Query 025846
Match_columns 247
No_of_seqs 206 out of 673
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 10:13:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025846.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025846hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3970 Predicted E3 ubiquitin 100.0 4E-59 8.7E-64 417.0 7.4 156 1-165 1-159 (299)
2 PF13639 zf-RING_2: Ring finge 99.3 3.1E-13 6.7E-18 91.0 2.1 43 53-105 2-44 (44)
3 KOG4628 Predicted E3 ubiquitin 99.3 6.1E-12 1.3E-16 118.9 5.8 53 52-113 230-282 (348)
4 COG5540 RING-finger-containing 99.0 3.2E-10 6.8E-15 106.3 3.4 52 51-111 323-374 (374)
5 COG5243 HRD1 HRD ubiquitin lig 99.0 1.6E-09 3.6E-14 103.8 7.9 50 52-109 288-345 (491)
6 PF12678 zf-rbx1: RING-H2 zinc 98.9 1.1E-09 2.4E-14 81.9 4.2 56 39-105 10-73 (73)
7 cd00162 RING RING-finger (Real 98.8 7.4E-09 1.6E-13 66.4 4.0 45 53-108 1-45 (45)
8 PHA02929 N1R/p28-like protein; 98.7 8.1E-09 1.8E-13 93.4 4.6 50 52-109 175-227 (238)
9 KOG0802 E3 ubiquitin ligase [P 98.7 1E-08 2.2E-13 101.0 2.5 54 52-113 292-345 (543)
10 PF12861 zf-Apc11: Anaphase-pr 98.6 2.7E-08 5.9E-13 77.8 4.0 52 52-108 22-81 (85)
11 PLN03208 E3 ubiquitin-protein 98.6 6.5E-08 1.4E-12 85.4 4.7 55 52-111 19-81 (193)
12 smart00184 RING Ring finger. E 98.5 1.1E-07 2.3E-12 58.9 3.2 39 54-104 1-39 (39)
13 PF00097 zf-C3HC4: Zinc finger 98.5 9.6E-08 2.1E-12 62.8 2.9 41 54-104 1-41 (41)
14 PF13923 zf-C3HC4_2: Zinc fing 98.5 1E-07 2.2E-12 62.8 2.4 39 54-104 1-39 (39)
15 PF15227 zf-C3HC4_4: zinc fing 98.4 2.3E-07 4.9E-12 63.0 3.4 42 54-104 1-42 (42)
16 KOG0317 Predicted E3 ubiquitin 98.4 2.1E-07 4.5E-12 86.5 2.7 49 51-112 239-287 (293)
17 PF13920 zf-C3HC4_3: Zinc fing 98.3 3.8E-07 8.2E-12 62.9 3.2 45 52-109 3-48 (50)
18 smart00504 Ubox Modified RING 98.2 2E-06 4.3E-11 60.6 5.1 46 52-110 2-47 (63)
19 COG5194 APC11 Component of SCF 98.2 8.9E-07 1.9E-11 69.2 3.4 49 52-109 32-81 (88)
20 PF13445 zf-RING_UBOX: RING-ty 98.1 1.6E-06 3.5E-11 59.6 2.9 43 54-102 1-43 (43)
21 PF14634 zf-RING_5: zinc-RING 98.1 2.5E-06 5.5E-11 57.7 3.5 44 53-106 1-44 (44)
22 KOG0823 Predicted E3 ubiquitin 98.1 2.1E-06 4.5E-11 77.7 3.2 53 44-110 44-96 (230)
23 smart00744 RINGv The RING-vari 98.0 4.2E-06 9.2E-11 58.7 3.3 44 53-105 1-49 (49)
24 PHA02926 zinc finger-like prot 98.0 2.9E-06 6.2E-11 77.0 2.9 55 52-109 171-230 (242)
25 KOG1493 Anaphase-promoting com 98.0 1.6E-06 3.5E-11 67.3 0.2 50 52-107 21-79 (84)
26 PF11793 FANCL_C: FANCL C-term 98.0 1.2E-06 2.6E-11 65.4 -0.7 56 52-109 3-66 (70)
27 TIGR00599 rad18 DNA repair pro 97.9 2.3E-05 5E-10 75.8 5.9 48 51-111 26-73 (397)
28 KOG0827 Predicted E3 ubiquitin 97.8 7.4E-06 1.6E-10 79.3 2.0 47 52-105 5-52 (465)
29 KOG0828 Predicted E3 ubiquitin 97.8 7.3E-06 1.6E-10 81.3 1.6 52 51-110 571-635 (636)
30 KOG0804 Cytoplasmic Zn-finger 97.8 8.5E-06 1.8E-10 79.9 1.5 49 51-110 175-223 (493)
31 COG5574 PEX10 RING-finger-cont 97.7 1.8E-05 3.9E-10 73.1 2.5 49 52-112 216-265 (271)
32 KOG1734 Predicted RING-contain 97.7 7.7E-06 1.7E-10 76.2 -0.0 59 51-115 224-287 (328)
33 KOG0320 Predicted E3 ubiquitin 97.7 2.6E-05 5.5E-10 68.7 2.5 47 52-109 132-178 (187)
34 PF04564 U-box: U-box domain; 97.6 5.7E-05 1.2E-09 56.2 3.8 48 52-111 5-52 (73)
35 KOG1941 Acetylcholine receptor 97.6 2.8E-05 6E-10 75.7 2.5 47 52-105 366-412 (518)
