value=0.026 Score=52.69 Aligned_cols=47 Identities=19% Similarity=0.444 Sum_probs=39.4
Q ss_pred ccccccccccccCC---cceecCCCCcccHhhHHHHHh-cCCCCCcccccC
Q 039647 157 LQCAVWLEEFVMGN---EAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQL 203 (290)
Q Consensus 157 ~~C~ICle~f~~~~---~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l 203 (290)
..|-||-++|..++ .++.|.|||.|+..|+.+-+. ....||-||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 58999999998763 367788999999999998885 455799999975
No 82
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.23 E-value=0.057 Score=50.06 Aligned_cols=88 Identities=19% Similarity=0.343 Sum_probs=57.5
Q ss_pred cHHHHHHHHHhcCCCCCCCCcchHHHHHhCCc---ccc-----------------CCcccccccccccccCCcceec-CC
Q 039647 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPM---VAI-----------------DQDLQCAVWLEEFVMGNEAKQM-PY 177 (290)
Q Consensus 119 ~l~~ll~~l~~~~~~~~~~~pa~~~~i~~lp~---~~~-----------------~~~~~C~ICle~f~~~~~~~~l-pC 177 (290)
..+.||+.|+.-... ...+..-.-|..|.. +.+ .....|+|+..+|......+.| ||
T Consensus 58 nKeaile~Ll~~~~~--~~~~~~~~hI~~LKDl~~l~~~~n~~~~~~~~~~~~~~~~~~~CPvt~~~~~~~~~fv~l~~c 135 (260)
T PF04641_consen 58 NKEAILEFLLDKKKN--KDLPKTFSHIKSLKDLVELKFTKNPSYKEEDKSSGDNSEGRFICPVTGKEFNGKHKFVYLRPC 135 (260)
T ss_pred cHHHHHHHHHhcCcC--CCCccccccccCccceeeEEeEecCccccccccccccCCceeECCCCCcccCCceeEEEEcCC
Confidence 688999999875432 122222223333322 222 1236999999999654455555 79
Q ss_pred CCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647 178 KHKFHGECLMPWLEFHSSCPICRYQLPSDNLK 209 (290)
Q Consensus 178 ~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 209 (290)
||+|...+|..-- ....||+|-.++...+..
T Consensus 136 G~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 136 GCVFSEKALKELK-KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence 9999999999973 355799999888766544
No 83
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.04 E-value=0.017 Score=52.93 Aligned_cols=48 Identities=17% Similarity=0.334 Sum_probs=34.5
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
..|..|..--. ++....+.|.|+||..|...-. ...||+|++.+....
T Consensus 4 VhCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 4 VHCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRIIQ 51 (233)
T ss_pred EEeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceeeeee
Confidence 46888876544 5556667799999999966522 238999999875543
No 84
>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=93.90 E-value=0.064 Score=52.14 Aligned_cols=66 Identities=20% Similarity=0.320 Sum_probs=41.4
Q ss_pred HHHHHhCCccccC----CcccccccccccccCC-------------------cceecCCCCcccHhhHHHHHhc------
Q 039647 142 KEVVKALPMVAID----QDLQCAVWLEEFVMGN-------------------EAKQMPYKHKFHGECLMPWLEF------ 192 (290)
Q Consensus 142 ~~~i~~lp~~~~~----~~~~C~ICle~f~~~~-------------------~~~~lpC~H~FH~~CI~~Wl~~------ 192 (290)
++.|+.-|...+. +.+.|.-|+..-..=+ .....-|.-.+|.+|+-+|+..
T Consensus 253 ~~~V~~Np~y~~~~~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~ 332 (358)
T PF10272_consen 253 KEQVEQNPRYSYPESGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQH 332 (358)
T ss_pred HHHHHhCCccccCCCccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCC
Confidence 5566666665554 3467888987532100 0112225667899999999953
Q ss_pred -------CCCCCcccccCCCCC
Q 039647 193 -------HSSCPICRYQLPSDN 207 (290)
Q Consensus 193 -------~~~CP~CR~~l~~~~ 207 (290)
+..||+||+.++.-|
T Consensus 333 ~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 333 PETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred hhhhhcCCCCCCCCcccceeee
Confidence 226999999887543
No 85
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=93.57 E-value=0.055 Score=38.66 Aligned_cols=32 Identities=22% Similarity=0.495 Sum_probs=28.5
Q ss_pred cccccccccccccCCcceecC-CCCcccHhhHH
Q 039647 156 DLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLM 187 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~ 187 (290)
...|.+|-+.|+.++.+++.| |+-.||+.|..
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 468999999999888899999 99999999943
No 86
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.42 E-value=0.032 Score=52.99 Aligned_cols=43 Identities=23% Similarity=0.478 Sum_probs=30.2
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccC
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQL 203 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l 203 (290)
..|--|-..+.+ --+.+||+|+||.+|... ...+.||.|-..+
T Consensus 91 HfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 456667655443 346789999999999654 4466899996544
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.39 E-value=0.046 Score=51.32 Aligned_cols=46 Identities=22% Similarity=0.523 Sum_probs=38.9
Q ss_pred cccccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647 156 DLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~ 201 (290)
...|+||.+.+-... .+..++|+|.-|..|+......+-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 356999999886554 4678899999999999998877799999987
No 88
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.35 E-value=0.034 Score=58.72 Aligned_cols=44 Identities=20% Similarity=0.450 Sum_probs=35.2
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
...|..|--.++. ..+..-|+|.||..|+. .....||.|+.++.
T Consensus 840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 4699999988775 35667799999999988 45568999987543
No 89
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.19 E-value=0.068 Score=51.53 Aligned_cols=47 Identities=19% Similarity=0.578 Sum_probs=38.2
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHH--HhcCCCCCcccccCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPW--LEFHSSCPICRYQLP 204 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~W--l~~~~~CP~CR~~l~ 204 (290)
+...|.||-+.+.- ...+||+|..|..|.... |..++.||+||.+..
T Consensus 60 en~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 60 ENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 45799999987654 678999999999998764 457889999998653
No 90
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.14 E-value=0.019 Score=54.02 Aligned_cols=42 Identities=21% Similarity=0.384 Sum_probs=32.0
Q ss_pred cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
...|.||++.-.+ ...|+|||. -|..|-.. -+.||+||+.+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence 4689999998544 788999996 56777544 348999998664
No 91
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=92.92 E-value=0.12 Score=49.34 Aligned_cols=48 Identities=17% Similarity=0.329 Sum_probs=37.3
Q ss_pred CcccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
....|+||+..... +..|. =|.+||..||..++..++.||+--.+...
T Consensus 299 ~~~~CpvClk~r~N---ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v 347 (357)
T KOG0826|consen 299 DREVCPVCLKKRQN---PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASV 347 (357)
T ss_pred ccccChhHHhccCC---CceEEecceEEeHHHHHHHHHhcCCCCccCCcchH
Confidence 35799999988654 22333 59999999999999999999997655443
No 92
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.68 E-value=0.076 Score=51.07 Aligned_cols=53 Identities=17% Similarity=0.404 Sum_probs=38.9
Q ss_pred CcccccccccccccCCc-ceecCCCCcccHhhHHHHHh-cCCCCCcccccCCCCC
Q 039647 155 QDLQCAVWLEEFVMGNE-AKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPSDN 207 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~ 207 (290)
+++-|+.|+|.+.+.++ -.-+|||...|.-|....-+ ....||.||..+..+.
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 45679999999987664 45677998888888554332 4668999998765544
No 93
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.08 E-value=0.079 Score=58.32 Aligned_cols=45 Identities=24% Similarity=0.460 Sum_probs=37.6
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY 201 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~ 201 (290)
....|.||++.+..- -...-|+|.||..|+..|+..+..||+|+.
T Consensus 1152 ~~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 345999999998731 234559999999999999999999999974
No 94
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.21 E-value=0.078 Score=55.59 Aligned_cols=50 Identities=24% Similarity=0.435 Sum_probs=39.8
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhc--CCCCCcccccCCCCCccc
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--HSSCPICRYQLPSDNLKV 210 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~~~~~ 210 (290)
..|.||++ -+.+...+|+|.||.+|+..-++. ...||+||..+..+....
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 89999999 244778889999999999998854 236999998877665443
No 95
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=91.13 E-value=0.13 Score=36.86 Aligned_cols=46 Identities=22% Similarity=0.455 Sum_probs=33.6
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
..|..|... +.+-..+||+|+-+..|..- ++-+-||+|-+++...+
T Consensus 8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 456666644 44567899999999999654 55667999988776543
No 96
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.67 E-value=0.15 Score=54.30 Aligned_cols=38 Identities=18% Similarity=0.427 Sum_probs=30.2
Q ss_pred ccCCcccccccccccccCCcceecCCCCcccHhhHHHHH
Q 039647 152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWL 190 (290)
Q Consensus 152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl 190 (290)
.++....|.+|...+... .-..-||||.||.+||.+-.
T Consensus 813 v~ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EecCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 344578999999988753 45677899999999998764
No 97
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=89.54 E-value=0.33 Score=41.98 Aligned_cols=52 Identities=21% Similarity=0.445 Sum_probs=35.1
Q ss_pred CcccccccccccccCCcceecC------------CCCc-ccHhhHHHHHhc-----------------------------
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMP------------YKHK-FHGECLMPWLEF----------------------------- 192 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lp------------C~H~-FH~~CI~~Wl~~----------------------------- 192 (290)
++..|+||||.-.. ++.|- |+-. -|..|++++-+.
T Consensus 1 ed~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (162)
T PF07800_consen 1 EDVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQE 77 (162)
T ss_pred CCccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccc
Confidence 35789999997443 44433 4433 478899998652
Q ss_pred --CCCCCcccccCCCCCcc
Q 039647 193 --HSSCPICRYQLPSDNLK 209 (290)
Q Consensus 193 --~~~CP~CR~~l~~~~~~ 209 (290)
+-.||+||.++......
T Consensus 78 ~~~L~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 78 QPELACPLCRGEVKGWTVV 96 (162)
T ss_pred cccccCccccCceeceEEc
Confidence 12499999998776544
No 98
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.81 E-value=0.46 Score=46.64 Aligned_cols=38 Identities=16% Similarity=0.357 Sum_probs=28.0
Q ss_pred cccccccccccccC-CcceecCCCCcccHhhHHHHHhcC
Q 039647 156 DLQCAVWLEEFVMG-NEAKQMPYKHKFHGECLMPWLEFH 193 (290)
Q Consensus 156 ~~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~Wl~~~ 193 (290)
..+|.||..++... .....+-|+|.||.+|+.+.++.+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 57999999444333 333455699999999999999743
No 99
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=88.74 E-value=0.29 Score=41.25 Aligned_cols=53 Identities=15% Similarity=0.286 Sum_probs=38.0
Q ss_pred cccccccccccccCCcceecC-CCCcccHhhHHHHHh---cCCCCCcccccCCCCCc
Q 039647 156 DLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLE---FHSSCPICRYQLPSDNL 208 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~---~~~~CP~CR~~l~~~~~ 208 (290)
-.+|.||.|...+..-.+.=- ||-..|..|-...|+ .+..||+|+..+.....
