Query 021673
Match_columns 309
No_of_seqs 275 out of 1734
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 04:48:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021673.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021673hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 3.9E-19 8.5E-24 167.1 5.0 76 224-308 202-278 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 4.4E-16 9.6E-21 105.0 2.7 44 261-304 1-44 (44)
3 COG5540 RING-finger-containing 99.4 2.6E-13 5.7E-18 123.9 3.3 51 258-308 321-372 (374)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 5.7E-13 1.2E-17 99.6 4.1 46 259-304 18-73 (73)
5 PHA02929 N1R/p28-like protein; 99.3 6.2E-13 1.3E-17 120.2 4.3 76 226-308 147-227 (238)
6 KOG1734 Predicted RING-contain 99.3 1.1E-12 2.5E-17 118.0 2.1 58 251-308 215-281 (328)
7 COG5243 HRD1 HRD ubiquitin lig 99.2 3.3E-12 7.1E-17 119.5 2.8 54 254-307 281-344 (491)
8 PLN03208 E3 ubiquitin-protein 99.1 3.7E-11 8.1E-16 104.7 4.8 49 257-308 15-79 (193)
9 KOG0317 Predicted E3 ubiquitin 99.1 3.2E-11 6.8E-16 110.0 3.6 53 253-308 232-284 (293)
10 PF13920 zf-C3HC4_3: Zinc fing 99.1 4E-11 8.8E-16 82.9 2.9 48 259-309 1-49 (50)
11 cd00162 RING RING-finger (Real 99.1 1.6E-10 3.4E-15 76.6 3.7 44 262-307 1-45 (45)
12 PF13923 zf-C3HC4_2: Zinc fing 99.0 3.5E-10 7.5E-15 74.1 3.2 39 263-303 1-39 (39)
13 PF12861 zf-Apc11: Anaphase-pr 99.0 4.3E-10 9.3E-15 85.5 3.5 49 259-307 20-81 (85)
14 KOG0823 Predicted E3 ubiquitin 98.9 7.6E-10 1.6E-14 98.4 3.9 49 257-308 44-95 (230)
15 KOG0802 E3 ubiquitin ligase [P 98.8 1.5E-09 3.2E-14 110.0 3.6 52 256-307 287-340 (543)
16 PF14634 zf-RING_5: zinc-RING 98.8 2.9E-09 6.2E-14 71.6 3.2 44 262-305 1-44 (44)
17 PHA02926 zinc finger-like prot 98.8 2.3E-09 5E-14 94.8 3.3 51 258-308 168-230 (242)
18 PF00097 zf-C3HC4: Zinc finger 98.8 3.5E-09 7.6E-14 69.8 2.6 39 263-303 1-41 (41)
19 KOG0320 Predicted E3 ubiquitin 98.8 5E-09 1.1E-13 89.6 3.5 50 258-308 129-178 (187)
20 smart00504 Ubox Modified RING 98.8 8.5E-09 1.8E-13 74.2 4.2 45 261-308 2-46 (63)
21 PF15227 zf-C3HC4_4: zinc fing 98.8 5E-09 1.1E-13 69.8 2.7 38 263-303 1-42 (42)
22 smart00184 RING Ring finger. E 98.8 7.4E-09 1.6E-13 66.1 3.4 38 263-303 1-39 (39)
23 COG5194 APC11 Component of SCF 98.7 1.8E-08 3.8E-13 75.0 3.1 27 281-307 54-80 (88)
24 TIGR00599 rad18 DNA repair pro 98.6 2.8E-08 6.2E-13 96.1 3.5 49 257-308 23-71 (397)
25 smart00744 RINGv The RING-vari 98.5 5.8E-08 1.3E-12 66.9 3.2 42 262-304 1-49 (49)
26 KOG0828 Predicted E3 ubiquitin 98.5 1.8E-07 3.9E-12 90.9 6.7 51 258-308 569-634 (636)
27 KOG1493 Anaphase-promoting com 98.5 4.3E-08 9.4E-13 72.3 0.7 49 259-307 19-80 (84)
28 PF13445 zf-RING_UBOX: RING-ty 98.3 3.3E-07 7.2E-12 61.3 2.7 38 263-301 1-43 (43)
29 COG5574 PEX10 RING-finger-cont 98.3 2.7E-07 5.8E-12 83.6 2.5 47 258-307 213-261 (271)
30 KOG2930 SCF ubiquitin ligase, 98.3 4.9E-07 1.1E-11 70.6 2.3 48 259-306 45-106 (114)
31 PF04564 U-box: U-box domain; 98.2 6.7E-07 1.5E-11 66.7 2.7 48 258-308 2-50 (73)
32 PF11793 FANCL_C: FANCL C-term 98.2 3E-07 6.5E-12 68.1 -0.0 49 260-308 2-66 (70)
33 COG5219 Uncharacterized conser 98.2 5.2E-07 1.1E-11 93.3 1.2 48 258-308 1467-1523(1525)
34 KOG0287 Postreplication repair 98.0 1.8E-06 3.8E-11 80.7 1.7 48 259-309 22-69 (442)
35 KOG0804 Cytoplasmic Zn-finger 98.0 4.3E-06 9.4E-11 80.7 3.1 52 253-306 168-220 (493)
36 KOG2164 Predicted E3 ubiquitin 98.0 3.7E-06 8.1E-11 82.5 2.6 45 260-307 186-235 (513)
37 KOG4265 Predicted E3 ubiquitin 97.9 6.4E-06 1.4E-10 77.7 3.4 50 257-309 287-337 (349)
38 COG5432 RAD18 RING-finger-cont 97.9 6.5E-06 1.4E-10 75.6 2.0 48 258-308 23-70 (391)
39 KOG0825 PHD Zn-finger protein 97.7 6.2E-06 1.4E-10 84.1 -0.1 51 258-308 121-171 (1134)
40 KOG4159 Predicted E3 ubiquitin 97.7 3E-05 6.6E-10 75.3 3.3 50 257-309 81-130 (398)
41 KOG1039 Predicted E3 ubiquitin 97.6 2.3E-05 4.9E-10 74.8 2.1 51 258-308 159-221 (344)
42 KOG4445 Uncharacterized conser 97.6 1.9E-05 4.1E-10 72.8 0.7 50 258-307 113-185 (368)
43 KOG0311 Predicted E3 ubiquitin 97.4 2.4E-05 5.1E-10 73.7 -1.4 47 258-307 41-89 (381)
44 KOG4172 Predicted E3 ubiquitin 97.3 6.6E-05 1.4E-09 52.1 0.1 47 259-308 6-54 (62)
45 KOG1941 Acetylcholine receptor 97.3 8.7E-05 1.9E-09 70.8 0.9 47 259-305 364-413 (518)
46 PF14835 zf-RING_6: zf-RING of 97.1 9.2E-05 2E-09 53.4 -0.2 45 259-307 6-50 (65)
47 KOG0801 Predicted E3 ubiquitin 97.1 0.00017 3.8E-09 61.0 0.8 32 256-287 173-204 (205)
48 KOG1428 Inhibitor of type V ad 97.0 0.00037 8.1E-09 75.3 2.8 53 256-308 3482-3544(3738)
49 KOG1785 Tyrosine kinase negati 96.9 0.0003 6.6E-09 67.3 1.2 45 261-308 370-416 (563)
50 PF11789 zf-Nse: Zinc-finger o 96.9 0.00056 1.2E-08 48.5 1.7 43 258-302 9-53 (57)
51 KOG0297 TNF receptor-associate 96.8 0.00054 1.2E-08 66.9 2.1 50 257-308 18-67 (391)
52 PF12906 RINGv: RING-variant d 96.7 0.001 2.3E-08 45.2 2.3 40 263-303 1-47 (47)
53 KOG3970 Predicted E3 ubiquitin 96.7 0.0011 2.5E-08 59.0 3.0 49 258-307 48-104 (299)
54 PF05883 Baculo_RING: Baculovi 96.7 0.00081 1.7E-08 55.6 1.9 38 259-296 25-68 (134)
55 PHA02825 LAP/PHD finger-like p 96.6 0.0018 4E-08 54.9 3.4 49 257-307 5-58 (162)
56 KOG2879 Predicted E3 ubiquitin 96.4 0.0035 7.6E-08 57.5 4.0 52 255-308 234-287 (298)
57 KOG0978 E3 ubiquitin ligase in 96.2 0.0016 3.4E-08 67.2 0.5 45 260-307 643-688 (698)
58 KOG1814 Predicted E3 ubiquitin 96.1 0.0028 6E-08 61.2 2.1 48 258-305 182-237 (445)
59 KOG2660 Locus-specific chromos 96.0 0.002 4.3E-08 60.6 0.5 49 258-308 13-61 (331)
60 KOG3039 Uncharacterized conser 96.0 0.0061 1.3E-07 55.2 3.5 75 234-308 195-270 (303)
61 PF14570 zf-RING_4: RING/Ubox 96.0 0.004 8.6E-08 42.5 1.7 44 263-307 1-47 (48)
62 COG5152 Uncharacterized conser 96.0 0.0038 8.1E-08 54.8 1.8 45 259-306 195-239 (259)
63 KOG4692 Predicted E3 ubiquitin 96.0 0.0051 1.1E-07 58.3 2.8 48 258-308 420-467 (489)
64 PF10367 Vps39_2: Vacuolar sor 95.9 0.0034 7.3E-08 49.5 1.2 33 258-291 76-108 (109)
65 KOG1002 Nucleotide excision re 95.9 0.0034 7.4E-08 62.2 1.4 49 256-307 532-585 (791)
66 KOG0827 Predicted E3 ubiquitin 95.6 0.00095 2.1E-08 63.8 -3.6 51 259-309 195-246 (465)
67 KOG1813 Predicted E3 ubiquitin 95.5 0.006 1.3E-07 56.6 1.5 46 259-307 240-285 (313)
68 PHA03096 p28-like protein; Pro 95.4 0.0078 1.7E-07 56.3 1.8 45 261-305 179-231 (284)
69 KOG1571 Predicted E3 ubiquitin 95.4 0.0097 2.1E-07 56.6 2.4 51 252-308 297-347 (355)
70 KOG0826 Predicted E3 ubiquitin 95.2 0.022 4.7E-07 53.6 4.0 49 255-306 295-344 (357)
71 KOG1952 Transcription factor N 95.0 0.012 2.6E-07 61.4 1.8 50 256-305 187-244 (950)
72 COG5236 Uncharacterized conser 94.3 0.072 1.6E-06 50.6 5.0 54 252-308 53-108 (493)
73 KOG3268 Predicted E3 ubiquitin 93.5 0.047 1E-06 47.2 2.2 49 259-307 164-227 (234)
74 KOG3053 Uncharacterized conser 93.3 0.039 8.5E-07 50.3 1.3 50 257-306 17-80 (293)
75 PF10272 Tmpp129: Putative tra 93.2 0.11 2.4E-06 50.1 4.3 27 281-307 311-350 (358)
76 PF14447 Prok-RING_4: Prokaryo 93.2 0.047 1E-06 38.2 1.3 45 259-308 6-50 (55)
77 PF04641 Rtf2: Rtf2 RING-finge 92.9 0.15 3.2E-06 47.1 4.7 52 256-308 109-161 (260)
78 KOG1940 Zn-finger protein [Gen 92.9 0.059 1.3E-06 50.1 1.9 47 259-305 157-204 (276)
79 KOG2932 E3 ubiquitin ligase in 92.8 0.033 7.1E-07 52.1 0.2 47 258-308 88-134 (389)
80 KOG4275 Predicted E3 ubiquitin 92.8 0.02 4.3E-07 53.1 -1.2 43 259-308 299-342 (350)
81 COG5222 Uncharacterized conser 92.5 0.068 1.5E-06 49.8 1.8 42 261-305 275-318 (427)
82 KOG2114 Vacuolar assembly/sort 92.3 0.069 1.5E-06 56.0 1.8 42 260-306 840-881 (933)
83 KOG1609 Protein involved in mR 92.2 0.088 1.9E-06 49.3 2.2 48 260-307 78-133 (323)
84 PHA02862 5L protein; Provision 92.1 0.088 1.9E-06 44.1 1.8 26 282-307 25-52 (156)
85 PF03854 zf-P11: P-11 zinc fin 92.0 0.057 1.2E-06 36.6 0.5 31 278-308 15-46 (50)
86 PF08746 zf-RING-like: RING-li 92.0 0.074 1.6E-06 35.4 1.0 41 263-303 1-43 (43)
87 KOG1001 Helicase-like transcri 91.3 0.074 1.6E-06 55.5 0.7 44 261-308 455-500 (674)
88 COG5183 SSM4 Protein involved 91.2 0.17 3.6E-06 52.9 3.0 51 257-308 9-66 (1175)
89 KOG1100 Predicted E3 ubiquitin 89.6 0.17 3.6E-06 45.3 1.4 38 263-307 161-199 (207)
90 KOG2034 Vacuolar sorting prote 89.4 0.18 3.9E-06 53.2 1.6 36 258-294 815-850 (911)
91 PF14446 Prok-RING_1: Prokaryo 89.0 0.51 1.1E-05 33.0 3.1 34 259-292 4-38 (54)
92 KOG0802 E3 ubiquitin ligase [P 88.9 0.2 4.3E-06 51.1 1.6 47 254-307 473-519 (543)
93 KOG4362 Transcriptional regula 87.3 0.15 3.3E-06 52.7 -0.5 47 259-308 20-69 (684)
94 KOG3002 Zn finger protein [Gen 87.1 0.38 8.2E-06 45.4 2.1 45 257-308 45-91 (299)
95 KOG0309 Conserved WD40 repeat- 86.8 0.38 8.2E-06 50.1 2.0 24 279-302 1046-1069(1081)
96 KOG0298 DEAD box-containing he 86.5 0.23 4.9E-06 54.4 0.3 45 259-305 1152-1196(1394)
97 COG5175 MOT2 Transcriptional r 85.7 0.56 1.2E-05 44.6 2.4 50 258-307 12-63 (480)
98 KOG1812 Predicted E3 ubiquitin 79.5 0.77 1.7E-05 44.9 0.8 39 259-297 145-184 (384)
99 KOG2817 Predicted E3 ubiquitin 75.9 2.3 5.1E-05 41.3 2.9 47 258-304 332-381 (394)
100 KOG3899 Uncharacterized conser 74.7 1.6 3.6E-05 40.7 1.5 27 281-307 325-364 (381)
101 KOG0825 PHD Zn-finger protein 74.2 2.4 5.2E-05 44.6 2.6 50 258-307 94-153 (1134)
102 PF05290 Baculo_IE-1: Baculovi 73.1 2.7 5.9E-05 34.9 2.2 48 259-308 79-132 (140)
103 smart00132 LIM Zinc-binding do 72.4 3.7 8.1E-05 25.3 2.4 38 262-308 1-38 (39)
104 KOG3005 GIY-YIG type nuclease 71.4 2.8 6.1E-05 38.7 2.2 47 260-306 182-241 (276)
105 PF02891 zf-MIZ: MIZ/SP-RING z 69.8 1.4 3E-05 30.2 -0.1 42 262-306 4-50 (50)
106 KOG4718 Non-SMC (structural ma 69.7 2.7 5.8E-05 37.6 1.6 44 258-303 179-222 (235)
107 KOG1815 Predicted E3 ubiquitin 68.5 3.1 6.8E-05 41.4 2.0 37 258-296 68-104 (444)
108 KOG0269 WD40 repeat-containing 66.6 5 0.00011 42.1 3.0 42 260-302 779-820 (839)
109 KOG2066 Vacuolar assembly/sort 65.8 2.6 5.6E-05 44.4 0.8 41 258-298 782-826 (846)
110 PF13901 DUF4206: Domain of un 65.4 4.3 9.4E-05 36.0 2.1 42 259-305 151-197 (202)
111 KOG1829 Uncharacterized conser 64.5 2.4 5.3E-05 43.4 0.4 43 259-304 510-557 (580)
112 PF07975 C1_4: TFIIH C1-like d 62.0 7 0.00015 27.0 2.1 41 263-304 2-50 (51)
113 smart00249 PHD PHD zinc finger 60.5 5.2 0.00011 25.5 1.3 32 262-293 1-32 (47)
