Query 014291
Match_columns 427
No_of_seqs 346 out of 1652
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 03:42:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014291.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014291hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.3 6.4E-13 1.4E-17 96.4 2.8 44 273-320 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.1 2.6E-11 5.6E-16 123.2 3.7 46 274-322 231-276 (348)
3 PF15227 zf-C3HC4_4: zinc fing 99.1 8.4E-11 1.8E-15 85.5 2.7 42 275-319 1-42 (42)
4 PF12678 zf-rbx1: RING-H2 zinc 99.0 1.2E-10 2.7E-15 93.8 3.5 46 271-320 18-73 (73)
5 PHA02929 N1R/p28-like protein; 98.9 9.7E-10 2.1E-14 107.0 3.2 51 271-325 173-228 (238)
6 PF13923 zf-C3HC4_2: Zinc fing 98.8 2.3E-09 5E-14 76.1 2.5 39 275-319 1-39 (39)
7 PLN03208 E3 ubiquitin-protein 98.8 4.2E-09 9.2E-14 99.6 4.5 50 271-323 17-78 (193)
8 COG5540 RING-finger-containing 98.8 3.2E-09 7E-14 105.8 3.4 50 271-323 322-371 (374)
9 smart00504 Ubox Modified RING 98.8 1E-08 2.2E-13 78.6 4.8 44 273-323 2-45 (63)
10 PF13920 zf-C3HC4_3: Zinc fing 98.7 6.7E-09 1.4E-13 77.3 3.0 47 271-324 1-48 (50)
11 cd00162 RING RING-finger (Real 98.7 1.4E-08 3.1E-13 71.0 4.0 44 274-322 1-44 (45)
12 PF12861 zf-Apc11: Anaphase-pr 98.7 8.9E-09 1.9E-13 85.9 3.3 52 271-323 20-81 (85)
13 COG5243 HRD1 HRD ubiquitin lig 98.7 7.2E-09 1.6E-13 105.6 3.2 48 271-322 286-343 (491)
14 KOG0317 Predicted E3 ubiquitin 98.7 8.3E-09 1.8E-13 102.2 3.4 49 271-326 238-286 (293)
15 TIGR00599 rad18 DNA repair pro 98.6 2.2E-08 4.8E-13 103.9 4.5 47 271-324 25-71 (397)
16 PF00097 zf-C3HC4: Zinc finger 98.6 2.3E-08 4.9E-13 71.0 3.2 41 275-319 1-41 (41)
17 KOG0823 Predicted E3 ubiquitin 98.6 2E-08 4.3E-13 96.9 3.0 48 271-322 46-93 (230)
18 smart00184 RING Ring finger. E 98.6 6.1E-08 1.3E-12 65.4 3.4 39 275-319 1-39 (39)
19 PF14634 zf-RING_5: zinc-RING 98.5 7.7E-08 1.7E-12 70.1 2.7 44 274-321 1-44 (44)
20 PF13445 zf-RING_UBOX: RING-ty 98.5 8.2E-08 1.8E-12 70.5 2.6 42 275-317 1-43 (43)
21 KOG0320 Predicted E3 ubiquitin 98.5 6.3E-08 1.4E-12 90.4 1.9 46 271-321 130-175 (187)
22 PHA02926 zinc finger-like prot 98.4 1.1E-07 2.4E-12 91.7 3.4 56 271-326 169-232 (242)
23 KOG0802 E3 ubiquitin ligase [P 98.4 1.2E-07 2.7E-12 101.7 2.4 47 271-321 290-338 (543)
24 PF04564 U-box: U-box domain; 98.4 3.5E-07 7.7E-12 73.5 4.1 49 271-325 3-51 (73)
25 KOG0287 Postreplication repair 98.3 4.1E-07 8.8E-12 92.2 3.4 46 271-323 22-67 (442)
26 KOG2177 Predicted E3 ubiquitin 98.2 4.8E-07 1E-11 83.7 1.7 44 271-321 12-55 (386)
27 TIGR00570 cdk7 CDK-activating 98.1 2.6E-06 5.5E-11 86.0 5.1 51 270-323 1-53 (309)
28 COG5194 APC11 Component of SCF 98.1 1.8E-06 3.8E-11 71.4 2.8 32 288-323 49-80 (88)
29 COG5574 PEX10 RING-finger-cont 98.1 1.9E-06 4.1E-11 84.9 3.3 48 270-323 213-261 (271)
30 KOG2164 Predicted E3 ubiquitin 98.0 4.1E-06 9E-11 88.7 3.2 49 272-323 186-235 (513)
31 KOG1493 Anaphase-promoting com 97.9 2.5E-06 5.5E-11 70.0 -0.5 50 272-323 20-80 (84)
32 COG5432 RAD18 RING-finger-cont 97.8 9.8E-06 2.1E-10 81.0 2.8 45 272-323 25-69 (391)
33 KOG2930 SCF ubiquitin ligase, 97.8 9.4E-06 2E-10 70.1 2.2 49 270-322 44-106 (114)
34 KOG0804 Cytoplasmic Zn-finger 97.8 6.9E-06 1.5E-10 85.9 1.7 47 270-323 173-221 (493)
35 KOG0828 Predicted E3 ubiquitin 97.8 9.1E-06 2E-10 85.8 2.0 48 273-323 572-633 (636)
36 KOG1734 Predicted RING-contain 97.8 5.3E-06 1.2E-10 82.1 0.3 51 270-322 222-279 (328)
37 KOG0827 Predicted E3 ubiquitin 97.8 1.1E-05 2.3E-10 83.2 2.0 48 273-321 5-53 (465)
38 smart00744 RINGv The RING-vari 97.7 2.9E-05 6.4E-10 58.4 3.5 44 274-320 1-49 (49)
39 KOG0311 Predicted E3 ubiquitin 97.6 7E-06 1.5E-10 83.7 -1.9 47 271-322 42-88 (381)
40 KOG1645 RING-finger-containing 97.5 9.8E-05 2.1E-09 76.7 4.7 50 271-322 3-54 (463)
41 KOG0825 PHD Zn-finger protein 97.5 2.3E-05 4.9E-10 86.4 -0.4 56 271-330 122-177 (1134)
42 PF11793 FANCL_C: FANCL C-term 97.4 3E-05 6.5E-10 62.3 0.1 52 272-323 2-65 (70)
43 KOG0978 E3 ubiquitin ligase in 97.4 5.8E-05 1.3E-09 83.2 1.8 49 272-326 643-691 (698)
44 KOG2114 Vacuolar assembly/sort 97.3 0.00028 6.2E-09 78.7 5.2 52 271-331 839-890 (933)
45 KOG1039 Predicted E3 ubiquitin 97.1 0.00024 5.1E-09 73.1 2.4 53 271-323 160-220 (344)
46 PF14835 zf-RING_6: zf-RING of 97.1 0.00013 2.9E-09 58.2 0.2 45 272-324 7-51 (65)
47 KOG0824 Predicted E3 ubiquitin 97.0 0.00032 7E-09 70.6 2.5 49 270-324 5-53 (324)
48 KOG4159 Predicted E3 ubiquitin 97.0 0.00041 8.8E-09 72.6 2.7 51 271-328 83-133 (398)
49 COG5219 Uncharacterized conser 96.9 0.00038 8.2E-09 78.4 1.5 51 271-323 1468-1522(1525)
50 KOG4265 Predicted E3 ubiquitin 96.9 0.00057 1.2E-08 70.0 2.4 50 271-327 289-339 (349)
51 PF11789 zf-Nse: Zinc-finger o 96.8 0.00054 1.2E-08 53.2 1.4 44 271-318 10-53 (57)
52 PF10367 Vps39_2: Vacuolar sor 96.8 0.00057 1.2E-08 57.0 1.3 32 271-303 77-108 (109)
53 KOG1941 Acetylcholine receptor 96.6 0.00082 1.8E-08 69.8 1.4 47 272-320 365-412 (518)
54 KOG1814 Predicted E3 ubiquitin 96.5 0.0032 7E-08 65.8 4.8 72 271-342 183-258 (445)
55 KOG0297 TNF receptor-associate 96.4 0.0013 2.9E-08 68.5 1.4 53 271-329 20-72 (391)
56 KOG3039 Uncharacterized conser 96.2 0.0035 7.7E-08 61.9 3.0 49 271-323 220-269 (303)
57 KOG1940 Zn-finger protein [Gen 96.2 0.0029 6.3E-08 63.4 2.4 56 271-331 157-213 (276)
58 KOG4172 Predicted E3 ubiquitin 96.1 0.0016 3.6E-08 50.7 0.4 50 273-328 8-58 (62)
59 KOG4445 Uncharacterized conser 96.1 0.0015 3.3E-08 65.9 0.0 53 270-322 113-184 (368)
60 KOG1785 Tyrosine kinase negati 96.1 0.0023 4.9E-08 66.8 1.3 54 272-330 369-422 (563)
61 COG5152 Uncharacterized conser 95.9 0.0044 9.4E-08 59.6 2.2 44 273-323 197-240 (259)
62 KOG1428 Inhibitor of type V ad 95.9 0.012 2.7E-07 69.1 5.8 54 270-324 3484-3544(3738)
63 KOG1571 Predicted E3 ubiquitin 95.7 0.0052 1.1E-07 63.3 2.1 43 271-323 304-346 (355)
64 KOG2879 Predicted E3 ubiquitin 95.7 0.0095 2.1E-07 59.6 3.7 49 271-323 238-286 (298)
65 COG5222 Uncharacterized conser 95.5 0.012 2.6E-07 59.7 3.7 45 273-322 275-319 (427)
66 KOG1813 Predicted E3 ubiquitin 95.4 0.0092 2E-07 60.2 2.4 49 272-327 241-289 (313)
67 PF04641 Rtf2: Rtf2 RING-finge 95.3 0.015 3.2E-07 57.4 3.5 50 271-325 112-162 (260)
68 KOG2660 Locus-specific chromos 95.1 0.0055 1.2E-07 62.5 -0.2 46 271-322 14-59 (331)
69 KOG3970 Predicted E3 ubiquitin 94.9 0.043 9.2E-07 53.9 5.2 58 272-330 50-111 (299)
70 COG5175 MOT2 Transcriptional r 94.9 0.028 6E-07 57.9 4.0 50 270-322 12-62 (480)
71 KOG1002 Nucleotide excision re 94.4 0.019 4.2E-07 61.9 1.6 49 271-322 535-584 (791)
72 KOG1952 Transcription factor N 94.2 0.39 8.4E-06 54.6 11.3 53 271-323 190-246 (950)
73 KOG4275 Predicted E3 ubiquitin 94.1 0.0088 1.9E-07 60.4 -1.4 41 272-323 300-341 (350)
74 KOG0827 Predicted E3 ubiquitin 94.1 0.01 2.2E-07 61.8 -1.1 54 271-328 195-249 (465)
75 KOG3800 Predicted E3 ubiquitin 94.0 0.065 1.4E-06 54.1 4.4 45 274-321 2-48 (300)
76 PF14570 zf-RING_4: RING/Ubox 93.7 0.028 6.1E-07 42.6 1.0 45 275-323 1-47 (48)
77 KOG4185 Predicted E3 ubiquitin 93.6 0.08 1.7E-06 52.4 4.2 48 273-323 4-54 (296)
78 PF05883 Baculo_RING: Baculovi 93.4 0.035 7.5E-07 50.4 1.2 37 272-308 26-68 (134)
79 PHA03096 p28-like protein; Pro 93.2 0.049 1.1E-06 54.9 2.1 48 273-321 179-231 (284)
80 KOG1001 Helicase-like transcri 93.1 0.041 8.9E-07 61.4 1.6 45 273-323 455-499 (674)
81 PF12906 RINGv: RING-variant d 92.8 0.086 1.9E-06 39.3 2.4 42 275-319 1-47 (47)
82 PHA02825 LAP/PHD finger-like p 92.3 0.14 3.1E-06 47.7 3.6 48 270-323 6-58 (162)
83 KOG4692 Predicted E3 ubiquitin 91.9 0.1 2.2E-06 54.2 2.4 48 268-323 418-466 (489)
84 KOG2034 Vacuolar sorting prote 91.9 0.07 1.5E-06 60.6 1.3 36 271-307 816-851 (911)
85 KOG3268 Predicted E3 ubiquitin 91.6 0.13 2.8E-06 49.0 2.6 53 271-323 164-227 (234)
86 KOG3161 Predicted E3 ubiquitin 91.0 0.11 2.4E-06 57.3 1.7 44 271-323 10-56 (861)
87 PF14447 Prok-RING_4: Prokaryo 90.9 0.11 2.4E-06 40.5 1.1 44 271-323 6-49 (55)
88 KOG4739 Uncharacterized protei 90.9 0.071 1.5E-06 52.4 0.1 43 273-322 4-46 (233)
89 KOG2932 E3 ubiquitin ligase in 90.8 0.091 2E-06 53.7 0.8 45 273-325 91-135 (389)
90 KOG3002 Zn finger protein [Gen 90.8 0.22 4.7E-06 50.7 3.4 48 270-328 46-95 (299)
91 PHA02862 5L protein; Provision 90.8 0.18 3.8E-06 46.5 2.5 45 273-323 3-52 (156)
92 COG5236 Uncharacterized conser 90.7 0.23 4.9E-06 51.6 3.5 47 271-322 60-106 (493)
93 KOG0826 Predicted E3 ubiquitin 90.2 0.21 4.6E-06 51.3 2.8 45 271-321 299-343 (357)
94 KOG0801 Predicted E3 ubiquitin 89.9 0.11 2.4E-06 48.8 0.5 29 271-299 176-204 (205)
95 KOG4367 Predicted Zn-finger pr 88.4 0.2 4.3E-06 53.4 1.0 35 271-308 3-37 (699)
96 PF07800 DUF1644: Protein of u 87.4 0.6 1.3E-05 43.6 3.4 34 271-307 1-47 (162)
97 smart00249 PHD PHD zinc finger 85.6 0.29 6.2E-06 34.1 0.3 46 274-319 1-47 (47)
98 KOG0298 DEAD box-containing he 85.4 0.35 7.7E-06 57.0 1.1 45 271-321 1152-1196(1394)
99 COG5220 TFB3 Cdk activating ki 84.4 0.44 9.5E-06 47.4 1.1 47 271-321 9-61 (314)
100 KOG1812 Predicted E3 ubiquitin 84.1 0.53 1.1E-05 49.4 1.6 48 271-318 145-195 (384)
101 PF08746 zf-RING-like: RING-li 83.7 0.57 1.2E-05 34.4 1.2 43 275-319 1-43 (43)
102 KOG2817 Predicted E3 ubiquitin 83.6 0.8 1.7E-05 48.2 2.6 49 272-321 334-382 (394)
103 PF14446 Prok-RING_1: Prokaryo 79.1 1.6 3.5E-05 33.9 2.3 33 271-303 4-37 (54)
104 KOG0309 Conserved WD40 repeat- 78.6 1.2 2.5E-05 50.5 1.9 25 290-318 1045-1069(1081)
105 KOG3039 Uncharacterized conser 77.5 1.8 4E-05 43.2 2.7 51 248-308 26-76 (303)
106 PF02891 zf-MIZ: MIZ/SP-RING z 76.9 1.1 2.5E-05 33.8 0.9 46 273-321 3-49 (50)
107 PF00628 PHD: PHD-finger; Int 76.0 0.34 7.4E-06 35.6 -2.1 47 274-320 1-49 (51)
108 KOG4718 Non-SMC (structural ma 75.3 0.74 1.6E-05 45.0 -0.6 44 271-320 180-223 (235)
109 KOG3053 Uncharacterized conser 75.0 1.9 4.2E-05 43.3 2.1 54 269-322 17-80 (293)
110 KOG2066 Vacuolar assembly/sort 74.7 1.2 2.6E-05 50.5 0.7 46 271-321 783-832 (846)
111 KOG1100 Predicted E3 ubiquitin 74.3 1.5 3.3E-05 42.4 1.2 37 275-322 161-198 (207)
112 PF05290 Baculo_IE-1: Baculovi 72.8 3.5 7.5E-05 37.8 3.0 53 271-327 79-135 (140)
113 PF04710 Pellino: Pellino; In 72.3 1.2 2.6E-05 47.0 0.0 53 272-324 328-401 (416)
114 KOG0825 PHD Zn-finger protein 72.0 2.7 5.8E-05 47.9 2.6 52 271-322 95-152 (1134)
115 KOG1829 Uncharacterized conser 70.2 1.7 3.7E-05 48.0 0.6 42 272-320 511-557 (580)
116 KOG3113 Uncharacterized conser 69.8 2.6 5.5E-05 42.3 1.6 48 271-324 110-158 (293)
117 KOG1815 Predicted E3 ubiquitin 64.0 4.5 9.8E-05 43.0 2.3 36 271-308 69-104 (444)
118 KOG0269 WD40 repeat-containing 63.9 5.4 0.00012 45.3 2.9 41 273-318 780-820 (839)
119 KOG3842 Adaptor protein Pellin 63.2 5.2 0.00011 41.5 2.4 50 272-321 341-411 (429)
120 PF14569 zf-UDP: Zinc-binding 62.9 6.5 0.00014 32.9 2.5 51 270-323 7-61 (80)
121 KOG4362 Transcriptional regula 61.3 2.4 5.2E-05 47.6 -0.4 47 271-321 20-66 (684)
122 COG5109 Uncharacterized conser 60.6 5.5 0.00012 41.3 2.0 49 272-321 336-384 (396)
123 COG5183 SSM4 Protein involved 59.4 6.5 0.00014 45.1 2.5 49 271-322 11-64 (1175)
124 KOG3899 Uncharacterized conser 58.4 6.4 0.00014 40.4 2.1 31 293-323 325-364 (381)
125 PF10272 Tmpp129: Putative tra 58.0 7.5 0.00016 40.8 2.5 54 270-323 269-350 (358)
126 PF13901 DUF4206: Domain of un 55.5 7.6 0.00016 37.2 2.0 42 271-321 151-197 (202)
127 PLN02189 cellulose synthase 54.9 10 0.00022 44.7 3.1 52 270-324 32-87 (1040)
128 PLN02436 cellulose synthase A 52.8 11 0.00024 44.5 3.1 52 270-324 34-89 (1094)
129 PLN02638 cellulose synthase A 47.2 17 0.00036 43.2 3.3 52 270-324 15-70 (1079)
130 KOG4185 Predicted E3 ubiquitin 45.5 4.4 9.6E-05 40.2 -1.4 47 272-321 207-264 (296)
131 PF05605 zf-Di19: Drought indu 44.8 3 6.6E-05 31.5 -2.1 38 272-321 2-39 (54)
132 PF07191 zinc-ribbons_6: zinc- 44.4 1.7 3.7E-05 35.5 -3.6 39 273-323 2-40 (70)
133 PF06906 DUF1272: Protein of u 43.9 16 0.00034 28.9 1.7 45 274-325 7-53 (57)
134 KOG2462 C2H2-type Zn-finger pr 43.5 11 0.00023 38.3 0.9 60 271-330 160-232 (279)
135 PLN02915 cellulose synthase A 43.4 23 0.0005 41.9 3.7 52 270-324 13-68 (1044)
136 smart00132 LIM Zinc-binding do 43.4 19 0.00042 23.9 2.0 36 274-322 1-36 (39)
137 PLN02400 cellulose synthase 40.3 18 0.00039 42.9 2.2 52 270-324 34-89 (1085)
138 KOG1609 Protein involved in mR 40.3 12 0.00026 36.7 0.8 50 272-323 78-133 (323)
139 KOG2068 MOT2 transcription fac 39.5 17 0.00038 37.6 1.8 45 273-322 250-296 (327)
140 PF04710 Pellino: Pellino; In 39.5 9.8 0.00021 40.4 0.0 47 273-322 278-337 (416)
141 PLN02195 cellulose synthase A 39.1 28 0.0006 41.0 3.5 51 271-324 5-59 (977)
142 PF03854 zf-P11: P-11 zinc fin 37.8 8.9 0.00019 29.4 -0.5 28 291-322 16-44 (50)
143 PF07975 C1_4: TFIIH C1-like d 36.6 25 0.00054 27.1 1.8 42 275-320 2-50 (51)
144 PF01363 FYVE: FYVE zinc finge 36.3 19 0.00041 28.0 1.2 37 270-306 7-44 (69)
145 cd00350 rubredoxin_like Rubred 35.4 17 0.00037 25.0 0.7 21 292-322 6-26 (33)
146 KOG3579 Predicted E3 ubiquitin 34.5 20 0.00043 36.8 1.3 44 271-317 267-315 (352)