36 KOG1940 Zn-finger protein [Gen 97.4 6.5E-05 1.4E-09 69.7 1.8 46 52-106 159-204 (276)
37 KOG2164 Predicted E3 ubiquitin 97.3 0.00013 2.9E-09 72.4 2.9 53 51-111 186-238 (513)
38 KOG0825 PHD Zn-finger protein 97.2 7E-05 1.5E-09 77.8 -0.5 75 52-136 124-199 (1134)
39 KOG1952 Transcription factor N 97.2 0.00012 2.7E-09 76.2 1.1 57 43-106 187-244 (950)
40 KOG4445 Uncharacterized conser 97.1 8.2E-05 1.8E-09 70.3 -0.6 68 40-110 105-187 (368)
41 KOG2177 Predicted E3 ubiquitin 97.1 0.00021 4.6E-09 59.3 1.6 42 52-106 14-55 (386)
42 COG5219 Uncharacterized conser 97.1 0.00018 3.9E-09 76.2 1.1 51 52-108 1470-1522(1525)
43 KOG2930 SCF ubiquitin ligase, 96.9 0.00071 1.5E-08 55.4 2.7 27 73-107 80-106 (114)
44 PF10367 Vps39_2: Vacuolar sor 96.6 0.00072 1.6E-08 51.6 0.9 30 52-84 79-108 (109)
45 TIGR00570 cdk7 CDK-activating 96.5 0.0025 5.4E-08 60.2 4.1 51 52-111 4-56 (309)
46 KOG1645 RING-finger-containing 96.4 0.002 4.3E-08 63.1 2.8 49 52-107 5-54 (463)
47 KOG1428 Inhibitor of type V ad 96.3 0.0029 6.3E-08 69.8 3.6 55 52-109 3487-3544(3738)
48 KOG0287 Postreplication repair 96.1 0.0037 7.9E-08 60.4 2.5 87 52-162 24-110 (442)
49 PF11789 zf-Nse: Zinc-finger o 96.0 0.004 8.7E-08 45.1 1.9 42 52-103 12-53 (57)
50 KOG4265 Predicted E3 ubiquitin 96.0 0.0057 1.2E-07 58.7 3.3 49 51-112 290-339 (349)
51 PF14835 zf-RING_6: zf-RING of 95.7 0.0023 5.1E-08 48.1 -0.3 46 52-112 8-54 (65)
52 KOG0978 E3 ubiquitin ligase in 95.6 0.0045 9.7E-08 63.9 1.1 49 51-111 643-691 (698)
53 KOG0801 Predicted E3 ubiquitin 95.5 0.0042 9.2E-08 54.7 0.5 64 15-80 134-204 (205)
54 COG5432 RAD18 RING-finger-cont 95.4 0.01 2.2E-07 56.5 2.5 44 52-108 26-69 (391)
55 PF12906 RINGv: RING-variant d 95.3 0.0063 1.4E-07 42.3 0.6 42 54-104 1-47 (47)
56 KOG3268 Predicted E3 ubiquitin 94.9 0.015 3.3E-07 52.0 2.1 68 39-110 155-229 (234)
57 PF05883 Baculo_RING: Baculovi 94.9 0.011 2.4E-07 50.0 1.0 34 52-87 27-66 (134)
58 KOG0311 Predicted E3 ubiquitin 94.6 0.0095 2.1E-07 57.5 0.0 50 51-111 43-92 (381)
59 KOG0824 Predicted E3 ubiquitin 94.3 0.021 4.5E-07 54.2 1.6 47 52-110 8-54 (324)
60 KOG4185 Predicted E3 ubiquitin 94.1 0.062 1.3E-06 48.7 4.1 50 52-108 4-54 (296)
61 KOG1002 Nucleotide excision re 94.0 0.03 6.6E-07 56.9 2.1 73 29-110 515-587 (791)
62 KOG1039 Predicted E3 ubiquitin 93.8 0.038 8.2E-07 53.0 2.2 56 51-108 161-220 (344)
63 PHA02825 LAP/PHD finger-like p 93.6 0.078 1.7E-06 46.3 3.6 48 51-110 8-60 (162)
64 KOG1814 Predicted E3 ubiquitin 93.6 0.061 1.3E-06 53.0 3.3 73 52-136 185-257 (445)
65 KOG1785 Tyrosine kinase negati 92.9 0.041 8.9E-07 54.4 1.0 48 53-111 371-418 (563)
66 PHA02862 5L protein; Provision 92.4 0.11 2.4E-06 45.0 2.8 48 52-111 3-55 (156)
67 KOG2114 Vacuolar assembly/sort 92.3 0.049 1.1E-06 57.5 0.8 40 52-106 841-880 (933)
68 PF04641 Rtf2: Rtf2 RING-finge 92.3 0.26 5.6E-06 44.8 5.3 67 52-130 114-183 (260)
69 KOG2034 Vacuolar sorting prote 92.0 0.076 1.6E-06 56.3 1.6 36 52-90 818-853 (911)
70 KOG4172 Predicted E3 ubiquitin 91.7 0.054 1.2E-06 40.2 0.1 48 50-109 6-54 (62)
71 KOG2660 Locus-specific chromos 91.4 0.052 1.1E-06 51.9 -0.3 48 52-111 16-63 (331)
72 KOG4159 Predicted E3 ubiquitin 91.0 0.13 2.9E-06 50.2 2.1 46 52-110 85-130 (398)
73 KOG2879 Predicted E3 ubiquitin 90.9 0.23 4.9E-06 46.9 3.4 50 51-110 239-288 (298)
74 PF14570 zf-RING_4: RING/Ubox 89.5 0.36 7.8E-06 34.4 2.7 45 54-108 1-47 (48)