114 PF07191 zinc-ribbons_6: zinc- 55.0 1.3 2.9E-05 32.6 -2.5 41 260-308 1-41 (70)
115 PF04423 Rad50_zn_hook: Rad50 51.8 3.6 7.9E-05 28.4 -0.6 11 298-308 21-31 (54)
116 KOG1812 Predicted E3 ubiquitin 51.1 7.4 0.00016 38.1 1.2 46 259-304 305-352 (384)
117 PF14569 zf-UDP: Zinc-binding 50.3 20 0.00044 27.0 3.1 51 258-308 7-62 (80)
118 KOG3842 Adaptor protein Pellin 45.1 19 0.00042 34.2 2.8 51 257-307 338-413 (429)
119 cd00350 rubredoxin_like Rubred 44.7 15 0.00033 22.7 1.5 11 296-306 16-26 (33)
120 PF06844 DUF1244: Protein of u 43.4 15 0.00032 26.8 1.4 12 284-295 11-22 (68)
121 PF00628 PHD: PHD-finger; Int 43.3 9.4 0.0002 25.5 0.4 44 262-305 1-50 (51)
122 PF06906 DUF1272: Protein of u 43.3 36 0.00078 24.0 3.3 43 261-307 6-51 (57)
123 PF14169 YdjO: Cold-inducible 43.1 11 0.00025 26.8 0.8 17 292-308 28-50 (59)
124 PF13717 zinc_ribbon_4: zinc-r 42.5 12 0.00026 23.7 0.8 26 261-286 3-36 (36)
125 PLN02189 cellulose synthase 42.3 27 0.00058 38.4 3.7 51 258-308 32-87 (1040)
126 KOG3161 Predicted E3 ubiquitin 42.2 9.5 0.00021 39.5 0.4 36 259-294 10-46 (861)
127 PF00412 LIM: LIM domain; Int 42.1 20 0.00043 24.3 1.9 15 259-273 25-39 (58)
128 KOG2068 MOT2 transcription fac 38.8 22 0.00047 34.0 2.2 48 260-308 249-298 (327)
129 PLN02436 cellulose synthase A 38.1 37 0.0008 37.5 4.0 51 258-308 34-89 (1094)
130 KOG3039 Uncharacterized conser 37.9 29 0.00062 31.9 2.7 35 257-294 40-74 (303)
131 PF13719 zinc_ribbon_5: zinc-r 35.2 23 0.0005 22.5 1.2 13 262-274 4-16 (37)
132 KOG3579 Predicted E3 ubiquitin 34.9 22 0.00048 33.3 1.5 36 259-297 267-306 (352)
133 TIGR00622 ssl1 transcription f 34.7 44 0.00095 27.0 3.0 46 260-305 55-111 (112)
134 PF07649 C1_3: C1-like domain; 34.3 28 0.0006 20.8 1.4 29 262-290 2-30 (30)
135 KOG2807 RNA polymerase II tran 34.1 41 0.00089 32.2 3.2 47 259-306 329-376 (378)
136 PLN02638 cellulose synthase A 33.8 51 0.0011 36.4 4.3 51 258-308 15-70 (1079)
137 KOG3113 Uncharacterized conser 33.4 63 0.0014 29.9 4.1 49 258-308 109-158 (293)
138 PLN02915 cellulose synthase A 32.7 52 0.0011 36.3 4.1 52 257-308 12-68 (1044)
139 PF04710 Pellino: Pellino; In 32.6 15 0.00032 36.0 0.0 33 271-306 299-337 (416)
140 KOG2927 Membrane component of 32.5 38 0.00083 32.7 2.7 18 151-168 240-260 (372)
141 PF13832 zf-HC5HC2H_2: PHD-zin 30.7 68 0.0015 25.0 3.6 33 259-293 54-88 (110)
142 PRK03564 formate dehydrogenase 30.2 27 0.00058 33.2 1.3 43 258-305 185-234 (309)
143 KOG1729 FYVE finger containing 30.2 9.9 0.00021 35.8 -1.6 37 261-297 215-251 (288)
144 PRK11827 hypothetical protein; 29.7 17 0.00038 25.9 -0.0 18 291-308 2-19 (60)
145 PRK05978 hypothetical protein; 28.4 29 0.00062 29.4 1.1 22 282-308 42-63 (148)
146 PF04216 FdhE: Protein involve 28.3 9.3 0.0002 35.7 -2.1 48 258-305 170-219 (290)
147 COG5109 Uncharacterized conser 27.5 43 0.00094 31.9 2.1 46 259-304 335-383 (396)
148 PF09723 Zn-ribbon_8: Zinc rib 26.9 15 0.00033 24.0 -0.7 12 297-308 26-38 (42)
149 PF01363 FYVE: FYVE zinc finge 26.4 31 0.00067 24.6 0.8 35 258-294 7-44 (69)
150 PLN02400 cellulose synthase 25.7 62 0.0014 35.8 3.2 51 258-308 34-89 (1085)
151 PF07800 DUF1644: Protein of u 25.3 46 0.001 28.5 1.7 10 299-308 82-91 (162)
152 PF14311 DUF4379: Domain of un 25.1 42 0.0009 23.0 1.2 22 281-303 34-55 (55)
153 PF11023 DUF2614: Protein of u 25.0 39 0.00086 27.2 1.2 17 292-308 80-96 (114)
154 KOG2071 mRNA cleavage and poly 24.1 38 0.00083 34.8 1.2 35 258-293 511-556 (579)
155 PF06937 EURL: EURL protein; 24.0 61 0.0013 30.2 2.4 44 259-302 29-75 (285)
156 COG3813 Uncharacterized protei 23.1 75 0.0016 23.6 2.3 24 282-307 28-51 (84)
157 smart00064 FYVE Protein presen 22.9 26 0.00055 24.9 -0.2 37 259-295 9-46 (68)
158 KOG4185 Predicted E3 ubiquitin 22.8 16 0.00034 34.1 -1.7 47 259-305 206-264 (296)
159 KOG2113 Predicted RNA binding 22.4 79 0.0017 30.2 2.8 44 259-307 342-386 (394)
160 PF09237 GAGA: GAGA factor; I 22.4 28 0.00062 24.1 -0.0 11 258-268 22-32 (54)
161 PF11712 Vma12: Endoplasmic re 22.1 3.4E+02 0.0074 22.4 6.5 26 140-165 79-104 (142)
162 KOG1815 Predicted E3 ubiquitin 22.0 29 0.00063 34.5 -0.1 39 258-296 224-267 (444)
163 KOG3799 Rab3 effector RIM1 and 20.8 39 0.00084 28.2 0.4 52 255-306 60-116 (169)
164 PF10497 zf-4CXXC_R1: Zinc-fin 20.8 94 0.002 24.6 2.6 24 282-305 37-69 (105)
165 TIGR01562 FdhE formate dehydro 20.6 54 0.0012 31.1 1.4 42 259-305 183-232 (305)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.76 E-value=3.9e-19 Score=167.06 Aligned_cols=76 Identities=32% Similarity=0.837 Sum_probs=65.6
Q ss_pred CCCCCCCHHHHhcCCCceeeccccccccCCCCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCC-Ccc
Q 021673 224 AADKGASDDQISRLPSWRYKRVDSNLEAGNSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSC-CPL 302 (309)
Q Consensus 224 ~~~~g~s~~~i~~Lp~~~~~~~~~~~~~~~~~~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~t-CPl 302 (309)
.+.+.+.++.++++|..+|+..++. .....|+||||+|++||++|.|||+|.||..|||+||..+.+ ||+
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~---------~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPv 272 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDE---------DATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPV 272 (348)
T ss_pred hhhhhhHHHHHhhCCcEEecccccc---------CCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCC
Confidence 3567889999999999999887621 112699999999999999999999999999999999988755 999
Q ss_pred cccccC
Q 021673 303 CKQELE 308 (309)
Q Consensus 303 CR~~i~ 308 (309)
||+++.
T Consensus 273 CK~di~ 278 (348)
T KOG4628|consen 273 CKRDIR 278 (348)
T ss_pred CCCcCC
Confidence 999874
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=99.59 E-value=4.4e-16 Score=104.96 Aligned_cols=44 Identities=45% Similarity=1.208 Sum_probs=40.9
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccc
Q 021673 261 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCK 304 (309)
Q Consensus 261 ~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR 304 (309)
++|+||++++.+++.+..++|+|.||.+||.+|++.+.+||+||
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 47999999999999999999999999999999999999999997
No 3
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=2.6e-13 Score=123.91 Aligned_cols=51 Identities=37% Similarity=1.056 Sum_probs=47.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHh-cCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR-ILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~-~~~tCPlCR~~i~ 308 (309)
....+|+|||++|..+|.+++|||+|.||..|+++|+. -+..||.||.+++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 44589999999999999999999999999999999997 6889999999885
No 4
>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=99.36 E-value=5.7e-13 Score=99.61 Aligned_cols=46 Identities=37% Similarity=0.997 Sum_probs=37.4
Q ss_pred CCCcccccccccccC----------CceEEeCCCCcccHHHHHHHHhcCCCCcccc
Q 021673 259 EDPECCICLAKYKEK----------EEVRKLPCSHMFHLKCVDQWLRILSCCPLCK 304 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~----------~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR 304 (309)
.++.|+||++++.+. -.+...+|+|.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 355699999999432 3456678999999999999999999999998
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.34 E-value=6.2e-13 Score=120.20 Aligned_cols=76 Identities=25% Similarity=0.539 Sum_probs=54.9
Q ss_pred CCCCCHHHHhcCCCceeeccccccccCCCCCCCCCCcccccccccccCCc-----eEEeCCCCcccHHHHHHHHhcCCCC
Q 021673 226 DKGASDDQISRLPSWRYKRVDSNLEAGNSAPANEDPECCICLAKYKEKEE-----VRKLPCSHMFHLKCVDQWLRILSCC 300 (309)
Q Consensus 226 ~~g~s~~~i~~Lp~~~~~~~~~~~~~~~~~~~~~~~~C~ICL~~~~~~~~-----v~~LpC~H~FH~~CI~~WL~~~~tC 300 (309)
.++..++-++.+|....+-... .....+.+|+||++++.+++. ...++|+|.||.+||.+|++.+.+|
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~-------~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tC 219 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKL-------YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTC 219 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhh-------hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCC
Confidence 4555667777777654332110 012457899999999876542 2345699999999999999999999
Q ss_pred cccccccC
Q 021673 301 PLCKQELE 308 (309)
Q Consensus 301 PlCR~~i~ 308 (309)
|+||.++.
T Consensus 220 PlCR~~~~ 227 (238)
T PHA02929 220 PVCRTPFI 227 (238)
T ss_pred CCCCCEee
Confidence 99998763
No 6
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=1.1e-12 Score=117.99 Aligned_cols=58 Identities=28% Similarity=0.687 Sum_probs=49.3
Q ss_pred cCCCCCCCCCCcccccccccccCC-------ceEEeCCCCcccHHHHHHHH--hcCCCCcccccccC
Q 021673 251 AGNSAPANEDPECCICLAKYKEKE-------EVRKLPCSHMFHLKCVDQWL--RILSCCPLCKQELE 308 (309)
Q Consensus 251 ~~~~~~~~~~~~C~ICL~~~~~~~-------~v~~LpC~H~FH~~CI~~WL--~~~~tCPlCR~~i~ 308 (309)
++-+....+|..|+||-..+...+ ++..|.|+|+||..||+.|- .++++||.||+.++
T Consensus 215 ~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 215 SGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 344556688999999998887665 78899999999999999994 67899999998775
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=3.3e-12 Score=119.54 Aligned_cols=54 Identities=31% Similarity=0.975 Sum_probs=46.0
Q ss_pred CCCCCCCCcccccccc-cccCC---------ceEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 021673 254 SAPANEDPECCICLAK-YKEKE---------EVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 254 ~~~~~~~~~C~ICL~~-~~~~~---------~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
++...+|..|.||+++ ++.+. +-++|||||.+|.+|++.|++++++||+||.++
T Consensus 281 eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 281 EQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred hhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 3445789999999999 55442 347899999999999999999999999999985
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.14 E-value=3.7e-11 Score=104.75 Aligned_cols=49 Identities=29% Similarity=0.808 Sum_probs=42.1
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc----------------CCCCcccccccC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI----------------LSCCPLCKQELE 308 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~----------------~~tCPlCR~~i~ 308 (309)
..++.+|+||++.++++ ..++|+|.||+.||.+|+.. +..||+||.++.