147 PF10571 UPF0547: Uncharacteri 32.5 22 0.00047 23.7 0.8 23 274-297 2-24 (26)
148 KOG2807 RNA polymerase II tran 30.5 41 0.00088 35.2 2.7 46 271-320 329-374 (378)
149 TIGR01643 YD_repeat_2x YD repe 28.3 23 0.00049 24.7 0.4 16 32-47 17-32 (42)
150 PF07649 C1_3: C1-like domain; 28.0 45 0.00097 22.2 1.8 29 274-302 2-30 (30)
151 PF00412 LIM: LIM domain; Int 26.2 35 0.00076 25.1 1.1 36 275-323 1-36 (58)
152 KOG2071 mRNA cleavage and poly 25.6 34 0.00073 38.1 1.2 35 270-304 511-555 (579)
153 cd00065 FYVE FYVE domain; Zinc 24.9 44 0.00096 24.8 1.4 35 273-307 3-38 (57)
154 smart00064 FYVE Protein presen 24.9 51 0.0011 25.5 1.8 37 271-307 9-46 (68)
155 PF12660 zf-TFIIIC: Putative z 24.8 6.1 0.00013 33.9 -3.7 49 273-322 15-64 (99)
156 cd04718 BAH_plant_2 BAH, or Br 24.6 15 0.00033 34.0 -1.3 26 297-322 2-27 (148)
157 KOG0956 PHD finger protein AF1 23.9 22 0.00047 40.4 -0.6 52 273-324 118-182 (900)
158 KOG1812 Predicted E3 ubiquitin 23.5 40 0.00088 35.5 1.3 43 273-319 307-351 (384)
159 PF06844 DUF1244: Protein of u 23.3 52 0.0011 26.9 1.6 12 297-308 12-23 (68)
160 KOG4443 Putative transcription 22.1 46 0.00099 37.6 1.4 50 272-321 18-70 (694)
161 PF13717 zinc_ribbon_4: zinc-r 22.1 55 0.0012 23.1 1.4 10 274-283 4-13 (36)
162 KOG3842 Adaptor protein Pellin 22.0 44 0.00096 34.9 1.2 46 273-321 291-349 (429)
163 TIGR00622 ssl1 transcription f 21.2 89 0.0019 27.8 2.8 44 273-320 56-110 (112)
164 PF13719 zinc_ribbon_5: zinc-r 20.9 62 0.0013 22.8 1.4 10 274-283 4-13 (37)
165 PF04423 Rad50_zn_hook: Rad50 20.6 1.5E+02 0.0032 22.2 3.6 27 301-327 8-34 (54)
166 PF09986 DUF2225: Uncharacteri 20.4 37 0.00081 32.8 0.3 13 271-283 4-16 (214)
167 KOG1356 Putative transcription 20.1 28 0.00061 40.2 -0.7 50 271-321 228-279 (889)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.33 E-value=6.4e-13 Score=96.36 Aligned_cols=44 Identities=30% Similarity=0.831 Sum_probs=37.9
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
+.|+||++.|.....+..|+|||+||.+||.+|+.. ...||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~----~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR----NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH----SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh----CCcCCccC
Confidence 369999999986677778999999999999999997 57999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=2.6e-11 Score=123.19 Aligned_cols=46 Identities=26% Similarity=0.702 Sum_probs=42.4
Q ss_pred ccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 274 TCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.|+||+|.|++++.+++|||+|.||..||++||.+ ....||+|+..
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~---~r~~CPvCK~d 276 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQ---TRTFCPVCKRD 276 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchhhccchhhHhh---cCccCCCCCCc
Confidence 99999999999999999999999999999999997 34679999963
No 3
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.06 E-value=8.4e-11 Score=85.53 Aligned_cols=42 Identities=36% Similarity=0.773 Sum_probs=32.6
Q ss_pred cccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcc
Q 014291 275 CGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVC 319 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvC 319 (427)
|+||+++|+ +|+. |+|||+|+..||..|+++.+.....||+|
T Consensus 1 CpiC~~~~~-~Pv~--l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK-DPVS--LPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S-SEEE---SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhC-Cccc--cCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999999 8988 99999999999999998654434789998
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=99.04 E-value=1.2e-10 Score=93.80 Aligned_cols=46 Identities=26% Similarity=0.848 Sum_probs=35.5
Q ss_pred ccccccccccccc----------ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 271 DMQTCGVCSKLLS----------ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 271 e~~~C~ICld~l~----------~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
.++.|+||++.|. +.-.+...+|||.||..||.+||.. ...||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~----~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ----NNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT----SSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc----CCcCCCCC
Confidence 4456999999994 1233445689999999999999986 66999997
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.87 E-value=9.7e-10 Score=107.01 Aligned_cols=51 Identities=20% Similarity=0.564 Sum_probs=40.2
Q ss_pred cccccccccccccccce-----eEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCcc
Q 014291 271 DMQTCGVCSKLLSELCV-----VAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKK 325 (427)
Q Consensus 271 e~~~C~ICld~l~~~~v-----v~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~ 325 (427)
++..|+||++.+.+.++ ...++|||+||.+||.+|+.. ...||+||..+..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~----~~tCPlCR~~~~~ 228 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE----KNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc----CCCCCCCCCEeeE
Confidence 45789999998874432 223579999999999999985 7899999986543
No 6
>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=98.81 E-value=2.3e-09 Score=76.10 Aligned_cols=39 Identities=38% Similarity=0.956 Sum_probs=32.0
Q ss_pred cccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcc
Q 014291 275 CGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVC 319 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvC 319 (427)
|+||++.+. ++ +.+++|||+||.+||.+|++. ...||+|
T Consensus 1 C~iC~~~~~-~~-~~~~~CGH~fC~~C~~~~~~~----~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELR-DP-VVVTPCGHSFCKECIEKYLEK----NPKCPVC 39 (39)
T ss_dssp ETTTTSB-S-SE-EEECTTSEEEEHHHHHHHHHC----TSB-TTT
T ss_pred CCCCCCccc-Cc-CEECCCCCchhHHHHHHHHHC----cCCCcCC
Confidence 899999998 44 335899999999999999986 5899998
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.79 E-value=4.2e-09 Score=99.55 Aligned_cols=50 Identities=30% Similarity=0.626 Sum_probs=40.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhc------------CCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEI------------NKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~------------~~~~~~CPvCR~~~ 323 (427)
+...|+||++.++ ++++ ++|||+||..||.+|+... .+....||+|+...
T Consensus 17 ~~~~CpICld~~~-dPVv--T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 17 GDFDCNICLDQVR-DPVV--TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred CccCCccCCCcCC-CcEE--cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 5678999999988 7766 8999999999999998631 12357899999765
No 8
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=3.2e-09 Score=105.79 Aligned_cols=50 Identities=26% Similarity=0.636 Sum_probs=44.0
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
....|+||+..|...+.+.+|||.|.||..||++|+.. +...||+||.+.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~---y~~~CPvCrt~i 371 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG---YSNKCPVCRTAI 371 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh---hcccCCccCCCC
Confidence 34579999999987888999999999999999999985 588999999653
No 9
>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=1e-08 Score=78.56 Aligned_cols=44 Identities=18% Similarity=0.256 Sum_probs=39.2
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..|+||.+.+. +|++ ++|||+|+..||.+|+.+ ...||+|+...
T Consensus 2 ~~Cpi~~~~~~-~Pv~--~~~G~v~~~~~i~~~~~~----~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVMK-DPVI--LPSGQTYERRAIEKWLLS----HGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcCC-CCEE--CCCCCEEeHHHHHHHHHH----CCCCCCCcCCC
Confidence 46999999999 7876 899999999999999986 67899999765
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=98.73 E-value=6.7e-09 Score=77.32 Aligned_cols=47 Identities=28% Similarity=0.728 Sum_probs=37.4
Q ss_pred cccccccccccccccceeEEcCCCCc-ccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHL-YHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHv-FH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
++..|.||++... . +..+||||. ||..|+..|+.. ...||+||.+..
T Consensus 1 ~~~~C~iC~~~~~-~--~~~~pCgH~~~C~~C~~~~~~~----~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPR-D--VVLLPCGHLCFCEECAERLLKR----KKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBS-S--EEEETTCEEEEEHHHHHHHHHT----TSBBTTTTBB-S
T ss_pred CcCCCccCCccCC-c--eEEeCCCChHHHHHHhHHhccc----CCCCCcCChhhc
Confidence 3568999999866 3 345899999 999999999984 789999997654
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=98.71 E-value=1.4e-08 Score=70.96 Aligned_cols=44 Identities=25% Similarity=0.724 Sum_probs=35.3
Q ss_pred ccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 274 TCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.|+||++.+. .+ +..++|||.||..|+..|+.. ....||+|+..
T Consensus 1 ~C~iC~~~~~-~~-~~~~~C~H~~c~~C~~~~~~~---~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFR-EP-VVLLPCGHVFCRSCIDKWLKS---GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhh-Cc-eEecCCCChhcHHHHHHHHHh---CcCCCCCCCCc
Confidence 4999999984 33 334669999999999999986 35789999853
No 12
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.71 E-value=8.9e-09 Score=85.85 Aligned_cols=52 Identities=21% Similarity=0.584 Sum_probs=38.6
Q ss_pred ccccccccccccc----------ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLS----------ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~----------~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
+++.|+||...|. ++-.+..-.|+|.||..||.+|+.... .+..||+||+..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~-~~~~CPmCR~~w 81 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQS-SKGQCPMCRQPW 81 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcccc-CCCCCCCcCCee
Confidence 3667888888777 121233447999999999999998632 367999999764
No 13
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=7.2e-09 Score=105.64 Aligned_cols=48 Identities=29% Similarity=0.684 Sum_probs=39.4
Q ss_pred cccccccccccccccc----------eeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSELC----------VVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~~~----------vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
++..|.||+|++-..+ ....|||||++|.+|+..|+++ ..+||+||.+
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER----qQTCPICr~p 343 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER----QQTCPICRRP 343 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh----ccCCCcccCc
Confidence 6779999999965222 1234999999999999999996 7899999986
No 14
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=8.3e-09 Score=102.20 Aligned_cols=49 Identities=22% Similarity=0.571 Sum_probs=41.2
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKT 326 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~ 326 (427)
....|.||++.-. +|.. +||||+||..||..|+.+ ...||+||..+.+.
T Consensus 238 a~~kC~LCLe~~~-~pSa--TpCGHiFCWsCI~~w~~e----k~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 238 ATRKCSLCLENRS-NPSA--TPCGHIFCWSCILEWCSE----KAECPLCREKFQPS 286 (293)
T ss_pred CCCceEEEecCCC-CCCc--CcCcchHHHHHHHHHHcc----ccCCCcccccCCCc
Confidence 3468999999976 6655 899999999999999997 67899999876543
No 15
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.64 E-value=2.2e-08 Score=103.86 Aligned_cols=47 Identities=21% Similarity=0.747 Sum_probs=40.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
+...|+||++.|. .+++ ++|||.||..||..|+.. ...||+|+..+.
T Consensus 25 ~~l~C~IC~d~~~-~Pvi--tpCgH~FCs~CI~~~l~~----~~~CP~Cr~~~~ 71 (397)
T TIGR00599 25 TSLRCHICKDFFD-VPVL--TSCSHTFCSLCIRRCLSN----QPKCPLCRAEDQ 71 (397)
T ss_pred cccCCCcCchhhh-CccC--CCCCCchhHHHHHHHHhC----CCCCCCCCCccc
Confidence 5568999999998 7776 899999999999999985 468999998654
No 16
>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=98.64 E-value=2.3e-08 Score=71.04 Aligned_cols=41 Identities=32% Similarity=0.781 Sum_probs=34.6
Q ss_pred cccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcc
Q 014291 275 CGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVC 319 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvC 319 (427)
|+||++.+. .++ ..++|||.||..||.+|+.. .....||+|
T Consensus 1 C~iC~~~~~-~~~-~~~~C~H~fC~~C~~~~~~~--~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFE-DPV-ILLPCGHSFCRDCLRKWLEN--SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCS-SEE-EETTTSEEEEHHHHHHHHHH--TSSSBTTTT
T ss_pred CCcCCcccc-CCC-EEecCCCcchHHHHHHHHHh--cCCccCCcC
Confidence 899999998 444 35999999999999999995 236789998
No 17
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=2e-08 Score=96.92 Aligned_cols=48 Identities=31% Similarity=0.639 Sum_probs=40.9
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
....|.||||.-+ +||+ ..|||.||..||.+||+. +.....||+|+..