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 369999999865432111111 999999998887665 57789999998876543
No 100
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.35 E-value=0.36 Score=47.22 Aligned_cols=48 Identities=21% Similarity=0.292 Sum_probs=40.4
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCC---CCCccccc
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS---SCPICRYQ 202 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~ 202 (290)
.-..|+|=.+.=.+...+..|.|||+..++-|.+..+... .||.|-.+
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 3479999999888888899999999999999999886543 69999543
No 101
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=88.23 E-value=0.23 Score=49.36 Aligned_cols=36 Identities=19% Similarity=0.353 Sum_probs=31.1
Q ss_pred CCcccccccccccccCCcceecCCCCcccHhhHHHHHhc
Q 039647 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF 192 (290)
Q Consensus 154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~ 192 (290)
++.+.|+||...|++ +++|||+|..|..|...-+.+
T Consensus 2 eeelkc~vc~~f~~e---piil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccC---ceEeecccHHHHHHHHhhccc
Confidence 467899999999986 899999999999998876643
No 102
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=88.20 E-value=0.3 Score=51.43 Aligned_cols=27 Identities=26% Similarity=0.508 Sum_probs=23.6
Q ss_pred ceecCCCCcccHhhHHHHHhcCCCCCc
Q 039647 172 AKQMPYKHKFHGECLMPWLEFHSSCPI 198 (290)
Q Consensus 172 ~~~lpC~H~FH~~CI~~Wl~~~~~CP~ 198 (290)
.....|+|+-|..|...|++....||.
T Consensus 1043 ~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1043 NFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhhccccccccHHHHHHHHhcCCcCCC
Confidence 345679999999999999999999984
No 103
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.75 E-value=0.33 Score=51.48 Aligned_cols=52 Identities=29% Similarity=0.606 Sum_probs=38.9
Q ss_pred CcccccccccccccCCcceecCCCC-----cccHhhHHHHHh--cCCCCCcccccCCCCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKH-----KFHGECLMPWLE--FHSSCPICRYQLPSDN 207 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H-----~FH~~CI~~Wl~--~~~~CP~CR~~l~~~~ 207 (290)
++..|-||..+=..+ .+..-||++ .-|.+|+..|+. ....|-+|+.++.-++
T Consensus 11 d~~~CRICr~e~~~d-~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 11 DKRSCRICRTEDIRD-DPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred cchhceeecCCCCCC-CcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 457999999885443 355667875 489999999997 4557999998776544
No 104
>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=86.31 E-value=0.22 Score=34.72 Aligned_cols=32 Identities=31% Similarity=0.627 Sum_probs=22.8
Q ss_pred cCCC-CcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647 175 MPYK-HKFHGECLMPWLEFHSSCPICRYQLPSD 206 (290)
Q Consensus 175 lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 206 (290)
+.|. |..|..|+...|.....||+|..++|..
T Consensus 16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred eeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 3475 9999999999999999999999999864
No 105
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.28 E-value=0.39 Score=43.34 Aligned_cols=40 Identities=30% Similarity=0.530 Sum_probs=29.4
Q ss_pred ccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCC
Q 039647 159 CAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
|-+|.+. ...+..+||.|. +|..|-.. ...||+|+.....
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence 8888875 345889999875 78888543 5569999875543
No 106
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.80 E-value=0.32 Score=50.35 Aligned_cols=43 Identities=28% Similarity=0.579 Sum_probs=31.9
Q ss_pred cccccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647 156 DLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~ 201 (290)
-+.|.||+..|.... .++.|-|||..|..|+..-. +.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence 368999988876432 45677799999999988744 45688 544
No 107
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=84.64 E-value=0.72 Score=43.89 Aligned_cols=45 Identities=20% Similarity=0.393 Sum_probs=34.4
Q ss_pred cCCcccccccccccccCCcceecCC--CCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 153 IDQDLQCAVWLEEFVMGNEAKQMPY--KHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 153 ~~~~~~C~ICle~f~~~~~~~~lpC--~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
+.+-++|+||.+.+... .+.| ||.-|..|-. +..+.||.||.++.
T Consensus 45 ~~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 33458999999998752 4446 6888888854 56788999999887
No 108
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=83.59 E-value=0.83 Score=43.12 Aligned_cols=47 Identities=15% Similarity=0.334 Sum_probs=33.6
Q ss_pred cccccccccccCC--cceecCCCCcccHhhHHHHHhc-CCCCCcccccCC
Q 039647 158 QCAVWLEEFVMGN--EAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLP 204 (290)
Q Consensus 158 ~C~ICle~f~~~~--~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~ 204 (290)
.|++|.-+.--.. +...-+|+|..|..|+...+.. ...||.|-..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 5899986533222 2333379999999999998854 568999966554
No 109
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.31 E-value=0.62 Score=47.65 Aligned_cols=49 Identities=29% Similarity=0.687 Sum_probs=41.0
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCccc
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKV 210 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~~ 210 (290)
....|.||+.+. ..+..+|. |..|+..|+..+.+||+|+..+..++...
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~ 526 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLS 526 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccccC
Confidence 368999999997 36677788 99999999999999999998877665443
No 110
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.22 E-value=0.62 Score=43.31 Aligned_cols=52 Identities=23% Similarity=0.384 Sum_probs=38.0
Q ss_pred cccccccccccccCCc-ceecCCC-----CcccHhhHHHHHh--cCCCCCcccccCCCCC
Q 039647 156 DLQCAVWLEEFVMGNE-AKQMPYK-----HKFHGECLMPWLE--FHSSCPICRYQLPSDN 207 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~-~~~lpC~-----H~FH~~CI~~Wl~--~~~~CP~CR~~l~~~~ 207 (290)
...|-||.++...... ....||. +..|..|+..|+. ....|.+|...+....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~ 137 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVG 137 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecc
Confidence 3689999997654321 4566764 5579999999997 5668999988665543
No 111
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=81.95 E-value=0.54 Score=30.71 Aligned_cols=13 Identities=38% Similarity=0.552 Sum_probs=10.5
Q ss_pred CCcCCCCCCCCce
Q 039647 1 MGSKFPFCETGFV 13 (290)
Q Consensus 1 ~e~~Cp~C~~GFv 13 (290)
|.++||.|+..|-
T Consensus 1 M~i~CP~C~~~f~ 13 (37)
T PF13719_consen 1 MIITCPNCQTRFR 13 (37)
T ss_pred CEEECCCCCceEE
Confidence 7788999988773
No 112
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.84 E-value=0.61 Score=44.18 Aligned_cols=32 Identities=19% Similarity=0.445 Sum_probs=25.2
Q ss_pred CCCcccHhhHHHHHh-------------cCCCCCcccccCCCCCc
Q 039647 177 YKHKFHGECLMPWLE-------------FHSSCPICRYQLPSDNL 208 (290)
Q Consensus 177 C~H~FH~~CI~~Wl~-------------~~~~CP~CR~~l~~~~~ 208 (290)
|...+|.+|+.+|+. ++-+||+||+.++..+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 667889999999984 23479999999876553
No 113
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=80.75 E-value=0.81 Score=41.43 Aligned_cols=46 Identities=17% Similarity=0.426 Sum_probs=37.0
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
..|.+|.+..-.| .+.-.|+-.||..|+...++....||.|-.-++
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~ 227 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWT 227 (235)
T ss_pred HHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchhcccC
Confidence 5899999886543 345568899999999999999999999954333
No 114
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=80.00 E-value=1.4 Score=46.49 Aligned_cols=43 Identities=21% Similarity=0.223 Sum_probs=32.4
Q ss_pred ccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCc--ccc
Q 039647 157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPI--CRY 201 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~--CR~ 201 (290)
..|.||-..+.- . ....+ |+|.-|.+|+.+|+..+.-||. |-.
T Consensus 780 ~~CtVC~~vi~G-~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 780 AKCTVCDLVIRG-V-DVWCQVCGHGGHDSHLKSWFFKASPCAKSICPH 825 (839)
T ss_pred cCceeecceeee-e-EeecccccccccHHHHHHHHhcCCCCccccCCc
Confidence 478888877542 2 23344 9999999999999998888876 643
No 115
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.11 E-value=1.1 Score=47.61 Aligned_cols=51 Identities=16% Similarity=0.101 Sum_probs=36.9
Q ss_pred cccccccccccccCC-cceecC---CCCcccHhhHHHHHhc------CCCCCcccccCCCC
Q 039647 156 DLQCAVWLEEFVMGN-EAKQMP---YKHKFHGECLMPWLEF------HSSCPICRYQLPSD 206 (290)
Q Consensus 156 ~~~C~ICle~f~~~~-~~~~lp---C~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~~ 206 (290)
...|.||.-+|..++ -.-.+| |.|.||..||..|+.+ +..|+.|..-|...
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 468888888887632 234555 9999999999999953 44688887766443
No 116
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=78.78 E-value=0.42 Score=49.98 Aligned_cols=49 Identities=22% Similarity=0.489 Sum_probs=38.2
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcC---CCCCcccccCCCCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH---SSCPICRYQLPSDN 207 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~---~~CP~CR~~l~~~~ 207 (290)
.++|+||...|.. ...+.|.|.|+..|+..-|... ..||+|+..+....
T Consensus 21 ~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 21 ILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred hccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 5799999999876 3577799999999988777543 46999986554433
No 117
>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=74.42 E-value=3.8 Score=28.50 Aligned_cols=42 Identities=26% Similarity=0.512 Sum_probs=21.1
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhc---CC--CCCcccc
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF---HS--SCPICRY 201 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~---~~--~CP~CR~ 201 (290)
+.|+|....+.. .++...|.|.-+.+ +..||+. .. .||+|.+
T Consensus 3 L~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 578998888765 46667799985533 3455542 22 5999976
No 118
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=74.18 E-value=2.8 Score=40.41 Aligned_cols=46 Identities=20% Similarity=0.270 Sum_probs=34.2
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~ 201 (290)
...|-.|.++.......+.-.|+|.||.+|=.---+.-..||-|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 4569999888776554444459999999996655566667999963
No 119
>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=73.20 E-value=1.7 Score=40.29 Aligned_cols=46 Identities=22% Similarity=0.444 Sum_probs=34.4
Q ss_pred cccccccccccccCCcce--ecC-CCCcccHhhHHHHHhc-CCCCC--cccc
Q 039647 156 DLQCAVWLEEFVMGNEAK--QMP-YKHKFHGECLMPWLEF-HSSCP--ICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~--~lp-C~H~FH~~CI~~Wl~~-~~~CP--~CR~ 201 (290)
+..|+||..+--....++ .-| |-|..|..|++..+.. ...|| -|-+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 568999997754433343 446 9999999999999964 55799 7754
No 120
>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=73.16 E-value=1.9 Score=26.21 Aligned_cols=22 Identities=27% Similarity=0.274 Sum_probs=15.1
Q ss_pred cccccccccccCCcceecC-CCCcc
Q 039647 158 QCAVWLEEFVMGNEAKQMP-YKHKF 181 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lp-C~H~F 181 (290)
.|+-|..++.. ..+..| |||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 57888877643 355667 88877
No 121
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.07 E-value=1.5 Score=40.92 Aligned_cols=49 Identities=22% Similarity=0.443 Sum_probs=33.4
Q ss_pred cccccccccccccCCcc-eecCCC-----CcccHhhHHHHHhcC--------CCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNEA-KQMPYK-----HKFHGECLMPWLEFH--------SSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~-~~lpC~-----H~FH~~CI~~Wl~~~--------~~CP~CR~~l~ 204 (290)
+..|-||...=++.... =+=||. |--|..|+..|+..+ .+||.|+.+..