T Consensus 15 ~~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CCCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 45788999999998877 77899999999999999852 357999999874
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=3.2e-11 Score=110.05 Aligned_cols=53 Identities=26% Similarity=0.765 Sum_probs=46.9
Q ss_pred CCCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 253 NSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 253 ~~~~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.....+.+..|.+||+..+++ ..+||||.||+.||.+|...+..||+||...+
T Consensus 232 ~~~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 232 LSSIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CccCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 344556789999999999888 78999999999999999999999999998764
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.11 E-value=4e-11 Score=82.87 Aligned_cols=48 Identities=40% Similarity=0.938 Sum_probs=40.6
Q ss_pred CCCcccccccccccCCceEEeCCCCc-ccHHHHHHHHhcCCCCcccccccCC
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHM-FHLKCVDQWLRILSCCPLCKQELER 309 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~-FH~~CI~~WL~~~~tCPlCR~~i~~ 309 (309)
|+..|.||++...+ ...+||+|. |+.+|+++|++.+..||+||++|++
T Consensus 1 ~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 1 EDEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp -HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred CcCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 46789999998554 588999999 9999999999999999999999863
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.05 E-value=1.6e-10 Score=76.60 Aligned_cols=44 Identities=45% Similarity=1.176 Sum_probs=37.2
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccc
Q 021673 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-LSCCPLCKQEL 307 (309)
Q Consensus 262 ~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~-~~tCPlCR~~i 307 (309)
+|+||++.+ .+.....+|+|.||.+|+++|++. +..||.||.++
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998 344555669999999999999987 78899999864
No 12
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.98 E-value=3.5e-10 Score=74.13 Aligned_cols=39 Identities=36% Similarity=0.967 Sum_probs=33.8
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCccc
Q 021673 263 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLC 303 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlC 303 (309)
|+||++.+.+ .+..++|||.|+.+|+.+|++.+..||.|
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 8999998777 45789999999999999999999999998
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.97 E-value=4.3e-10 Score=85.50 Aligned_cols=49 Identities=33% Similarity=0.807 Sum_probs=38.9
Q ss_pred CCCccccccccccc--------CC--ceEEeCCCCcccHHHHHHHHhc---CCCCccccccc
Q 021673 259 EDPECCICLAKYKE--------KE--EVRKLPCSHMFHLKCVDQWLRI---LSCCPLCKQEL 307 (309)
Q Consensus 259 ~~~~C~ICL~~~~~--------~~--~v~~LpC~H~FH~~CI~~WL~~---~~tCPlCR~~i 307 (309)
+|+.|.||...|+. |+ .+..-.|+|.||..||.+|++. +..||+||++.
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 48889999988872 22 3334459999999999999975 57899999975
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=7.6e-10 Score=98.35 Aligned_cols=49 Identities=35% Similarity=0.746 Sum_probs=42.9
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc---CCCCcccccccC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI---LSCCPLCKQELE 308 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~---~~tCPlCR~~i~ 308 (309)
.....+|.|||+.-+++ .++.|+|.||+.||.+||.. ++.||+||..|.
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45788999999998887 78889999999999999976 466999999875
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.5e-09 Score=110.02 Aligned_cols=52 Identities=35% Similarity=0.866 Sum_probs=46.6
Q ss_pred CCCCCCcccccccccccCCc--eEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 021673 256 PANEDPECCICLAKYKEKEE--VRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 256 ~~~~~~~C~ICL~~~~~~~~--v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
....+..|.||++++..+++ .++|||+|.||..|+.+|++++++||.||..+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 44679999999999998765 68999999999999999999999999999843
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.82 E-value=2.9e-09 Score=71.64 Aligned_cols=44 Identities=34% Similarity=0.847 Sum_probs=39.9
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 021673 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 262 ~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
.|.||+++|.+....+.++|+|.|+.+|+++.......||+||+
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 59999999977777899999999999999999977789999985
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.82 E-value=2.3e-09 Score=94.79 Aligned_cols=51 Identities=29% Similarity=0.827 Sum_probs=38.5
Q ss_pred CCCCcccccccccccCC-----ceEEe-CCCCcccHHHHHHHHhcC------CCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKE-----EVRKL-PCSHMFHLKCVDQWLRIL------SCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~-----~v~~L-pC~H~FH~~CI~~WL~~~------~tCPlCR~~i~ 308 (309)
.++.+|+||++..-++. .-..| +|+|.||..||++|.+.+ .+||+||....
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 46789999999864321 12234 599999999999999753 45999998753
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.78 E-value=3.5e-09 Score=69.84 Aligned_cols=39 Identities=41% Similarity=1.013 Sum_probs=34.6
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHh--cCCCCccc
Q 021673 263 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR--ILSCCPLC 303 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~--~~~tCPlC 303 (309)
|+||++.+.++. ..++|+|.||.+|+++|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988873 5899999999999999998 56779998
No 19
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=5e-09 Score=89.56 Aligned_cols=50 Identities=28% Similarity=0.671 Sum_probs=43.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.+...|+|||+.+.+... .-+.|||+||++||+.-++....||+|++.|.
T Consensus 129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 456899999999887643 23679999999999999999999999998774
No 20
>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=98.76 E-value=8.5e-09 Score=74.15 Aligned_cols=45 Identities=24% Similarity=0.435 Sum_probs=41.2
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 261 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 261 ~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
..|+||++.++++ ..+||||+|+++||.+|++.+.+||.|+.++.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 5799999999987 77899999999999999999999999998873
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.76 E-value=5e-09 Score=69.85 Aligned_cols=38 Identities=37% Similarity=0.917 Sum_probs=30.6
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHhcC----CCCccc
Q 021673 263 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL----SCCPLC 303 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~----~tCPlC 303 (309)
|+||++-|+++ ..|+|+|.|+.+||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 889999999999999999764 369988
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.75 E-value=7.4e-09 Score=66.06 Aligned_cols=38 Identities=39% Similarity=1.059 Sum_probs=33.0
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHh-cCCCCccc
Q 021673 263 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR-ILSCCPLC 303 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~-~~~tCPlC 303 (309)
|+||++. .+....++|+|.||.+|+++|++ .+..||.|
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899988 34558899999999999999998 67789987
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.65 E-value=1.8e-08 Score=74.98 Aligned_cols=27 Identities=41% Similarity=0.995 Sum_probs=25.8
Q ss_pred CCCcccHHHHHHHHhcCCCCccccccc
Q 021673 281 CSHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 281 C~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
|+|.||..||.+||..+..||++|++.
T Consensus 54 CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 54 CNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred cchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 999999999999999999999999864
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.59 E-value=2.8e-08 Score=96.15 Aligned_cols=49 Identities=29% Similarity=0.602 Sum_probs=43.7
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.+....|+||++.|.++ ..+||+|.||..||..|+..+..||+||.++.
T Consensus 23 Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred cccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 35678999999999887 57899999999999999999889999998764
No 25
>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=98.55 E-value=5.8e-08 Score=66.87 Aligned_cols=42 Identities=26% Similarity=0.764 Sum_probs=33.6
Q ss_pred cccccccccccCCceEEeCCC-----CcccHHHHHHHHhc--CCCCcccc
Q 021673 262 ECCICLAKYKEKEEVRKLPCS-----HMFHLKCVDQWLRI--LSCCPLCK 304 (309)
Q Consensus 262 ~C~ICL~~~~~~~~v~~LpC~-----H~FH~~CI~~WL~~--~~tCPlCR 304 (309)
.|.||++ .+++++....||. |.+|.+|+++|+.. +.+||+|+
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 4445555688984 99999999999965 45899995
No 26
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=1.8e-07 Score=90.86 Aligned_cols=51 Identities=29% Similarity=0.817 Sum_probs=41.7
Q ss_pred CCCCcccccccccccCC--------------ceEEeCCCCcccHHHHHHHHh-cCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKE--------------EVRKLPCSHMFHLKCVDQWLR-ILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~--------------~v~~LpC~H~FH~~CI~~WL~-~~~tCPlCR~~i~ 308 (309)
+....|+||+.+++--. ....+||+|+||..|+.+|+. .+-.||.||.+++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 45678999998875321 245679999999999999999 6779999999885
No 27
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=4.3e-08 Score=72.32 Aligned_cols=49 Identities=31% Similarity=0.757 Sum_probs=36.1
Q ss_pred CCCccccccccccc--------CC--ceEEeCCCCcccHHHHHHHHhc---CCCCccccccc
Q 021673 259 EDPECCICLAKYKE--------KE--EVRKLPCSHMFHLKCVDQWLRI---LSCCPLCKQEL 307 (309)
Q Consensus 259 ~~~~C~ICL~~~~~--------~~--~v~~LpC~H~FH~~CI~~WL~~---~~tCPlCR~~i 307 (309)
.+.+|.||...|+. || .+..=.|.|.||..||.+|+.. +..||+||+..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 34589999988863 22 2211128999999999999965 46799999864
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.34 E-value=3.3e-07 Score=61.28 Aligned_cols=38 Identities=29% Similarity=0.732 Sum_probs=22.6
Q ss_pred ccccccccccC-CceEEeCCCCcccHHHHHHHHhcC----CCCc
Q 021673 263 CCICLAKYKEK-EEVRKLPCSHMFHLKCVDQWLRIL----SCCP 301 (309)
Q Consensus 263 C~ICL~~~~~~-~~v~~LpC~H~FH~~CI~~WL~~~----~tCP 301 (309)
|+||.+ |.++ ..-++|||+|.|+++||+++++.+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 7653 344789999999999999999853 3577
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=2.7e-07 Score=83.60 Aligned_cols=47 Identities=32% Similarity=0.804 Sum_probs=41.4
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHH-HHhcCCC-Cccccccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQ-WLRILSC-CPLCKQEL 307 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~-WL~~~~t-CPlCR~~i 307 (309)
..|..|.||++..+.. ..+||+|+||..||-. |-+.+.. ||+||+.+
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 5689999999997777 7899999999999999 9877765 99999865
No 30
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=4.9e-07 Score=70.58 Aligned_cols=48 Identities=33% Similarity=0.827 Sum_probs=35.8
Q ss_pred CCCccccccccccc------------CCceEE-e-CCCCcccHHHHHHHHhcCCCCcccccc
Q 021673 259 EDPECCICLAKYKE------------KEEVRK-L-PCSHMFHLKCVDQWLRILSCCPLCKQE 306 (309)
Q Consensus 259 ~~~~C~ICL~~~~~------------~~~v~~-L-pC~H~FH~~CI~~WL~~~~tCPlCR~~ 306 (309)
.-+.|+||..-+.+ .++..+ - -|+|.||..||.+||+.+..||+|.++
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 45688998754421 222222 2 299999999999999999999999875
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=98.24 E-value=6.7e-07 Score=66.69 Aligned_cols=48 Identities=21% Similarity=0.416 Sum_probs=39.4
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-CCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-LSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~-~~tCPlCR~~i~ 308 (309)
.++..|+|+.+-+.++ ..+|+||.|-+.||.+|++. +.+||+|+.++.
T Consensus 2 P~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 2 PDEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp SGGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred CcccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 3578999999999999 88999999999999999998 899999998874
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.19 E-value=3e-07 Score=68.09 Aligned_cols=49 Identities=29% Similarity=0.761 Sum_probs=23.1
Q ss_pred CCcccccccccccCCceE--Ee---CCCCcccHHHHHHHHhc---C--------CCCcccccccC
Q 021673 260 DPECCICLAKYKEKEEVR--KL---PCSHMFHLKCVDQWLRI---L--------SCCPLCKQELE 308 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~--~L---pC~H~FH~~CI~~WL~~---~--------~tCPlCR~~i~ 308 (309)
+.+|.||.+...+++++- .- .|++.||..|+.+||.. . .+||.|+++|.
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 468999999876443332 22 27899999999999863 1 24999999873
No 33
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.17 E-value=5.2e-07 Score=93.29 Aligned_cols=48 Identities=38% Similarity=0.969 Sum_probs=39.1
Q ss_pred CCCCcccccccccc-cCCceEEeC------CCCcccHHHHHHHHhc--CCCCcccccccC
Q 021673 258 NEDPECCICLAKYK-EKEEVRKLP------CSHMFHLKCVDQWLRI--LSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~-~~~~v~~Lp------C~H~FH~~CI~~WL~~--~~tCPlCR~~i~ 308 (309)
.+..+|+||..-.. .+ |.|| |+|.||..|+-+|++. +.+||+||.++.