T Consensus 46 ~~FdCNICLd~ak-dPVv--TlCGHLFCWpClyqWl~~-~~~~~~cPVCK~~ 93 (230)
T KOG0823|consen 46 GFFDCNICLDLAK-DPVV--TLCGHLFCWPCLYQWLQT-RPNSKECPVCKAE 93 (230)
T ss_pred CceeeeeeccccC-CCEE--eecccceehHHHHHHHhh-cCCCeeCCccccc
Confidence 5578999999988 8887 779999999999999985 3346789999974
No 18
>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=98.55 E-value=6.1e-08 Score=65.41 Aligned_cols=39 Identities=31% Similarity=0.818 Sum_probs=31.8
Q ss_pred cccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcc
Q 014291 275 CGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVC 319 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvC 319 (427)
|+||++... .. ..++|||.||..|++.|+.. ....||+|
T Consensus 1 C~iC~~~~~-~~--~~~~C~H~~c~~C~~~~~~~---~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK-DP--VVLPCGHTFCRSCIRKWLKS---GNNTCPIC 39 (39)
T ss_pred CCcCccCCC-Cc--EEecCCChHHHHHHHHHHHh---CcCCCCCC
Confidence 899998844 34 34899999999999999983 35689998
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.49 E-value=7.7e-08 Score=70.12 Aligned_cols=44 Identities=27% Similarity=0.762 Sum_probs=36.1
Q ss_pred ccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 274 TCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
.|+||.+.|.+.....+++|||+||..||..+.. ....||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~----~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG----KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC----CCCCCcCCCC
Confidence 4999999995344556689999999999999872 3689999984
No 20
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.48 E-value=8.2e-08 Score=70.54 Aligned_cols=42 Identities=31% Similarity=0.808 Sum_probs=22.3
Q ss_pred cccccccccc-cceeEEcCCCCcccHHHHHHHHHhcCCCCCCCC
Q 014291 275 CGVCSKLLSE-LCVVAVLTCGHLYHADCLENITAEINKYDPACP 317 (427)
Q Consensus 275 C~ICld~l~~-~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CP 317 (427)
|+||.+ |.+ .....+|+|||+|+.+||++++.........||
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 752 222234999999999999999986433466787
No 21
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=6.3e-08 Score=90.43 Aligned_cols=46 Identities=26% Similarity=0.709 Sum_probs=37.6
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
....|+|||+.+.+ .+..-..|||+||..||..-++. ...||+|++
T Consensus 130 ~~~~CPiCl~~~se-k~~vsTkCGHvFC~~Cik~alk~----~~~CP~C~k 175 (187)
T KOG0320|consen 130 GTYKCPICLDSVSE-KVPVSTKCGHVFCSQCIKDALKN----TNKCPTCRK 175 (187)
T ss_pred cccCCCceecchhh-ccccccccchhHHHHHHHHHHHh----CCCCCCccc
Confidence 34689999999983 33223789999999999999986 679999996
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=98.45 E-value=1.1e-07 Score=91.68 Aligned_cols=56 Identities=18% Similarity=0.561 Sum_probs=40.0
Q ss_pred cccccccccccccccc-----eeEEc-CCCCcccHHHHHHHHHhc--CCCCCCCCccccCCccc
Q 014291 271 DMQTCGVCSKLLSELC-----VVAVL-TCGHLYHADCLENITAEI--NKYDPACPVCTLGEKKT 326 (427)
Q Consensus 271 e~~~C~ICld~l~~~~-----vv~~L-pCGHvFH~~CI~~Wl~~~--~~~~~~CPvCR~~~~~~ 326 (427)
++..|+||++...+.+ .-++| +|+|.||..||.+|.... .+....||+||..+..+
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 5678999998864221 12334 899999999999999742 22356799999866443
No 23
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=1.2e-07 Score=101.69 Aligned_cols=47 Identities=28% Similarity=0.664 Sum_probs=40.0
Q ss_pred cccccccccccccccce--eEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLSELCV--VAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~~~~v--v~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
....|+||.|.+...+. ...|+|||+||..||..|+++ ..+||+||.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er----~qtCP~CR~ 338 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER----QQTCPTCRT 338 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHH----hCcCCcchh
Confidence 46799999999984422 344999999999999999997 789999997
No 24
>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=98.37 E-value=3.5e-07 Score=73.48 Aligned_cols=49 Identities=20% Similarity=0.308 Sum_probs=39.1
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCcc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKK 325 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~ 325 (427)
+...|+||.+.+. +||+ ++|||+|...||+.|+.+ ....||+|+.....
T Consensus 3 ~~f~CpIt~~lM~-dPVi--~~~G~tyer~~I~~~l~~---~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMR-DPVI--LPSGHTYERSAIERWLEQ---NGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-S-SEEE--ETTSEEEEHHHHHHHHCT---TSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhh-Ccee--CCcCCEEcHHHHHHHHHc---CCCCCCCCCCcCCc
Confidence 6789999999999 8988 899999999999999986 47899999876544
No 25
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.29 E-value=4.1e-07 Score=92.18 Aligned_cols=46 Identities=24% Similarity=0.803 Sum_probs=41.5
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
+..+|.||.++|. .|++ +||||.||.-||...|.. .+.||.|..++
T Consensus 22 ~lLRC~IC~eyf~-ip~i--tpCsHtfCSlCIR~~L~~----~p~CP~C~~~~ 67 (442)
T KOG0287|consen 22 DLLRCGICFEYFN-IPMI--TPCSHTFCSLCIRKFLSY----KPQCPTCCVTV 67 (442)
T ss_pred HHHHHhHHHHHhc-Ccee--ccccchHHHHHHHHHhcc----CCCCCceeccc
Confidence 4568999999999 7877 899999999999999985 89999999875
No 26
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=4.8e-07 Score=83.69 Aligned_cols=44 Identities=30% Similarity=0.660 Sum_probs=38.2
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
+...|+||++.|. .+ .+|+|||.||..||..++. ....||.||.
T Consensus 12 ~~~~C~iC~~~~~-~p--~~l~C~H~~c~~C~~~~~~----~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFR-EP--VLLPCGHNFCRACLTRSWE----GPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhh-cC--ccccccchHhHHHHHHhcC----CCcCCcccCC
Confidence 6778999999999 56 4499999999999999877 2589999994
No 27
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.13 E-value=2.6e-06 Score=85.98 Aligned_cols=51 Identities=24% Similarity=0.453 Sum_probs=36.5
Q ss_pred cccccccccccccccccee--EEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 270 VDMQTCGVCSKLLSELCVV--AVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv--~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
+++..||||...-...+.. .+.+|||.||..||+..+.. ....||+|+...
T Consensus 1 md~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~---~~~~CP~C~~~l 53 (309)
T TIGR00570 1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR---GSGSCPECDTPL 53 (309)
T ss_pred CCCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC---CCCCCCCCCCcc
Confidence 3667899999742213332 22379999999999997754 256899998754
No 28
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.11 E-value=1.8e-06 Score=71.41 Aligned_cols=32 Identities=22% Similarity=0.442 Sum_probs=27.4
Q ss_pred eEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 288 VAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 288 v~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
+..-.|.|.||.+||..||.. ...||+|+++.
T Consensus 49 v~wG~CnHaFH~HCI~rWL~T----k~~CPld~q~w 80 (88)
T COG5194 49 VVWGVCNHAFHDHCIYRWLDT----KGVCPLDRQTW 80 (88)
T ss_pred EEEEecchHHHHHHHHHHHhh----CCCCCCCCcee
Confidence 334579999999999999996 78999999764
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.9e-06 Score=84.87 Aligned_cols=48 Identities=25% Similarity=0.488 Sum_probs=38.7
Q ss_pred ccccccccccccccccceeEEcCCCCcccHHHHHH-HHHhcCCCCCCCCccccCC
Q 014291 270 VDMQTCGVCSKLLSELCVVAVLTCGHLYHADCLEN-ITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~-Wl~~~~~~~~~CPvCR~~~ 323 (427)
..+..|+||++... .+.. ++|||+||..||-. |..+ ....||+||...
T Consensus 213 ~~d~kC~lC~e~~~-~ps~--t~CgHlFC~~Cl~~~~t~~---k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPE-VPSC--TPCGHLFCLSCLLISWTKK---KYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccC-Cccc--ccccchhhHHHHHHHHHhh---ccccCchhhhhc
Confidence 45678999999876 5544 89999999999999 8886 233499999754
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=4.1e-06 Score=88.67 Aligned_cols=49 Identities=24% Similarity=0.487 Sum_probs=38.2
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhc-CCCCCCCCccccCC
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEI-NKYDPACPVCTLGE 323 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~-~~~~~~CPvCR~~~ 323 (427)
...||||++... .++. ..|||+||..||-+++... .+.-..||+|+..+
T Consensus 186 ~~~CPICL~~~~-~p~~--t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPS-VPVR--TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCC-cccc--cccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 678999998866 4444 5699999999999977654 34467899999754
No 31
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=2.5e-06 Score=69.99 Aligned_cols=50 Identities=26% Similarity=0.542 Sum_probs=36.9
Q ss_pred cccccccccccc-----------ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 272 MQTCGVCSKLLS-----------ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 272 ~~~C~ICld~l~-----------~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
.++|.||...|. +-|.+ .-.|.|.||..||.+|+... .....||+||+..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv-~G~C~h~fh~hCI~~wl~~~-tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLV-WGYCLHAFHAHCILKWLNTP-TSQGQCPMCRQTW 80 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccH-HHHHHHHHHHHHHHHHhcCc-cccccCCcchhee
Confidence 347888888887 22222 12699999999999999753 3467899999764
No 32
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.82 E-value=9.8e-06 Score=81.01 Aligned_cols=45 Identities=31% Similarity=0.737 Sum_probs=39.5
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
...|-||-+.|. .++. .+|||.||.-||...|.. .+.||+||.++
T Consensus 25 ~lrC~IC~~~i~-ip~~--TtCgHtFCslCIR~hL~~----qp~CP~Cr~~~ 69 (391)
T COG5432 25 MLRCRICDCRIS-IPCE--TTCGHTFCSLCIRRHLGT----QPFCPVCREDP 69 (391)
T ss_pred HHHhhhhhheee-ccee--cccccchhHHHHHHHhcC----CCCCccccccH
Confidence 357999999998 6766 899999999999999986 79999999754
No 33
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=9.4e-06 Score=70.10 Aligned_cols=49 Identities=24% Similarity=0.628 Sum_probs=37.5
Q ss_pred cccccccccccccc--------------ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 270 VDMQTCGVCSKLLS--------------ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 270 ~e~~~C~ICld~l~--------------~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
+.-..|+||...+- +..+++--.|.|.||..||.+||+. ...||+|.++
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt----r~vCPLdn~e 106 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT----RNVCPLDNKE 106 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh----cCcCCCcCcc
Confidence 35567888865443 2334555689999999999999997 7899999864
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.82 E-value=6.9e-06 Score=85.85 Aligned_cols=47 Identities=30% Similarity=0.764 Sum_probs=38.2
Q ss_pred cccccccccccccccccee--EEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 270 VDMQTCGVCSKLLSELCVV--AVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv--~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
.+..+|||||+-+. ..+. ..+.|.|.||..|+.+|. +.+||+||.-.
T Consensus 173 tELPTCpVCLERMD-~s~~gi~t~~c~Hsfh~~cl~~w~------~~scpvcR~~q 221 (493)
T KOG0804|consen 173 TELPTCPVCLERMD-SSTTGILTILCNHSFHCSCLMKWW------DSSCPVCRYCQ 221 (493)
T ss_pred ccCCCcchhHhhcC-ccccceeeeecccccchHHHhhcc------cCcChhhhhhc
Confidence 48889999999998 4443 335799999999999996 46999999743
No 35
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=9.1e-06 Score=85.81 Aligned_cols=48 Identities=27% Similarity=0.731 Sum_probs=36.6
Q ss_pred ccccccccccc-----ccce---------eEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 273 QTCGVCSKLLS-----ELCV---------VAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 273 ~~C~ICld~l~-----~~~v---------v~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..|+||+.... .+.. ..+.||.|+||..||++|+.. ++..||+||.+.
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~---ykl~CPvCR~pL 633 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT---YKLICPVCRCPL 633 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh---hcccCCccCCCC
Confidence 47999997765 1111 123599999999999999985 467999999754
No 36
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=5.3e-06 Score=82.09 Aligned_cols=51 Identities=22% Similarity=0.535 Sum_probs=40.5
Q ss_pred ccccccccccccccccc-------eeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 270 VDMQTCGVCSKLLSELC-------VVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~-------vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.++..|+||-..+.... .+..|.|+|+||..||.-|.--+ .+.+||.|+..
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG--KkqtCPYCKek 279 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG--KKQTCPYCKEK 279 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeec--CCCCCchHHHH
Confidence 47789999998887222 34569999999999999998754 36899999863
No 37
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=1.1e-05 Score=83.22 Aligned_cols=48 Identities=25% Similarity=0.695 Sum_probs=35.7
Q ss_pred cccccccccccccceeEEc-CCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 273 QTCGVCSKLLSELCVVAVL-TCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~L-pCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
..|.||.+.+.....++-+ .|||+||..|+.+|+...-. +..||+|+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps-~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPS-NRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCc-cCCCCceee
Confidence 4699997766544444444 49999999999999986322 257999994
No 38
>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=97.74 E-value=2.9e-05 Score=58.37 Aligned_cols=44 Identities=25% Similarity=0.529 Sum_probs=33.3
Q ss_pred ccccccccccccceeEEcCCC-----CcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 274 TCGVCSKLLSELCVVAVLTCG-----HLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCG-----HvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
.|-||++... .....+.||. |.+|..||.+|+.+. ....||+|.
T Consensus 1 ~CrIC~~~~~-~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~--~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGD-EGDPLVSPCRCKGSLKYVHQECLERWINES--GNKTCEICK 49 (49)
T ss_pred CccCCCCCCC-CCCeeEeccccCCchhHHHHHHHHHHHHHc--CCCcCCCCC
Confidence 4899998433 3333458985 999999999999863 246899995
No 39
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=7e-06 Score=83.70 Aligned_cols=47 Identities=23% Similarity=0.500 Sum_probs=38.9
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.+..|+|||+.|+ ..+. +.-|+|.||.+||..-+.. .+..||.||+.