75 KOG0297 TNF receptor-associate 89.1 0.3 6.5E-06 47.1 2.8 51 52-114 22-72 (391)
76 KOG3039 Uncharacterized conser 89.0 0.38 8.3E-06 45.1 3.2 49 52-110 222-271 (303)
77 smart00249 PHD PHD zinc finger 88.5 0.19 4.1E-06 32.2 0.7 46 53-104 1-47 (47)
78 PF14447 Prok-RING_4: Prokaryo 88.3 0.24 5.2E-06 36.3 1.2 34 68-111 19-52 (55)
79 PF08746 zf-RING-like: RING-li 88.1 0.26 5.7E-06 33.7 1.2 43 54-104 1-43 (43)
80 KOG1571 Predicted E3 ubiquitin 87.1 0.37 8.1E-06 46.6 2.1 44 50-109 304-347 (355)
81 KOG2817 Predicted E3 ubiquitin 87.0 0.55 1.2E-05 46.0 3.1 53 51-110 334-386 (394)
82 PF07800 DUF1644: Protein of u 87.0 0.86 1.9E-05 39.9 4.0 54 52-110 3-92 (162)
83 KOG1813 Predicted E3 ubiquitin 86.4 0.41 9E-06 45.5 1.9 64 50-129 240-303 (313)
84 KOG0309 Conserved WD40 repeat- 85.8 0.52 1.1E-05 50.0 2.4 36 52-90 1029-1064(1081)
85 PF14446 Prok-RING_1: Prokaryo 83.9 1.3 2.7E-05 32.4 3.0 32 52-85 6-38 (54)
86 KOG3800 Predicted E3 ubiquitin 83.6 0.96 2.1E-05 42.9 2.9 49 53-110 2-52 (300)
87 KOG3053 Uncharacterized conser 82.9 0.7 1.5E-05 43.4 1.7 60 51-113 20-89 (293)
88 COG5220 TFB3 Cdk activating ki 80.7 0.65 1.4E-05 43.5 0.7 47 51-106 10-61 (314)
89 KOG0827 Predicted E3 ubiquitin 80.2 0.15 3.4E-06 50.1 -3.7 50 52-110 197-246 (465)
90 COG5152 Uncharacterized conser 79.4 0.78 1.7E-05 42.0 0.7 47 51-110 196-242 (259)
91 COG5236 Uncharacterized conser 76.8 2.2 4.8E-05 41.9 3.0 46 51-107 61-106 (493)
92 KOG1609 Protein involved in mR 76.2 1.3 2.9E-05 39.6 1.2 53 52-111 79-136 (323)
93 PF02891 zf-MIZ: MIZ/SP-RING z 74.3 4 8.7E-05 28.6 3.0 45 52-107 3-50 (50)
94 PHA03096 p28-like protein; Pro 73.2 2.1 4.5E-05 40.2 1.8 39 52-90 179-220 (284)
95 PF05605 zf-Di19: Drought indu 72.9 2.9 6.3E-05 29.2 2.1 36 53-106 4-39 (54)
96 TIGR00373 conserved hypothetic 68.1 4.4 9.6E-05 34.5 2.6 29 98-131 128-156 (158)
97 PF00628 PHD: PHD-finger; Int 68.0 0.26 5.6E-06 33.4 -4.1 47 54-105 2-49 (51)
98 KOG2932 E3 ubiquitin ligase in 67.8 2.3 4.9E-05 41.2 0.8 44 52-110 91-135 (389)
99 COG5222 Uncharacterized conser 66.9 3.5 7.6E-05 39.9 1.8 43 52-106 275-318 (427)
100 PRK06266 transcription initiat 66.2 5.9 0.00013 34.5 3.0 31 97-132 135-165 (178)
101 smart00132 LIM Zinc-binding do 63.9 6.6 0.00014 24.1 2.2 37 53-108 1-37 (39)
102 KOG3161 Predicted E3 ubiquitin 62.3 2.8 6E-05 44.0 0.3 46 52-109 12-57 (861)
103 PF13901 DUF4206: Domain of un 61.8 4.2 9.2E-05 35.8 1.3 38 52-105 153-196 (202)
104 PF06906 DUF1272: Protein of u 61.3 10 0.00023 28.0 3.1 48 52-112 6-55 (57)
105 KOG2066 Vacuolar assembly/sort 59.2 3.7 8.1E-05 43.7 0.6 38 52-89 785-824 (846)
106 COG5109 Uncharacterized conser 59.0 7.1 0.00015 38.0 2.4 47 51-104 336-382 (396)
107 PF00412 LIM: LIM domain; Int 58.3 6.3 0.00014 26.8 1.4 39 54-111 1-39 (58)
108 KOG1815 Predicted E3 ubiquitin 57.5 2.7 5.8E-05 41.0 -0.7 68 22-90 189-268 (444)
109 KOG4739 Uncharacterized protei 56.5 4.2 9.2E-05 37.4 0.4 32 69-110 17-49 (233)
110 COG5175 MOT2 Transcriptional r 56.1 7.9 0.00017 38.1 2.2 54 52-114 15-68 (480)
111 KOG1701 Focal adhesion adaptor 56.0 6.1 0.00013 39.5 1.4 18 9-26 313-330 (468)
112 KOG3002 Zn finger protein [Gen 55.1 11 0.00023 35.8 2.8 58 51-129 48-105 (299)
113 KOG1829 Uncharacterized conser 54.9 3.2 6.8E-05 42.7 -0.8 26 68-104 530-556 (580)
114 KOG4362 Transcriptional regula 53.9 5.7 0.00012 41.6 0.9 51 51-111 21-71 (684)