T Consensus 20 eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 20 ERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 56899999874433221 123553 678999999999432 26999998654
No 122
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=71.13 E-value=2.5 Score=37.74 Aligned_cols=39 Identities=28% Similarity=0.720 Sum_probs=27.7
Q ss_pred cccccccccc-----cccCCcceecC-CCCcccHhhHHHHHhcCCCCCccc
Q 039647 156 DLQCAVWLEE-----FVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 156 ~~~C~ICle~-----f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
...|.||.+. |+.. .+...+ |+-+||..|.. ...||.|.
T Consensus 152 GfiCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 4789999853 3332 344555 99999999966 26799994
No 123
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.57 E-value=2.2 Score=42.52 Aligned_cols=37 Identities=24% Similarity=0.443 Sum_probs=31.2
Q ss_pred CCcccccccccccccCCcceecCCCCcccHhhHHHHHhc
Q 039647 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF 192 (290)
Q Consensus 154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~ 192 (290)
....+|-||.+.+.. ....+.|+|.|+..|+...+..
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 446899999999865 5777889999999999999863
No 124
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=69.84 E-value=2.4 Score=39.70 Aligned_cols=48 Identities=23% Similarity=0.362 Sum_probs=34.0
Q ss_pred ccccccccccc-ccCCcceecC---CCCcccHhhHHHHHhc---------CCCCCcccccC
Q 039647 156 DLQCAVWLEEF-VMGNEAKQMP---YKHKFHGECLMPWLEF---------HSSCPICRYQL 203 (290)
Q Consensus 156 ~~~C~ICle~f-~~~~~~~~lp---C~H~FH~~CI~~Wl~~---------~~~CP~CR~~l 203 (290)
..+|-+|.+++ +.+......+ |.-++|..|+..-+.. ...||.|++-+
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 36999999999 4433333333 8889999999985431 23599998744
No 125
>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 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=68.90 E-value=2.8 Score=29.62 Aligned_cols=42 Identities=26% Similarity=0.432 Sum_probs=22.0
Q ss_pred ccccccccccCC------cceecC-CCCcccHhhHHHHHhcCCCCCccc
Q 039647 159 CAVWLEEFVMGN------EAKQMP-YKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 159 C~ICle~f~~~~------~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
|.-|+..|.... .....| |++.|+.+|=.---+.-..||-|.
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 667888877642 234445 999999999443334455699883
No 127
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=68.54 E-value=1.7 Score=44.95 Aligned_cols=42 Identities=24% Similarity=0.510 Sum_probs=26.6
Q ss_pred ccccccccc-----ccccCCcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647 156 DLQCAVWLE-----EFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 156 ~~~C~ICle-----~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
...|.+|.. .|+.....+...|+++||..|+. ....-||.|-
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~---r~s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLR---RKSPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHh---ccCCCCCchH
Confidence 467888843 23322233455699999999944 3444599993
No 128
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.49 E-value=2.3 Score=41.77 Aligned_cols=43 Identities=19% Similarity=0.317 Sum_probs=31.9
Q ss_pred ccccccccccccCCcc--eecCCCCcccHhhHHHHHhcCCCCCcc
Q 039647 157 LQCAVWLEEFVMGNEA--KQMPYKHKFHGECLMPWLEFHSSCPIC 199 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~--~~lpC~H~FH~~CI~~Wl~~~~~CP~C 199 (290)
..|++|.-.++....- .+..|+|.||..|...|......|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 5788888776544432 333499999999999999888877555
No 129
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=68.18 E-value=2 Score=27.69 Aligned_cols=12 Identities=42% Similarity=0.814 Sum_probs=9.0
Q ss_pred CCcCCCCCCCCc
Q 039647 1 MGSKFPFCETGF 12 (290)
Q Consensus 1 ~e~~Cp~C~~GF 12 (290)
|.++||+|+.-|
T Consensus 1 M~~~CP~C~~~~ 12 (38)
T TIGR02098 1 MRIQCPNCKTSF 12 (38)
T ss_pred CEEECCCCCCEE
Confidence 677888888755
No 130
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=66.80 E-value=2.8 Score=44.54 Aligned_cols=49 Identities=22% Similarity=0.363 Sum_probs=35.2
Q ss_pred cccCCcccccccccccccC----CcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647 151 VAIDQDLQCAVWLEEFVMG----NEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 151 ~~~~~~~~C~ICle~f~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
+.+.....|.-|.+..-.. +.++.+.|+|+||..|+.--..+.+ |-.|-
T Consensus 779 v~v~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 779 VLVSVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred eeEeehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 3444456899999876532 3467888999999999987765554 66663
No 131
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=66.26 E-value=5.3 Score=38.47 Aligned_cols=49 Identities=16% Similarity=0.318 Sum_probs=35.6
Q ss_pred ccccccccccccC-CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 157 LQCAVWLEEFVMG-NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 157 ~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
..|+||.+..... ....-.||++.-|..|...-...+..||.||++...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 6899999987332 233444588888888877777788899999955443
No 132
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=66.04 E-value=3.2 Score=24.87 Aligned_cols=10 Identities=30% Similarity=0.461 Sum_probs=9.1
Q ss_pred CCcCCCCCCC
Q 039647 1 MGSKFPFCET 10 (290)
Q Consensus 1 ~e~~Cp~C~~ 10 (290)
|+++||.|+.
T Consensus 1 m~~~Cp~Cg~ 10 (26)
T PF13248_consen 1 MEMFCPNCGA 10 (26)
T ss_pred CcCCCcccCC
Confidence 7899999987
No 133
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=65.59 E-value=2.4 Score=27.55 Aligned_cols=12 Identities=25% Similarity=0.545 Sum_probs=9.4
Q ss_pred CCcCCCCCCCCc
Q 039647 1 MGSKFPFCETGF 12 (290)
Q Consensus 1 ~e~~Cp~C~~GF 12 (290)
|.|.||.|+.-|
T Consensus 1 M~i~Cp~C~~~y 12 (36)
T PF13717_consen 1 MIITCPNCQAKY 12 (36)
T ss_pred CEEECCCCCCEE
Confidence 678888888766
No 134
>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=64.10 E-value=11 Score=27.13 Aligned_cols=47 Identities=21% Similarity=0.438 Sum_probs=34.6
Q ss_pred ccccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647 157 LQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 157 ~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 205 (290)
..|-.|-.++..+. .+.+..=...||.+|....| +..||.|--.|..
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 46778888887655 45554444679999999876 7789999777654
No 135
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=63.27 E-value=7.6 Score=31.84 Aligned_cols=45 Identities=20% Similarity=0.188 Sum_probs=33.8
Q ss_pred cccccccccccccCC----------cceecC-CCCcccHhhHHHHHhcCCCCCccc
Q 039647 156 DLQCAVWLEEFVMGN----------EAKQMP-YKHKFHGECLMPWLEFHSSCPICR 200 (290)
Q Consensus 156 ~~~C~ICle~f~~~~----------~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR 200 (290)
...|.-|+..|.... ..-..+ |++.|+.+|=.-+-+.-..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 357999999886431 012234 999999999888888777899995
No 136
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.28 E-value=4.9 Score=38.12 Aligned_cols=37 Identities=24% Similarity=0.282 Sum_probs=29.5
Q ss_pred cccccccccccccCCcceecC--CCCcccHhhHHHHHhcC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMP--YKHKFHGECLMPWLEFH 193 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lp--C~H~FH~~CI~~Wl~~~ 193 (290)
.+.|.+|.|-+++.. -+++| =.|+||..|-..-++++
T Consensus 268 pLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHhh
Confidence 489999999998743 44555 47999999999999754
No 137
>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=60.24 E-value=4.7 Score=28.16 Aligned_cols=12 Identities=33% Similarity=0.916 Sum_probs=8.3
Q ss_pred CcCCCCCCCCce
Q 039647 2 GSKFPFCETGFV 13 (290)
Q Consensus 2 e~~Cp~C~~GFv 13 (290)
.++||+|+.+|-
T Consensus 2 ~f~CP~C~~~~~ 13 (54)
T PF05605_consen 2 SFTCPYCGKGFS 13 (54)
T ss_pred CcCCCCCCCccC
Confidence 467888877654
No 138
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=59.96 E-value=6.1 Score=38.00 Aligned_cols=45 Identities=22% Similarity=0.276 Sum_probs=36.4
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhc---CCCCCccc
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF---HSSCPICR 200 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~---~~~CP~CR 200 (290)
-..|+|-.+.-.....+..|.|||+.-.+-+...-+. .-.||.|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 4699998888777778899999999999988876543 33599994
No 139
>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=58.92 E-value=4.3 Score=29.42 Aligned_cols=36 Identities=8% Similarity=0.190 Sum_probs=18.7
Q ss_pred CcccccccccccccCCcceecC-CCCcccHhhHHHHH
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWL 190 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl 190 (290)
+...|.+|...|..-..-.... ||++|+..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4579999999997644434444 99999999976443
No 140
>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=58.28 E-value=4.8 Score=27.30 Aligned_cols=43 Identities=26% Similarity=0.362 Sum_probs=28.1
Q ss_pred cccccccccccCCcceecCCCCcccHhhHHHHHh------cCCCCCccc
Q 039647 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE------FHSSCPICR 200 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~------~~~~CP~CR 200 (290)
.|.||...-..+..+.--.|+..||..|+..=.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 3889999444333333334999999999886543 133677775
No 141
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=57.64 E-value=9 Score=35.72 Aligned_cols=39 Identities=15% Similarity=0.134 Sum_probs=32.0
Q ss_pred ccccCCcccccccccccccCCcceecCCCCcccHhhHHHHHh
Q 039647 150 MVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE 191 (290)
Q Consensus 150 ~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~ 191 (290)
.-.++.-+.|+.||..+.. +++.|=||+|+++||..++.