T Consensus 42 ~~v~c~icl~llk-~tmt-tkeClhrfc~~ci~~a~r~---gn~ecptcRk~ 88 (381)
T KOG0311|consen 42 IQVICPICLSLLK-KTMT-TKECLHRFCFDCIWKALRS---GNNECPTCRKK 88 (381)
T ss_pred hhhccHHHHHHHH-hhcc-cHHHHHHHHHHHHHHHHHh---cCCCCchHHhh
Confidence 5678999999998 3332 3579999999999998887 47899999984
No 40
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=9.8e-05 Score=76.71 Aligned_cols=50 Identities=28% Similarity=0.637 Sum_probs=40.0
Q ss_pred ccccccccccccc--ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLS--ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~--~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
...+|+||++.+. .+..+..|.|||.|-..||+.||- ++....||.|..+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~--k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG--KKTKMQCPLCSGK 54 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHh--hhhhhhCcccCCh
Confidence 4578999999998 233344578999999999999995 4467899999864
No 41
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.47 E-value=2.3e-05 Score=86.40 Aligned_cols=56 Identities=16% Similarity=0.247 Sum_probs=47.5
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccchHHH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTHKLS 330 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~kL~ 330 (427)
....|++|+.-+.+..+....+|+|.||..||..|..- ..+||+||..|.++..+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~----aqTCPiDR~EF~~v~V~e 177 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC----AQTCPVDRGEFGEVKVLE 177 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh----cccCchhhhhhheeeeec
Confidence 45689999988886666667899999999999999985 689999999887777655
No 42
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.45 E-value=3e-05 Score=62.27 Aligned_cols=52 Identities=23% Similarity=0.531 Sum_probs=23.3
Q ss_pred cccccccccccc-cc--ceeEE--cCCCCcccHHHHHHHHHhcC--C--CC---CCCCccccCC
Q 014291 272 MQTCGVCSKLLS-EL--CVVAV--LTCGHLYHADCLENITAEIN--K--YD---PACPVCTLGE 323 (427)
Q Consensus 272 ~~~C~ICld~l~-~~--~vv~~--LpCGHvFH~~CI~~Wl~~~~--~--~~---~~CPvCR~~~ 323 (427)
+..|+||...+. .+ +++.- -.|++.||..||.+||.... + .. ..||.|+.+.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 357999998764 22 22222 26999999999999998631 1 12 2599999643
No 43
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=5.8e-05 Score=83.17 Aligned_cols=49 Identities=22% Similarity=0.634 Sum_probs=40.1
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccc
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKT 326 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~ 326 (427)
..+|++|-.-++ +-++ ..|||+||..||+.-+.. +...||.|...|..-
T Consensus 643 ~LkCs~Cn~R~K-d~vI--~kC~H~FC~~Cvq~r~et---RqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 643 LLKCSVCNTRWK-DAVI--TKCGHVFCEECVQTRYET---RQRKCPKCNAAFGAN 691 (698)
T ss_pred ceeCCCccCchh-hHHH--HhcchHHHHHHHHHHHHH---hcCCCCCCCCCCCcc
Confidence 458999998887 4444 689999999999998876 467999999877543
No 44
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.28 E-value=0.00028 Score=78.67 Aligned_cols=52 Identities=33% Similarity=0.732 Sum_probs=40.5
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccchHHHH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTHKLSE 331 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~kL~~ 331 (427)
....|.+|--.|. .|.|. ..|||.||.+|++ . ....||.|+.+......+.+
T Consensus 839 q~skCs~C~~~Ld-lP~Vh-F~CgHsyHqhC~e---~----~~~~CP~C~~e~~~~m~l~~ 890 (933)
T KOG2114|consen 839 QVSKCSACEGTLD-LPFVH-FLCGHSYHQHCLE---D----KEDKCPKCLPELRGVMDLKR 890 (933)
T ss_pred eeeeecccCCccc-cceee-eecccHHHHHhhc---c----CcccCCccchhhhhhHHHHH
Confidence 5679999999988 88775 4599999999998 1 36789999986555554443
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.00024 Score=73.06 Aligned_cols=53 Identities=23% Similarity=0.693 Sum_probs=39.6
Q ss_pred cccccccccccccccc----eeEEc-CCCCcccHHHHHHHHHhcC---CCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELC----VVAVL-TCGHLYHADCLENITAEIN---KYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~----vv~~L-pCGHvFH~~CI~~Wl~~~~---~~~~~CPvCR~~~ 323 (427)
.+..|.||++...+.. ..++| +|.|.||..||..|-...+ +....||.||...
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 6779999999887333 03344 4999999999999985422 2368999999853
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.10 E-value=0.00013 Score=58.17 Aligned_cols=45 Identities=24% Similarity=0.698 Sum_probs=23.2
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
...|++|.+.|+ .|+. ...|.|+||..||..-+. ..||+|..+.+
T Consensus 7 lLrCs~C~~~l~-~pv~-l~~CeH~fCs~Ci~~~~~------~~CPvC~~Paw 51 (65)
T PF14835_consen 7 LLRCSICFDILK-EPVC-LGGCEHIFCSSCIRDCIG------SECPVCHTPAW 51 (65)
T ss_dssp TTS-SSS-S--S-S-B----SSS--B-TTTGGGGTT------TB-SSS--B-S
T ss_pred hcCCcHHHHHhc-CCce-eccCccHHHHHHhHHhcC------CCCCCcCChHH
Confidence 457999999998 6654 357999999999977443 46999997653
No 47
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00032 Score=70.56 Aligned_cols=49 Identities=20% Similarity=0.396 Sum_probs=38.4
Q ss_pred ccccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 270 VDMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
.-...|+||+..-. -|+. |+|+|.||..||+--... ....|++||.++.
T Consensus 5 ~~~~eC~IC~nt~n-~Pv~--l~C~HkFCyiCiKGsy~n---dk~~CavCR~pid 53 (324)
T KOG0824|consen 5 TKKKECLICYNTGN-CPVN--LYCFHKFCYICIKGSYKN---DKKTCAVCRFPID 53 (324)
T ss_pred ccCCcceeeeccCC-cCcc--ccccchhhhhhhcchhhc---CCCCCceecCCCC
Confidence 34567999998866 6655 999999999999885553 2567999999753
No 48
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00041 Score=72.58 Aligned_cols=51 Identities=29% Similarity=0.617 Sum_probs=42.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccchH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTHK 328 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~k 328 (427)
.+..|.||...|. .+++ +||||.||..||++-+.+ ...||.||.++.....
T Consensus 83 sef~c~vc~~~l~-~pv~--tpcghs~c~~Cl~r~ld~----~~~cp~Cr~~l~e~~~ 133 (398)
T KOG4159|consen 83 SEFECCVCSRALY-PPVV--TPCGHSFCLECLDRSLDQ----ETECPLCRDELVELPA 133 (398)
T ss_pred chhhhhhhHhhcC-CCcc--ccccccccHHHHHHHhcc----CCCCcccccccccchH
Confidence 6678999999998 7777 799999999999997764 7899999987654443
No 49
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.89 E-value=0.00038 Score=78.41 Aligned_cols=51 Identities=25% Similarity=0.563 Sum_probs=39.3
Q ss_pred ccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..+.|+||.-.+. ..|..+.-.|.|-||..||-+|+... ....||+||..+
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss--~~s~CPlCRsei 1522 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS--ARSNCPLCRSEI 1522 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc--CCCCCCcccccc
Confidence 4467999998776 23444445699999999999999864 368999999643
No 50
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.00057 Score=70.04 Aligned_cols=50 Identities=22% Similarity=0.519 Sum_probs=38.2
Q ss_pred cccccccccccccccceeEEcCCCCc-ccHHHHHHHHHhcCCCCCCCCccccCCccch
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHL-YHADCLENITAEINKYDPACPVCTLGEKKTH 327 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHv-FH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~ 327 (427)
....|.||+.+.. +- .+|||.|. .|..|.+..--+ ...||+||+++....
T Consensus 289 ~gkeCVIClse~r-dt--~vLPCRHLCLCs~Ca~~Lr~q----~n~CPICRqpi~~ll 339 (349)
T KOG4265|consen 289 SGKECVICLSESR-DT--VVLPCRHLCLCSGCAKSLRYQ----TNNCPICRQPIEELL 339 (349)
T ss_pred CCCeeEEEecCCc-ce--EEecchhhehhHhHHHHHHHh----hcCCCccccchHhhh
Confidence 3568999999877 33 45999998 799999885433 578999998764443
No 51
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.81 E-value=0.00054 Score=53.23 Aligned_cols=44 Identities=18% Similarity=0.350 Sum_probs=29.5
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPV 318 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPv 318 (427)
....|||.+..|+ +|+. -..|||+|-.+.|.+|+.. .....||+
T Consensus 10 ~~~~CPiT~~~~~-~PV~-s~~C~H~fek~aI~~~i~~--~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFE-DPVK-SKKCGHTFEKEAILQYIQR--NGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-S-SEEE-ESSS--EEEHHHHHHHCTT--TS-EE-SC
T ss_pred eccCCCCcCChhh-CCcC-cCCCCCeecHHHHHHHHHh--cCCCCCCC
Confidence 4568999999999 7765 3579999999999999943 24678999
No 52
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.75 E-value=0.00057 Score=57.03 Aligned_cols=32 Identities=38% Similarity=0.882 Sum_probs=28.2
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLE 303 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~ 303 (427)
+...|+||...|. ..+..+.||||+||..|++
T Consensus 77 ~~~~C~vC~k~l~-~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLG-NSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCC-CceEEEeCCCeEEeccccc
Confidence 5678999999998 5777889999999999975
No 53
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.60 E-value=0.00082 Score=69.82 Aligned_cols=47 Identities=28% Similarity=0.690 Sum_probs=38.1
Q ss_pred ccccccccccccc-cceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 272 MQTCGVCSKLLSE-LCVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 272 ~~~C~ICld~l~~-~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
+..|..|-+.+.. ++..-.|||.|+||..|+...|.+. ...+||.||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n--~~rsCP~Cr 412 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENN--GTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhC--CCCCCccHH
Confidence 4589999998863 3445569999999999999998652 367999999
No 54
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.48 E-value=0.0032 Score=65.81 Aligned_cols=72 Identities=15% Similarity=0.276 Sum_probs=51.5
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHh----cCCCCCCCCccccCCccchHHHHHHHHHHHHHHH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAE----INKYDPACPVCTLGEKKTHKLSERALKSEMESKA 342 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~----~~~~~~~CPvCR~~~~~~~kL~~~~l~~elelk~ 342 (427)
....|.||.+......-...|||+|+||..|+..++.- +.-....||.|.-+.....-..+.++..++-.+-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arY 258 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARY 258 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHH
Confidence 34579999999885466667999999999999998764 2223567999887655555555666665555543
No 55
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.38 E-value=0.0013 Score=68.50 Aligned_cols=53 Identities=30% Similarity=0.629 Sum_probs=42.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccchHH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTHKL 329 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~kL 329 (427)
+...|+||...+. +|+.. ..|||.||..|+..|+.. +..||.|+....+...+
T Consensus 20 ~~l~C~~C~~vl~-~p~~~-~~cgh~fC~~C~~~~~~~----~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 20 ENLLCPICMSVLR-DPVQT-TTCGHRFCAGCLLESLSN----HQKCPVCRQELTQAEEL 72 (391)
T ss_pred ccccCcccccccc-CCCCC-CCCCCcccccccchhhcc----CcCCcccccccchhhcc
Confidence 5578999999999 55542 589999999999999985 78999998765444443
No 56
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.18 E-value=0.0035 Score=61.87 Aligned_cols=49 Identities=27% Similarity=0.410 Sum_probs=41.1
Q ss_pred cccccccccccccccceeEEc-CCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVL-TCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~L-pCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
....|+||.+.|.+.-..++| ||||+|+.+|+++.+.. +..||+|-.+.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~----D~v~pv~d~pl 269 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK----DMVDPVTDKPL 269 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc----cccccCCCCcC
Confidence 556899999999955545556 89999999999999886 88999998654
No 57
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.16 E-value=0.0029 Score=63.38 Aligned_cols=56 Identities=27% Similarity=0.652 Sum_probs=43.4
Q ss_pred ccccccccccccc-ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccchHHHH
Q 014291 271 DMQTCGVCSKLLS-ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTHKLSE 331 (427)
Q Consensus 271 e~~~C~ICld~l~-~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~kL~~ 331 (427)
....||||.+.+. ..+.+.+++|||.-|..|++..... .+.||+|.+ ...+..+++
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~----~y~CP~C~~-~~d~~~~~~ 213 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE----GYTCPICSK-PGDMSHYFR 213 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc----CCCCCcccc-hHHHHHHHH
Confidence 3445999998776 4555667999999999999988775 499999997 555555554
No 58
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.14 E-value=0.0016 Score=50.65 Aligned_cols=50 Identities=26% Similarity=0.572 Sum_probs=35.8
Q ss_pred cccccccccccccceeEEcCCCCc-ccHHHHHHHHHhcCCCCCCCCccccCCccchH
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHL-YHADCLENITAEINKYDPACPVCTLGEKKTHK 328 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHv-FH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~k 328 (427)
..|.||.+.-. +.|+ --|||. .|.+|-...++. ....||+||.+.+.+.+
T Consensus 8 dECTICye~pv-dsVl--YtCGHMCmCy~Cg~rl~~~---~~g~CPiCRapi~dvIk 58 (62)
T KOG4172|consen 8 DECTICYEHPV-DSVL--YTCGHMCMCYACGLRLKKA---LHGCCPICRAPIKDVIK 58 (62)
T ss_pred cceeeeccCcc-hHHH--HHcchHHhHHHHHHHHHHc---cCCcCcchhhHHHHHHH
Confidence 57999998744 3333 479998 788997765553 36799999976655443
No 59
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.09 E-value=0.0015 Score=65.91 Aligned_cols=53 Identities=25% Similarity=0.516 Sum_probs=41.4
Q ss_pred ccccccccccccccccceeEEcCCCCcccHHHHHHHHHhc-------------------CCCCCCCCccccC
Q 014291 270 VDMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEI-------------------NKYDPACPVCTLG 322 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~-------------------~~~~~~CPvCR~~ 322 (427)
.....|.|||--|.+.+...+.+|-|.||..|+..+|.+- ......|||||..
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~ 184 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRER 184 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhh
Confidence 3456799999999988878889999999999998776530 1224579999974
No 60
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.09 E-value=0.0023 Score=66.80 Aligned_cols=54 Identities=26% Similarity=0.544 Sum_probs=40.0
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccchHHH
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTHKLS 330 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~kL~ 330 (427)
-+.|-||.+.=+ .+.+=||||..|..||..|-..+ ....||.||.+.+-...+.
T Consensus 369 FeLCKICaendK---dvkIEPCGHLlCt~CLa~WQ~sd--~gq~CPFCRcEIKGte~vi 422 (563)
T KOG1785|consen 369 FELCKICAENDK---DVKIEPCGHLLCTSCLAAWQDSD--EGQTCPFCRCEIKGTEPVI 422 (563)
T ss_pred HHHHHHhhccCC---CcccccccchHHHHHHHhhcccC--CCCCCCceeeEecccccee
Confidence 357999998733 34456999999999999996542 2679999998665544433
No 61
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.92 E-value=0.0044 Score=59.60 Aligned_cols=44 Identities=30% Similarity=0.589 Sum_probs=37.6
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..|.||.+.|. .||+ ..|||.||..|...=++. ...|-+|-+..
T Consensus 197 F~C~iCKkdy~-spvv--t~CGH~FC~~Cai~~y~k----g~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYE-SPVV--TECGHSFCSLCAIRKYQK----GDECGVCGKAT 240 (259)
T ss_pred eeehhchhhcc-chhh--hhcchhHHHHHHHHHhcc----CCcceecchhh
Confidence 57999999999 7877 789999999998876665 68999998643
No 62
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.86 E-value=0.012 Score=69.05 Aligned_cols=54 Identities=22% Similarity=0.497 Sum_probs=38.0
Q ss_pred ccccccccccc-cccccceeEEcCCCCcccHHHHHHHHHhc---CC---CCCCCCccccCCc
Q 014291 270 VDMQTCGVCSK-LLSELCVVAVLTCGHLYHADCLENITAEI---NK---YDPACPVCTLGEK 324 (427)
Q Consensus 270 ~e~~~C~ICld-~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~---~~---~~~~CPvCR~~~~ 324 (427)
..+..|.||.. .|. ......|.|+|+||..|...-|... .+ .-..||+|+.+..
T Consensus 3484 D~DDmCmICFTE~L~-AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALS-AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccCceEEEEehhhhC-CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 35678999984 444 3444569999999999998877641 00 1247999998653
No 63
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.73 E-value=0.0052 Score=63.28 Aligned_cols=43 Identities=28% Similarity=0.573 Sum_probs=31.9
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
....|.||++... . ...+||||+-| |..--.. .+.||+||...
T Consensus 304 ~p~lcVVcl~e~~-~--~~fvpcGh~cc--ct~cs~~-----l~~CPvCR~rI 346 (355)
T KOG1571|consen 304 QPDLCVVCLDEPK-S--AVFVPCGHVCC--CTLCSKH-----LPQCPVCRQRI 346 (355)
T ss_pred CCCceEEecCCcc-c--eeeecCCcEEE--chHHHhh-----CCCCchhHHHH
Confidence 5568999999977 3 44589999977 7654322 67799999544
No 64
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.0095 Score=59.60 Aligned_cols=49 Identities=24% Similarity=0.508 Sum_probs=36.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
....|++|.+.=+ .|-+ ..+|||+||.-||..-..-+ ...+||.|..+.