115 PRK10144 formate-dependent nit 48.0 19 0.00042 30.3 3.0 29 98-131 40-68 (126)
116 KOG4275 Predicted E3 ubiquitin 46.9 3.7 8.1E-05 39.4 -1.5 41 52-109 301-342 (350)
117 KOG0269 WD40 repeat-containing 46.6 19 0.0004 38.6 3.3 36 52-90 780-815 (839)
118 PF00643 zf-B_box: B-box zinc 46.6 5.9 0.00013 25.8 -0.2 26 9-35 13-38 (42)
119 COG5183 SSM4 Protein involved 45.0 14 0.0003 40.1 2.1 48 52-108 13-65 (1175)
120 TIGR03147 cyt_nit_nrfF cytochr 44.2 21 0.00046 30.0 2.7 29 98-131 40-68 (126)
121 KOG2068 MOT2 transcription fac 43.4 20 0.00043 34.7 2.7 50 51-111 249-300 (327)
122 PF10272 Tmpp129: Putative tra 43.2 20 0.00043 34.9 2.7 36 74-109 311-351 (358)
123 KOG3005 GIY-YIG type nuclease 40.0 18 0.00038 34.3 1.7 53 52-107 183-241 (276)
124 PF04710 Pellino: Pellino; In 38.9 10 0.00022 37.7 0.0 50 52-106 278-336 (416)
125 KOG1701 Focal adhesion adaptor 38.6 19 0.00042 36.1 1.9 32 51-82 394-427 (468)
126 smart00531 TFIIE Transcription 37.8 13 0.00027 31.1 0.4 17 97-113 122-138 (147)
127 PF09943 DUF2175: Uncharacteri 36.6 27 0.00059 28.5 2.1 35 53-90 4-38 (101)
128 KOG1001 Helicase-like transcri 36.5 16 0.00034 38.2 1.0 47 52-110 455-501 (674)
129 PF04710 Pellino: Pellino; In 36.2 12 0.00026 37.2 0.0 75 36-110 312-402 (416)
130 KOG1812 Predicted E3 ubiquitin 36.0 20 0.00043 34.8 1.5 39 51-90 146-184 (384)
131 COG4847 Uncharacterized protei 34.9 39 0.00084 27.7 2.7 36 53-91 8-43 (103)
132 KOG1815 Predicted E3 ubiquitin 33.9 70 0.0015 31.3 4.9 87 52-146 71-160 (444)
133 KOG4367 Predicted Zn-finger pr 33.2 29 0.00063 35.4 2.1 35 52-91 5-39 (699)
134 KOG0826 Predicted E3 ubiquitin 33.1 46 0.001 32.5 3.4 45 52-108 301-345 (357)
135 COG3813 Uncharacterized protei 32.9 41 0.00088 26.4 2.5 48 51-111 5-54 (84)
136 smart00064 FYVE Protein presen 32.2 14 0.0003 26.4 -0.2 45 41-89 3-47 (68)
137 KOG2071 mRNA cleavage and poly 31.9 23 0.0005 36.6 1.2 38 52-89 514-559 (579)
138 PF15353 HECA: Headcase protei 31.8 35 0.00075 28.2 2.0 22 68-89 27-55 (107)
139 COG1675 TFA1 Transcription ini 31.6 41 0.00089 29.7 2.6 30 98-132 132-161 (176)
140 PF03918 CcmH: Cytochrome C bi 31.4 46 0.001 28.3 2.8 29 98-131 40-68 (148)
141 PF13717 zinc_ribbon_4: zinc-r 31.4 29 0.00063 22.8 1.3 13 53-65 4-16 (36)
142 COG2888 Predicted Zn-ribbon RN 30.8 57 0.0012 24.5 2.8 46 51-105 9-57 (61)
143 cd00730 rubredoxin Rubredoxin; 30.2 32 0.00069 24.5 1.4 12 96-107 32-43 (50)
144 KOG0825 PHD Zn-finger protein 28.6 28 0.0006 37.8 1.2 60 52-114 97-159 (1134)
145 PF13240 zinc_ribbon_2: zinc-r 27.4 33 0.00072 20.6 0.9 8 101-108 16-23 (23)
146 PF00301 Rubredoxin: Rubredoxi 26.7 33 0.00071 24.1 0.9 12 96-107 32-43 (47)
147 KOG3113 Uncharacterized conser 26.5 1.2E+02 0.0025 29.0 4.7 50 52-113 112-162 (293)
148 PRK14890 putative Zn-ribbon RN 25.8 57 0.0012 24.3 2.1 46 51-105 7-55 (59)
149 PF01363 FYVE: FYVE zinc finge 25.8 35 0.00075 24.4 0.9 40 41-87 2-44 (69)
150 KOG1100 Predicted E3 ubiquitin 25.5 27 0.00058 31.3 0.4 40 53-109 160-200 (207)
151 cd04718 BAH_plant_2 BAH, or Br 23.5 29 0.00063 30.0 0.2 27 78-108 2-28 (148)
152 KOG4692 Predicted E3 ubiquitin 22.9 56 0.0012 32.6 2.1 47 51-110 422-468 (489)
153 PF04423 Rad50_zn_hook: Rad50 22.6 30 0.00066 24.1 0.1 39 83-130 9-47 (54)
154 KOG0801 Predicted E3 ubiquitin 22.6 47 0.001 29.8 1.3 16 97-112 137-152 (205)
155 COG3088 CcmH Uncharacterized p 22.4 67 0.0015 28.1 2.2 28 98-130 44-71 (153)