T Consensus 37 rDsiK~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 37 RDSIKPFDCCSLTLQPCRD---PVITPDGYLFDREAILEYIL 75 (303)
T ss_pred ccccCCcceeeeecccccC---CccCCCCeeeeHHHHHHHHH
Confidence 3344556899999999876 77888999999999999874
No 142
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=56.69 E-value=4.7 Score=26.33 Aligned_cols=9 Identities=22% Similarity=0.667 Sum_probs=7.9
Q ss_pred CcCCCCCCC
Q 039647 2 GSKFPFCET 10 (290)
Q Consensus 2 e~~Cp~C~~ 10 (290)
+++||+|++
T Consensus 5 ~v~CP~C~s 13 (36)
T PF03811_consen 5 DVHCPRCQS 13 (36)
T ss_pred eeeCCCCCC
Confidence 588999997
No 143
>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=56.67 E-value=9.3 Score=23.64 Aligned_cols=37 Identities=24% Similarity=0.473 Sum_probs=23.5
Q ss_pred cccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccC
Q 039647 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQL 203 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l 203 (290)
.|..|.+.+...+.... .=+..||..|+ .|..|...|
T Consensus 1 ~C~~C~~~i~~~~~~~~-~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLR-ALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEE-eCCccccccCC--------CCcccCCcC
Confidence 37888888766422222 23678888773 467776655
No 144
>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=48.10 E-value=13 Score=25.71 Aligned_cols=34 Identities=12% Similarity=0.219 Sum_probs=24.8
Q ss_pred ccccccccccccCCcceecC-CCCcccHhhHHHHH
Q 039647 157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWL 190 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl 190 (290)
..|.+|...|..-..-.... ||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 57999999887644333333 99999999977554
No 145
>PHA00616 hypothetical protein
Probab=47.84 E-value=5 Score=27.47 Aligned_cols=13 Identities=15% Similarity=0.158 Sum_probs=10.8
Q ss_pred cCCCCCCCCceee
Q 039647 3 SKFPFCETGFVEQ 15 (290)
Q Consensus 3 ~~Cp~C~~GFvEe 15 (290)
++||.|+..|+.-
T Consensus 2 YqC~~CG~~F~~~ 14 (44)
T PHA00616 2 YQCLRCGGIFRKK 14 (44)
T ss_pred CccchhhHHHhhH
Confidence 5899999999753
No 146
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=47.43 E-value=24 Score=37.02 Aligned_cols=89 Identities=26% Similarity=0.455 Sum_probs=44.8
Q ss_pred Ccccccc-cccHHHHHHHHHhcCCCCCCCCcchHHHHHhC----CccccC-----CcccccccccccccCCcceecCCCC
Q 039647 110 SLDEYLV-GPGLDLLLQHLLENDPNRYGSLSAQKEVVKAL----PMVAID-----QDLQCAVWLEEFVMGNEAKQMPYKH 179 (290)
Q Consensus 110 ~~~d~~~-g~~l~~ll~~l~~~~~~~~~~~pa~~~~i~~l----p~~~~~-----~~~~C~ICle~f~~~~~~~~lpC~H 179 (290)
++.=||. +.+.+.||+++....... .....++..|++. +...+. -.+.|+|+.--+ .+||.+
T Consensus 251 sl~~~~v~~~t~~~llq~~~~~~~~~-~~~~~s~~~~~~~l~~~~d~~i~tt~~~vSL~CPl~~~Rm-------~~P~r~ 322 (636)
T KOG2169|consen 251 SLSVYFVEGLTSKDLLQRLKQNGKIN-RNLSQSDALIKKKLTAGPDSEIATTSLRVSLNCPLSKMRM-------SLPARG 322 (636)
T ss_pred ceEEEEecccCHHHHHHHHhccCCcc-CchhHhHHHhhcccccCCcccceeccceeEecCCccccee-------ecCCcc
Confidence 3444544 348888998887543221 1112333332221 111111 136788877543 455555
Q ss_pred cccH--hhHHH-HH-hcCC-----CCCcccccCCCC
Q 039647 180 KFHG--ECLMP-WL-EFHS-----SCPICRYQLPSD 206 (290)
Q Consensus 180 ~FH~--~CI~~-Wl-~~~~-----~CP~CR~~l~~~ 206 (290)
..|+ .|.+. |+ ..+. .||+|.+....+
T Consensus 323 ~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e 358 (636)
T KOG2169|consen 323 HTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFE 358 (636)
T ss_pred cccccceecchhhhHHhccCCCeeeCccCCcccccc
Confidence 5555 56664 44 2211 599998765533
No 147
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=46.64 E-value=7.4 Score=23.13 Aligned_cols=13 Identities=23% Similarity=0.534 Sum_probs=10.8
Q ss_pred cCCCCCCCCceee
Q 039647 3 SKFPFCETGFVEQ 15 (290)
Q Consensus 3 ~~Cp~C~~GFvEe 15 (290)
+.||.|+-.|..+
T Consensus 3 ~~C~~CgR~F~~~ 15 (25)
T PF13913_consen 3 VPCPICGRKFNPD 15 (25)
T ss_pred CcCCCCCCEECHH
Confidence 5799999999654
No 148
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=46.04 E-value=11 Score=25.06 Aligned_cols=12 Identities=25% Similarity=0.387 Sum_probs=9.5
Q ss_pred cCCCCCCCCcee
Q 039647 3 SKFPFCETGFVE 14 (290)
Q Consensus 3 ~~Cp~C~~GFvE 14 (290)
++||.|++..|.
T Consensus 1 m~Cp~Cg~~~~~ 12 (43)
T PF08271_consen 1 MKCPNCGSKEIV 12 (43)
T ss_dssp ESBTTTSSSEEE
T ss_pred CCCcCCcCCceE
Confidence 589999998753
No 149
>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=45.81 E-value=5.6 Score=39.28 Aligned_cols=31 Identities=23% Similarity=0.383 Sum_probs=0.0
Q ss_pred ceecCCCCcccHhhHHHHHh------cCCCCCcccccCCC
Q 039647 172 AKQMPYKHKFHGECLMPWLE------FHSSCPICRYQLPS 205 (290)
Q Consensus 172 ~~~lpC~H~FH~~CI~~Wl~------~~~~CP~CR~~l~~ 205 (290)
-+.|.|||++.. ..|-. ....||+||..=+.
T Consensus 304 ~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 304 WVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ----------------------------------------
T ss_pred eeeccccceeee---cccccccccccccccCCCccccCCc
Confidence 356789998655 34753 24579999875443
No 150
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=44.80 E-value=25 Score=27.04 Aligned_cols=50 Identities=12% Similarity=0.217 Sum_probs=20.5
Q ss_pred CcccccccccccccCCc----ceecCCCCcccHhhHHHHH-hcCCCCCcccccCC
Q 039647 155 QDLQCAVWLEEFVMGNE----AKQMPYKHKFHGECLMPWL-EFHSSCPICRYQLP 204 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~----~~~lpC~H~FH~~CI~~Wl-~~~~~CP~CR~~l~ 204 (290)
....|.||-+++..... +...-|+---|+.|..-=. +.++.||.|+..+.
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 35799999998754332 2233477788888987555 45778999986554
No 151
>PF14353 CpXC: CpXC protein
Probab=44.67 E-value=12 Score=30.48 Aligned_cols=18 Identities=22% Similarity=0.347 Sum_probs=15.0
Q ss_pred CcCCCCCCCCceeeccCC
Q 039647 2 GSKFPFCETGFVEQMSSS 19 (290)
Q Consensus 2 e~~Cp~C~~GFvEe~~~~ 19 (290)
+++||+|+.-|.-++...
T Consensus 1 ~itCP~C~~~~~~~v~~~ 18 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWTS 18 (128)
T ss_pred CcCCCCCCCeeEEEEEeE
Confidence 589999999998887653
No 152
>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=43.96 E-value=14 Score=27.56 Aligned_cols=12 Identities=33% Similarity=0.905 Sum_probs=8.8
Q ss_pred cccHhhHHHHHh
Q 039647 180 KFHGECLMPWLE 191 (290)
Q Consensus 180 ~FH~~CI~~Wl~ 191 (290)
-||+.|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999995
No 153
>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 KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=42.77 E-value=11 Score=36.37 Aligned_cols=44 Identities=27% Similarity=0.553 Sum_probs=29.0
Q ss_pred cccccccccccccCCc-----------ceecCCCCc--ccHhhHHHHHhc------CCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGNE-----------AKQMPYKHK--FHGECLMPWLEF------HSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~-----------~~~lpC~H~--FH~~CI~~Wl~~------~~~CP~CR~~l~ 204 (290)
--+|+|=+..+....+ .+.|.|||+ ||. |=.+ ...||+||..-+
T Consensus 290 RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H~-----WG~~e~~g~~~r~CPmC~~~gp 352 (429)
T KOG3842|consen 290 RPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYHN-----WGVRENTGQRERECPMCRVVGP 352 (429)
T ss_pred CCCCCcccceeecccccccccccccCCeEEEeccccccccc-----cccccccCcccCcCCeeeeecc
Confidence 4688888887754332 357889987 554 6432 346999987433
No 155
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=42.12 E-value=5.1 Score=23.82 Aligned_cols=11 Identities=36% Similarity=0.920 Sum_probs=9.5
Q ss_pred cCCCCCCCCce
Q 039647 3 SKFPFCETGFV 13 (290)
Q Consensus 3 ~~Cp~C~~GFv 13 (290)
++||.|+..|.
T Consensus 15 ~~C~~C~k~F~ 25 (26)
T PF13465_consen 15 YKCPYCGKSFS 25 (26)
T ss_dssp EEESSSSEEES
T ss_pred CCCCCCcCeeC
Confidence 68999999885
No 156
>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=40.69 E-value=2.8 Score=31.51 Aligned_cols=40 Identities=20% Similarity=0.340 Sum_probs=20.5
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP 204 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 204 (290)
..|++|..++.... +|.+|..|-.. +.....||-|..+|.
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHH
Confidence 47999998876422 55566666443 344567999977663
No 157
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=39.27 E-value=17 Score=25.27 Aligned_cols=20 Identities=20% Similarity=0.458 Sum_probs=15.1
Q ss_pred Ccceec-CCCCcccHhhHHHH
Q 039647 170 NEAKQM-PYKHKFHGECLMPW 189 (290)
Q Consensus 170 ~~~~~l-pC~H~FH~~CI~~W 189 (290)
...+.. .|+|.||..|..+|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 334555 48999999998887
No 158
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=38.62 E-value=18 Score=33.16 Aligned_cols=25 Identities=20% Similarity=0.486 Sum_probs=20.3
Q ss_pred ccccccccccccCCcceecCCCCcc
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKF 181 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~F 181 (290)
..|+||...+...+....++.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 4799999999876666666778988
No 159
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=38.40 E-value=6.5 Score=22.07 Aligned_cols=11 Identities=36% Similarity=0.797 Sum_probs=8.4
Q ss_pred cCCCCCCCCce
Q 039647 3 SKFPFCETGFV 13 (290)
Q Consensus 3 ~~Cp~C~~GFv 13 (290)
++||.|+..|.