T Consensus 238 ~~~~C~~Cg~~Pt-iP~~-~~~C~HiyCY~Ci~ts~~~~--asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 238 SDTECPVCGEPPT-IPHV-IGKCGHIYCYYCIATSRLWD--ASFTCPLCGENV 286 (298)
T ss_pred CCceeeccCCCCC-CCee-eccccceeehhhhhhhhcch--hhcccCccCCCC
Confidence 5679999998866 5544 35799999999998854421 257999998654
No 65
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.51 E-value=0.012 Score=59.65 Aligned_cols=45 Identities=27% Similarity=0.635 Sum_probs=37.4
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
..|+.|..++. .++.. --|||.||.+||..-|.+ .+..||.|...
T Consensus 275 LkCplc~~Llr-np~kT-~cC~~~fc~eci~~al~d---sDf~CpnC~rk 319 (427)
T COG5222 275 LKCPLCHCLLR-NPMKT-PCCGHTFCDECIGTALLD---SDFKCPNCSRK 319 (427)
T ss_pred ccCcchhhhhh-CcccC-ccccchHHHHHHhhhhhh---ccccCCCcccc
Confidence 68999999998 66552 358999999999987775 48999999864
No 66
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.0092 Score=60.20 Aligned_cols=49 Identities=24% Similarity=0.486 Sum_probs=40.1
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccch
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTH 327 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~ 327 (427)
.+.|-||-+.|. .||+ ..|||.||..|.-.-++. ...|++|.+...-+.
T Consensus 241 Pf~c~icr~~f~-~pVv--t~c~h~fc~~ca~~~~qk----~~~c~vC~~~t~g~~ 289 (313)
T KOG1813|consen 241 PFKCFICRKYFY-RPVV--TKCGHYFCEVCALKPYQK----GEKCYVCSQQTHGSF 289 (313)
T ss_pred Cccccccccccc-cchh--hcCCceeehhhhcccccc----CCcceeccccccccc
Confidence 356999999999 8888 889999999998877764 689999987544433
No 67
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.30 E-value=0.015 Score=57.38 Aligned_cols=50 Identities=22% Similarity=0.453 Sum_probs=38.5
Q ss_pred ccccccccccccccc-ceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCcc
Q 014291 271 DMQTCGVCSKLLSEL-CVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKK 325 (427)
Q Consensus 271 e~~~C~ICld~l~~~-~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~ 325 (427)
....|||+...|... ..+.+.+|||+|...||.+.- . ...||+|-.++..
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~----~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-K----SKKCPVCGKPFTE 162 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-c----cccccccCCcccc
Confidence 567899999999732 344556999999999999862 1 4679999987543
No 68
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.08 E-value=0.0055 Score=62.46 Aligned_cols=46 Identities=24% Similarity=0.620 Sum_probs=38.6
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
...+|.+|..+|.+.. .+.-|=|.||..||-..|.+ ...||.|...
T Consensus 14 ~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~----~~~CP~C~i~ 59 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEE----SKYCPTCDIV 59 (331)
T ss_pred cceehhhccceeecch--hHHHHHHHHHHHHHHHHHHH----hccCCcccee
Confidence 5668999999998333 33679999999999999987 7899999874
No 69
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.88 E-value=0.043 Score=53.86 Aligned_cols=58 Identities=26% Similarity=0.494 Sum_probs=44.0
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhc----CCCCCCCCccccCCccchHHH
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEI----NKYDPACPVCTLGEKKTHKLS 330 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~----~~~~~~CPvCR~~~~~~~kL~ 330 (427)
...|.+|--.|...+.+ .|.|=|+||.+|++.|...- .-..+.||-|.+++.....|.
T Consensus 50 ~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nlv 111 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLV 111 (299)
T ss_pred CCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcccc
Confidence 34799999999855544 58899999999999998651 123678999998765555444
No 70
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.87 E-value=0.028 Score=57.94 Aligned_cols=50 Identities=20% Similarity=0.396 Sum_probs=34.4
Q ss_pred cccccccccccccccccee-EEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 270 VDMQTCGVCSKLLSELCVV-AVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv-~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.++..|++|++.+.-.+.- .--+||...|.-|-...-+. .+..||.||..
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~---lngrcpacrr~ 62 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN---LNGRCPACRRK 62 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhh---ccCCChHhhhh
Confidence 4666799999998722222 11368999888886553332 47799999984
No 71
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.36 E-value=0.019 Score=61.90 Aligned_cols=49 Identities=22% Similarity=0.650 Sum_probs=38.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhc-CCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEI-NKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~-~~~~~~CPvCR~~ 322 (427)
....|.+|-+.-+ +.++ ..|.|.||.-||..+.... ...+.+||+|-.+
T Consensus 535 ~~~~C~lc~d~ae-d~i~--s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~ 584 (791)
T KOG1002|consen 535 GEVECGLCHDPAE-DYIE--SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIG 584 (791)
T ss_pred CceeecccCChhh-hhHh--hhhhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence 4568999999877 5555 7899999999999887652 3346899999864
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.20 E-value=0.39 Score=54.61 Aligned_cols=53 Identities=19% Similarity=0.530 Sum_probs=38.5
Q ss_pred ccccccccccccccccee-EEcCCCCcccHHHHHHHHHhcC---CCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVV-AVLTCGHLYHADCLENITAEIN---KYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv-~~LpCGHvFH~~CI~~Wl~~~~---~~~~~CPvCR~~~ 323 (427)
+...|.||.+.+.....+ .--.|=|+||..||..|....+ ...-.||.|....
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 556799999998733333 2235779999999999998632 2467899998533
No 73
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=0.0088 Score=60.37 Aligned_cols=41 Identities=29% Similarity=0.733 Sum_probs=30.8
Q ss_pred ccccccccccccccceeEEcCCCCc-ccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHL-YHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHv-FH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
...|.||++.-. +.+. |+|||. -|.+|-.. -..|||||+..
T Consensus 300 ~~LC~ICmDaP~-DCvf--LeCGHmVtCt~CGkr--------m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPR-DCVF--LECGHMVTCTKCGKR--------MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCc-ceEE--eecCcEEeehhhccc--------cccCchHHHHH
Confidence 668999999866 5555 999996 67777543 45899999643
No 74
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.06 E-value=0.01 Score=61.82 Aligned_cols=54 Identities=22% Similarity=0.387 Sum_probs=42.5
Q ss_pred ccccccccccccccc-ceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCccchH
Q 014291 271 DMQTCGVCSKLLSEL-CVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKKTHK 328 (427)
Q Consensus 271 e~~~C~ICld~l~~~-~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~k 328 (427)
-...|+||.+.|+.. +.+..+.|||.||.+||.+||.. ...||.|+.+..++.-
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~----~~kl~~~~rel~~~~~ 249 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT----KRKLPSCRRELPKNGF 249 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH----HHHhHHHHhhhhhhhH
Confidence 345899999999843 44555789999999999999986 5689999986544443
No 75
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=94.00 E-value=0.065 Score=54.08 Aligned_cols=45 Identities=22% Similarity=0.550 Sum_probs=33.8
Q ss_pred cccccc-cccccccee-EEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 274 TCGVCS-KLLSELCVV-AVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 274 ~C~ICl-d~l~~~~vv-~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
.|++|. +.|...... .+-+|||..|..|++..+.. ....||.|..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~---g~~~CpeC~~ 48 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL---GPAQCPECMV 48 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhc---CCCCCCcccc
Confidence 599998 445422222 22389999999999998876 4789999986
No 76
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.73 E-value=0.028 Score=42.60 Aligned_cols=45 Identities=24% Similarity=0.489 Sum_probs=21.1
Q ss_pred cccccccccccceeEEc--CCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 275 CGVCSKLLSELCVVAVL--TCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 275 C~ICld~l~~~~vv~~L--pCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
|++|.+.+...+ ...+ +||+..|..|...-+.. ....||-||.+.
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~---~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILEN---EGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTS---S-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhc---cCCCCCCCCCCC
Confidence 899999985332 3335 47999999997776542 378999999653
No 77
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.55 E-value=0.08 Score=52.44 Aligned_cols=48 Identities=25% Similarity=0.605 Sum_probs=38.2
Q ss_pred ccccccccccccc---ceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 273 QTCGVCSKLLSEL---CVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 273 ~~C~ICld~l~~~---~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..|-||-+.|... .+.++|.|||.+|..|+.+.+.. ....||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~---~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN---SRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcC---ceeeccCCCCcc
Confidence 4699999999833 23456899999999999987765 367899999864
No 78
>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=93.37 E-value=0.035 Score=50.36 Aligned_cols=37 Identities=24% Similarity=0.429 Sum_probs=27.7
Q ss_pred ccccccccccccccceeEEcCCC------CcccHHHHHHHHHh
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCG------HLYHADCLENITAE 308 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCG------HvFH~~CI~~Wl~~ 308 (427)
...|.||++.+.+..-+..++|| |.||.+|+++|-.+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 34699999999852333346676 89999999999543
No 79
>PHA03096 p28-like protein; Provisional
Probab=93.24 E-value=0.049 Score=54.95 Aligned_cols=48 Identities=19% Similarity=0.405 Sum_probs=34.0
Q ss_pred cccccccccccccce----eEEc-CCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 273 QTCGVCSKLLSELCV----VAVL-TCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 273 ~~C~ICld~l~~~~v----v~~L-pCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
..|.||++.....+. -+.| .|.|.||..||..|..+.. ....||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~-~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL-YKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh-hcccCccccc
Confidence 579999987763332 2345 5999999999999998643 2455666664
No 80
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.14 E-value=0.041 Score=61.37 Aligned_cols=45 Identities=24% Similarity=0.701 Sum_probs=34.9
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..|.||++ .. ..++ .+|||.||.+|+.+-+.... ...||+|+...
T Consensus 455 ~~c~ic~~-~~-~~~i--t~c~h~~c~~c~~~~i~~~~--~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-LD-SFFI--TRCGHDFCVECLKKSIQQSE--NAPCPLCRNVL 499 (674)
T ss_pred cccccccc-cc-ccee--ecccchHHHHHHHhcccccc--CCCCcHHHHHH
Confidence 78999999 34 4544 78999999999999776532 44799999643
No 81
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=92.78 E-value=0.086 Score=39.31 Aligned_cols=42 Identities=26% Similarity=0.544 Sum_probs=27.1
Q ss_pred cccccccccccceeEEcCCC-----CcccHHHHHHHHHhcCCCCCCCCcc
Q 014291 275 CGVCSKLLSELCVVAVLTCG-----HLYHADCLENITAEINKYDPACPVC 319 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCG-----HvFH~~CI~~Wl~~~~~~~~~CPvC 319 (427)
|-||++...+.+ .-+.||+ -.-|..||.+|+... ....|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~--~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRES--GNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHH--T-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhc--CCCcCCCC
Confidence 679998876444 2236764 267999999999863 35679988
No 82
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=92.28 E-value=0.14 Score=47.71 Aligned_cols=48 Identities=21% Similarity=0.501 Sum_probs=35.4
Q ss_pred ccccccccccccccccceeEEcCCC--C---cccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 270 VDMQTCGVCSKLLSELCVVAVLTCG--H---LYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv~~LpCG--H---vFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..+..|=||.+... +.. -||. . .-|.+||+.|+... +...|++|..++
T Consensus 6 ~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s--~~~~CeiC~~~Y 58 (162)
T PHA02825 6 LMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTS--KNKSCKICNGPY 58 (162)
T ss_pred CCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcC--CCCcccccCCeE
Confidence 46678999998743 222 4654 4 44999999999864 478999999854
No 83
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.91 E-value=0.1 Score=54.20 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=37.9
Q ss_pred CCccccccccccccccccceeEE-cCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 268 SSVDMQTCGVCSKLLSELCVVAV-LTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 268 ps~e~~~C~ICld~l~~~~vv~~-LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
|..++..|+||..- |..++ -||+|.-|..||.+.+.. .+.|=.|+...
T Consensus 418 p~sEd~lCpICyA~----pi~Avf~PC~H~SC~~CI~qHlmN----~k~CFfCktTv 466 (489)
T KOG4692|consen 418 PDSEDNLCPICYAG----PINAVFAPCSHRSCYGCITQHLMN----CKRCFFCKTTV 466 (489)
T ss_pred CCcccccCcceecc----cchhhccCCCCchHHHHHHHHHhc----CCeeeEeccee
Confidence 45688999999743 43333 599999999999999885 78899998644
No 84
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.88 E-value=0.07 Score=60.56 Aligned_cols=36 Identities=31% Similarity=0.625 Sum_probs=28.7
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITA 307 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~ 307 (427)
-+..|.+|...|-..| -.+.||||.||.+||.+-..
T Consensus 816 p~d~C~~C~~~ll~~p-F~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKP-FYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred CccchHHhcchhhcCc-ceeeeccchHHHHHHHHHHH
Confidence 3568999999888444 34679999999999988654
No 85
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.58 E-value=0.13 Score=49.01 Aligned_cols=53 Identities=23% Similarity=0.536 Sum_probs=36.4
Q ss_pred cccccccccccccccc----eeEEcCCCCcccHHHHHHHHHhcC--CC-----CCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELC----VVAVLTCGHLYHADCLENITAEIN--KY-----DPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~----vv~~LpCGHvFH~~CI~~Wl~~~~--~~-----~~~CPvCR~~~ 323 (427)
+...|.||..+--++. +-.-+.||.-||.-||..||+... +. -..||.|..+.
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 4567999986543222 223378999999999999998621 11 24699998654
No 86
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.00 E-value=0.11 Score=57.32 Aligned_cols=44 Identities=27% Similarity=0.621 Sum_probs=34.1
Q ss_pred ccccccccccccc---ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLS---ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~---~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
+...|+||+..|. -.|+. |.|||+.|..|++... +..|| |....
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvs--l~cghtic~~c~~~ly------n~scp-~~~De 56 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVS--LQCGHTICGHCVQLLY------NASCP-TKRDE 56 (861)
T ss_pred HHhhchHHHHHHHHHhcCccc--ccccchHHHHHHHhHh------hccCC-CCccc
Confidence 4567999998876 34555 8899999999998754 56899 87654
No 87
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=90.90 E-value=0.11 Score=40.47 Aligned_cols=44 Identities=30% Similarity=0.572 Sum_probs=31.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
....|-.|...=. +-.++||||+-+..|.+-+ +-.-||+|-.++
T Consensus 6 ~~~~~~~~~~~~~---~~~~~pCgH~I~~~~f~~~------rYngCPfC~~~~ 49 (55)
T PF14447_consen 6 PEQPCVFCGFVGT---KGTVLPCGHLICDNCFPGE------RYNGCPFCGTPF 49 (55)
T ss_pred cceeEEEcccccc---ccccccccceeeccccChh------hccCCCCCCCcc
Confidence 4566888876633 2334899999999997653 356899998765
No 88
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=90.89 E-value=0.071 Score=52.41 Aligned_cols=43 Identities=23% Similarity=0.628 Sum_probs=30.1
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.-|..|...=. ......+.|+|+||..|...-. ...||+|++.
T Consensus 4 VhCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~------~~~C~lCkk~ 46 (233)
T KOG4739|consen 4 VHCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS------PDVCPLCKKS 46 (233)
T ss_pred EEeccccccCC-CCceeeeechhhhhhhhcccCC------ccccccccce
Confidence 35777765544 4444557899999999976532 2389999984
No 89
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.84 E-value=0.091 Score=53.66 Aligned_cols=45 Identities=20% Similarity=0.623 Sum_probs=30.6
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCcc
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEKK 325 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~ 325 (427)
-.|.-|-..+..-- +.+||.|+||.+|... . .++.||.|......
T Consensus 91 HfCd~Cd~PI~IYG--RmIPCkHvFCl~CAr~--~----~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYG--RMIPCKHVFCLECARS--D----SDKICPLCDDRVQR 135 (389)
T ss_pred EeecccCCcceeee--cccccchhhhhhhhhc--C----ccccCcCcccHHHH
Confidence 46888865544111 3489999999999753 1 26799999864433
No 90
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.79 E-value=0.22 Score=50.72 Aligned_cols=48 Identities=31% Similarity=0.663 Sum_probs=37.0
Q ss_pred ccccccccccccccccceeEEcCC--CCcccHHHHHHHHHhcCCCCCCCCccccCCccchH
Q 014291 270 VDMQTCGVCSKLLSELCVVAVLTC--GHLYHADCLENITAEINKYDPACPVCTLGEKKTHK 328 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv~~LpC--GHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~k 328 (427)
.+...||||.+.+. .| + ..| ||.-|..|-.+ ....||.|+.++..+..