156 PF13832 zf-HC5HC2H_2: PHD-zin 22.2 97 0.0021 24.0 2.9 30 52-86 56-88 (110)
157 PF13719 zinc_ribbon_5: zinc-r 21.5 48 0.001 21.7 0.9 28 52-79 3-36 (37)
158 PF13248 zf-ribbon_3: zinc-rib 21.3 61 0.0013 19.6 1.3 13 52-64 3-15 (26)
159 PF14169 YdjO: Cold-inducible 21.1 72 0.0016 23.7 1.8 24 41-64 28-52 (59)
160 PRK00420 hypothetical protein; 21.1 62 0.0013 26.7 1.7 13 51-63 23-35 (112)
No 1
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4e-59 Score=416.99 Aligned_cols=156 Identities=37% Similarity=0.812 Sum_probs=144.1
Q ss_pred Cccccc--cccccceeeeeccCccCcccccCCCCceeeeecccccccCCCCCCCccccccccccccccCCeEEecCCCcc
Q 025846 1 MVVCKC--RKATKLYCFVHKVPVCGECICFPEHQICVVRTYSEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVI 78 (247)
Q Consensus 1 MglCkC--rk~T~~fCf~HrvnVCe~Ci~~~~H~~CvVqsYlqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvF 78 (247)
|||||| |||||||||||||||||+|+| .||++||||||+|||+|+||+ ++|.+|...|+.|| ++||.|+|+|
T Consensus 1 MGLCKCPKRkVTNlFCfEHRVNVCEhClV-~nHpkCiVQSYLqWL~DsDY~--pNC~LC~t~La~gd---t~RLvCyhlf 74 (299)
T KOG3970|consen 1 MGLCKCPKRKVTNLFCFEHRVNVCEHCLV-ANHPKCIVQSYLQWLQDSDYN--PNCRLCNTPLASGD---TTRLVCYHLF 74 (299)
T ss_pred CCcccCchhhhhhhhhhhhhhhHHHHHHh-ccCchhhHHHHHHHHhhcCCC--CCCceeCCccccCc---ceeehhhhhH
Confidence 999999 889999999999999999996 999999999999999999999 99999999999996 9999999999
Q ss_pred CHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhhhhhhhhhcCCCCCCcc-ccccCCCCCC
Q 025846 79 HTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIMLTGLEKNLFGNHPVSLA-VAESRGPPPA 157 (247)
Q Consensus 79 H~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q~~WAr~~lG~~li~~~-~~~~~~~p~a 157 (247)
||+||++|..++|+||||+||+||.|..+|||+-|+ .|||+++|||+++|+||||++||++||+-- +.+....||.
T Consensus 75 HW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl---vsPva~aLre~L~qvNWaRagLGLpll~E~~sp~p~p~~p~ 151 (299)
T KOG3970|consen 75 HWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL---VSPVAEALREQLKQVNWARAGLGLPLLPELNSPVPSPAPPQ 151 (299)
T ss_pred HHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc---cchhHHHHHHHHHhhhHHhhccCCccchhhcCCCCCCCChh
Confidence 999999999999999999999999999999999886 499999999999999999999999999722 1222336777
Q ss_pred CCCCcccc
Q 025846 158 FASDPIVN 165 (247)
Q Consensus 158 f~~~~~~~ 165 (247)
-+|+|.+.
T Consensus 152 ~~s~~~~~ 159 (299)
T KOG3970|consen 152 LKSAPVMH 159 (299)
T ss_pred hccchhhh
Confidence 88888776
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.35 E-value=3.1e-13 Score=90.97 Aligned_cols=43 Identities=33% Similarity=0.773 Sum_probs=37.6
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
.|+||+++|..++ .+++|+|+|+||.+||.+|++.. .+||+||
T Consensus 2 ~C~IC~~~~~~~~--~~~~l~C~H~fh~~Ci~~~~~~~--------~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGE--KVVKLPCGHVFHRSCIKEWLKRN--------NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTS--CEEEETTSEEEEHHHHHHHHHHS--------SB-TTTH
T ss_pred CCcCCChhhcCCC--eEEEccCCCeeCHHHHHHHHHhC--------CcCCccC
Confidence 6999999998865 89999999999999999999874 2699996
No 3
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=6.1e-12 Score=118.89 Aligned_cols=53 Identities=23% Similarity=0.542 Sum_probs=45.6
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~ 113 (247)
..|+||+|+|+.|| .++.|||.|.||..|||.||.... ..||+|+..|.++..