T Consensus 1 y~C~~C~~~f~ 11 (23)
T PF00096_consen 1 YKCPICGKSFS 11 (23)
T ss_dssp EEETTTTEEES
T ss_pred CCCCCCCCccC
Confidence 46888888775
No 160
>PLN02189 cellulose synthase
Probab=37.80 E-value=24 Score=38.99 Aligned_cols=49 Identities=16% Similarity=0.257 Sum_probs=35.2
Q ss_pred ccccccccccccc---CCcceecC-CCCcccHhhHHHHH-hcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVM---GNEAKQMP-YKHKFHGECLMPWL-EFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~---~~~~~~lp-C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~ 204 (290)
...|.||-+++.. |+.-+.+. |+---|+.|..-=. +.++.||.|++.+.
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 4699999999753 33334444 88889999985322 35778999988765
No 161
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=37.74 E-value=26 Score=33.91 Aligned_cols=52 Identities=23% Similarity=0.489 Sum_probs=34.7
Q ss_pred cccccccccccc-----cCCc-----------ceecCCCCcccHhhHHHHHhc---------CCCCCcccccCCCCC
Q 039647 156 DLQCAVWLEEFV-----MGNE-----------AKQMPYKHKFHGECLMPWLEF---------HSSCPICRYQLPSDN 207 (290)
Q Consensus 156 ~~~C~ICle~f~-----~~~~-----------~~~lpC~H~FH~~CI~~Wl~~---------~~~CP~CR~~l~~~~ 207 (290)
.-+|++|+.+=. .|-+ -..-||||+--..=..-|-+. +..||.|-..|..+.
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~ 417 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQ 417 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCC
Confidence 469999997521 0100 123479999888888888762 446999987765543
No 162
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=37.25 E-value=9 Score=36.35 Aligned_cols=33 Identities=30% Similarity=0.673 Sum_probs=13.8
Q ss_pred cccccccccccCCcceecCCCCcccHhhHHHHH
Q 039647 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWL 190 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl 190 (290)
.|.+|+++|..+......-|-.+||..|+..|+
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~ 248 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWL 248 (288)
T ss_pred ecHHHHHHHhcccccchhhcccccccccccccc
Confidence 444455444432222233333344444444444
No 163
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.89 E-value=54 Score=31.46 Aligned_cols=46 Identities=17% Similarity=0.349 Sum_probs=37.5
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQL 203 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l 203 (290)
...|.||+..+..... .--|.|.|+..|...|....+-||.|+...
T Consensus 105 ~~~~~~~~g~l~vpt~--~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 105 HDICYICYGKLTVPTR--IQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred ccceeeeeeeEEeccc--ccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 4789999999876432 222999999999999999999999998644
No 164
>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=36.45 E-value=24 Score=24.13 Aligned_cols=40 Identities=20% Similarity=0.304 Sum_probs=25.6
Q ss_pred ccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207 (290)
Q Consensus 159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 207 (290)
|..|.+.+...+. ....-+..||..| -.|-.|+..|....
T Consensus 1 C~~C~~~I~~~~~-~~~~~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEI-VIKAMGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSE-EEEETTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEE-EEEeCCcEEEccc--------cccCCCCCccCCCe
Confidence 6778887765432 2223677888877 35778877775543
No 165
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=35.72 E-value=13 Score=26.29 Aligned_cols=9 Identities=44% Similarity=0.719 Sum_probs=8.0
Q ss_pred CcCCCCCCC
Q 039647 2 GSKFPFCET 10 (290)
Q Consensus 2 e~~Cp~C~~ 10 (290)
+||||.|..
T Consensus 24 eIKCpRC~t 32 (51)
T PF10122_consen 24 EIKCPRCKT 32 (51)
T ss_pred EEECCCCCc
Confidence 689999986
No 166
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.62 E-value=11 Score=37.48 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=27.6
Q ss_pred ccccccccccccCCc-----ceecCCCCcccHhhHHHHHhcC
Q 039647 157 LQCAVWLEEFVMGNE-----AKQMPYKHKFHGECLMPWLEFH 193 (290)
Q Consensus 157 ~~C~ICle~f~~~~~-----~~~lpC~H~FH~~CI~~Wl~~~ 193 (290)
..|+.|+...+.... ....+|+|.||..|+..|-...
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred ccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 459999998876552 2233599999999988887653
No 167
>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=35.48 E-value=23 Score=21.62 Aligned_cols=29 Identities=17% Similarity=0.226 Sum_probs=10.2
Q ss_pred cccccccccccCCcceecCCCCcccHhhH
Q 039647 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECL 186 (290)
Q Consensus 158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI 186 (290)
.|.+|.+....+..-.-..|.-.+|..|+
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 58888887654222334459999999885
No 168
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=35.03 E-value=16 Score=24.60 Aligned_cols=11 Identities=18% Similarity=0.202 Sum_probs=6.0
Q ss_pred CcCCCCCCCCc
Q 039647 2 GSKFPFCETGF 12 (290)
Q Consensus 2 e~~Cp~C~~GF 12 (290)
+++||.|+.-|
T Consensus 3 ~y~C~~CG~~~ 13 (46)
T PRK00398 3 EYKCARCGREV 13 (46)
T ss_pred EEECCCCCCEE
Confidence 45566665544
No 169
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.67 E-value=8.6 Score=35.81 Aligned_cols=46 Identities=17% Similarity=0.372 Sum_probs=36.7
Q ss_pred ccccccccccccC---CcceecC--------CCCcccHhhHHHHHhcC-CCCCccccc
Q 039647 157 LQCAVWLEEFVMG---NEAKQMP--------YKHKFHGECLMPWLEFH-SSCPICRYQ 202 (290)
Q Consensus 157 ~~C~ICle~f~~~---~~~~~lp--------C~H~FH~~CI~~Wl~~~-~~CP~CR~~ 202 (290)
..|.||...|... ..++.+. |+|..+..|+..-+... ..||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 5799999999832 2355666 99999999999988654 589999874
No 170
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=34.41 E-value=21 Score=30.76 Aligned_cols=16 Identities=25% Similarity=0.490 Sum_probs=11.9
Q ss_pred cCCCCCCCCceeeccC
Q 039647 3 SKFPFCETGFVEQMSS 18 (290)
Q Consensus 3 ~~Cp~C~~GFvEe~~~ 18 (290)
++||+|++-+.+-+..
T Consensus 1 m~cp~c~~~~~~~~~s 16 (154)
T PRK00464 1 MRCPFCGHPDTRVIDS 16 (154)
T ss_pred CcCCCCCCCCCEeEec
Confidence 5899999888665544
No 171
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=34.30 E-value=4.8 Score=37.74 Aligned_cols=45 Identities=18% Similarity=0.248 Sum_probs=20.2
Q ss_pred cccccccccccccCCcceecC---CCCcccHhhHHHHHhcCCCCCcccc
Q 039647 156 DLQCAVWLEEFVMGNEAKQMP---YKHKFHGECLMPWLEFHSSCPICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lp---C~H~FH~~CI~~Wl~~~~~CP~CR~ 201 (290)
...|+||-..-..+. ++.-. =.|.+|.-|-..|--....||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 369999987643221 00000 1456777888888878888999954
No 172
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.20 E-value=33 Score=32.13 Aligned_cols=51 Identities=18% Similarity=0.156 Sum_probs=35.2
Q ss_pred ccccccccccccCCc-ceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647 157 LQCAVWLEEFVMGNE-AKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK 209 (290)
Q Consensus 157 ~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 209 (290)
..|+|---+|...-. ....+|||+|-..-+.+. ...+|++|...+..++..
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVI 163 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeE
Confidence 579988777653322 234469999998776663 366899999877766543
No 173
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=32.96 E-value=33 Score=38.18 Aligned_cols=49 Identities=12% Similarity=0.195 Sum_probs=34.1
Q ss_pred cccccccccccccC---CcceecC-CCCcccHhhHHH-HHhcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMG---NEAKQMP-YKHKFHGECLMP-WLEFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~---~~~~~lp-C~H~FH~~CI~~-Wl~~~~~CP~CR~~l~ 204 (290)
...|.||-+++... +.-+.+. |+---|+.|-.- .-+.++.||.|+..+.
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45999999997643 2223333 777799999853 2245778999988665
No 174
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=32.26 E-value=13 Score=26.89 Aligned_cols=15 Identities=27% Similarity=0.368 Sum_probs=8.1
Q ss_pred CCcCCCCCCCCceee
Q 039647 1 MGSKFPFCETGFVEQ 15 (290)
Q Consensus 1 ~e~~Cp~C~~GFvEe 15 (290)
|.++||.|+.-++-.
T Consensus 1 m~v~CP~C~k~~~~~ 15 (57)
T PF03884_consen 1 MTVKCPICGKPVEWS 15 (57)
T ss_dssp -EEE-TTT--EEE-S
T ss_pred CcccCCCCCCeeccc
Confidence 778999999877653
No 175
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=32.11 E-value=22 Score=25.13 Aligned_cols=17 Identities=18% Similarity=0.413 Sum_probs=12.2
Q ss_pred cCCCCCCCCceeeccCC
Q 039647 3 SKFPFCETGFVEQMSSS 19 (290)
Q Consensus 3 ~~Cp~C~~GFvEe~~~~ 19 (290)
|.||+|+..|-=.++..
T Consensus 1 i~CPyCge~~~~~iD~s 17 (52)
T PF14255_consen 1 IQCPYCGEPIEILIDPS 17 (52)
T ss_pred CCCCCCCCeeEEEEecC
Confidence 57999998776555543
No 176
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=32.03 E-value=13 Score=39.21 Aligned_cols=58 Identities=19% Similarity=0.383 Sum_probs=0.0
Q ss_pred HHHhCCccccCCcccccccccccccCC-------cceecCCCCcccHhhHH----------HHHhcCCCCCcccccC
Q 039647 144 VVKALPMVAIDQDLQCAVWLEEFVMGN-------EAKQMPYKHKFHGECLM----------PWLEFHSSCPICRYQL 203 (290)
Q Consensus 144 ~i~~lp~~~~~~~~~C~ICle~f~~~~-------~~~~lpC~H~FH~~CI~----------~Wl~~~~~CP~CR~~l 203 (290)
++..+|...| ..+|.||.|+=...+ ..-+-.|+..||..|.. ..+..-+.|-.|++-+
T Consensus 107 iLq~VP~dRf--nKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 107 ILQDVPHDRF--NKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred eeccCchhhh--cceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHH
No 177
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=31.84 E-value=23 Score=23.25 Aligned_cols=11 Identities=36% Similarity=0.736 Sum_probs=7.7
Q ss_pred cCCCCCCCCce
Q 039647 3 SKFPFCETGFV 13 (290)
Q Consensus 3 ~~Cp~C~~GFv 13 (290)
-.||.|..||-
T Consensus 3 ~~CprC~kg~H 13 (36)
T PF14787_consen 3 GLCPRCGKGFH 13 (36)
T ss_dssp -C-TTTSSSCS
T ss_pred ccCcccCCCcc
Confidence 46999999984
No 178
>PLN02436 cellulose synthase A
Probab=31.23 E-value=36 Score=37.89 Aligned_cols=49 Identities=16% Similarity=0.259 Sum_probs=35.1
Q ss_pred cccccccccccc---cCCcceecC-CCCcccHhhHHHHH-hcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFV---MGNEAKQMP-YKHKFHGECLMPWL-EFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~---~~~~~~~lp-C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~ 204 (290)
...|.||-+++. +|+.-+.+. |+---|..|..-=. +.++.||.|++.+.