T Consensus 46 ~~lleCPvC~~~l~-~P-i--~QC~nGHlaCssC~~~-------~~~~CP~Cr~~~g~~R~ 95 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLS-PP-I--FQCDNGHLACSSCRTK-------VSNKCPTCRLPIGNIRC 95 (299)
T ss_pred hhhccCchhhccCc-cc-c--eecCCCcEehhhhhhh-------hcccCCccccccccHHH
Confidence 47778999999998 33 4 567 89999999753 26789999987765533
No 91
>PHA02862 5L protein; Provisional
Probab=90.76 E-value=0.18 Score=46.54 Aligned_cols=45 Identities=18% Similarity=0.444 Sum_probs=34.1
Q ss_pred cccccccccccccceeEEcCCC-----CcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 273 QTCGVCSKLLSELCVVAVLTCG-----HLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCG-----HvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..|=||.+.-. .+ + -||. ..-|.+||++|+... .+..||+|+.++
T Consensus 3 diCWIC~~~~~-e~-~--~PC~C~GS~K~VHq~CL~~WIn~S--~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCD-ER-N--NFCGCNEEYKVVHIKCMQLWINYS--KKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCC-CC-c--ccccccCcchhHHHHHHHHHHhcC--CCcCccCCCCeE
Confidence 47999998754 22 2 5664 467999999999753 478999999865
No 92
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.74 E-value=0.23 Score=51.58 Aligned_cols=47 Identities=23% Similarity=0.570 Sum_probs=34.9
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
+.+.|.||.+-++ -+.++||+|..|.-|.-..-. --....||+||.+
T Consensus 60 en~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRA--LY~~K~C~~CrTE 106 (493)
T COG5236 60 ENMNCQICAGSTT---YSARYPCGHQICHACAVRLRA--LYMQKGCPLCRTE 106 (493)
T ss_pred ccceeEEecCCce---EEEeccCCchHHHHHHHHHHH--HHhccCCCccccc
Confidence 6679999998877 345699999999999755211 1126789999974
No 93
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=90.18 E-value=0.21 Score=51.31 Aligned_cols=45 Identities=24% Similarity=0.456 Sum_probs=35.6
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
+...|+||+.--.+..++ -.-|-+||..||.+++.+ ...|||=..
T Consensus 299 ~~~~CpvClk~r~Nptvl--~vSGyVfCY~Ci~~Yv~~----~~~CPVT~~ 343 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVL--EVSGYVFCYPCIFSYVVN----YGHCPVTGY 343 (357)
T ss_pred ccccChhHHhccCCCceE--EecceEEeHHHHHHHHHh----cCCCCccCC
Confidence 667999999887733333 346999999999999986 689998654
No 94
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.94 E-value=0.11 Score=48.80 Aligned_cols=29 Identities=31% Similarity=0.533 Sum_probs=26.6
Q ss_pred cccccccccccccccceeEEcCCCCcccH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHA 299 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~ 299 (427)
+...|.||||+|...+.++.|||=-+||.
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 66789999999998999999999999996
No 95
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=88.35 E-value=0.2 Score=53.35 Aligned_cols=35 Identities=26% Similarity=0.599 Sum_probs=30.1
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHh
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAE 308 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~ 308 (427)
++..|+||...|. +|++ |+|||..|..|...-+.+
T Consensus 3 eelkc~vc~~f~~-epii--l~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 3 EELKCPVCGSFYR-EPII--LPCSHNLCQACARNILVQ 37 (699)
T ss_pred ccccCceehhhcc-CceE--eecccHHHHHHHHhhccc
Confidence 5678999999999 8877 999999999998875543
No 96
>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=87.37 E-value=0.6 Score=43.65 Aligned_cols=34 Identities=29% Similarity=0.705 Sum_probs=23.0
Q ss_pred cccccccccccccccceeEEcC------------CCCcc-cHHHHHHHHH
Q 014291 271 DMQTCGVCSKLLSELCVVAVLT------------CGHLY-HADCLENITA 307 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~Lp------------CGHvF-H~~CI~~Wl~ 307 (427)
|+.+|+||+|.-- +.|+ |- |+=.| |..||++.-+
T Consensus 1 ed~~CpICme~PH-NAVL--LlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPH-NAVL--LLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCC-ceEE--EEeccccCCccccccCCccchhHHHHHHHH
Confidence 4578999998755 4444 33 44443 7789998765
No 97
>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 KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=85.39 E-value=0.35 Score=57.02 Aligned_cols=45 Identities=24% Similarity=0.543 Sum_probs=37.6
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
+...|.||++.+.....+ ..|||.||..|+..|+.. ...||+|..
T Consensus 1152 ~~~~c~ic~dil~~~~~I--~~cgh~~c~~c~~~~l~~----~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGI--AGCGHEPCCRCDELWLYA----SSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCCe--eeechhHhhhHHHHHHHH----hccCcchhh
Confidence 445899999998843333 679999999999999996 789999985
No 99
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=84.42 E-value=0.44 Score=47.37 Aligned_cols=47 Identities=23% Similarity=0.508 Sum_probs=34.9
Q ss_pred cccccccccc-cccccceeEEc--C-CCCcccHHHHHHHHHhcCCCCCCCC--cccc
Q 014291 271 DMQTCGVCSK-LLSELCVVAVL--T-CGHLYHADCLENITAEINKYDPACP--VCTL 321 (427)
Q Consensus 271 e~~~C~ICld-~l~~~~vv~~L--p-CGHvFH~~CI~~Wl~~~~~~~~~CP--vCR~ 321 (427)
++..||||.. .|- .|.+..| | |=|..|..|++.-+..+ ...|| -|.+
T Consensus 9 ~d~~CPvCksDrYL-nPdik~linPECyHrmCESCvdRIFs~G---pAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYL-NPDIKILINPECYHRMCESCVDRIFSRG---PAQCPYKGCGK 61 (314)
T ss_pred hcccCCcccccccc-CCCeEEEECHHHHHHHHHHHHHHHhcCC---CCCCCCccHHH
Confidence 5568999994 444 4544443 5 99999999999998863 67899 7853
No 100
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.07 E-value=0.53 Score=49.36 Aligned_cols=48 Identities=25% Similarity=0.506 Sum_probs=33.0
Q ss_pred cccccccccccc-cccceeEEcCCCCcccHHHHHHHHHhc--CCCCCCCCc
Q 014291 271 DMQTCGVCSKLL-SELCVVAVLTCGHLYHADCLENITAEI--NKYDPACPV 318 (427)
Q Consensus 271 e~~~C~ICld~l-~~~~vv~~LpCGHvFH~~CI~~Wl~~~--~~~~~~CPv 318 (427)
....|.||...+ .......++.|+|.||.+|+.+.+... ......||.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 467899999444 422333357899999999999988742 234567763
No 101
>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=83.70 E-value=0.57 Score=34.38 Aligned_cols=43 Identities=23% Similarity=0.646 Sum_probs=21.8
Q ss_pred cccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcc
Q 014291 275 CGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVC 319 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvC 319 (427)
|.+|.+...-+..=..-.|+=.+|..|++.++... ....||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~--~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHR--SNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT---SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcC--CCCCCcCC
Confidence 67888877622221112488899999999998752 23479988
No 102
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.55 E-value=0.8 Score=48.17 Aligned_cols=49 Identities=24% Similarity=0.484 Sum_probs=37.0
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
.+.|||=.+.-.+......|.|||+...+-|.+....+ .....||.|-.
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng-~~sfKCPYCP~ 382 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNG-SQSFKCPYCPV 382 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCC-CeeeeCCCCCc
Confidence 35899977766644444569999999999999977653 22589999975
No 103
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=79.14 E-value=1.6 Score=33.94 Aligned_cols=33 Identities=36% Similarity=0.695 Sum_probs=25.7
Q ss_pred ccccccccccccc-ccceeEEcCCCCcccHHHHH
Q 014291 271 DMQTCGVCSKLLS-ELCVVAVLTCGHLYHADCLE 303 (427)
Q Consensus 271 e~~~C~ICld~l~-~~~vv~~LpCGHvFH~~CI~ 303 (427)
....|++|-+.|+ .+++|.--.||-.||.+|-+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 4568999999996 35555455799999999943
No 104
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=78.62 E-value=1.2 Score=50.48 Aligned_cols=25 Identities=32% Similarity=0.709 Sum_probs=20.7
Q ss_pred EcCCCCcccHHHHHHHHHhcCCCCCCCCc
Q 014291 290 VLTCGHLYHADCLENITAEINKYDPACPV 318 (427)
Q Consensus 290 ~LpCGHvFH~~CI~~Wl~~~~~~~~~CPv 318 (427)
.+.|||+.|..|...|+.. .-.||-
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~----gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRT----GDVCPS 1069 (1081)
T ss_pred hccccccccHHHHHHHHhc----CCcCCC
Confidence 3679999999999999996 347873
No 105
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.45 E-value=1.8 Score=43.25 Aligned_cols=51 Identities=14% Similarity=0.247 Sum_probs=37.4
Q ss_pred cccCCCHHHHhhhccccCCCCCccccccccccccccccceeEEcCCCCcccHHHHHHHHHh
Q 014291 248 ESLGFNHEKIARSCSRVSASSSVDMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAE 308 (427)
Q Consensus 248 es~Gl~~e~I~~~~~r~s~sps~e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~ 308 (427)
.-||-..+++.+.+. -+-..|++||..+. +||+ .+=||+|+.+||-+++..
T Consensus 26 sGYGTq~~RLgrDsi-------K~FdcCsLtLqPc~-dPvi--t~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 26 SGYGTQRERLGRDSI-------KPFDCCSLTLQPCR-DPVI--TPDGYLFDREAILEYILA 76 (303)
T ss_pred cCcchhhhhhccccc-------CCcceeeeeccccc-CCcc--CCCCeeeeHHHHHHHHHH
Confidence 345555555544322 25567999999999 8888 778999999999987653
No 106
>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=76.87 E-value=1.1 Score=33.78 Aligned_cols=46 Identities=24% Similarity=0.401 Sum_probs=22.8
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhc-CCCCCCCCcccc
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEI-NKYDPACPVCTL 321 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~-~~~~~~CPvCR~ 321 (427)
..|+|....+. .|+- -..|.|.-|.+ ++.|+... +.....||+|.+
T Consensus 3 L~CPls~~~i~-~P~R-g~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIR-IPVR-GKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-S-SEEE-ETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEE-eCcc-CCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 36999998887 5544 45699986665 55676642 223578999985
No 107
>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=76.03 E-value=0.34 Score=35.62 Aligned_cols=47 Identities=26% Similarity=0.552 Sum_probs=33.1
Q ss_pred ccccccccccccceeEEcCCCCcccHHHHHHHHHh--cCCCCCCCCccc
Q 014291 274 TCGVCSKLLSELCVVAVLTCGHLYHADCLENITAE--INKYDPACPVCT 320 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~--~~~~~~~CPvCR 320 (427)
.|.||.....+...+.--.|+-.||..|+..-... .......||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 48999985554555544579999999999875442 112268899996
No 108
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=75.34 E-value=0.74 Score=44.96 Aligned_cols=44 Identities=23% Similarity=0.674 Sum_probs=35.1
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
....|.+|-.+.- ..++.-.||=.||..|++..+++ ...||.|.
T Consensus 180 nlk~Cn~Ch~LvI--qg~rCg~c~i~~h~~c~qty~q~----~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVI--QGIRCGSCNIQYHRGCIQTYLQR----RDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhh--eeeccCcccchhhhHHHHHHhcc----cCcCCchh
Confidence 4468999998865 33444568888999999999986 68999995
No 109
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.97 E-value=1.9 Score=43.25 Aligned_cols=54 Identities=20% Similarity=0.389 Sum_probs=38.4
Q ss_pred Ccccccccccccccccccee-EEcCC-----CCcccHHHHHHHHHhcCC----CCCCCCccccC
Q 014291 269 SVDMQTCGVCSKLLSELCVV-AVLTC-----GHLYHADCLENITAEINK----YDPACPVCTLG 322 (427)
Q Consensus 269 s~e~~~C~ICld~l~~~~vv-~~LpC-----GHvFH~~CI~~Wl~~~~~----~~~~CPvCR~~ 322 (427)
...+..|=||+.-=+++... -+-|| .|--|..||..|+.+.+. ..-.||+|+.+
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 34667899999775533333 23477 477999999999998543 24579999975
No 110
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.74 E-value=1.2 Score=50.54 Aligned_cols=46 Identities=28% Similarity=0.566 Sum_probs=31.5
Q ss_pred ccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
.+..|..|.+..- ....+.++.|||+||..|+..-... ..|-.|..
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~-----~~~~~~~~ 832 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR-----NACNIESG 832 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh-----cccChhhc
Confidence 3458999987654 1144567899999999999775553 22666653
No 111
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.29 E-value=1.5 Score=42.38 Aligned_cols=37 Identities=32% Similarity=0.698 Sum_probs=26.0
Q ss_pred cccccccccccceeEEcCCCCc-ccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 275 CGVCSKLLSELCVVAVLTCGHL-YHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCGHv-FH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
|-+|-+. .-.+..|||.|. +|..|-.. ...||+|+..
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~ 198 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES--------LRICPICRSP 198 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc--------CccCCCCcCh
Confidence 7777755 334556899876 78888543 4579999853
No 112
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=72.82 E-value=3.5 Score=37.75 Aligned_cols=53 Identities=28% Similarity=0.589 Sum_probs=39.0
Q ss_pred cccccccccccccccceeEEc----CCCCcccHHHHHHHHHhcCCCCCCCCccccCCccch
Q 014291 271 DMQTCGVCSKLLSELCVVAVL----TCGHLYHADCLENITAEINKYDPACPVCTLGEKKTH 327 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~L----pCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~~~ 327 (427)
..-.|.||.|.-.+ + +.| -||-..|..|--..|+... ..+.||+|+..++...
T Consensus 79 ~lYeCnIC~etS~e-e--~FLKPneCCgY~iCn~Cya~LWK~~~-~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAE-E--RFLKPNECCGYSICNACYANLWKFCN-LYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccch-h--hcCCcccccchHHHHHHHHHHHHHcc-cCCCCCcccccccccc
Confidence 45689999988662 2 223 3999999999888776533 4789999998776543
No 113
>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=72.34 E-value=1.2 Score=47.02 Aligned_cols=53 Identities=21% Similarity=0.437 Sum_probs=0.0
Q ss_pred cccccccccccc----------------ccceeEEcCCCCcccHHHHHHHHHhc-----CCCCCCCCccccCCc
Q 014291 272 MQTCGVCSKLLS----------------ELCVVAVLTCGHLYHADCLENITAEI-----NKYDPACPVCTLGEK 324 (427)
Q Consensus 272 ~~~C~ICld~l~----------------~~~vv~~LpCGHvFH~~CI~~Wl~~~-----~~~~~~CPvCR~~~~ 324 (427)
...|++|+..=. ..+.-+.-||||+--.....-|-+-. +.....||.|.....
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp --------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 568999995422 12333456999999999998887641 234579999987653
No 114
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.96 E-value=2.7 Score=47.92 Aligned_cols=52 Identities=17% Similarity=0.227 Sum_probs=37.4
Q ss_pred cccccccccccccc-cceeEEcC---CCCcccHHHHHHHHHhc--CCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSE-LCVVAVLT---CGHLYHADCLENITAEI--NKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~-~~vv~~Lp---CGHvFH~~CI~~Wl~~~--~~~~~~CPvCR~~ 322 (427)
+...|.||..++.. .+-...+| |+|.||..||..|+.+. ....-.|+.|..-
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~C 152 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEEC 152 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHH
Confidence 55689999988873 11223355 99999999999999862 3346678888753
No 115
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=70.22 E-value=1.7 Score=47.99 Aligned_cols=42 Identities=26% Similarity=0.647 Sum_probs=26.9
Q ss_pred cccccccccc-----ccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 272 MQTCGVCSKL-----LSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 272 ~~~C~ICld~-----l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
...|.||... |....+.....||++||..|+.. ..+.||.|-
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r-------~s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR-------KSPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc-------cCCCCCchH
Confidence 3467777421 11223344578999999999754 245599996
No 116
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.76 E-value=2.6 Score=42.35 Aligned_cols=48 Identities=21% Similarity=0.414 Sum_probs=34.4
Q ss_pred ccccccccccccccccee-EEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 271 DMQTCGVCSKLLSELCVV-AVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv-~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
....|+|=--++.+.-.. ...+|||+|-..-+.+.- ...|++|...+.