T Consensus 230 ~~CaIClEdY~~Gd--klRiLPC~H~FH~~CIDpWL~~~r-------~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 230 DTCAICLEDYEKGD--KLRILPCSHKFHVNCIDPWLTQTR-------TFCPVCKRDIRTDSG 282 (348)
T ss_pred ceEEEeecccccCC--eeeEecCCCchhhccchhhHhhcC-------ccCCCCCCcCCCCCC
Confidence 48999999999998 677799999999999999998752 249999999887643
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=3.2e-10 Score=106.28 Aligned_cols=52 Identities=27% Similarity=0.642 Sum_probs=45.4
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
.-.|+||++.|-.+| ..+.|||.|+||..|+++|+.... .+||+||++|-|+
T Consensus 323 GveCaICms~fiK~d--~~~vlPC~H~FH~~Cv~kW~~~y~-------~~CPvCrt~iPPp 374 (374)
T COG5540 323 GVECAICMSNFIKND--RLRVLPCDHRFHVGCVDKWLLGYS-------NKCPVCRTAIPPP 374 (374)
T ss_pred CceEEEEhhhhcccc--eEEEeccCceechhHHHHHHhhhc-------ccCCccCCCCCCC
Confidence 378999999999887 688899999999999999998643 3599999999875
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=1.6e-09 Score=103.83 Aligned_cols=50 Identities=24% Similarity=0.640 Sum_probs=41.3
Q ss_pred Cccccccccccccc--------cCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEES--------GSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD--------~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
..|.||++++...+ ++...||+|||+||.+||..|++++ + +||+||.|+.
T Consensus 288 ~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq--Q------TCPICr~p~i 345 (491)
T COG5243 288 RTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ--Q------TCPICRRPVI 345 (491)
T ss_pred CeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc--c------CCCcccCccc
Confidence 77999999965433 1457899999999999999999986 3 4999999943
No 6
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.92 E-value=1.1e-09 Score=81.93 Aligned_cols=56 Identities=27% Similarity=0.586 Sum_probs=38.0
Q ss_pred cccccccCCCCCCCcccccccccccc--------ccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 39 YSEWVIDGEYDWPPKCCQCQAVLEEE--------SGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 39 YlqWL~Dsdyd~~~~C~ICle~L~~g--------D~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
...|-.|..- .+|+||+++|.+. +.-.++...|+|.||..||.+||+... +||+||
T Consensus 10 v~~~~~~~~~---d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~--------~CP~CR 73 (73)
T PF12678_consen 10 VALWSWDIAD---DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN--------TCPLCR 73 (73)
T ss_dssp EEEEEESSCC---SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS--------B-TTSS
T ss_pred EEEEeecCcC---CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC--------cCCCCC
Confidence 3455444443 4699999999431 111233458999999999999997642 599997
No 7
>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=98.78 E-value=7.4e-09 Score=66.45 Aligned_cols=45 Identities=38% Similarity=0.722 Sum_probs=34.9
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
.|+||++.+.+ ....++|+|.||..||+.|++. ....||.|+..+
T Consensus 1 ~C~iC~~~~~~----~~~~~~C~H~~c~~C~~~~~~~-------~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE----PVVLLPCGHVFCRSCIDKWLKS-------GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC----ceEecCCCChhcHHHHHHHHHh-------CcCCCCCCCCcC
Confidence 49999999822 3444569999999999999986 134699999864
No 8
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.75 E-value=8.1e-09 Score=93.44 Aligned_cols=50 Identities=24% Similarity=0.467 Sum_probs=38.2
Q ss_pred Ccccccccccccccc--CCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESG--SETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~--~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
..|+||++++.+... .....| +|+|+||..||..|++... +||+||.++.
T Consensus 175 ~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~--------tCPlCR~~~~ 227 (238)
T PHA02929 175 KECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN--------TCPVCRTPFI 227 (238)
T ss_pred CCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC--------CCCCCCCEee
Confidence 689999999875320 012344 7999999999999998642 4999999875
No 9
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=1e-08 Score=100.96 Aligned_cols=54 Identities=30% Similarity=0.582 Sum_probs=46.3
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~ 113 (247)
..|.||+++|..++...+.||+|+|+||..||.+|++++ + +||+||..+.....
T Consensus 292 ~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~--q------tCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 292 ELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ--Q------TCPTCRTVLYDYVL 345 (543)
T ss_pred CeeeeechhhccccccccceeecccchHHHHHHHHHHHh--C------cCCcchhhhhcccc
Confidence 789999999998864558899999999999999999985 3 49999997776543
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.64 E-value=2.7e-08 Score=77.82 Aligned_cols=52 Identities=17% Similarity=0.470 Sum_probs=36.6
Q ss_pred Ccccccccccc--------ccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 52 PKCCQCQAVLE--------EESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 52 ~~C~ICle~L~--------~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
..|.||...|+ .||+-.++.-.|+|.||..||.+||+.... .-+||+||++.