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 469999999974 334334444 88889999985423 35778999988765
No 179
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=30.86 E-value=21 Score=33.90 Aligned_cols=52 Identities=17% Similarity=0.301 Sum_probs=34.5
Q ss_pred CCccccccccc-ccccCCcceec-CCCCcccHhhHHHHHhc-------CCCCCcccccCCC
Q 039647 154 DQDLQCAVWLE-EFVMGNEAKQM-PYKHKFHGECLMPWLEF-------HSSCPICRYQLPS 205 (290)
Q Consensus 154 ~~~~~C~ICle-~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~-------~~~CP~CR~~l~~ 205 (290)
++...|.+|.. .|..-..--+. .||++||..|-..-+.. ...|+.|-..+..
T Consensus 166 ~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 166 SEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELEK 226 (288)
T ss_pred ccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHhc
Confidence 34579999999 77653322233 39999999996652321 2269999777754
No 180
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=30.75 E-value=35 Score=26.88 Aligned_cols=31 Identities=23% Similarity=0.358 Sum_probs=22.6
Q ss_pred cccccccccccccCCcceecC--CCCcccHhhHHH
Q 039647 156 DLQCAVWLEEFVMGNEAKQMP--YKHKFHGECLMP 188 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lp--C~H~FH~~CI~~ 188 (290)
...|.||... .|..++-.. |...||..|...
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 5799999987 333333333 888999999865
No 181
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.93 E-value=29 Score=36.68 Aligned_cols=40 Identities=15% Similarity=0.222 Sum_probs=29.5
Q ss_pred ccccccccccc-cCCcceecCCCCcccHhhHHHHHhcCCCCCcc
Q 039647 157 LQCAVWLEEFV-MGNEAKQMPYKHKFHGECLMPWLEFHSSCPIC 199 (290)
Q Consensus 157 ~~C~ICle~f~-~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~C 199 (290)
..|-||...=. ..+..+.+-|+-.||..| |+...+.||+|
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC 695 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVC 695 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCccc
Confidence 58899986522 122345666999999998 88888889999
No 182
>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=29.83 E-value=41 Score=27.00 Aligned_cols=24 Identities=38% Similarity=0.692 Sum_probs=19.0
Q ss_pred CCcccHhhHHHHHhc---------CCCCCcccc
Q 039647 178 KHKFHGECLMPWLEF---------HSSCPICRY 201 (290)
Q Consensus 178 ~H~FH~~CI~~Wl~~---------~~~CP~CR~ 201 (290)
.-.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 778999999998842 225999987
No 183
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=29.81 E-value=25 Score=25.97 Aligned_cols=15 Identities=20% Similarity=0.441 Sum_probs=12.2
Q ss_pred CCCCCCCC-ceeeccC
Q 039647 4 KFPFCETG-FVEQMSS 18 (290)
Q Consensus 4 ~Cp~C~~G-FvEe~~~ 18 (290)
+||.|++- |.||-..
T Consensus 20 ~CP~Cgs~~~te~W~G 35 (64)
T COG2093 20 ICPVCGSTDLTEEWFG 35 (64)
T ss_pred cCCCCCCcccchhhcc
Confidence 59999996 8888654
No 184
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=29.76 E-value=16 Score=19.98 Aligned_cols=11 Identities=27% Similarity=0.688 Sum_probs=6.1
Q ss_pred cCCCCCCCCce
Q 039647 3 SKFPFCETGFV 13 (290)
Q Consensus 3 ~~Cp~C~~GFv 13 (290)
++|+.|+..|-
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 36888877664
No 185
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=29.28 E-value=24 Score=33.28 Aligned_cols=51 Identities=24% Similarity=0.529 Sum_probs=31.9
Q ss_pred cccccccccccccCC------cceecCCCCcccHhhHH-HHHhc-C---------CCCCcccccCCCC
Q 039647 156 DLQCAVWLEEFVMGN------EAKQMPYKHKFHGECLM-PWLEF-H---------SSCPICRYQLPSD 206 (290)
Q Consensus 156 ~~~C~ICle~f~~~~------~~~~lpC~H~FH~~CI~-~Wl~~-~---------~~CP~CR~~l~~~ 206 (290)
...|.+|-..|..=- ..-.|||...+|..-+. +||-+ | ..||.|.+.+...
T Consensus 161 a~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADR 228 (279)
T KOG2462|consen 161 AFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADR 228 (279)
T ss_pred cccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcch
Confidence 368999988875211 12345666666665544 89953 2 2599998877543
No 186
>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=29.27 E-value=55 Score=25.58 Aligned_cols=40 Identities=15% Similarity=0.436 Sum_probs=30.7
Q ss_pred CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD 206 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 206 (290)
....|.-|...+.--+ .+| |..||-.+..|..|+++++..
T Consensus 32 ~rS~C~~C~~~L~~~~---lIP---------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWD---LIP---------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CCCcCcCCCCcCcccc---cch---------HHHHHHhCCCCcccCCCCChH
Confidence 4579999998877533 333 678999999999999988653
No 187
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=28.59 E-value=47 Score=32.12 Aligned_cols=44 Identities=7% Similarity=-0.108 Sum_probs=33.2
Q ss_pred CcccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccC
Q 039647 155 QDLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQL 203 (290)
Q Consensus 155 ~~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l 203 (290)
...+|.+|-+-+.. ....+|+|. |+.+|.. +....+||+|....
T Consensus 342 s~~~~~~~~~~~~s---t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS---TIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceee---eEeecCCcccChhhhhh--cccCCccccccccc
Confidence 45899999877543 456679975 8888877 67778999997643
No 188
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.34 E-value=1.1e+02 Score=28.86 Aligned_cols=18 Identities=33% Similarity=0.270 Sum_probs=11.7
Q ss_pred ccccccccHHHHHHHHHh
Q 039647 112 DEYLVGPGLDLLLQHLLE 129 (290)
Q Consensus 112 ~d~~~g~~l~~ll~~l~~ 129 (290)
|.|..-...+-|+|.|+.
T Consensus 202 G~Y~~~~~~~~L~q~L~~ 219 (279)
T TIGR00627 202 GSYLHVKKPQGLLQYLMT 219 (279)
T ss_pred CEEeccCCHhHHHHHHHH
Confidence 466666666667777765
No 189
>PRK06835 DNA replication protein DnaC; Validated
Probab=28.29 E-value=30 Score=33.25 Aligned_cols=14 Identities=36% Similarity=0.838 Sum_probs=11.7
Q ss_pred CCcCCCCCCC-Ccee
Q 039647 1 MGSKFPFCET-GFVE 14 (290)
Q Consensus 1 ~e~~Cp~C~~-GFvE 14 (290)
|.+.||.|.+ |||.
T Consensus 97 ~~y~Cp~C~dtG~i~ 111 (329)
T PRK06835 97 MKYTCPKCKDTGFIN 111 (329)
T ss_pred CCCCCCCCCCCCCcC
Confidence 4578999998 9993
No 190
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=28.27 E-value=21 Score=40.90 Aligned_cols=48 Identities=25% Similarity=0.264 Sum_probs=37.3
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcC----CCCCcccccC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH----SSCPICRYQL 203 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~----~~CP~CR~~l 203 (290)
...|.||+....+...+...-|.-.||..|+.+-+... -.||-|+..-
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 37999999987764444444588999999999988643 3699998765
No 191
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=27.94 E-value=33 Score=21.85 Aligned_cols=8 Identities=50% Similarity=1.319 Sum_probs=5.1
Q ss_pred CCCCcccc
Q 039647 194 SSCPICRY 201 (290)
Q Consensus 194 ~~CP~CR~ 201 (290)
..||+|..
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 46777754
No 192
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=27.86 E-value=28 Score=24.39 Aligned_cols=11 Identities=27% Similarity=0.875 Sum_probs=8.5
Q ss_pred CCcCCCCCCCC
Q 039647 1 MGSKFPFCETG 11 (290)
Q Consensus 1 ~e~~Cp~C~~G 11 (290)
+++.||+|++-
T Consensus 23 ~~irCp~Cg~r 33 (49)
T COG1996 23 RGIRCPYCGSR 33 (49)
T ss_pred CceeCCCCCcE
Confidence 35789999873
No 193
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.99 E-value=56 Score=26.14 Aligned_cols=34 Identities=24% Similarity=0.283 Sum_probs=28.7
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHh
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE 191 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~ 191 (290)
-.|.||-..+..|++-.-.+ +-.-|.+|+..=..
T Consensus 7 wkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 58999999999999887777 77789999887554
No 194
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.80 E-value=32 Score=35.70 Aligned_cols=46 Identities=22% Similarity=0.470 Sum_probs=29.4
Q ss_pred HHHhCCccccC--CcccccccccccccC-----C-----cceecCCCCcccHhhHHHH
Q 039647 144 VVKALPMVAID--QDLQCAVWLEEFVMG-----N-----EAKQMPYKHKFHGECLMPW 189 (290)
Q Consensus 144 ~i~~lp~~~~~--~~~~C~ICle~f~~~-----~-----~~~~lpC~H~FH~~CI~~W 189 (290)
+..+...+..+ ....|+||.|.|+.- + .++.+.=|-+||..|+..-
T Consensus 499 ~~~k~~~Vp~d~e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 499 LRSKYELVPADSERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred hhccceecccCcccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 33444444444 247999999999721 0 1344445889999998754
No 195
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=26.79 E-value=31 Score=34.90 Aligned_cols=46 Identities=26% Similarity=0.459 Sum_probs=29.8
Q ss_pred ccccccccccc-ccCCcceecC-CCCcccHhhHHHHHhc--------CCCCCcccc
Q 039647 156 DLQCAVWLEEF-VMGNEAKQMP-YKHKFHGECLMPWLEF--------HSSCPICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f-~~~~~~~~lp-C~H~FH~~CI~~Wl~~--------~~~CP~CR~ 201 (290)
+..|+||+.-. -.+.+++.+- |.--||..|-.+..+. .-.|-+|..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 46799999543 3333344443 8899999998776532 114888854
No 196
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=26.77 E-value=27 Score=20.89 Aligned_cols=8 Identities=25% Similarity=0.393 Sum_probs=6.7
Q ss_pred CcCCCCCC
Q 039647 2 GSKFPFCE 9 (290)
Q Consensus 2 e~~Cp~C~ 9 (290)
.++||.|+
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 47899997
No 197
>PLN02248 cellulose synthase-like protein
Probab=26.19 E-value=69 Score=35.90 Aligned_cols=54 Identities=17% Similarity=0.343 Sum_probs=36.3
Q ss_pred cccccc--ccccccc---CCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647 156 DLQCAV--WLEEFVM---GNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK 209 (290)
Q Consensus 156 ~~~C~I--Cle~f~~---~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 209 (290)
...|.+ |-...-. |+.+..+-|++..|++|...-++....||-|+.+....+..
T Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 (1135)
T PLN02248 124 GSSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAVKSGGICPGCKEPYKVTDLD 182 (1135)
T ss_pred CCcccccCcccccccccccccCCcccccchhHHhHhhhhhhcCCCCCCCcccccccccc
Confidence 356666 4333221 22333334889999999999998888999999988654443
No 198
>PRK06921 hypothetical protein; Provisional
Probab=26.07 E-value=34 Score=31.72 Aligned_cols=14 Identities=21% Similarity=0.479 Sum_probs=11.6
Q ss_pred CcCCCCCCC-Cceee
Q 039647 2 GSKFPFCET-GFVEQ 15 (290)
Q Consensus 2 e~~Cp~C~~-GFvEe 15 (290)
.+.||.|++ |||-+
T Consensus 32 ~~~Cp~C~dtG~i~~ 46 (266)
T PRK06921 32 RYDCPKCKDRGIIIY 46 (266)
T ss_pred CCCCCCCCCCEEEEe
Confidence 478999998 99943
No 199
>PF07860 CCD: WisP family C-Terminal Region; InterPro: IPR012421 This entry represents the C-terminal domain found in the Tropheryma whipplei WisP family of proteins [].
Probab=25.72 E-value=30 Score=28.11 Aligned_cols=24 Identities=33% Similarity=0.724 Sum_probs=17.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCC
Q 039647 245 RNWIPIPWPFDDLFSMSGSQEGGT 268 (290)
Q Consensus 245 r~~~s~~wPf~~~fs~ss~s~s~~ 268 (290)
..|--+-|||+-+|++.+...+++
T Consensus 50 wiwhgitwpfrklfgsrseapsst 73 (141)
T PF07860_consen 50 WIWHGITWPFRKLFGSRSEAPSST 73 (141)
T ss_pred hhhhcccchHHHHhCCcccCCccc
Confidence 467788999999999755544433
No 200
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=25.58 E-value=34 Score=24.37 Aligned_cols=12 Identities=25% Similarity=0.432 Sum_probs=8.6
Q ss_pred CCcCCCCCCCCc
Q 039647 1 MGSKFPFCETGF 12 (290)
Q Consensus 1 ~e~~Cp~C~~GF 12 (290)
|.++||.|+.-+
T Consensus 1 ~~~~CP~CG~~i 12 (54)
T TIGR01206 1 MQFECPDCGAEI 12 (54)
T ss_pred CccCCCCCCCEE
Confidence 557888888744
No 201
>PRK05978 hypothetical protein; Provisional
Probab=25.34 E-value=44 Score=28.67 Aligned_cols=34 Identities=18% Similarity=0.363 Sum_probs=24.7
Q ss_pred ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL 208 (290)
Q Consensus 157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~ 208 (290)
..|+-|.+ ||.|+ .+|+.+..||.|-.++...+.
T Consensus 34 grCP~CG~-------------G~LF~-----g~Lkv~~~C~~CG~~~~~~~a 67 (148)
T PRK05978 34 GRCPACGE-------------GKLFR-----AFLKPVDHCAACGEDFTHHRA 67 (148)
T ss_pred CcCCCCCC-------------Ccccc-----cccccCCCccccCCccccCCc
Confidence 46777764 35565 588999999999887765543
No 202
>PRK11827 hypothetical protein; Provisional
Probab=24.84 E-value=28 Score=25.42 Aligned_cols=18 Identities=28% Similarity=0.377 Sum_probs=9.8
Q ss_pred HHHhcCCCCCcccccCCC
Q 039647 188 PWLEFHSSCPICRYQLPS 205 (290)
Q Consensus 188 ~Wl~~~~~CP~CR~~l~~ 205 (290)
+||...-.||+|+.++..
T Consensus 3 ~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWY 20 (60)
T ss_pred hHHHhheECCCCCCcCeE
Confidence 445445556666665543
No 203
>PLN02400 cellulose synthase
Probab=24.69 E-value=44 Score=37.23 Aligned_cols=49 Identities=10% Similarity=0.192 Sum_probs=33.4
Q ss_pred cccccccccccccCC---c-ceecCCCCcccHhhHHH-HHhcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMGN---E-AKQMPYKHKFHGECLMP-WLEFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~~---~-~~~lpC~H~FH~~CI~~-Wl~~~~~CP~CR~~l~ 204 (290)
...|.||-+++.... . +..--|+---|+.|-.- .-+..+.||.||....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 469999999975432 2 22233777789999742 2235678999988765
No 204
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=24.33 E-value=30 Score=24.85 Aligned_cols=9 Identities=33% Similarity=0.693 Sum_probs=7.5
Q ss_pred CcCCCCCCC
Q 039647 2 GSKFPFCET 10 (290)
Q Consensus 2 e~~Cp~C~~ 10 (290)
|+|||.|-.
T Consensus 24 e~KCPrCK~ 32 (60)
T COG4416 24 EKKCPRCKE 32 (60)
T ss_pred eecCCccce
Confidence 689999964
No 205
>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=24.10 E-value=61 Score=26.65 Aligned_cols=21 Identities=24% Similarity=0.294 Sum_probs=15.4
Q ss_pred HHhcCCCCCcccccCCCCCcc
Q 039647 189 WLEFHSSCPICRYQLPSDNLK 209 (290)
Q Consensus 189 Wl~~~~~CP~CR~~l~~~~~~ 209 (290)
.|.+...|+.|+.++.-+...
T Consensus 81 mLGr~D~CM~C~~pLTLd~~l 101 (114)
T PF11023_consen 81 MLGRVDACMHCKEPLTLDPSL 101 (114)
T ss_pred hhchhhccCcCCCcCccCchh
Confidence 345567899999998766543
No 206
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.58 E-value=71 Score=24.35 Aligned_cols=47 Identities=19% Similarity=0.496 Sum_probs=30.9
Q ss_pred cccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647 158 QCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD 206 (290)
Q Consensus 158 ~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 206 (290)
-|--|-.++-.+. .+++..=.|.||.+|... ..+..||.|-.++...
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~--~l~g~CPnCGGelv~R 54 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAEN--RLHGLCPNCGGELVAR 54 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHH--hhcCcCCCCCchhhcC
Confidence 4555666665433 233433468999999887 4577899997766544
No 207
>PLN02195 cellulose synthase A
Probab=23.48 E-value=76 Score=35.08 Aligned_cols=50 Identities=18% Similarity=0.144 Sum_probs=34.7
Q ss_pred cccccccccccccCC---cceecC-CCCcccHhhHHHHH-hcCCCCCcccccCCC
Q 039647 156 DLQCAVWLEEFVMGN---EAKQMP-YKHKFHGECLMPWL-EFHSSCPICRYQLPS 205 (290)
Q Consensus 156 ~~~C~ICle~f~~~~---~~~~lp-C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~ 205 (290)
...|.||-+++.... .-+.+. |+---|+.|..-=. +.++.||.|+.....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 458999999876433 223333 88889999974322 356789999988873
No 208
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families include mammalian, yeast, Chlamydomonas reinhardtii and Entamoeba histolytica S27, and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0250 []. These proteins have from 62 to 87 amino acids. They contain, in their central section, a putative zinc-finger region of the type C-x(2)-C-x(14)-C-x(2)-C.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1QXF_A 3IZ6_X 2XZN_6 2XZM_6 3U5G_b 3IZB_X 3U5C_b.
Probab=23.29 E-value=21 Score=25.58 Aligned_cols=9 Identities=44% Similarity=0.630 Sum_probs=3.4
Q ss_pred CCcCCCCCC
Q 039647 1 MGSKFPFCE 9 (290)
Q Consensus 1 ~e~~Cp~C~ 9 (290)
|+++||.|.
T Consensus 6 m~VkCp~C~ 14 (55)
T PF01667_consen 6 MDVKCPGCY 14 (55)
T ss_dssp EEEE-TTT-
T ss_pred EEEECCCCC
Confidence 344555553
No 209
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=23.28 E-value=27 Score=25.47 Aligned_cols=8 Identities=38% Similarity=0.588 Sum_probs=4.0
Q ss_pred CcCCCCCC
Q 039647 2 GSKFPFCE 9 (290)
Q Consensus 2 e~~Cp~C~ 9 (290)
+++||.|+
T Consensus 11 ~VkCp~C~ 18 (59)
T PRK00415 11 KVKCPDCG 18 (59)
T ss_pred EEECCCCC
Confidence 44555554
No 210
>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=23.05 E-value=45 Score=27.04 Aligned_cols=45 Identities=18% Similarity=0.340 Sum_probs=27.1
Q ss_pred Cccccccccccccc--CCcceecCCCCcccHhhHHHHHhcCC---CCCcccc
Q 039647 155 QDLQCAVWLEEFVM--GNEAKQMPYKHKFHGECLMPWLEFHS---SCPICRY 201 (290)
Q Consensus 155 ~~~~C~ICle~f~~--~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~ 201 (290)
....|.+|...|.. +......-|+|.+|..|-.. ..+. .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHH
Confidence 45799999998742 22344455999999998554 1111 3777743
No 211
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.04 E-value=62 Score=23.24 Aligned_cols=31 Identities=6% Similarity=0.032 Sum_probs=21.5
Q ss_pred ccccccccccccc--CCcceecC-CCCcccHhhH
Q 039647 156 DLQCAVWLEEFVM--GNEAKQMP-YKHKFHGECL 186 (290)
Q Consensus 156 ~~~C~ICle~f~~--~~~~~~lp-C~H~FH~~CI 186 (290)
...|+.|-...+. .......| ||+.+|.+-.