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik------as~C~~C~a~y~ 158 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK------ASVCHVCGAAYQ 158 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh------hccccccCCccc
Confidence 456899988777633333 335899999999887742 468999998643
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.02 E-value=4.5 Score=42.97 Aligned_cols=36 Identities=22% Similarity=0.564 Sum_probs=29.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHh
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAE 308 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~ 308 (427)
....|.||.+.+.. ....+.|||.||..|....+..
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 55689999999873 4445799999999999998875
No 118
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=63.88 E-value=5.4 Score=45.32 Aligned_cols=41 Identities=24% Similarity=0.416 Sum_probs=29.9
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCc
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPV 318 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPv 318 (427)
..|.+|-..+. +-.+..-.|||.-|.+|+.+|+.. ...||.
T Consensus 780 ~~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~----~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFK----ASPCAK 820 (839)
T ss_pred cCceeecceee-eeEeecccccccccHHHHHHHHhc----CCCCcc
Confidence 47888887766 222223469999999999999986 455665
No 119
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=63.21 E-value=5.2 Score=41.46 Aligned_cols=50 Identities=20% Similarity=0.479 Sum_probs=34.4
Q ss_pred cccccccccccc----------------ccceeEEcCCCCcccHHHHHHHHHh-----cCCCCCCCCcccc
Q 014291 272 MQTCGVCSKLLS----------------ELCVVAVLTCGHLYHADCLENITAE-----INKYDPACPVCTL 321 (427)
Q Consensus 272 ~~~C~ICld~l~----------------~~~vv~~LpCGHvFH~~CI~~Wl~~-----~~~~~~~CPvCR~ 321 (427)
+..||+|+..=. ..+.-+.-||||+.-..=..-|-+- ....+..||.|..
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~ 411 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCAT 411 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhh
Confidence 468999986422 1222234699999888888778664 2345789999985
No 120
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=62.90 E-value=6.5 Score=32.91 Aligned_cols=51 Identities=24% Similarity=0.454 Sum_probs=22.8
Q ss_pred cccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 270 VDMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 270 ~e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
+..+.|-||-+... ...-++.--|+---|..|.+-=.++ ....||.|+..+
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErke---g~q~CpqCkt~y 61 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKE---GNQVCPQCKTRY 61 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHT---S-SB-TTT--B-
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhc---CcccccccCCCc
Confidence 46678999999876 2223444578888999998876665 478999999544
No 121
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=61.34 E-value=2.4 Score=47.62 Aligned_cols=47 Identities=19% Similarity=0.546 Sum_probs=36.6
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
....|+||+..+. .++. +.|-|.|+..|+..-+.... ....||+|+.
T Consensus 20 k~lEc~ic~~~~~-~p~~--~kc~~~~l~~~~n~~f~~~~-~~~~~~lc~~ 66 (684)
T KOG4362|consen 20 KILECPICLEHVK-EPSL--LKCDHIFLKFCLNKLFESKK-GPKQCALCKS 66 (684)
T ss_pred hhccCCceeEEee-ccch--hhhhHHHHhhhhhceeeccC-ccccchhhhh
Confidence 3457999999998 5644 89999999999988665422 2678999984
No 122
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=60.60 E-value=5.5 Score=41.25 Aligned_cols=49 Identities=22% Similarity=0.467 Sum_probs=35.8
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
...||+=.++-++......|.|||+.-.+-+.+.-+.+ .....||.|-.
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG-~~~FKCPYCP~ 384 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNG-VLSFKCPYCPE 384 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcC-cEEeeCCCCCc
Confidence 46899877766533333458999999999998865543 33688999974
No 123
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=59.42 E-value=6.5 Score=45.14 Aligned_cols=49 Identities=18% Similarity=0.390 Sum_probs=34.8
Q ss_pred cccccccccccccccceeEEcCCCC-----cccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGH-----LYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGH-----vFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
|...|-||..+=..++.. .-||.- ..|.+|+-+|+.-. .+..|-+|..+
T Consensus 11 d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s--~~~kCdiChy~ 64 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECS--GTKKCDICHYE 64 (1175)
T ss_pred cchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcC--CCcceeeecce
Confidence 668999999654423333 136643 37999999999742 47889999875
No 124
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.39 E-value=6.4 Score=40.39 Aligned_cols=31 Identities=26% Similarity=0.591 Sum_probs=23.4
Q ss_pred CCCcccHHHHHHHHHhcC---------CCCCCCCccccCC
Q 014291 293 CGHLYHADCLENITAEIN---------KYDPACPVCTLGE 323 (427)
Q Consensus 293 CGHvFH~~CI~~Wl~~~~---------~~~~~CPvCR~~~ 323 (427)
|.-..|.+||.+|+...+ +.+..||+||+++
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 566778899999987532 3357899999765
No 125
>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=58.00 E-value=7.5 Score=40.75 Aligned_cols=54 Identities=15% Similarity=0.363 Sum_probs=33.0
Q ss_pred ccccccccccccccccce---------eE-----EcCCCCc-----ccHHHHHHHHHhcC---------CCCCCCCcccc
Q 014291 270 VDMQTCGVCSKLLSELCV---------VA-----VLTCGHL-----YHADCLENITAEIN---------KYDPACPVCTL 321 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~v---------v~-----~LpCGHv-----FH~~CI~~Wl~~~~---------~~~~~CPvCR~ 321 (427)
.+.+.|--|+..-.+-.. .+ .-+|..- .|.+|+-+|+-..| ..+-.||.||.
T Consensus 269 ~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa 348 (358)
T PF10272_consen 269 QELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRA 348 (358)
T ss_pred cccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcc
Confidence 377889999875430000 00 0134443 47899999997532 23568999998
Q ss_pred CC
Q 014291 322 GE 323 (427)
Q Consensus 322 ~~ 323 (427)
.+
T Consensus 349 ~F 350 (358)
T PF10272_consen 349 KF 350 (358)
T ss_pred cc
Confidence 76
No 126
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=55.53 E-value=7.6 Score=37.18 Aligned_cols=42 Identities=21% Similarity=0.672 Sum_probs=28.9
Q ss_pred cccccccccc--cc---cccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 271 DMQTCGVCSK--LL---SELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld--~l---~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
....|-||.+ .+ ....++.--.|+-+||..|.. ...||-|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~---------~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR---------KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC---------CCCCCCcHh
Confidence 4578999984 22 222344446799999999975 246999963
No 127
>PLN02189 cellulose synthase
Probab=54.92 E-value=10 Score=44.71 Aligned_cols=52 Identities=29% Similarity=0.498 Sum_probs=37.1
Q ss_pred cccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 270 VDMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 270 ~e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
...+.|.||.|.+. ..+-++.--||---|..|.+-=-++ .+..||.|+...+
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~e---g~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERRE---GTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCchh
Confidence 35668999999976 2233444568888999999543333 4789999997654
No 128
>PLN02436 cellulose synthase A
Probab=52.79 E-value=11 Score=44.47 Aligned_cols=52 Identities=29% Similarity=0.474 Sum_probs=37.2
Q ss_pred cccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 270 VDMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 270 ~e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
...+.|.||-|.+. .++-++.--||---|..|.+-=-++ ....||.|+...+
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~e---g~~~Cpqckt~Y~ 89 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERRE---GNQACPQCKTRYK 89 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCchh
Confidence 35679999999975 2233455568888999999543333 4789999997654
No 129
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=47.23 E-value=17 Score=43.17 Aligned_cols=52 Identities=23% Similarity=0.397 Sum_probs=37.6
Q ss_pred cccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 270 VDMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 270 ~e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
...+.|-||-|... ..+-|+.--||---|..|.+-=-++ .+..||+|+...+
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~e---G~q~CPqCktrYk 70 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKD---GNQSCPQCKTKYK 70 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCchh
Confidence 35679999999976 2333555678888999998543333 4789999997543
No 130
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.54 E-value=4.4 Score=40.16 Aligned_cols=47 Identities=30% Similarity=0.676 Sum_probs=36.2
Q ss_pred cccccccccccccc---ceeEEcC--------CCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 272 MQTCGVCSKLLSEL---CVVAVLT--------CGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 272 ~~~C~ICld~l~~~---~vv~~Lp--------CGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
...|.||...|... -+..++. |||..|..|++.-+.+. ...||.|+.
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~---~~~cp~~~~ 264 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQA---GIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHh---hhcCCcccc
Confidence 35799999998822 2224466 99999999999987763 378999985
No 131
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=44.82 E-value=3 Score=31.48 Aligned_cols=38 Identities=29% Similarity=0.625 Sum_probs=21.8
Q ss_pred ccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcccc
Q 014291 272 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTL 321 (427)
Q Consensus 272 ~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~ 321 (427)
...||.|.+.|. ... | +.| |.+.-.. +.....||+|..
T Consensus 2 ~f~CP~C~~~~~-~~~---L-~~H-----~~~~H~~--~~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFS-ESS---L-VEH-----CEDEHRS--ESKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccC-HHH---H-HHH-----HHhHCcC--CCCCccCCCchh
Confidence 467999999655 222 2 233 3333222 123678999985
No 132
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=44.40 E-value=1.7 Score=35.50 Aligned_cols=39 Identities=26% Similarity=0.536 Sum_probs=22.6
Q ss_pred cccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 273 QTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
..||+|..+|. ..- ||.+|..|-..... ...||.|..+.
T Consensus 2 ~~CP~C~~~L~--~~~-----~~~~C~~C~~~~~~-----~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELE--WQG-----GHYHCEACQKDYKK-----EAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEE--EET-----TEEEETTT--EEEE-----EEE-TTT-SB-
T ss_pred CcCCCCCCccE--EeC-----CEEECcccccccee-----cccCCCcccHH
Confidence 47999998877 111 88889999776443 57899998654
No 133
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=43.92 E-value=16 Score=28.90 Aligned_cols=45 Identities=29% Similarity=0.555 Sum_probs=31.0
Q ss_pred ccccccccccccceeEEcCCCC--cccHHHHHHHHHhcCCCCCCCCccccCCcc
Q 014291 274 TCGVCSKLLSELCVVAVLTCGH--LYHADCLENITAEINKYDPACPVCTLGEKK 325 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGH--vFH~~CI~~Wl~~~~~~~~~CPvCR~~~~~ 325 (427)
.|-.|-..|..+...+. -|.+ .||.+|.+..|. ..||.|..++..
T Consensus 7 nCE~C~~dLp~~s~~A~-ICSfECTFC~~C~e~~l~------~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAY-ICSFECTFCADCAETMLN------GVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcce-EEeEeCcccHHHHHHHhc------CcCcCCCCcccc
Confidence 58888888773332222 2644 699999998764 589999876543
No 134
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=43.52 E-value=11 Score=38.34 Aligned_cols=60 Identities=15% Similarity=0.284 Sum_probs=40.7
Q ss_pred ccccccccccccccccee------EEcCCCCcccHHHHH-HHHHhcC------CCCCCCCccccCCccchHHH
Q 014291 271 DMQTCGVCSKLLSELCVV------AVLTCGHLYHADCLE-NITAEIN------KYDPACPVCTLGEKKTHKLS 330 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv------~~LpCGHvFH~~CI~-~Wl~~~~------~~~~~CPvCR~~~~~~~kL~ 330 (427)
.-..|.+|-..|...+.+ ..|+|--.+|..=+. .||.++. ...+.||.|.+.|.....|+
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLR 232 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLR 232 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHH
Confidence 446899999998844432 225665555555544 5988743 23678999999888877765
No 135
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=43.44 E-value=23 Score=41.86 Aligned_cols=52 Identities=31% Similarity=0.554 Sum_probs=38.1
Q ss_pred cccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 270 VDMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 270 ~e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
...+.|-||-|... .++-++.--|+---|..|.+-=.++ .+..||.|+...+
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~---g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSE---GNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCchh
Confidence 46788999999976 2344555678888999999543333 4789999997654
No 136
>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=43.35 E-value=19 Score=23.89 Aligned_cols=36 Identities=25% Similarity=0.667 Sum_probs=24.3
Q ss_pred ccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 274 TCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.|..|.+.+...... +..=+..||.+|+ .|..|...
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~Cf------------~C~~C~~~ 36 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPECF------------KCSKCGKP 36 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccCC------------CCcccCCc
Confidence 488899888743122 2234899999984 67778754
No 137
>PLN02400 cellulose synthase
Probab=40.31 E-value=18 Score=42.91 Aligned_cols=52 Identities=21% Similarity=0.416 Sum_probs=37.3
Q ss_pred cccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 270 VDMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 270 ~e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
...+.|-||-|... ..+-++.--|+---|..|.+-=-+ ..+..||+|+...+
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERk---eGnq~CPQCkTrYk 89 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERK---DGTQCCPQCKTRYR 89 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecc---cCCccCcccCCccc
Confidence 35679999999976 233355567888899999854222 24789999997654
No 138
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=40.27 E-value=12 Score=36.70 Aligned_cols=50 Identities=22% Similarity=0.384 Sum_probs=34.6
Q ss_pred ccccccccccccccce-eEEcCCC-----CcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 272 MQTCGVCSKLLSELCV-VAVLTCG-----HLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 272 ~~~C~ICld~l~~~~v-v~~LpCG-----HvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
+..|-||.+....... .-..||. +..|..|++.|+.. +.+..|.+|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~--~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSI--KGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcc--ccCeeeecccccc
Confidence 5789999986541110 1235663 56699999999984 2478999998754
No 139
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=39.48 E-value=17 Score=37.63 Aligned_cols=45 Identities=27% Similarity=0.507 Sum_probs=31.8
Q ss_pred cccccccccccccceeEEc--CCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 273 QTCGVCSKLLSELCVVAVL--TCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv~~L--pCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
..|+||.+.+...+ ...| +||+.-|..|+..-.. .+..||.|+.+
T Consensus 250 ~s~p~~~~~~~~~d-~~~lP~~~~~~~~l~~~~t~~~----~~~~~~~~rk~ 296 (327)
T KOG2068|consen 250 PSCPICYEDLDLTD-SNFLPCPCGFRLCLFCHKTISD----GDGRCPGCRKP 296 (327)
T ss_pred CCCCCCCCcccccc-cccccccccccchhhhhhcccc----cCCCCCccCCc
Confidence 57999999875222 2234 5788888888776544 37899999954
No 140
>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=39.48 E-value=9.8 Score=40.42 Aligned_cols=47 Identities=26% Similarity=0.420 Sum_probs=0.0
Q ss_pred ccccccccccc-----------ccceeEEcCCCCcccHHHHHHHHHhcC--CCCCCCCccccC
Q 014291 273 QTCGVCSKLLS-----------ELCVVAVLTCGHLYHADCLENITAEIN--KYDPACPVCTLG 322 (427)
Q Consensus 273 ~~C~ICld~l~-----------~~~vv~~LpCGHvFH~~CI~~Wl~~~~--~~~~~CPvCR~~ 322 (427)
..|||=|..|. +...-..|.|||++-.+ .|-.+.+ .....||+|+..