T Consensus 1467 sG~eECaICYsvL~~vd---r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVD---RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHh---ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 56789999988776 22 4555 8999999999999986 578999998764
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.04 E-value=1.8e-06 Score=80.72 Aligned_cols=48 Identities=27% Similarity=0.645 Sum_probs=44.0
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccCC
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELER 309 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~~ 309 (309)
.-..|.||.+-|..+ ..+||+|.||.-||.+.|..+..||.|+.++.+
T Consensus 22 ~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 456899999999998 899999999999999999999999999988753
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.97 E-value=4.3e-06 Score=80.73 Aligned_cols=52 Identities=29% Similarity=0.759 Sum_probs=41.1
Q ss_pred CCCCCCCCCcccccccccccCC-ceEEeCCCCcccHHHHHHHHhcCCCCcccccc
Q 021673 253 NSAPANEDPECCICLAKYKEKE-EVRKLPCSHMFHLKCVDQWLRILSCCPLCKQE 306 (309)
Q Consensus 253 ~~~~~~~~~~C~ICL~~~~~~~-~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~ 306 (309)
......|-.+|++||+.+.+.. .++.+.|+|.||..|+.+|- ..+||+||.-
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~ 220 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYC 220 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhh
Confidence 3344567889999999987653 35566699999999999995 5789999863
No 36
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=3.7e-06 Score=82.54 Aligned_cols=45 Identities=29% Similarity=0.732 Sum_probs=37.1
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC-----CCCccccccc
Q 021673 260 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL-----SCCPLCKQEL 307 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~-----~tCPlCR~~i 307 (309)
+..|+|||+...-+ ..+.|||+||..||-+.+... ..||+|+..|
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 88999999986665 455599999999999987543 5699999865
No 37
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=6.4e-06 Score=77.75 Aligned_cols=50 Identities=30% Similarity=0.751 Sum_probs=42.1
Q ss_pred CCCCCcccccccccccCCceEEeCCCC-cccHHHHHHHHhcCCCCcccccccCC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSH-MFHLKCVDQWLRILSCCPLCKQELER 309 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H-~FH~~CI~~WL~~~~tCPlCR~~i~~ 309 (309)
.++..+|.|||++-.+- .+|||.| -.|..|-+.---....||+||+++++
T Consensus 287 ~~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 287 SESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred ccCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 35678999999986665 8999999 58999998877677889999999864
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.86 E-value=6.5e-06 Score=75.55 Aligned_cols=48 Identities=23% Similarity=0.582 Sum_probs=43.0
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
..-..|-||-+-+..+ ..++|+|.||.-||...|..+.-||+||.+..
T Consensus 23 Ds~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 23 DSMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hhHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 3456899999999888 78899999999999999999999999998753
No 39
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.74 E-value=6.2e-06 Score=84.11 Aligned_cols=51 Identities=25% Similarity=0.582 Sum_probs=46.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.....|++||..+.++......+|+|.||.+||+.|-+.-++||+||..+.
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 456789999999999988888889999999999999999999999998754
No 40
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=3e-05 Score=75.34 Aligned_cols=50 Identities=36% Similarity=0.810 Sum_probs=45.1
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccCC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELER 309 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~~ 309 (309)
...+.+|+||...+.++ ..+||+|.|+..||++-+..+..||.||.++.+
T Consensus 81 ~~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCccccccccc
Confidence 36789999999999888 778999999999999999989999999998753
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=2.3e-05 Score=74.77 Aligned_cols=51 Identities=35% Similarity=0.892 Sum_probs=39.4
Q ss_pred CCCCcccccccccccCC--c--eEEeC-CCCcccHHHHHHHH--hc-----CCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKE--E--VRKLP-CSHMFHLKCVDQWL--RI-----LSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~--~--v~~Lp-C~H~FH~~CI~~WL--~~-----~~tCPlCR~~i~ 308 (309)
..+.+|.||++...+.. + ...|| |+|.||..||++|- ++ .+.||.||...+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 46889999999977653 1 22345 99999999999997 33 477999998653
No 42
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.58 E-value=1.9e-05 Score=72.83 Aligned_cols=50 Identities=24% Similarity=0.786 Sum_probs=42.7
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHh------------------c-----CCCCccccccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR------------------I-----LSCCPLCKQEL 307 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~------------------~-----~~tCPlCR~~i 307 (309)
....+|.|||--|.+++...+++|-|+||..|+.+.|. . +..||+||..|
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i 185 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI 185 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence 45679999999999999999999999999999987542 1 24599999876
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=2.4e-05 Score=73.74 Aligned_cols=47 Identities=32% Similarity=0.663 Sum_probs=40.7
Q ss_pred CCCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhc-CCCCccccccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRI-LSCCPLCKQEL 307 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~Lp-C~H~FH~~CI~~WL~~-~~tCPlCR~~i 307 (309)
..+..|+|||+-++.. +.++ |.|.||.+||.+-++. +.+||.||+.+
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 4678999999998776 5566 9999999999999975 79999999865
No 44
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=6.6e-05 Score=52.11 Aligned_cols=47 Identities=26% Similarity=0.710 Sum_probs=34.7
Q ss_pred CCCcccccccccccCCceEEeCCCCc-ccHHHHHHHHh-cCCCCcccccccC
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHM-FHLKCVDQWLR-ILSCCPLCKQELE 308 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~-FH~~CI~~WL~-~~~tCPlCR~~i~ 308 (309)
-+++|.||.+.-.+. ..-.|+|. .+.+|-.+-++ .+..||+||++|+
T Consensus 6 ~~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 348999998875554 33449994 67778655544 7899999999874
No 45
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.27 E-value=8.7e-05 Score=70.76 Aligned_cols=47 Identities=34% Similarity=0.837 Sum_probs=40.1
Q ss_pred CCCccccccccccc-CCceEEeCCCCcccHHHHHHHHhcC--CCCccccc
Q 021673 259 EDPECCICLAKYKE-KEEVRKLPCSHMFHLKCVDQWLRIL--SCCPLCKQ 305 (309)
Q Consensus 259 ~~~~C~ICL~~~~~-~~~v~~LpC~H~FH~~CI~~WL~~~--~tCPlCR~ 305 (309)
-+.-|..|-+.|.. ++.+..|||.|+||..|+.+.|.++ .+||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 35679999999865 4568899999999999999999876 67999984
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.15 E-value=9.2e-05 Score=53.36 Aligned_cols=45 Identities=33% Similarity=0.697 Sum_probs=23.2
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
+--.|++|.+-+.++ +....|.|.|+..||.+-+. ..||+|+.|-
T Consensus 6 ~lLrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 6 ELLRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred HhcCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 345799999987776 34456999999999988444 4599999864
No 47
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00017 Score=61.00 Aligned_cols=32 Identities=28% Similarity=0.784 Sum_probs=29.5
Q ss_pred CCCCCCcccccccccccCCceEEeCCCCcccH
Q 021673 256 PANEDPECCICLAKYKEKEEVRKLPCSHMFHL 287 (309)
Q Consensus 256 ~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~ 287 (309)
+..+..||.||||+++.++.+..|||-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 45678899999999999999999999999997
No 48
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.03 E-value=0.00037 Score=75.28 Aligned_cols=53 Identities=32% Similarity=0.764 Sum_probs=44.7
Q ss_pred CCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC----------CCCcccccccC
Q 021673 256 PANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL----------SCCPLCKQELE 308 (309)
Q Consensus 256 ~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~----------~tCPlCR~~i~ 308 (309)
..+.|+.|-||..+--......+|.|+|+||..|.++-|+++ -.||+|+.+|+
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 346789999999887777888999999999999999877653 25999999886
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.94 E-value=0.0003 Score=67.30 Aligned_cols=45 Identities=29% Similarity=0.837 Sum_probs=38.0
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCCcccccccC
Q 021673 261 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPLCKQELE 308 (309)
Q Consensus 261 ~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~--~~tCPlCR~~i~ 308 (309)
.-|.||-+. +..++.-||+|..|..|+..|-.. .++||.||.+|+
T Consensus 370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 479999765 455788899999999999999854 589999999874
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.86 E-value=0.00056 Score=48.53 Aligned_cols=43 Identities=23% Similarity=0.566 Sum_probs=29.3
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCCcc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPL 302 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~--~~tCPl 302 (309)
.-...|+|.+..|+++ ++-..|+|.|-++.|.++++. ...||.
T Consensus 9 ~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3467899999998876 555679999999999999944 466998
No 51
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.84 E-value=0.00054 Score=66.93 Aligned_cols=50 Identities=30% Similarity=0.669 Sum_probs=43.2
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
..++..|++|.....++-.. +.|+|.||..|+.+|+..+..||.|+.++.
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSNHQKCPVCRQELT 67 (391)
T ss_pred CcccccCccccccccCCCCC--CCCCCcccccccchhhccCcCCcccccccc
Confidence 36789999999999988322 579999999999999999999999988653
No 52
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.75 E-value=0.001 Score=45.24 Aligned_cols=40 Identities=35% Similarity=0.873 Sum_probs=27.9
Q ss_pred ccccccccccCCceEEeCCC-----CcccHHHHHHHHhc--CCCCccc
Q 021673 263 CCICLAKYKEKEEVRKLPCS-----HMFHLKCVDQWLRI--LSCCPLC 303 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~LpC~-----H~FH~~CI~~WL~~--~~tCPlC 303 (309)
|-||+++-++++ .-..||+ ...|.+|+++|+.. +.+|++|
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 779999877665 3457863 48899999999974 5779987
No 53
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.73 E-value=0.0011 Score=58.99 Aligned_cols=49 Identities=33% Similarity=0.772 Sum_probs=40.6
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc--------CCCCccccccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--------LSCCPLCKQEL 307 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~--------~~tCPlCR~~i 307 (309)
+.+..|..|--.++.||.+| |-|-|.||++|+++|-.. .-.||.|..+|
T Consensus 48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 46778999999999998876 569999999999999754 13499998765
No 54
>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=96.73 E-value=0.00081 Score=55.61 Aligned_cols=38 Identities=26% Similarity=0.563 Sum_probs=32.2
Q ss_pred CCCcccccccccccCCceEEeCCC------CcccHHHHHHHHhc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCS------HMFHLKCVDQWLRI 296 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~------H~FH~~CI~~WL~~ 296 (309)
...+|+||++.+.+++.+..++|+ |.||.+|+++|-+.
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 467999999999997778888884 99999999999433
No 55
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.61 E-value=0.0018 Score=54.89 Aligned_cols=49 Identities=22% Similarity=0.673 Sum_probs=34.4
Q ss_pred CCCCCcccccccccccCCceEEeCCCC---cccHHHHHHHHhc--CCCCccccccc
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSH---MFHLKCVDQWLRI--LSCCPLCKQEL 307 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H---~FH~~CI~~WL~~--~~tCPlCR~~i 307 (309)
+..+.+|-||.++.. +...--.|+. .-|.+|+++|+.. +.+||+|+.+.
T Consensus 5 s~~~~~CRIC~~~~~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 5 SLMDKCCWICKDEYD--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCCCeeEecCCCCC--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 467889999998843 2222111334 6699999999975 46799998764
No 56
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.40 E-value=0.0035 Score=57.52 Aligned_cols=52 Identities=23% Similarity=0.478 Sum_probs=40.8
Q ss_pred CCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCCcccccccC
Q 021673 255 APANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPLCKQELE 308 (309)
Q Consensus 255 ~~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~--~~tCPlCR~~i~ 308 (309)
.....+.+|++|-+.-..+ ....+|+|.||..||..=+.- ..+||.|-.+++
T Consensus 234 s~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3446789999998885555 345669999999999997754 478999988764
No 57
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.16 E-value=0.0016 Score=67.21 Aligned_cols=45 Identities=24% Similarity=0.660 Sum_probs=36.6
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccc
Q 021673 260 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-LSCCPLCKQEL 307 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~-~~tCPlCR~~i 307 (309)
-..|+.|-....+- ..+.|+|.||..||.+-+.. ...||.|..++
T Consensus 643 ~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred ceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 46899998665553 55569999999999999975 67899998865
No 58
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.15 E-value=0.0028 Score=61.17 Aligned_cols=48 Identities=33% Similarity=0.712 Sum_probs=39.7
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC--------CCCccccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL--------SCCPLCKQ 305 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~--------~tCPlCR~ 305 (309)
..-..|+||+++..-.+-...|||+|+||+.|+...+... -.||-|+.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4567899999997776889999999999999999998652 34887764
No 59
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.03 E-value=0.002 Score=60.56 Aligned_cols=49 Identities=22% Similarity=0.537 Sum_probs=40.4
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
....+|.+|-.-+.|.. .+.-|-|.||+.||-+.|..+.+||.|...|.
T Consensus 13 n~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred ccceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 56789999987777663 33449999999999999999999999987653
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.02 E-value=0.0061 Score=55.15 Aligned_cols=75 Identities=15% Similarity=0.249 Sum_probs=55.5
Q ss_pred HhcCCCceeeccccccccCCCCCCCCCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 234 ISRLPSWRYKRVDSNLEAGNSAPANEDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 234 i~~Lp~~~~~~~~~~~~~~~~~~~~~~~~C~ICL~~~~~~~~v~~Lp-C~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
++.|-.++|...+...+...-........|++|.+.+.+......|. |+|+|..+|+++.++....||+|-.++.
T Consensus 195 lkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 195 LKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred hhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 44555566655543222222222346789999999999988777775 9999999999999999999999988764
No 61
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.98 E-value=0.004 Score=42.50 Aligned_cols=44 Identities=23% Similarity=0.526 Sum_probs=21.8
Q ss_pred ccccccccccCCceEEeC--CCCcccHHHHHHHHh-cCCCCccccccc
Q 021673 263 CCICLAKYKEKEEVRKLP--CSHMFHLKCVDQWLR-ILSCCPLCKQEL 307 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~Lp--C~H~FH~~CI~~WL~-~~~tCPlCR~~i 307 (309)
|++|.+++.. ......| |++..+..|..+-++ .+..||-||++-
T Consensus 1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999833 3334566 689999999777776 478899999874
No 62
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.96 E-value=0.0038 Score=54.75 Aligned_cols=45 Identities=22% Similarity=0.416 Sum_probs=39.9
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQE 306 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~ 306 (309)
-...|.||-.+|+.+ .++.|+|+||..|.-+=++.-.+|-+|-+.