T Consensus 22 d~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~-----~~~CPmCR~~w 81 (85)
T PF12861_consen 22 DVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS-----KGQCPMCRQPW 81 (85)
T ss_pred CceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC-----CCCCCCcCCee
Confidence 56777777775 243112333479999999999999987532 23799999864
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.56 E-value=6.5e-08 Score=85.43 Aligned_cols=55 Identities=15% Similarity=0.318 Sum_probs=41.1
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCC--------CCCCCCCCCCCCCCccCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPH--------TAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~n--------TAPagy~CP~Cr~~I~P~ 111 (247)
..|+||++.+.+ .+.++|+|+|+|.||.+|+...... ......+||+|+++|...
T Consensus 19 ~~CpICld~~~d-----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 19 FDCNICLDQVRD-----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred cCCccCCCcCCC-----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 679999998743 5668999999999999998643110 011245799999999763
No 12
>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=98.50 E-value=1.1e-07 Score=58.95 Aligned_cols=39 Identities=33% Similarity=0.763 Sum_probs=31.6
Q ss_pred cccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
|+||++.. ...+.++|+|+||..|++.|++. ...+||+|
T Consensus 1 C~iC~~~~-----~~~~~~~C~H~~c~~C~~~~~~~-------~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL-----KDPVVLPCGHTFCRSCIRKWLKS-------GNNTCPIC 39 (39)
T ss_pred CCcCccCC-----CCcEEecCCChHHHHHHHHHHHh-------CcCCCCCC
Confidence 78998882 25888999999999999999982 13469987
No 13
>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=98.49 E-value=9.6e-08 Score=62.78 Aligned_cols=41 Identities=29% Similarity=0.664 Sum_probs=34.3
Q ss_pred cccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
|+||++.+.+. .+.++|+|.|+..||.+|++.. ..+.||+|
T Consensus 1 C~iC~~~~~~~----~~~~~C~H~fC~~C~~~~~~~~------~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP----VILLPCGHSFCRDCLRKWLENS------GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE----EEETTTSEEEEHHHHHHHHHHT------SSSBTTTT
T ss_pred CCcCCccccCC----CEEecCCCcchHHHHHHHHHhc------CCccCCcC
Confidence 88999998662 4578999999999999999962 45779998
No 14
>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=98.45 E-value=1e-07 Score=62.84 Aligned_cols=39 Identities=23% Similarity=0.572 Sum_probs=31.4
Q ss_pred cccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
|+||++.+.+ .++.++|||+|..+|+.+|++.. .+||+|
T Consensus 1 C~iC~~~~~~----~~~~~~CGH~fC~~C~~~~~~~~--------~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD----PVVVTPCGHSFCKECIEKYLEKN--------PKCPVC 39 (39)
T ss_dssp ETTTTSB-SS----EEEECTTSEEEEHHHHHHHHHCT--------SB-TTT
T ss_pred CCCCCCcccC----cCEECCCCCchhHHHHHHHHHCc--------CCCcCC
Confidence 8899998865 25778999999999999999873 369998
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.41 E-value=2.3e-07 Score=63.03 Aligned_cols=42 Identities=31% Similarity=0.695 Sum_probs=31.4
Q ss_pred cccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
|+||++.|.+ .+.|+|||+|=.+||.+|.+.... .++.||.|
T Consensus 1 CpiC~~~~~~-----Pv~l~CGH~FC~~Cl~~~~~~~~~----~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD-----PVSLPCGHSFCRSCLERLWKEPSG----SGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS-----EEE-SSSSEEEHHHHHHHHCCSSS----ST---SSS
T ss_pred CCccchhhCC-----ccccCCcCHHHHHHHHHHHHccCC----cCCCCcCC
Confidence 8999999955 899999999999999999976532 24889998
No 16
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=2.1e-07 Score=86.50 Aligned_cols=49 Identities=27% Similarity=0.591 Sum_probs=41.7
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~ 112 (247)
...|.+|++...+ ....+|||+|-|.||.+|+...+. ||+||...-|.+
T Consensus 239 ~~kC~LCLe~~~~-----pSaTpCGHiFCWsCI~~w~~ek~e--------CPlCR~~~~psk 287 (293)
T KOG0317|consen 239 TRKCSLCLENRSN-----PSATPCGHIFCWSCILEWCSEKAE--------CPLCREKFQPSK 287 (293)
T ss_pred CCceEEEecCCCC-----CCcCcCcchHHHHHHHHHHccccC--------CCcccccCCCcc
Confidence 3789999999644 678899999999999999987643 999999988754
No 17
>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=98.35 E-value=3.8e-07 Score=62.89 Aligned_cols=45 Identities=24% Similarity=0.502 Sum_probs=36.2
Q ss_pred CccccccccccccccCCeEEecCCCc-cCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHV-IHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~Hv-FH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
..|.||++... .++.++|+|+ |...|+.+|++.. .+||+||++|-
T Consensus 3 ~~C~iC~~~~~-----~~~~~pCgH~~~C~~C~~~~~~~~--------~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPR-----DVVLLPCGHLCFCEECAERLLKRK--------KKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBS-----SEEEETTCEEEEEHHHHHHHHHTT--------SBBTTTTBB-S
T ss_pred CCCccCCccCC-----ceEEeCCCChHHHHHHhHHhcccC--------CCCCcCChhhc
Confidence 57999999853 3888899999 9999999999843 36999999873
No 18
>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=98.25 E-value=2e-06 Score=60.57 Aligned_cols=46 Identities=11% Similarity=0.070 Sum_probs=38.6
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
-.|+||++.|.+ .+.++|||+|-.+||.+|++.. .+||.|+.++-.