T Consensus 278 pQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 278 PQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ---------------------------------------------------------------
T ss_pred CCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCcccc
Confidence 46888877665 11112358999997654 5754322 136789999963
No 141
>PLN02195 cellulose synthase A
Probab=39.07 E-value=28 Score=40.97 Aligned_cols=51 Identities=22% Similarity=0.338 Sum_probs=37.4
Q ss_pred ccccccccccccc----ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCCc
Q 014291 271 DMQTCGVCSKLLS----ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGEK 324 (427)
Q Consensus 271 e~~~C~ICld~l~----~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~~ 324 (427)
..+.|.||-+.+. ..+-++.--||---|..|.+-=-++ .+..||+|+...+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~e---g~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKE---GRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhc---CCccCCccCCccc
Confidence 3468999999876 2334556679999999998543333 4789999998665
No 142
>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=37.78 E-value=8.9 Score=29.39 Aligned_cols=28 Identities=25% Similarity=0.755 Sum_probs=20.8
Q ss_pred cCC-CCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 291 LTC-GHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 291 LpC-GHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
+.| .|..|..||...+.. ...||+|..+
T Consensus 16 i~C~dHYLCl~CLt~ml~~----s~~C~iC~~~ 44 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSR----SDRCPICGKP 44 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SS----SSEETTTTEE
T ss_pred eeecchhHHHHHHHHHhcc----ccCCCcccCc
Confidence 457 689999999998875 7899999854
No 143
>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=36.57 E-value=25 Score=27.11 Aligned_cols=42 Identities=24% Similarity=0.450 Sum_probs=21.5
Q ss_pred ccccccccccc-------ceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 275 CGVCSKLLSEL-------CVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 275 C~ICld~l~~~-------~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
|.-|+..|... ....--.|++.||.+|=. .+-+ .-..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~-fiHE---~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDV-FIHE---TLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHH-TTTT---TS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcCh-hhhc---cccCCcCCC
Confidence 66788887733 123334799999999932 2222 346799884
No 144
>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=36.27 E-value=19 Score=27.99 Aligned_cols=37 Identities=19% Similarity=0.411 Sum_probs=18.8
Q ss_pred ccccccccccccccccceeEE-cCCCCcccHHHHHHHH
Q 014291 270 VDMQTCGVCSKLLSELCVVAV-LTCGHLYHADCLENIT 306 (427)
Q Consensus 270 ~e~~~C~ICld~l~~~~vv~~-LpCGHvFH~~CI~~Wl 306 (427)
.+...|.+|...|.-...-.+ -.||++||..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 356789999999972222222 3699999999986543
No 145
>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=35.39 E-value=17 Score=24.98 Aligned_cols=21 Identities=33% Similarity=0.784 Sum_probs=14.6
Q ss_pred CCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 292 TCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 292 pCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
.|||+|-..- ....||+|..+
T Consensus 6 ~CGy~y~~~~----------~~~~CP~Cg~~ 26 (33)
T cd00350 6 VCGYIYDGEE----------APWVCPVCGAP 26 (33)
T ss_pred CCCCEECCCc----------CCCcCcCCCCc
Confidence 4777776543 26799999864
No 146
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.46 E-value=20 Score=36.81 Aligned_cols=44 Identities=18% Similarity=0.469 Sum_probs=31.4
Q ss_pred cccccccccccccccceeEEcCC----CCcccHHHHHHHHHhc-CCCCCCCC
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTC----GHLYHADCLENITAEI-NKYDPACP 317 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpC----GHvFH~~CI~~Wl~~~-~~~~~~CP 317 (427)
....|.+|.+-|++.. .+.| .|-||.-|-.+-+++. ......||
T Consensus 267 apLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Qg~sgevYCP 315 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQGASGEVYCP 315 (352)
T ss_pred CceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhhcCCCceeCC
Confidence 4578999999998433 3456 8999999999988762 22244455
No 147
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=32.45 E-value=22 Score=23.67 Aligned_cols=23 Identities=26% Similarity=0.525 Sum_probs=12.3
Q ss_pred ccccccccccccceeEEcCCCCcc
Q 014291 274 TCGVCSKLLSELCVVAVLTCGHLY 297 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGHvF 297 (427)
.||-|...+...... ---|||.|
T Consensus 2 ~CP~C~~~V~~~~~~-Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKF-CPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCc-CCCCCCCC
Confidence 477777766522111 12377777
No 148
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=30.46 E-value=41 Score=35.22 Aligned_cols=46 Identities=22% Similarity=0.397 Sum_probs=33.8
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
....|-.|.+.+......+.-.|.|+||.+|-. .+-+ .-..||-|.
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv-~iHe---sLh~CpgCe 374 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDV-FIHE---SLHNCPGCE 374 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchH-HHHh---hhhcCCCcC
Confidence 344599998888767777667899999999943 3333 245799997
No 149
>TIGR01643 YD_repeat_2x YD repeat (two copies). This model describes two tandem copies of a 21-residue extracellular repeat found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin.
Probab=28.33 E-value=23 Score=24.71 Aligned_cols=16 Identities=25% Similarity=0.432 Sum_probs=14.4
Q ss_pred CcceeecCCCcccCcc
Q 014291 32 TWSFRWDHRGRVAGEE 47 (427)
Q Consensus 32 ~wsfrwd~r~~v~~~~ 47 (427)
.|.|.||..||+..+.
T Consensus 17 ~~~~~YD~~Grl~~~t 32 (42)
T TIGR01643 17 TTRYTYDAAGRLVEIT 32 (42)
T ss_pred EEEEEECCCCCEEEEE
Confidence 7999999999998765
No 150
>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=27.96 E-value=45 Score=22.22 Aligned_cols=29 Identities=21% Similarity=0.508 Sum_probs=11.6
Q ss_pred ccccccccccccceeEEcCCCCcccHHHH
Q 014291 274 TCGVCSKLLSELCVVAVLTCGHLYHADCL 302 (427)
Q Consensus 274 ~C~ICld~l~~~~vv~~LpCGHvFH~~CI 302 (427)
.|.+|.+.........-..|.-.+|.+|+
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 58899988774355556789999999995
No 151
>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=26.21 E-value=35 Score=25.10 Aligned_cols=36 Identities=25% Similarity=0.644 Sum_probs=25.9
Q ss_pred cccccccccccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccCC
Q 014291 275 CGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLGE 323 (427)
Q Consensus 275 C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~~ 323 (427)
|..|.+.+.....+ +..-|..||.+| ..|=.|...+
T Consensus 1 C~~C~~~I~~~~~~-~~~~~~~~H~~C------------f~C~~C~~~l 36 (58)
T PF00412_consen 1 CARCGKPIYGTEIV-IKAMGKFWHPEC------------FKCSKCGKPL 36 (58)
T ss_dssp BTTTSSBESSSSEE-EEETTEEEETTT------------SBETTTTCBT
T ss_pred CCCCCCCccCcEEE-EEeCCcEEEccc------------cccCCCCCcc
Confidence 78888888844443 225799999998 4688888643
No 152
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=25.65 E-value=34 Score=38.11 Aligned_cols=35 Identities=20% Similarity=0.567 Sum_probs=23.7
Q ss_pred ccccccccccccccc-----cce-----eEEcCCCCcccHHHHHH
Q 014291 270 VDMQTCGVCSKLLSE-----LCV-----VAVLTCGHLYHADCLEN 304 (427)
Q Consensus 270 ~e~~~C~ICld~l~~-----~~v-----v~~LpCGHvFH~~CI~~ 304 (427)
.....|+||.+.|++ .+. ...+-=|-+||..|+..
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e 555 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSE 555 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccch
Confidence 466789999999880 000 11133599999999865
No 153
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=24.94 E-value=44 Score=24.78 Aligned_cols=35 Identities=20% Similarity=0.453 Sum_probs=24.4
Q ss_pred ccccccccccccccee-EEcCCCCcccHHHHHHHHH
Q 014291 273 QTCGVCSKLLSELCVV-AVLTCGHLYHADCLENITA 307 (427)
Q Consensus 273 ~~C~ICld~l~~~~vv-~~LpCGHvFH~~CI~~Wl~ 307 (427)
..|.+|...|.-.... .--.||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 4699999888732211 1246999999999876544
No 154
>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 PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=24.79 E-value=6.1 Score=33.88 Aligned_cols=49 Identities=20% Similarity=0.404 Sum_probs=14.2
Q ss_pred ccccccccccc-ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 273 QTCGVCSKLLS-ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 273 ~~C~ICld~l~-~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
+.|+||...+. .+...++=.=||+|-. |.-..+.-.......|++|...
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w~R-C~lT~l~i~~~~~r~C~~C~~~ 64 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVWPR-CALTFLPIQTPGVRVCPVCGRR 64 (99)
T ss_dssp --------------SSEEE-TTS-EEEB--SSS-SBS-SS-EEE-TTT--E
T ss_pred ccccccccccccCCcCEeECCCCCEEee-eeeeeeeeccCCeeEcCCCCCE
Confidence 78999998775 2333322233999876 5444332111123789999864
No 156
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=24.58 E-value=15 Score=34.03 Aligned_cols=26 Identities=31% Similarity=0.653 Sum_probs=20.6
Q ss_pred ccHHHHHHHHHhcCCCCCCCCccccC
Q 014291 297 YHADCLENITAEINKYDPACPVCTLG 322 (427)
Q Consensus 297 FH~~CI~~Wl~~~~~~~~~CPvCR~~ 322 (427)
||..||++=|.+.-..+-.||.|...
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~ 27 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVE 27 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCC
Confidence 89999998777644457889999863
No 157
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=23.92 E-value=22 Score=40.44 Aligned_cols=52 Identities=19% Similarity=0.376 Sum_probs=33.5
Q ss_pred cccccccccccccc-ee-EE-----cCCCCcccHHHHHH--HHHhc----CCCCCCCCccccCCc
Q 014291 273 QTCGVCSKLLSELC-VV-AV-----LTCGHLYHADCLEN--ITAEI----NKYDPACPVCTLGEK 324 (427)
Q Consensus 273 ~~C~ICld~l~~~~-vv-~~-----LpCGHvFH~~CI~~--Wl~~~----~~~~~~CPvCR~~~~ 324 (427)
.+|.||.|.=.... .+ +. --|...||..|.+. .|-++ -+....|-.|+..+.
T Consensus 118 KtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 118 KTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFS 182 (900)
T ss_pred ceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHH
Confidence 47999998844111 11 11 24788999999987 23222 245788999987543
No 158
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.54 E-value=40 Score=35.51 Aligned_cols=43 Identities=23% Similarity=0.585 Sum_probs=27.9
Q ss_pred ccccccccccc--ccceeEEcCCCCcccHHHHHHHHHhcCCCCCCCCcc
Q 014291 273 QTCGVCSKLLS--ELCVVAVLTCGHLYHADCLENITAEINKYDPACPVC 319 (427)
Q Consensus 273 ~~C~ICld~l~--~~~vv~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvC 319 (427)
..|++|.-.+. .+-...+=.|||-||..|...|... ...|.-|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~----~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH----NGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhC----CccccCc
Confidence 36888875544 2333323359999999999999764 3445444
No 159
>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=23.31 E-value=52 Score=26.87 Aligned_cols=12 Identities=25% Similarity=0.589 Sum_probs=9.4
Q ss_pred ccHHHHHHHHHh
Q 014291 297 YHADCLENITAE 308 (427)
Q Consensus 297 FH~~CI~~Wl~~ 308 (427)
||..||.+|+.+
T Consensus 12 FCRNCLskWy~~ 23 (68)
T PF06844_consen 12 FCRNCLSKWYRE 23 (68)
T ss_dssp --HHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 899999999986
No 160
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=22.14 E-value=46 Score=37.63 Aligned_cols=50 Identities=22% Similarity=0.475 Sum_probs=32.9
Q ss_pred cccccccccccc--ccceeEEcCCCCcccHHHHHHHHHhc-CCCCCCCCcccc
Q 014291 272 MQTCGVCSKLLS--ELCVVAVLTCGHLYHADCLENITAEI-NKYDPACPVCTL 321 (427)
Q Consensus 272 ~~~C~ICld~l~--~~~vv~~LpCGHvFH~~CI~~Wl~~~-~~~~~~CPvCR~ 321 (427)
...|+||--.=. .+-.++.-.||-.||..|+..|+... ....-.||-|+.
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 345777764322 22233345799999999999999863 223467888886
No 161
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=22.08 E-value=55 Score=23.07 Aligned_cols=10 Identities=30% Similarity=0.653 Sum_probs=7.0
Q ss_pred cccccccccc
Q 014291 274 TCGVCSKLLS 283 (427)
Q Consensus 274 ~C~ICld~l~ 283 (427)
.|+-|...|.
T Consensus 4 ~Cp~C~~~y~ 13 (36)
T PF13717_consen 4 TCPNCQAKYE 13 (36)
T ss_pred ECCCCCCEEe
Confidence 5777777766
No 162
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=21.96 E-value=44 Score=34.88 Aligned_cols=46 Identities=28% Similarity=0.509 Sum_probs=29.0
Q ss_pred ccccccccccc-----------ccceeEEcCCCCcccHHHHHHHHHhcC--CCCCCCCcccc
Q 014291 273 QTCGVCSKLLS-----------ELCVVAVLTCGHLYHADCLENITAEIN--KYDPACPVCTL 321 (427)
Q Consensus 273 ~~C~ICld~l~-----------~~~vv~~LpCGHvFH~~CI~~Wl~~~~--~~~~~CPvCR~ 321 (427)
..||+=+..|. ....-..|.|||+--.+ .|-.+.+ .+...||+|+.
T Consensus 291 PQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H---~WG~~e~~g~~~r~CPmC~~ 349 (429)
T KOG3842|consen 291 PQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYH---NWGVRENTGQRERECPMCRV 349 (429)
T ss_pred CCCCcccceeecccccccccccccCCeEEEecccccccc---ccccccccCcccCcCCeeee
Confidence 47999887775 12223469999983322 4644322 23678999996
No 163
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.24 E-value=89 Score=27.81 Aligned_cols=44 Identities=20% Similarity=0.452 Sum_probs=30.3
Q ss_pred cccccccccccccce-----------eEEcCCCCcccHHHHHHHHHhcCCCCCCCCccc
Q 014291 273 QTCGVCSKLLSELCV-----------VAVLTCGHLYHADCLENITAEINKYDPACPVCT 320 (427)
Q Consensus 273 ~~C~ICld~l~~~~v-----------v~~LpCGHvFH~~CI~~Wl~~~~~~~~~CPvCR 320 (427)
..|--|+..|.+.++ ..--.|++.||.+|-.-+-.. -..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~----Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES----LHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh----ccCCcCCC
Confidence 459999998873321 223579999999996544332 45799996
No 164
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=20.94 E-value=62 Score=22.84 Aligned_cols=10 Identities=30% Similarity=0.720 Sum_probs=7.7
Q ss_pred cccccccccc
Q 014291 274 TCGVCSKLLS 283 (427)
Q Consensus 274 ~C~ICld~l~ 283 (427)
.||-|...|.
T Consensus 4 ~CP~C~~~f~ 13 (37)
T PF13719_consen 4 TCPNCQTRFR 13 (37)
T ss_pred ECCCCCceEE
Confidence 5888887776
No 165
>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=20.64 E-value=1.5e+02 Score=22.24 Aligned_cols=27 Identities=22% Similarity=0.490 Sum_probs=12.4
Q ss_pred HHHHHHHhcCCCCCCCCccccCCccch
Q 014291 301 CLENITAEINKYDPACPVCTLGEKKTH 327 (427)
Q Consensus 301 CI~~Wl~~~~~~~~~CPvCR~~~~~~~ 327 (427)
-+.+++..-......||+|..++..-.
T Consensus 8 ~~~k~i~~l~~~~~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 8 ELKKYIEELKEAKGCCPLCGRPLDEEH 34 (54)
T ss_dssp HHHHHHHHHTT-SEE-TTT--EE-HHH
T ss_pred HHHHHHHHHhcCCCcCCCCCCCCCHHH
Confidence 345555543333449999997654433
No 166
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=20.40 E-value=37 Score=32.76 Aligned_cols=13 Identities=38% Similarity=0.703 Sum_probs=11.0
Q ss_pred ccccccccccccc
Q 014291 271 DMQTCGVCSKLLS 283 (427)
Q Consensus 271 e~~~C~ICld~l~ 283 (427)
....||||...|+
T Consensus 4 k~~~CPvC~~~F~ 16 (214)
T PF09986_consen 4 KKITCPVCGKEFK 16 (214)
T ss_pred CceECCCCCCeee
Confidence 4568999999998
No 167
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.08 E-value=28 Score=40.24 Aligned_cols=50 Identities=18% Similarity=0.317 Sum_probs=32.0
Q ss_pred cccccccccccccccceeEEcCCCCcccHHHHHHHHHh--cCCCCCCCCcccc
Q 014291 271 DMQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAE--INKYDPACPVCTL 321 (427)
Q Consensus 271 e~~~C~ICld~l~~~~vv~~LpCGHvFH~~CI~~Wl~~--~~~~~~~CPvCR~ 321 (427)
....|-.|..-+...- -+.-.|||.||..|+..|... .+..-..|+.|+.
T Consensus 228 ~~~mC~~C~~tlfn~h-w~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 228 IREMCDRCETTLFNIH-WRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred cchhhhhhccccccee-EEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 4468999997766212 223469999999999999521 1222345666654
Done!