T Consensus 195 IPF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 195 IPFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred Cceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 346899999999998 788899999999999988888999999654
No 63
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.95 E-value=0.0051 Score=58.27 Aligned_cols=48 Identities=33% Similarity=0.543 Sum_probs=41.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.||..|+||... +-...-.||+|.=|..||.+-|-+.+.|=.||..+.
T Consensus 420 sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 688999999765 333477899999999999999999999999998653
No 64
>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=95.91 E-value=0.0034 Score=49.46 Aligned_cols=33 Identities=24% Similarity=0.723 Sum_probs=28.7
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHH
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVD 291 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~ 291 (309)
.++..|++|-..+.. ....+.||+|+||..|++
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 567889999999887 567788999999999976
No 65
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.87 E-value=0.0034 Score=62.24 Aligned_cols=49 Identities=22% Similarity=0.611 Sum_probs=39.2
Q ss_pred CCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-----CCCCccccccc
Q 021673 256 PANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-----LSCCPLCKQEL 307 (309)
Q Consensus 256 ~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~-----~~tCPlCR~~i 307 (309)
...++.+|.+|-+.-++. .+..|.|.||+-||.+.... +.+||.|-.++
T Consensus 532 enk~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cccCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 335678999998876555 67789999999999998743 57899997765
No 66
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.59 E-value=0.00095 Score=63.79 Aligned_cols=51 Identities=24% Similarity=0.609 Sum_probs=45.6
Q ss_pred CCCcccccccccccC-CceEEeCCCCcccHHHHHHHHhcCCCCcccccccCC
Q 021673 259 EDPECCICLAKYKEK-EEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELER 309 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~-~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~~ 309 (309)
-...|+||..+|... +++..+-|+|.+|.+|+.+||..+..||-|++.+++
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 356799999999887 788888899999999999999999999999998864
No 67
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.52 E-value=0.006 Score=56.57 Aligned_cols=46 Identities=22% Similarity=0.384 Sum_probs=41.2
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
-...|-||-..|.++ .++.|+|+||..|--+=++....|++|-+++
T Consensus 240 ~Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred CCccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccc
Confidence 345799999999999 7888999999999999999999999998764
No 68
>PHA03096 p28-like protein; Provisional
Probab=95.41 E-value=0.0078 Score=56.29 Aligned_cols=45 Identities=27% Similarity=0.496 Sum_probs=33.2
Q ss_pred CcccccccccccCC----ceEEeC-CCCcccHHHHHHHHhc---CCCCccccc
Q 021673 261 PECCICLAKYKEKE----EVRKLP-CSHMFHLKCVDQWLRI---LSCCPLCKQ 305 (309)
Q Consensus 261 ~~C~ICL~~~~~~~----~v~~Lp-C~H~FH~~CI~~WL~~---~~tCPlCR~ 305 (309)
.+|.||++...... .-..|+ |.|.|+..||..|-.. +.+||.||.
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 78999999876532 234566 9999999999999754 345666654
No 69
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.39 E-value=0.0097 Score=56.64 Aligned_cols=51 Identities=27% Similarity=0.632 Sum_probs=36.8
Q ss_pred CCCCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 252 GNSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 252 ~~~~~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
+......-...|.||+++..+- ..+||+|+=+ |..-- +...+||+||+.|.
T Consensus 297 ~~~~~~~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 297 GTFRELPQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CcccccCCCCceEEecCCccce---eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 3444556778999999997764 8899999955 65443 33445999998764
No 70
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.20 E-value=0.022 Score=53.64 Aligned_cols=49 Identities=18% Similarity=0.408 Sum_probs=39.5
Q ss_pred CCCCCCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhcCCCCcccccc
Q 021673 255 APANEDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRILSCCPLCKQE 306 (309)
Q Consensus 255 ~~~~~~~~C~ICL~~~~~~~~v~~Lp-C~H~FH~~CI~~WL~~~~tCPlCR~~ 306 (309)
....+...|++|+....++ .++. -|-+||..||-+.+...+.||+=-.+
T Consensus 295 ~l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 295 LLPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred cCCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 3456788999999998887 3333 48999999999999999999974433
No 71
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.99 E-value=0.012 Score=61.42 Aligned_cols=50 Identities=36% Similarity=0.854 Sum_probs=37.4
Q ss_pred CCCCCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhcC-C------CCccccc
Q 021673 256 PANEDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRIL-S------CCPLCKQ 305 (309)
Q Consensus 256 ~~~~~~~C~ICL~~~~~~~~v~~Lp-C~H~FH~~CI~~WL~~~-~------tCPlCR~ 305 (309)
+..+..+|.||.+.+...+.+=--. |-|+||..||.+|-+.. + .||.|+.
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 3457789999999987765443222 78999999999997542 2 3999984
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.28 E-value=0.072 Score=50.58 Aligned_cols=54 Identities=28% Similarity=0.628 Sum_probs=41.1
Q ss_pred CCCCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHH--HhcCCCCcccccccC
Q 021673 252 GNSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQW--LRILSCCPLCKQELE 308 (309)
Q Consensus 252 ~~~~~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~W--L~~~~tCPlCR~~i~ 308 (309)
+..+..++...|.||-....- ..++||+|..|--|--+- |-.+..||+||.+-+
T Consensus 53 SaddtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 53 SADDTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 334445677889999876544 478999999999997654 667899999998643
No 73
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.54 E-value=0.047 Score=47.23 Aligned_cols=49 Identities=31% Similarity=0.715 Sum_probs=32.9
Q ss_pred CCCcccccccccccCC----ceEEeCCCCcccHHHHHHHHhc----C-------CCCccccccc
Q 021673 259 EDPECCICLAKYKEKE----EVRKLPCSHMFHLKCVDQWLRI----L-------SCCPLCKQEL 307 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~----~v~~LpC~H~FH~~CI~~WL~~----~-------~tCPlCR~~i 307 (309)
+-..|.||..---+|. ..--..|+.-||.-|+..||+. + ..||.|-.+|
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 4456777764332332 1223459999999999999964 1 2499998876
No 74
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.28 E-value=0.039 Score=50.30 Aligned_cols=50 Identities=26% Similarity=0.720 Sum_probs=36.5
Q ss_pred CCCCCcccccccccccCCce-EEeCC-----CCcccHHHHHHHHhcCC--------CCcccccc
Q 021673 257 ANEDPECCICLAKYKEKEEV-RKLPC-----SHMFHLKCVDQWLRILS--------CCPLCKQE 306 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v-~~LpC-----~H~FH~~CI~~WL~~~~--------tCPlCR~~ 306 (309)
.+.|..|-||+..=+|+-.. =+-|| +|-.|..|+..|+..+. +||.|+.+
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 45678899999885554222 24566 59999999999995432 49999875
No 75
>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=93.18 E-value=0.11 Score=50.14 Aligned_cols=27 Identities=30% Similarity=0.990 Sum_probs=21.1
Q ss_pred CCCcccHHHHHHHHhcC-------------CCCccccccc
Q 021673 281 CSHMFHLKCVDQWLRIL-------------SCCPLCKQEL 307 (309)
Q Consensus 281 C~H~FH~~CI~~WL~~~-------------~tCPlCR~~i 307 (309)
|.=.+|.+|+-+|+..+ ..||.||+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 56678999999998543 3599999875
No 76
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.16 E-value=0.047 Score=38.24 Aligned_cols=45 Identities=24% Similarity=0.623 Sum_probs=33.5
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.+..|-.|... +.+-.++||+|.-+..|-+. ++-.-||.|-++++
T Consensus 6 ~~~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFE 50 (55)
T ss_pred cceeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCccc
Confidence 44566666554 33448899999999999654 56688999998875
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.93 E-value=0.15 Score=47.11 Aligned_cols=52 Identities=17% Similarity=0.420 Sum_probs=40.8
Q ss_pred CCCCCCcccccccccccCCceE-EeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 256 PANEDPECCICLAKYKEKEEVR-KLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 256 ~~~~~~~C~ICL~~~~~~~~v~-~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.......|+|...++....... .-||||+|-..++++- +....||+|-.++.
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 4467889999999996655444 4479999999999997 34567999987754
No 78
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=92.88 E-value=0.059 Score=50.07 Aligned_cols=47 Identities=23% Similarity=0.570 Sum_probs=39.4
Q ss_pred CCCcccccccccccCC-ceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 021673 259 EDPECCICLAKYKEKE-EVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~-~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
....|+||.+.+.+.. .+..++|+|.-|..|..+-...+-+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3444999999887764 4568889999999999999887899999987
No 79
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.84 E-value=0.033 Score=52.11 Aligned_cols=47 Identities=28% Similarity=0.571 Sum_probs=32.3
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
...-.|--|-..+. -.-|.+||+|+||.+|-.. ...+.||+|-..|+
T Consensus 88 p~VHfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 88 PRVHFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred cceEeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 33445666643332 2348899999999999654 34578999987664
No 80
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.82 E-value=0.02 Score=53.08 Aligned_cols=43 Identities=30% Similarity=0.681 Sum_probs=32.0
Q ss_pred CCCcccccccccccCCceEEeCCCCc-ccHHHHHHHHhcCCCCcccccccC
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHM-FHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~-FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.+.-|+||++.-.+- ..|+|||. =|.+|=+ +-+.||+||+.|.
T Consensus 299 ~~~LC~ICmDaP~DC---vfLeCGHmVtCt~CGk----rm~eCPICRqyi~ 342 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDC---VFLECGHMVTCTKCGK----RMNECPICRQYIV 342 (350)
T ss_pred HHHHHHHHhcCCcce---EEeecCcEEeehhhcc----ccccCchHHHHHH
Confidence 378999999885554 88999994 4566643 2458999998763
No 81
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.52 E-value=0.068 Score=49.81 Aligned_cols=42 Identities=29% Similarity=0.649 Sum_probs=35.3
Q ss_pred CcccccccccccCCceEEeC-CCCcccHHHHHHHH-hcCCCCccccc
Q 021673 261 PECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWL-RILSCCPLCKQ 305 (309)
Q Consensus 261 ~~C~ICL~~~~~~~~v~~Lp-C~H~FH~~CI~~WL-~~~~tCPlCR~ 305 (309)
..|+.|..-...+ ..+| |+|.||.+||..-| .....||.|.+
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 7899998888777 5557 79999999999886 46789999965
No 82
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.31 E-value=0.069 Score=55.96 Aligned_cols=42 Identities=24% Similarity=0.629 Sum_probs=33.2
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccc
Q 021673 260 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQE 306 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~ 306 (309)
...|..|--.++-+ ..---|+|.||.+|+. .....||-|+-+
T Consensus 840 ~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence 46899998877766 2333499999999999 566889999864
No 83
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.18 E-value=0.088 Score=49.27 Aligned_cols=48 Identities=29% Similarity=0.705 Sum_probs=37.1
Q ss_pred CCcccccccccccCCc-eEEeCCC-----CcccHHHHHHHHh--cCCCCccccccc
Q 021673 260 DPECCICLAKYKEKEE-VRKLPCS-----HMFHLKCVDQWLR--ILSCCPLCKQEL 307 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~-v~~LpC~-----H~FH~~CI~~WL~--~~~tCPlCR~~i 307 (309)
+..|-||.++..+... ....||. +..|..|+++|+. .+.+|.+|+...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 5889999998665432 4567863 7789999999997 567899998743
No 84
>PHA02862 5L protein; Provisional
Probab=92.08 E-value=0.088 Score=44.10 Aligned_cols=26 Identities=31% Similarity=0.857 Sum_probs=20.9
Q ss_pred CCcccHHHHHHHHhc--CCCCccccccc
Q 021673 282 SHMFHLKCVDQWLRI--LSCCPLCKQEL 307 (309)
Q Consensus 282 ~H~FH~~CI~~WL~~--~~tCPlCR~~i 307 (309)
...-|++|+.+|++. +.+||+||.+.
T Consensus 25 ~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 25 YKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred chhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 345699999999974 57899999863
No 85
>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=91.99 E-value=0.057 Score=36.57 Aligned_cols=31 Identities=29% Similarity=0.736 Sum_probs=23.5
Q ss_pred EeCC-CCcccHHHHHHHHhcCCCCcccccccC
Q 021673 278 KLPC-SHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 278 ~LpC-~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
...| .|..+..|+..-|.+...||+|+.+++
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 4458 599999999999999999999999885
No 86
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=91.97 E-value=0.074 Score=35.42 Aligned_cols=41 Identities=24% Similarity=0.607 Sum_probs=22.4
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHhcCC--CCccc
Q 021673 263 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILS--CCPLC 303 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~--tCPlC 303 (309)
|.+|-+-...|..-..-.|+=.+|..|++.+++.+. .||.|
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 566766666663222223888999999999998765 79988
No 87
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.28 E-value=0.074 Score=55.50 Aligned_cols=44 Identities=27% Similarity=0.653 Sum_probs=35.9
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCCcccccccC
Q 021673 261 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPLCKQELE 308 (309)
Q Consensus 261 ~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~--~~tCPlCR~~i~ 308 (309)
..|.||++ .+....++|+|.|+.+|+.+-+.. ..-||+||..+.
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 79999998 344577889999999999998764 356999998653
No 88
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.15 E-value=0.17 Score=52.95 Aligned_cols=51 Identities=22% Similarity=0.661 Sum_probs=39.7
Q ss_pred CCCCCcccccccccccCCceEEeCCC-----CcccHHHHHHHHhc--CCCCcccccccC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCS-----HMFHLKCVDQWLRI--LSCCPLCKQELE 308 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~-----H~FH~~CI~~WL~~--~~tCPlCR~~i~ 308 (309)
.+++..|-||..+=.+++++- -||+ ...|++|+-+|+.- +..|-+|+.+++
T Consensus 9 N~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred CccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 356789999998876666664 4664 57899999999975 456999998763
No 89
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.62 E-value=0.17 Score=45.31 Aligned_cols=38 Identities=32% Similarity=0.766 Sum_probs=28.7
Q ss_pred ccccccccccCCceEEeCCCC-cccHHHHHHHHhcCCCCccccccc
Q 021673 263 CCICLAKYKEKEEVRKLPCSH-MFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 263 C~ICL~~~~~~~~v~~LpC~H-~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
|-.|-+. +..+..+||+| .+|..|=+. -.+||+|+...