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence 4689999988776 33444555 8888877643
No 212
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=23.01 E-value=43 Score=22.54 Aligned_cols=9 Identities=22% Similarity=0.493 Sum_probs=7.5
Q ss_pred cCCCCCCCC
Q 039647 3 SKFPFCETG 11 (290)
Q Consensus 3 ~~Cp~C~~G 11 (290)
++||+|++-
T Consensus 19 ~~CP~Cg~~ 27 (46)
T PF12760_consen 19 FVCPHCGST 27 (46)
T ss_pred CCCCCCCCe
Confidence 679999975
No 213
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=22.99 E-value=45 Score=35.84 Aligned_cols=23 Identities=26% Similarity=0.571 Sum_probs=17.3
Q ss_pred CCCcccHhhHHHHHhcCCCCCcccccC
Q 039647 177 YKHKFHGECLMPWLEFHSSCPICRYQL 203 (290)
Q Consensus 177 C~H~FH~~CI~~Wl~~~~~CP~CR~~l 203 (290)
|+|.-|..=|.+ ++.||+|...+
T Consensus 1162 CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1162 CKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cccccccccccc----cccCccccChh
Confidence 999888765544 78899997643
No 214
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=22.86 E-value=37 Score=23.66 Aligned_cols=12 Identities=33% Similarity=0.816 Sum_probs=9.1
Q ss_pred CCCCCCCCceee
Q 039647 4 KFPFCETGFVEQ 15 (290)
Q Consensus 4 ~Cp~C~~GFvEe 15 (290)
.||.|+++|+-.
T Consensus 22 fCP~Cg~~~m~~ 33 (50)
T PRK00432 22 FCPRCGSGFMAE 33 (50)
T ss_pred cCcCCCcchhec
Confidence 699999885543
No 215
>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=22.65 E-value=21 Score=24.83 Aligned_cols=12 Identities=25% Similarity=0.537 Sum_probs=6.4
Q ss_pred CCCCCCCCceee
Q 039647 4 KFPFCETGFVEQ 15 (290)
Q Consensus 4 ~Cp~C~~GFvEe 15 (290)
+||-|+..|=+|
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 799999988654
No 216
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=22.38 E-value=31 Score=33.10 Aligned_cols=44 Identities=18% Similarity=0.280 Sum_probs=27.8
Q ss_pred cccccccccccccCCcceec--C--CCCcccHhhHHHHHhcCCCCCcccc
Q 039647 156 DLQCAVWLEEFVMGNEAKQM--P--YKHKFHGECLMPWLEFHSSCPICRY 201 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~l--p--C~H~FH~~CI~~Wl~~~~~CP~CR~ 201 (290)
...|+||-..-... ++.+ . =.|.+|.-|-..|--.+..||.|-.
T Consensus 187 ~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 47999998763211 0000 0 1244666677788888888999964
No 217
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=22.35 E-value=56 Score=22.11 Aligned_cols=36 Identities=14% Similarity=0.087 Sum_probs=23.0
Q ss_pred cCCccccccccccc--ccCCcceecCCCCcccHhhHHH
Q 039647 153 IDQDLQCAVWLEEF--VMGNEAKQMPYKHKFHGECLMP 188 (290)
Q Consensus 153 ~~~~~~C~ICle~f--~~~~~~~~lpC~H~FH~~CI~~ 188 (290)
+.....|.+|.+.+ ....-.+-.-|+-..|..|+..
T Consensus 8 ~~~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 8 FSKPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp SSSTEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 34567999999998 2222334445999999999643
No 218
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=22.28 E-value=40 Score=23.40 Aligned_cols=7 Identities=43% Similarity=1.084 Sum_probs=5.7
Q ss_pred CCCCCCC
Q 039647 4 KFPFCET 10 (290)
Q Consensus 4 ~Cp~C~~ 10 (290)
-||+|++
T Consensus 3 PCPfCGg 9 (53)
T TIGR03655 3 PCPFCGG 9 (53)
T ss_pred CCCCCCC
Confidence 4999987
No 219
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS 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=22.14 E-value=30 Score=22.10 Aligned_cols=14 Identities=14% Similarity=0.123 Sum_probs=10.0
Q ss_pred CcCCCCCCCCceee
Q 039647 2 GSKFPFCETGFVEQ 15 (290)
Q Consensus 2 e~~Cp~C~~GFvEe 15 (290)
+++|+.|+.-|-..
T Consensus 5 ~y~C~~Cg~~fe~~ 18 (41)
T smart00834 5 EYRCEDCGHTFEVL 18 (41)
T ss_pred EEEcCCCCCEEEEE
Confidence 57888888876433
No 220
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=22.01 E-value=13 Score=25.80 Aligned_cols=32 Identities=19% Similarity=0.317 Sum_probs=17.9
Q ss_pred cccc--cccccccCCcc----eecC-CCCcccHhhHHHH
Q 039647 158 QCAV--WLEEFVMGNEA----KQMP-YKHKFHGECLMPW 189 (290)
Q Consensus 158 ~C~I--Cle~f~~~~~~----~~lp-C~H~FH~~CI~~W 189 (290)
-|+- |-..+...+.. +..+ |++.||..|-.+|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 6766 77776654432 4456 8999988887776
No 221
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=21.62 E-value=53 Score=31.17 Aligned_cols=54 Identities=26% Similarity=0.234 Sum_probs=29.8
Q ss_pred cccccccccHHHHHHHHHhcCCCCCCCCcchHHHHHhCCccccC-------------Cccccccccccccc
Q 039647 111 LDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAID-------------QDLQCAVWLEEFVM 168 (290)
Q Consensus 111 ~~d~~~g~~l~~ll~~l~~~~~~~~~~~pa~~~~i~~lp~~~~~-------------~~~~C~ICle~f~~ 168 (290)
=|+|.--..-+-|||.|+-. ..+-|-.+..+.+.+...+. -...|+|||..|..
T Consensus 219 GG~YL~v~~~~gLLqyLlt~----~~~D~~~R~~l~kpnh~~VDfRAtC~CH~~lv~iG~VCSVCLSVfC~ 285 (314)
T KOG2487|consen 219 GGDYLHVEKPDGLLQYLLTL----LLTDPELRAVLSKPNHNSVDFRATCYCHNRLVLIGFVCSVCLSVFCR 285 (314)
T ss_pred CCeeEecCCcchHHHHHHHH----hcCCcchhhhccCCCCCCcCcceeeeeecceeeeeeehHHHHHHhhC
Confidence 46777666666667766543 12223334444444444333 13688888887754
No 222
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=21.48 E-value=45 Score=30.96 Aligned_cols=40 Identities=18% Similarity=0.249 Sum_probs=28.3
Q ss_pred cccccccccccccCCcceecCCCCcccHhhHHHHHhcCC--CCC
Q 039647 156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS--SCP 197 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~--~CP 197 (290)
+..|+|-+..+.. .+....|.|+|-.+-|...|+.-. .||
T Consensus 189 ~nrCpitl~p~~~--pils~kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 189 SNRCPITLNPDFY--PILSSKCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred cccCCcccCcchh--HHHHhhhcccccHHHHHHHhcCCceeecc
Confidence 4689996655442 133445999999999999998544 455
No 223
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=21.13 E-value=48 Score=24.94 Aligned_cols=31 Identities=19% Similarity=0.306 Sum_probs=21.2
Q ss_pred cccccccccccccCCccee--cCCCCcccHhhHHH
Q 039647 156 DLQCAVWLEEFVMGNEAKQ--MPYKHKFHGECLMP 188 (290)
Q Consensus 156 ~~~C~ICle~f~~~~~~~~--lpC~H~FH~~CI~~ 188 (290)
...|.+|.... |..+.. -.|.-.||..|...
T Consensus 36 ~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 46999999762 322222 23999999999765
No 224
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=20.74 E-value=57 Score=22.87 Aligned_cols=14 Identities=29% Similarity=0.470 Sum_probs=10.3
Q ss_pred CCCCCCCceeeccC
Q 039647 5 FPFCETGFVEQMSS 18 (290)
Q Consensus 5 Cp~C~~GFvEe~~~ 18 (290)
||+|+..-|.+...
T Consensus 6 CPFCG~~~~~~~~~ 19 (61)
T PF14354_consen 6 CPFCGSADVLIRQD 19 (61)
T ss_pred CCCCCCcceEeecc
Confidence 99997776666554
No 225
>smart00355 ZnF_C2H2 zinc finger.
Probab=20.72 E-value=50 Score=17.92 Aligned_cols=11 Identities=27% Similarity=0.501 Sum_probs=7.5
Q ss_pred cCCCCCCCCce
Q 039647 3 SKFPFCETGFV 13 (290)
Q Consensus 3 ~~Cp~C~~GFv 13 (290)
++|+.|+.-|.
T Consensus 1 ~~C~~C~~~f~ 11 (26)
T smart00355 1 YRCPECGKVFK 11 (26)
T ss_pred CCCCCCcchhC
Confidence 46777777664
No 226
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=20.19 E-value=93 Score=34.64 Aligned_cols=49 Identities=16% Similarity=0.184 Sum_probs=34.3
Q ss_pred cccccccccccccC---CcceecC-CCCcccHhhHHHHH-hcCCCCCcccccCC
Q 039647 156 DLQCAVWLEEFVMG---NEAKQMP-YKHKFHGECLMPWL-EFHSSCPICRYQLP 204 (290)
Q Consensus 156 ~~~C~ICle~f~~~---~~~~~lp-C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~ 204 (290)
...|.||-+++... +.-+.+. |+---|+.|..-=. +.++.||.|+..+.
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 46899999997543 2223333 88889999985322 35778999988765
No 227
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=20.10 E-value=47 Score=36.04 Aligned_cols=61 Identities=20% Similarity=0.272 Sum_probs=35.8
Q ss_pred Ccccccccccccc------------cCCcceecC-CCCcccHhh----------HHHHHhcCCCCC---cccccCCCCCc
Q 039647 155 QDLQCAVWLEEFV------------MGNEAKQMP-YKHKFHGEC----------LMPWLEFHSSCP---ICRYQLPSDNL 208 (290)
Q Consensus 155 ~~~~C~ICle~f~------------~~~~~~~lp-C~H~FH~~C----------I~~Wl~~~~~CP---~CR~~l~~~~~ 208 (290)
+..+|.||+.++. .|+.+-++. ||-.|-..= +.+=++...+|| +|.+++.....
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccc
Confidence 4579999998875 334444444 666553321 222223455799 99888876655
Q ss_pred ccCCCCC
Q 039647 209 KVQGNGP 215 (290)
Q Consensus 209 ~~~~~~~ 215 (290)
..+..+.
T Consensus 684 lpQhIri 690 (958)
T KOG1074|consen 684 LPQHIRI 690 (958)
T ss_pred ccceEEe
Confidence 5544433
No 228
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.09 E-value=52 Score=26.14 Aligned_cols=11 Identities=36% Similarity=1.011 Sum_probs=10.4
Q ss_pred ccHhhHHHHHh
Q 039647 181 FHGECLMPWLE 191 (290)
Q Consensus 181 FH~~CI~~Wl~ 191 (290)
||..|+..|+.
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999996
Done!