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChh
Confidence 8888654 66689999986 677788544 45699999765
No 90
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.42 E-value=0.18 Score=53.23 Aligned_cols=36 Identities=25% Similarity=0.530 Sum_probs=29.7
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHH
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWL 294 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL 294 (309)
+.++.|.+|...+... .-.+-||+|.||++||.+-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 5678999998887654 56778999999999998864
No 91
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=89.04 E-value=0.51 Score=33.02 Aligned_cols=34 Identities=26% Similarity=0.737 Sum_probs=29.8
Q ss_pred CCCcccccccccccCCceEEeC-CCCcccHHHHHH
Q 021673 259 EDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQ 292 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~Lp-C~H~FH~~CI~~ 292 (309)
+...|.+|-+.|.+++.+.+-| |+-.+|++|-++
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 5678999999999888888888 999999999554
No 92
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.95 E-value=0.2 Score=51.15 Aligned_cols=47 Identities=34% Similarity=0.857 Sum_probs=39.8
Q ss_pred CCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 021673 254 SAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 254 ~~~~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
+...+....|.||+.+. ..+..+|. |..|..+|+..+..||+|+..+
T Consensus 473 ~~l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 473 SQLREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred hhhhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhh
Confidence 34456788999999997 45788899 9999999999999999998754
No 93
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=87.30 E-value=0.15 Score=52.67 Aligned_cols=47 Identities=36% Similarity=0.751 Sum_probs=39.6
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC---CCCcccccccC
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL---SCCPLCKQELE 308 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~---~tCPlCR~~i~ 308 (309)
-..+|.||+..|.++ ..+.|.|.|+..|+..-+... ..||+|+..++
T Consensus 20 k~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 467999999999998 677899999999998877543 56999997764
No 94
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=87.06 E-value=0.38 Score=45.42 Aligned_cols=45 Identities=18% Similarity=0.570 Sum_probs=36.5
Q ss_pred CCCCCcccccccccccCCceEEeCC--CCcccHHHHHHHHhcCCCCcccccccC
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPC--SHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC--~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
..+-.+|+||.+.+..+ ...| ||.-|..|=. +....||.||-++.
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 35668999999999987 4568 6999999855 56788999998864
No 95
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=86.84 E-value=0.38 Score=50.11 Aligned_cols=24 Identities=33% Similarity=0.833 Sum_probs=21.8
Q ss_pred eCCCCcccHHHHHHHHhcCCCCcc
Q 021673 279 LPCSHMFHLKCVDQWLRILSCCPL 302 (309)
Q Consensus 279 LpC~H~FH~~CI~~WL~~~~tCPl 302 (309)
..|+|+-|.+|..+|++....||-
T Consensus 1046 g~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcCCcCCC
Confidence 448999999999999999999984
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=86.53 E-value=0.23 Score=54.44 Aligned_cols=45 Identities=31% Similarity=0.666 Sum_probs=38.1
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
+...|.||++...... ....|+|.++..|...|+..+..||.|+.
T Consensus 1152 ~~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 4559999999988432 44569999999999999999999999985
No 97
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=85.70 E-value=0.56 Score=44.58 Aligned_cols=50 Identities=18% Similarity=0.518 Sum_probs=34.4
Q ss_pred CCCCcccccccccccCCce-EEeCCCCcccHHHHHHHH-hcCCCCccccccc
Q 021673 258 NEDPECCICLAKYKEKEEV-RKLPCSHMFHLKCVDQWL-RILSCCPLCKQEL 307 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v-~~LpC~H~FH~~CI~~WL-~~~~tCPlCR~~i 307 (309)
++++.|+.|++++...|+- .--||+-..|.-|-..-- ..+..||-||+..
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 4566699999998876543 344578777777733222 2378999999854
No 98
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.45 E-value=0.77 Score=44.92 Aligned_cols=39 Identities=31% Similarity=0.644 Sum_probs=29.3
Q ss_pred CCCcccccccccccC-CceEEeCCCCcccHHHHHHHHhcC
Q 021673 259 EDPECCICLAKYKEK-EEVRKLPCSHMFHLKCVDQWLRIL 297 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~-~~v~~LpC~H~FH~~CI~~WL~~~ 297 (309)
...+|.||..+.... +......|+|.|+.+|+.+-++.+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 467899999444443 444456699999999999988753
No 99
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.94 E-value=2.3 Score=41.29 Aligned_cols=47 Identities=15% Similarity=0.301 Sum_probs=39.3
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC---CCCcccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL---SCCPLCK 304 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~---~tCPlCR 304 (309)
..-..|+|=-+.=.+...-..|.|||+-.++-+++-.+.. ..||.|=
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 4567899988887777888999999999999999987653 4699993
No 100
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.69 E-value=1.6 Score=40.72 Aligned_cols=27 Identities=22% Similarity=0.682 Sum_probs=21.4
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCccccccc
Q 021673 281 CSHMFHLKCVDQWLR-------------ILSCCPLCKQEL 307 (309)
Q Consensus 281 C~H~FH~~CI~~WL~-------------~~~tCPlCR~~i 307 (309)
|.-.+|.+|+.+|+. .+.+||.||++.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 567889999999863 356799999875
No 101
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=74.20 E-value=2.4 Score=44.64 Aligned_cols=50 Identities=10% Similarity=0.175 Sum_probs=35.5
Q ss_pred CCCCcccccccccccC-CceEEeC---CCCcccHHHHHHHHhc------CCCCccccccc
Q 021673 258 NEDPECCICLAKYKEK-EEVRKLP---CSHMFHLKCVDQWLRI------LSCCPLCKQEL 307 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~-~~v~~Lp---C~H~FH~~CI~~WL~~------~~tCPlCR~~i 307 (309)
.+...|.+|.-++.++ |..-.+| |.|.||..||..|... +-.|++|+..|
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 3455677776666653 3344556 9999999999999754 34589998765
No 102
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=73.14 E-value=2.7 Score=34.86 Aligned_cols=48 Identities=25% Similarity=0.576 Sum_probs=34.3
Q ss_pred CCCcccccccccccCCceEEeC---CCCcccHHHHHHHHh---cCCCCcccccccC
Q 021673 259 EDPECCICLAKYKEKEEVRKLP---CSHMFHLKCVDQWLR---ILSCCPLCKQELE 308 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~Lp---C~H~FH~~CI~~WL~---~~~tCPlCR~~i~ 308 (309)
.-.+|.||.+.-.+.. -.-| ||-..+-.|-..-.+ ....||.||....
T Consensus 79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 5679999998866552 2223 788888888665433 4789999998753
No 103
>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=72.35 E-value=3.7 Score=25.28 Aligned_cols=38 Identities=24% Similarity=0.525 Sum_probs=26.0
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 262 ~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.|..|-+.+.+++.... .=+..||.+| ..|..|+.++.
T Consensus 1 ~C~~C~~~i~~~~~~~~-~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLR-ALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEE-eCCccccccC--------CCCcccCCcCc
Confidence 37778887777633322 2378999988 67888887764
No 104
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=71.35 E-value=2.8 Score=38.74 Aligned_cols=47 Identities=28% Similarity=0.555 Sum_probs=34.8
Q ss_pred CCcccccccccccCCceEEeC----CCCcccHHHHHHHHhc---------CCCCcccccc
Q 021673 260 DPECCICLAKYKEKEEVRKLP----CSHMFHLKCVDQWLRI---------LSCCPLCKQE 306 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~~Lp----C~H~FH~~CI~~WL~~---------~~tCPlCR~~ 306 (309)
..+|-+|.+++.+.+..+..- |+-++|..|+..-+.. ...||.|++-
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 469999999996555554432 7889999999994422 3569999863
No 105
>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=69.78 E-value=1.4 Score=30.19 Aligned_cols=42 Identities=21% Similarity=0.595 Sum_probs=20.3
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhcC-----CCCcccccc
Q 021673 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL-----SCCPLCKQE 306 (309)
Q Consensus 262 ~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~-----~tCPlCR~~ 306 (309)
.|+|....++.+ +|-..|.|.-+-+ ++.||+.+ -.||+|+++
T Consensus 4 ~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 577877776554 5767799984322 45576543 259999874
No 106
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=69.72 E-value=2.7 Score=37.56 Aligned_cols=44 Identities=23% Similarity=0.636 Sum_probs=35.7
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLC 303 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlC 303 (309)
..-..|.+|.+-.-.| +|-=.|+-.+|..|+.+.++....||.|
T Consensus 179 dnlk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 179 DNLKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCch
Confidence 3457899998776555 2333488899999999999999999999
No 107
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.50 E-value=3.1 Score=41.39 Aligned_cols=37 Identities=32% Similarity=0.697 Sum_probs=32.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc
Q 021673 258 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI 296 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~ 296 (309)
..+.+|-||.+.+.. ....+.|+|.|+..|....++.
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 568899999999877 5677889999999999999865
No 108
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=66.60 E-value=5 Score=42.13 Aligned_cols=42 Identities=21% Similarity=0.394 Sum_probs=29.7
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcc
Q 021673 260 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPL 302 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPl 302 (309)
.+.|++|-..+..- .+..--|+|.-|.+|+.+|+..+.-||.
T Consensus 779 ~~~CtVC~~vi~G~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGV-DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceeeee-EeecccccccccHHHHHHHHhcCCCCcc
Confidence 35788885543321 1111129999999999999999888876
No 109
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.80 E-value=2.6 Score=44.38 Aligned_cols=41 Identities=20% Similarity=0.420 Sum_probs=31.9
Q ss_pred CCCCccccccccccc-C---CceEEeCCCCcccHHHHHHHHhcCC
Q 021673 258 NEDPECCICLAKYKE-K---EEVRKLPCSHMFHLKCVDQWLRILS 298 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~-~---~~v~~LpC~H~FH~~CI~~WL~~~~ 298 (309)
..+..|+-|.+.... + +.+.++.|+|.||+.|+..-..+++
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~ 826 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA 826 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc
Confidence 455689999887652 2 4678889999999999988876655
No 110
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=65.37 E-value=4.3 Score=36.05 Aligned_cols=42 Identities=29% Similarity=0.719 Sum_probs=27.8
Q ss_pred CCCcccccccc-----cccCCceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 021673 259 EDPECCICLAK-----YKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 259 ~~~~C~ICL~~-----~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
....|-+|-++ |+.+...+--.|+-+||++|..+ ..||-|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 35688888643 33322333333999999999762 77999964
No 111
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=64.54 E-value=2.4 Score=43.43 Aligned_cols=43 Identities=28% Similarity=0.762 Sum_probs=26.5
Q ss_pred CCCccccccc-----ccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccc
Q 021673 259 EDPECCICLA-----KYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCK 304 (309)
Q Consensus 259 ~~~~C~ICL~-----~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR 304 (309)
....|-+|-. .|+.....+-.-|+++||++|... .+..||.|-
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 3567778821 233222334445999999999543 445599994
No 112
>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=62.03 E-value=7 Score=27.03 Aligned_cols=41 Identities=27% Similarity=0.788 Sum_probs=20.7
Q ss_pred ccccccccccCC------ceEEeC-CCCcccHHHHHHHHh-cCCCCcccc
Q 021673 263 CCICLAKYKEKE------EVRKLP-CSHMFHLKCVDQWLR-ILSCCPLCK 304 (309)
Q Consensus 263 C~ICL~~~~~~~------~v~~Lp-C~H~FH~~CI~~WL~-~~~tCPlCR 304 (309)
|--|+..+..+. ...+-| |+++|+.+| |.... .-..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 555666666652 233444 899999999 55443 346799884
No 113
>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 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=55.03 E-value=1.3 Score=32.62 Aligned_cols=41 Identities=24% Similarity=0.512 Sum_probs=21.0
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 260 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
+..|+.|-.+++... +|.++..|-.. ++....||-|..+++
T Consensus 1 e~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CCcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHH
Confidence 357888977765543 55555556432 455678999988875
No 115
>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=51.83 E-value=3.6 Score=28.38 Aligned_cols=11 Identities=55% Similarity=1.606 Sum_probs=5.7
Q ss_pred CCCcccccccC
Q 021673 298 SCCPLCKQELE 308 (309)
Q Consensus 298 ~tCPlCR~~i~ 308 (309)
..||+|.++++
T Consensus 21 ~~CPlC~r~l~ 31 (54)
T PF04423_consen 21 GCCPLCGRPLD 31 (54)
T ss_dssp EE-TTT--EE-
T ss_pred CcCCCCCCCCC
Confidence 48999999875
No 116
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.14 E-value=7.4 Score=38.09 Aligned_cols=46 Identities=22% Similarity=0.403 Sum_probs=32.9
Q ss_pred CCCcccccccccccCCceE--EeCCCCcccHHHHHHHHhcCCCCcccc
Q 021673 259 EDPECCICLAKYKEKEEVR--KLPCSHMFHLKCVDQWLRILSCCPLCK 304 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~--~LpC~H~FH~~CI~~WL~~~~tCPlCR 304 (309)
.-..|+.|...++..+.-- .-.|+|.|+..|-..|...+..|..|-
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence 3457888877765544322 222899999999999999988886553
No 117
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=50.35 E-value=20 Score=26.95 Aligned_cols=51 Identities=24% Similarity=0.355 Sum_probs=21.1
Q ss_pred CCCCcccccccccccCC--ceEE--eCCCCcccHHHHHHHHh-cCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKE--EVRK--LPCSHMFHLKCVDQWLR-ILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~--~v~~--LpC~H~FH~~CI~~WL~-~~~tCPlCR~~i~ 308 (309)
.....|.||-++....+ ++-+ --|+---++.|.+-=.+ -++.||.||.+.+
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 46778999998875332 1222 22677788999887665 4789999998653
No 118
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=45.11 E-value=19 Score=34.21 Aligned_cols=51 Identities=27% Similarity=0.613 Sum_probs=35.0
Q ss_pred CCCCCcccccccccc---------c------CC-ceEEeCCCCcccHHHHHHHHhc---------CCCCccccccc
Q 021673 257 ANEDPECCICLAKYK---------E------KE-EVRKLPCSHMFHLKCVDQWLRI---------LSCCPLCKQEL 307 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~---------~------~~-~v~~LpC~H~FH~~CI~~WL~~---------~~tCPlCR~~i 307 (309)
...+.+|++|+..=. . |- ...--||+|+--.+-..-|-++ ++.||.|-..+
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 345789999986411 0 10 1234579999888888889765 45699997655
No 119
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=44.74 E-value=15 Score=22.65 Aligned_cols=11 Identities=27% Similarity=0.733 Sum_probs=7.2
Q ss_pred cCCCCcccccc
Q 021673 296 ILSCCPLCKQE 306 (309)
Q Consensus 296 ~~~tCPlCR~~ 306 (309)
....||.|..+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 34578888653
No 120
>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=43.37 E-value=15 Score=26.79 Aligned_cols=12 Identities=33% Similarity=0.971 Sum_probs=8.7
Q ss_pred cccHHHHHHHHh
Q 021673 284 MFHLKCVDQWLR 295 (309)
Q Consensus 284 ~FH~~CI~~WL~ 295 (309)
-||+.|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 121
>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=43.33 E-value=9.4 Score=25.51 Aligned_cols=44 Identities=20% Similarity=0.487 Sum_probs=28.0
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHh------cCCCCccccc
Q 021673 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR------ILSCCPLCKQ 305 (309)
Q Consensus 262 ~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~------~~~tCPlCR~ 305 (309)
.|.||...-.+++-+.=-.|+..||..|+..=.+ ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3788988444443333223789999999876543 1345888864
No 122
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=43.28 E-value=36 Score=23.99 Aligned_cols=43 Identities=30% Similarity=0.663 Sum_probs=31.3
Q ss_pred CcccccccccccCC-ceEEeCC--CCcccHHHHHHHHhcCCCCccccccc
Q 021673 261 PECCICLAKYKEKE-EVRKLPC--SHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 261 ~~C~ICL~~~~~~~-~v~~LpC--~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
..|--|-.++..+. +.+. | ...|+.+|.+.-| +..||.|--++
T Consensus 6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGel 51 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGEL 51 (57)
T ss_pred CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCcc
Confidence 45667777776665 3333 6 4689999999977 78999997655
No 123
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=43.09 E-value=11 Score=26.80 Aligned_cols=17 Identities=41% Similarity=1.032 Sum_probs=12.1
Q ss_pred HHHhcC------CCCcccccccC
Q 021673 292 QWLRIL------SCCPLCKQELE 308 (309)
Q Consensus 292 ~WL~~~------~tCPlCR~~i~ 308 (309)
.|.+.+ ..||+|+.+..
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~ 50 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMV 50 (59)
T ss_pred cccccccccCCCccCCCcCCccc
Confidence 376553 56999998764
No 124
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=42.49 E-value=12 Score=23.70 Aligned_cols=26 Identities=42% Similarity=0.775 Sum_probs=15.9
Q ss_pred CcccccccccccCCc--------eEEeCCCCccc
Q 021673 261 PECCICLAKYKEKEE--------VRKLPCSHMFH 286 (309)
Q Consensus 261 ~~C~ICL~~~~~~~~--------v~~LpC~H~FH 286 (309)
.+|+=|...|+.+|+ ++--.|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 368888888876653 22223677764
No 125
>PLN02189 cellulose synthase
Probab=42.31 E-value=27 Score=38.41 Aligned_cols=51 Identities=20% Similarity=0.358 Sum_probs=35.3
Q ss_pred CCCCcccccccccc---cCCceEEeC-CCCcccHHHHHHHHh-cCCCCcccccccC
Q 021673 258 NEDPECCICLAKYK---EKEEVRKLP-CSHMFHLKCVDQWLR-ILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~---~~~~v~~Lp-C~H~FH~~CI~~WL~-~~~tCPlCR~~i~ 308 (309)
.....|.||.++.. +|+.-..-. |+---|+.|.+-=-+ .++.||.||..-+
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 45669999999975 344333333 667789999854333 4789999998654
No 126
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.25 E-value=9.5 Score=39.50 Aligned_cols=36 Identities=28% Similarity=0.439 Sum_probs=26.5
Q ss_pred CCCcccccccccccCC-ceEEeCCCCcccHHHHHHHH
Q 021673 259 EDPECCICLAKYKEKE-EVRKLPCSHMFHLKCVDQWL 294 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~-~v~~LpC~H~FH~~CI~~WL 294 (309)
+-..|.||+..|.... +-+-|-|+|.-|..|+..-.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly 46 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY 46 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh
Confidence 4567999998887662 12334499999999998744
No 127
>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=42.05 E-value=20 Score=24.33 Aligned_cols=15 Identities=20% Similarity=0.352 Sum_probs=6.7
Q ss_pred CCCcccccccccccC
Q 021673 259 EDPECCICLAKYKEK 273 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~ 273 (309)
+-..|..|-..+.++
T Consensus 25 ~Cf~C~~C~~~l~~~ 39 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDG 39 (58)
T ss_dssp TTSBETTTTCBTTTS
T ss_pred cccccCCCCCccCCC
Confidence 334444444444443
No 128
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=38.85 E-value=22 Score=33.97 Aligned_cols=48 Identities=27% Similarity=0.557 Sum_probs=36.0
Q ss_pred CCcccccccccccCCceEEeC--CCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 260 DPECCICLAKYKEKEEVRKLP--CSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~~v~~Lp--C~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
...|+||-++.... ....+| |+|.-|..|...=...+.+||.||++..
T Consensus 249 ~~s~p~~~~~~~~~-d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLT-DSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCccccc-ccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 37899998876333 233456 6788888888888888999999997653
No 129
>PLN02436 cellulose synthase A
Probab=38.11 E-value=37 Score=37.48 Aligned_cols=51 Identities=22% Similarity=0.402 Sum_probs=35.0
Q ss_pred CCCCcccccccccc---cCCceEEeC-CCCcccHHHHHHHHh-cCCCCcccccccC
Q 021673 258 NEDPECCICLAKYK---EKEEVRKLP-CSHMFHLKCVDQWLR-ILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~---~~~~v~~Lp-C~H~FH~~CI~~WL~-~~~tCPlCR~~i~ 308 (309)
.....|.||-++.. +||.-..-. |+---|+.|.+-=-+ .++.||.||..-+
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 45669999999963 444333322 666689999854333 3688999998654
No 130
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.90 E-value=29 Score=31.95 Aligned_cols=35 Identities=11% Similarity=0.262 Sum_probs=30.2
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHH
Q 021673 257 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWL 294 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL 294 (309)
..+-+.|+.||..+.++ ...|=||+|.++||-+.+
T Consensus 40 iK~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDP---VITPDGYLFDREAILEYI 74 (303)
T ss_pred cCCcceeeeecccccCC---ccCCCCeeeeHHHHHHHH
Confidence 34567899999999998 777789999999999885
No 131
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=35.20 E-value=23 Score=22.48 Aligned_cols=13 Identities=15% Similarity=0.685 Sum_probs=9.5
Q ss_pred cccccccccccCC
Q 021673 262 ECCICLAKYKEKE 274 (309)
Q Consensus 262 ~C~ICL~~~~~~~ 274 (309)
+|+=|-..|+.++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 6788888887655
No 132
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.85 E-value=22 Score=33.32 Aligned_cols=36 Identities=19% Similarity=0.547 Sum_probs=29.2
Q ss_pred CCCcccccccccccCCceEEeCC----CCcccHHHHHHHHhcC
Q 021673 259 EDPECCICLAKYKEKEEVRKLPC----SHMFHLKCVDQWLRIL 297 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC----~H~FH~~CI~~WL~~~ 297 (309)
....|.+|.+.++|. .-..| .|.||-.|-++-+|.+
T Consensus 267 apLcCTLC~ERLEDT---HFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDT---HFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccC---ceeecCCCcccceecccCHHHHHhh
Confidence 447899999999987 33346 7999999999998764
No 133
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.74 E-value=44 Score=26.98 Aligned_cols=46 Identities=22% Similarity=0.494 Sum_probs=32.2
Q ss_pred CCcccccccccccCC----------c-eEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 021673 260 DPECCICLAKYKEKE----------E-VRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 260 ~~~C~ICL~~~~~~~----------~-v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
...|--|+..|.++. . .+--.|+++|+.+|=.-+-+.-..||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 356999999886531 1 112338999999996666666678999963
No 134
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=34.28 E-value=28 Score=20.82 Aligned_cols=29 Identities=21% Similarity=0.332 Sum_probs=10.7
Q ss_pred cccccccccccCCceEEeCCCCcccHHHH
Q 021673 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCV 290 (309)
Q Consensus 262 ~C~ICL~~~~~~~~v~~LpC~H~FH~~CI 290 (309)
.|.+|-.....+...+=..|+-.+|.+|+
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 57888877666444455558999999985
No 135
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=34.11 E-value=41 Score=32.17 Aligned_cols=47 Identities=26% Similarity=0.631 Sum_probs=34.0
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHh-cCCCCcccccc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR-ILSCCPLCKQE 306 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~-~~~tCPlCR~~ 306 (309)
.+..|-.|..+.......+--.|.|+||.+| |..+. .-..||-|..+
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldC-Dv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDC-DVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccc-hHHHHhhhhcCCCcCCC
Confidence 4455999977777666666555999999999 44443 44679999754
No 136
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=33.75 E-value=51 Score=36.44 Aligned_cols=51 Identities=20% Similarity=0.347 Sum_probs=33.7
Q ss_pred CCCCccccccccccc---CCceEEeC-CCCcccHHHHHHHH-hcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKE---KEEVRKLP-CSHMFHLKCVDQWL-RILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~---~~~v~~Lp-C~H~FH~~CI~~WL-~~~~tCPlCR~~i~ 308 (309)
.....|.||-++... |+.-..-. |+---|+.|.+-=- +.++.||.||..-+
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 456699999998753 33222211 56668999985433 34789999998643
No 137
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.43 E-value=63 Score=29.87 Aligned_cols=49 Identities=14% Similarity=0.257 Sum_probs=35.0
Q ss_pred CCCCcccccccccccCCce-EEeCCCCcccHHHHHHHHhcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKEKEEV-RKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v-~~LpC~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
.....|+|=--++.....- ..-+|||+|-..-+.+- ...+|++|....+
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 4567899988777665433 34459999998766652 2578999988764
No 138
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=32.68 E-value=52 Score=36.29 Aligned_cols=52 Identities=15% Similarity=0.385 Sum_probs=34.9
Q ss_pred CCCCCccccccccccc---CCceEEeC-CCCcccHHHHHHHHh-cCCCCcccccccC
Q 021673 257 ANEDPECCICLAKYKE---KEEVRKLP-CSHMFHLKCVDQWLR-ILSCCPLCKQELE 308 (309)
Q Consensus 257 ~~~~~~C~ICL~~~~~---~~~v~~Lp-C~H~FH~~CI~~WL~-~~~tCPlCR~~i~ 308 (309)
......|.||-++... |+.-..-. |+---|+.|.+-=-+ .++.||.||..-+
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3467789999988753 33222211 666689999954343 4788999998653
No 139
>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=32.63 E-value=15 Score=36.00 Aligned_cols=33 Identities=30% Similarity=0.684 Sum_probs=0.0
Q ss_pred ccCCceEEeCCCCcccHHHHHHHHh------cCCCCcccccc
Q 021673 271 KEKEEVRKLPCSHMFHLKCVDQWLR------ILSCCPLCKQE 306 (309)
Q Consensus 271 ~~~~~v~~LpC~H~FH~~CI~~WL~------~~~tCPlCR~~ 306 (309)
.+.+...-|.|+|++-. ..|-. ...+||+||..
T Consensus 299 ~~~qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 299 DERQPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ------------------------------------------
T ss_pred cccCceeeccccceeee---cccccccccccccccCCCcccc
No 140
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.46 E-value=38 Score=32.71 Aligned_cols=18 Identities=39% Similarity=0.953 Sum_probs=12.7
Q ss_pred HHHHHHHHhhhc---eEEEEc
Q 021673 151 LELFFAIWFVMG---NVWVFD 168 (309)
Q Consensus 151 l~~f~~iW~i~G---~~wi~~ 168 (309)
+-+|.++|.++| .+|+|-
T Consensus 240 lILF~I~~il~~g~~g~W~FP 260 (372)
T KOG2927|consen 240 LILFGITWILTGGKHGFWLFP 260 (372)
T ss_pred HHHHHHHHHHhCCCCceEecc
Confidence 346788888887 467764
No 141
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=30.73 E-value=68 Score=25.00 Aligned_cols=33 Identities=24% Similarity=0.460 Sum_probs=22.7
Q ss_pred CCCcccccccccccCCceEEeC--CCCcccHHHHHHH
Q 021673 259 EDPECCICLAKYKEKEEVRKLP--CSHMFHLKCVDQW 293 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~Lp--C~H~FH~~CI~~W 293 (309)
....|.||... .|..++=-. |...||..|..+.
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 46799999877 453222222 6779999998764
No 142
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=30.18 E-value=27 Score=33.23 Aligned_cols=43 Identities=23% Similarity=0.542 Sum_probs=28.3
Q ss_pred CCCCcccccccccc-------cCCceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 021673 258 NEDPECCICLAKYK-------EKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 258 ~~~~~C~ICL~~~~-------~~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
+....|++|-..-. ..+..|.|-| .-|=.+|--.+..||.|-.
T Consensus 185 ~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~C-----slC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 185 EQRQFCPVCGSMPVSSVVQIGTTQGLRYLHC-----NLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred cCCCCCCCCCCcchhheeeccCCCCceEEEc-----CCCCCcccccCccCCCCCC
Confidence 35778999986631 1233455554 4466678778889999964
No 143
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=30.17 E-value=9.9 Score=35.76 Aligned_cols=37 Identities=24% Similarity=0.498 Sum_probs=31.3
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhcC
Q 021673 261 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL 297 (309)
Q Consensus 261 ~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~~ 297 (309)
.+|.+|+++|+.+.....+.|.-.||..|+-.|++..
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 3999999999876666777777799999999999764
No 144
>PRK11827 hypothetical protein; Provisional
Probab=29.70 E-value=17 Score=25.94 Aligned_cols=18 Identities=33% Similarity=0.704 Sum_probs=13.7
Q ss_pred HHHHhcCCCCcccccccC
Q 021673 291 DQWLRILSCCPLCKQELE 308 (309)
Q Consensus 291 ~~WL~~~~tCPlCR~~i~ 308 (309)
++||..--.||.||.++.
T Consensus 2 d~~LLeILaCP~ckg~L~ 19 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLW 19 (60)
T ss_pred ChHHHhheECCCCCCcCe
Confidence 567777778999998763
No 145
>PRK05978 hypothetical protein; Provisional
Probab=28.36 E-value=29 Score=29.43 Aligned_cols=22 Identities=18% Similarity=0.715 Sum_probs=17.8
Q ss_pred CCcccHHHHHHHHhcCCCCcccccccC
Q 021673 282 SHMFHLKCVDQWLRILSCCPLCKQELE 308 (309)
Q Consensus 282 ~H~FH~~CI~~WL~~~~tCPlCR~~i~ 308 (309)
+|.|+ .+|+.+.+||.|-.++.
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~ 63 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFT 63 (148)
T ss_pred Ccccc-----cccccCCCccccCCccc
Confidence 46775 68999999999987653
No 146
>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=28.34 E-value=9.3 Score=35.71 Aligned_cols=48 Identities=15% Similarity=0.204 Sum_probs=19.8
Q ss_pred CCCCcccccccccccCCceEEe--CCCCcccHHHHHHHHhcCCCCccccc
Q 021673 258 NEDPECCICLAKYKEKEEVRKL--PCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~L--pC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
.....|++|-..-.-+.-...- -=.|.+|.-|=.+|--....||.|-.
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3457999998664322100000 01355556677788777889999954
No 147
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=27.53 E-value=43 Score=31.90 Aligned_cols=46 Identities=15% Similarity=0.267 Sum_probs=35.3
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc---CCCCcccc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI---LSCCPLCK 304 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H~FH~~CI~~WL~~---~~tCPlCR 304 (309)
.-..|++=-+.-.+...-..|.|+|+.-++-+++--+. ...||.|-
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 45688887666666666788999999999999886654 34599994
No 148
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=26.93 E-value=15 Score=23.95 Aligned_cols=12 Identities=33% Similarity=0.730 Sum_probs=7.8
Q ss_pred CCCCccccc-ccC
Q 021673 297 LSCCPLCKQ-ELE 308 (309)
Q Consensus 297 ~~tCPlCR~-~i~ 308 (309)
...||.|.. +++
T Consensus 26 ~~~CP~Cg~~~~~ 38 (42)
T PF09723_consen 26 PVPCPECGSTEVR 38 (42)
T ss_pred CCcCCCCCCCceE
Confidence 456888877 443
No 149
>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=26.37 E-value=31 Score=24.59 Aligned_cols=35 Identities=26% Similarity=0.569 Sum_probs=18.5
Q ss_pred CCCCcccccccccccCCceEEeC---CCCcccHHHHHHHH
Q 021673 258 NEDPECCICLAKYKEKEEVRKLP---CSHMFHLKCVDQWL 294 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~v~~Lp---C~H~FH~~CI~~WL 294 (309)
.+...|.+|..+|.--. +.-- ||++|+.+|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~--rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFR--RRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS---EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCce--eeEccCCCCCEECCchhCCEE
Confidence 35678999999996532 3333 79999999987654
No 150
>PLN02400 cellulose synthase
Probab=25.67 E-value=62 Score=35.85 Aligned_cols=51 Identities=20% Similarity=0.370 Sum_probs=33.2
Q ss_pred CCCCccccccccccc---CCceEEe-CCCCcccHHHHHHHH-hcCCCCcccccccC
Q 021673 258 NEDPECCICLAKYKE---KEEVRKL-PCSHMFHLKCVDQWL-RILSCCPLCKQELE 308 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~---~~~v~~L-pC~H~FH~~CI~~WL-~~~~tCPlCR~~i~ 308 (309)
.....|.||-++... |+.-..- -|+---|+.|.+-=- +-++.||.||..-+
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 456699999998753 3322211 155668999985322 23688999998654
No 151
>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=25.26 E-value=46 Score=28.53 Aligned_cols=10 Identities=50% Similarity=1.444 Sum_probs=8.1
Q ss_pred CCcccccccC
Q 021673 299 CCPLCKQELE 308 (309)
Q Consensus 299 tCPlCR~~i~ 308 (309)
.||+||-+|.
T Consensus 82 ~CPLCRG~V~ 91 (162)
T PF07800_consen 82 ACPLCRGEVK 91 (162)
T ss_pred cCccccCcee
Confidence 4999998764
No 152
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=25.05 E-value=42 Score=23.02 Aligned_cols=22 Identities=32% Similarity=0.746 Sum_probs=12.3
Q ss_pred CCCcccHHHHHHHHhcCCCCccc
Q 021673 281 CSHMFHLKCVDQWLRILSCCPLC 303 (309)
Q Consensus 281 C~H~FH~~CI~~WL~~~~tCPlC 303 (309)
|+|.|... |..-......||.|
T Consensus 34 Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEcc-HhhhccCCCCCCCC
Confidence 45555443 22222556789988
No 153
>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=25.02 E-value=39 Score=27.23 Aligned_cols=17 Identities=29% Similarity=0.606 Sum_probs=12.9
Q ss_pred HHHhcCCCCcccccccC
Q 021673 292 QWLRILSCCPLCKQELE 308 (309)
Q Consensus 292 ~WL~~~~tCPlCR~~i~ 308 (309)
+-+.+...|+.||+++.
T Consensus 80 KmLGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 80 KMLGRVDACMHCKEPLT 96 (114)
T ss_pred hhhchhhccCcCCCcCc
Confidence 45666788999999873
No 154
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=24.15 E-value=38 Score=34.82 Aligned_cols=35 Identities=26% Similarity=0.563 Sum_probs=25.0
Q ss_pred CCCCcccccccccccC-----------CceEEeCCCCcccHHHHHHH
Q 021673 258 NEDPECCICLAKYKEK-----------EEVRKLPCSHMFHLKCVDQW 293 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~-----------~~v~~LpC~H~FH~~CI~~W 293 (309)
+....|.||.++|+.- +.+.+. =|-+||..|+.+=
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCceeeccccchH
Confidence 4568999999999741 122222 5789999999875
No 155
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=24.01 E-value=61 Score=30.17 Aligned_cols=44 Identities=25% Similarity=0.331 Sum_probs=26.6
Q ss_pred CCCcccccccccccCCceEEeC-C-CCcccHHHHHHH-HhcCCCCcc
Q 021673 259 EDPECCICLAKYKEKEEVRKLP-C-SHMFHLKCVDQW-LRILSCCPL 302 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~Lp-C-~H~FH~~CI~~W-L~~~~tCPl 302 (309)
.-.-|.||++---+|..-.-|. = +=.=|++|.++| |.-|+.||.
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 3445777766655443222222 1 124589999999 556899993
No 156
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.10 E-value=75 Score=23.63 Aligned_cols=24 Identities=33% Similarity=0.776 Sum_probs=18.6
Q ss_pred CCcccHHHHHHHHhcCCCCccccccc
Q 021673 282 SHMFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 282 ~H~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
.|.|+.+|.+. +-+..||.|--++
T Consensus 28 EcTFCadCae~--~l~g~CPnCGGel 51 (84)
T COG3813 28 ECTFCADCAEN--RLHGLCPNCGGEL 51 (84)
T ss_pred eeehhHhHHHH--hhcCcCCCCCchh
Confidence 59999999886 3468899996543
No 157
>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 KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.76 E-value=16 Score=34.05 Aligned_cols=47 Identities=28% Similarity=0.496 Sum_probs=37.5
Q ss_pred CCCcccccccccccCC---ceEEeC--------CCCcccHHHHHHHHhc-CCCCccccc
Q 021673 259 EDPECCICLAKYKEKE---EVRKLP--------CSHMFHLKCVDQWLRI-LSCCPLCKQ 305 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~---~v~~Lp--------C~H~FH~~CI~~WL~~-~~tCPlCR~ 305 (309)
.+..|.||...|..++ .-+++. |+|..+.+|++.=+.. ...||.||.
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~ 264 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence 4578999999999432 235566 9999999999999765 468999986
No 159
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=22.39 E-value=79 Score=30.20 Aligned_cols=44 Identities=2% Similarity=-0.203 Sum_probs=32.0
Q ss_pred CCCcccccccccccCCceEEeCCCC-cccHHHHHHHHhcCCCCccccccc
Q 021673 259 EDPECCICLAKYKEKEEVRKLPCSH-MFHLKCVDQWLRILSCCPLCKQEL 307 (309)
Q Consensus 259 ~~~~C~ICL~~~~~~~~v~~LpC~H-~FH~~CI~~WL~~~~tCPlCR~~i 307 (309)
...+|..|-+..... ...||+| .|+-+|-. +....+||.|...+
T Consensus 342 s~~~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLST---IWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceeee---EeecCCcccChhhhhh--cccCCccccccccc
Confidence 346788886554333 5667997 78888887 67789999998754
No 160
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=22.37 E-value=28 Score=24.13 Aligned_cols=11 Identities=36% Similarity=0.727 Sum_probs=3.6
Q ss_pred CCCCccccccc
Q 021673 258 NEDPECCICLA 268 (309)
Q Consensus 258 ~~~~~C~ICL~ 268 (309)
+....|++|-.
T Consensus 22 ~~PatCP~C~a 32 (54)
T PF09237_consen 22 EQPATCPICGA 32 (54)
T ss_dssp S--EE-TTT--
T ss_pred CCCCCCCcchh
Confidence 44556666643
No 161
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=22.13 E-value=3.4e+02 Score=22.35 Aligned_cols=26 Identities=27% Similarity=0.584 Sum_probs=20.6
Q ss_pred hhhHHHhhhhhHHHHHHHHhhhceEE
Q 021673 140 FSHLMNKCRTSLELFFAIWFVMGNVW 165 (309)
Q Consensus 140 ~~~l~~~~~~~l~~f~~iW~i~G~~w 165 (309)
.+.+++.+-+++..|+++|+..+..+
T Consensus 79 ls~v~Nilvsv~~~~~~~~~~~~~~~ 104 (142)
T PF11712_consen 79 LSTVFNILVSVFAVFFAGWYWAGYSF 104 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45678888889999999998776554
No 162
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.97 E-value=29 Score=34.51 Aligned_cols=39 Identities=18% Similarity=0.413 Sum_probs=28.8
Q ss_pred CCCCcccccccccccCCc-----eEEeCCCCcccHHHHHHHHhc
Q 021673 258 NEDPECCICLAKYKEKEE-----VRKLPCSHMFHLKCVDQWLRI 296 (309)
Q Consensus 258 ~~~~~C~ICL~~~~~~~~-----v~~LpC~H~FH~~CI~~WL~~ 296 (309)
.+...|+.|....+.+.. ....+|+|.||..|+..|-..
T Consensus 224 ~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 224 ANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred ccCccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 344559999998887652 222359999999999888765
No 163
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.83 E-value=39 Score=28.22 Aligned_cols=52 Identities=27% Similarity=0.563 Sum_probs=28.7
Q ss_pred CCCCCCCccccccc-ccccCCceEEeCCCCcccHHHHHHH-HhcCC---CCcccccc
Q 021673 255 APANEDPECCICLA-KYKEKEEVRKLPCSHMFHLKCVDQW-LRILS---CCPLCKQE 306 (309)
Q Consensus 255 ~~~~~~~~C~ICL~-~~~~~~~v~~LpC~H~FH~~CI~~W-L~~~~---tCPlCR~~ 306 (309)
....+|++|.||+. .|.||-.-.--.|.-.||..|=-+- |+.|. .|-+|+..
T Consensus 60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 45578999999996 4667622222223334455554333 23232 37777753
No 164
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=20.83 E-value=94 Score=24.62 Aligned_cols=24 Identities=21% Similarity=0.372 Sum_probs=18.6
Q ss_pred CCcccHHHHHHHHhcC---------CCCccccc
Q 021673 282 SHMFHLKCVDQWLRIL---------SCCPLCKQ 305 (309)
Q Consensus 282 ~H~FH~~CI~~WL~~~---------~tCPlCR~ 305 (309)
.=.|+..|+..++..+ -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 6679999999987542 34999974
No 165
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=20.56 E-value=54 Score=31.15 Aligned_cols=42 Identities=24% Similarity=0.598 Sum_probs=28.2
Q ss_pred CCCcccccccccc-----c---CCceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 021673 259 EDPECCICLAKYK-----E---KEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305 (309)
Q Consensus 259 ~~~~C~ICL~~~~-----~---~~~v~~LpC~H~FH~~CI~~WL~~~~tCPlCR~ 305 (309)
....|++|-+.-. . .+..|.|-|+ -|=.+|--.+..||.|-.
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~Cs-----lC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCS-----LCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcC-----CCCCcccccCccCCCCCC
Confidence 4668999987632 1 2335555554 366678778899999965
Done!