T Consensus 2 ~~Cpi~~~~~~~-----Pv~~~~G~v~~~~~i~~~~~~~--------~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKD-----PVILPSGQTYERRAIEKWLLSH--------GTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCC-----CEECCCCCEEeHHHHHHHHHHC--------CCCCCCcCCCCh
Confidence 359999999854 6778999999999999999862 259999998844
No 19
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.24 E-value=8.9e-07 Score=69.23 Aligned_cols=49 Identities=24% Similarity=0.444 Sum_probs=38.5
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
..|+-|+..+..+| +-++.- .|.|.||..||.+||..+. .||++++...
T Consensus 32 ~~C~eCq~~~~~~~-eC~v~wG~CnHaFH~HCI~rWL~Tk~--------~CPld~q~w~ 81 (88)
T COG5194 32 GTCPECQFGMTPGD-ECPVVWGVCNHAFHDHCIYRWLDTKG--------VCPLDRQTWV 81 (88)
T ss_pred CcCcccccCCCCCC-cceEEEEecchHHHHHHHHHHHhhCC--------CCCCCCceeE
Confidence 67899988887776 233333 7999999999999998742 4999998643
No 20
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.15 E-value=1.6e-06 Score=59.64 Aligned_cols=43 Identities=28% Similarity=0.566 Sum_probs=25.1
Q ss_pred cccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCP 102 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP 102 (247)
|+||++ +.+.+ ...+.|+|||+|=.+||++++.... ...++||
T Consensus 1 CpIc~e-~~~~~-n~P~~L~CGH~~c~~cl~~l~~~~~----~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEE-NPPMVLPCGHVFCKDCLQKLSKKSD----RNRFKCP 43 (43)
T ss_dssp -TTT-----TTS-S-EEE-SSS-EEEHHHHHHHHHH-S-----S-B--T
T ss_pred CCcccc-ccCCC-CCCEEEeCccHHHHHHHHHHHhcCC----CCeeeCc
Confidence 899999 75544 4678899999999999999998642 1357887
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.13 E-value=2.5e-06 Score=57.72 Aligned_cols=44 Identities=25% Similarity=0.570 Sum_probs=34.5
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
.|.+|.+.+.+. .....|.|||+|..+||..+.. ....||+|++
T Consensus 1 ~C~~C~~~~~~~--~~~~l~~CgH~~C~~C~~~~~~--------~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEE--RRPRLTSCGHIFCEKCLKKLKG--------KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCC--CCeEEcccCCHHHHHHHHhhcC--------CCCCCcCCCC
Confidence 489999999433 2455579999999999999991 2457999985
No 22
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=2.1e-06 Score=77.73 Aligned_cols=53 Identities=23% Similarity=0.524 Sum_probs=42.3
Q ss_pred ccCCCCCCCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 44 IDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 44 ~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
+++.|+ |-|||+.- ++.|.-.|||+|-|-||-+||+..+. ...||+|+..|--
T Consensus 44 ~~~~Fd----CNICLd~a-----kdPVvTlCGHLFCWpClyqWl~~~~~-----~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFD----CNICLDLA-----KDPVVTLCGHLFCWPCLYQWLQTRPN-----SKECPVCKAEVSI 96 (230)
T ss_pred CCCcee----eeeecccc-----CCCEEeecccceehHHHHHHHhhcCC-----CeeCCcccccccc
Confidence 345566 99999874 34888899999999999999987653 4569999988764
No 23
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.04 E-value=4.2e-06 Score=58.67 Aligned_cols=44 Identities=23% Similarity=0.533 Sum_probs=33.7
Q ss_pred ccccccccccccccCCeEEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 53 KCCQCQAVLEEESGSETTRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~-----HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
.|.||++...+ ++...+||. |.||..||.+|+...... +||+|+
T Consensus 1 ~CrIC~~~~~~---~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~------~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDE---GDPLVSPCRCKGSLKYVHQECLERWINESGNK------TCEICK 49 (49)
T ss_pred CccCCCCCCCC---CCeeEeccccCCchhHHHHHHHHHHHHHcCCC------cCCCCC
Confidence 48999983322 357788985 999999999999876433 599995
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=98.03 E-value=2.9e-06 Score=77.03 Aligned_cols=55 Identities=22% Similarity=0.451 Sum_probs=38.9
Q ss_pred Ccccccccccccc----ccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEE----SGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~g----D~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
..|+||++...+. + ..-..| +|+|+|...||..|.+....+ .....||+||..+.
T Consensus 171 ~eCgICmE~I~eK~~~~e-RrFGIL~~CnHsFCl~CIr~Wr~~r~~~--~~~rsCPiCR~~f~ 230 (242)
T PHA02926 171 KECGICYEVVYSKRLEND-RYFGLLDSCNHIFCITCINIWHRTRRET--GASDNCPICRTRFR 230 (242)
T ss_pred CCCccCcccccccccccc-ccccccCCCCchHHHHHHHHHHHhcccc--CcCCcCCCCcceee
Confidence 5799999987432 1 112234 799999999999999864321 13456999999764
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=1.6e-06 Score=67.30 Aligned_cols=50 Identities=22% Similarity=0.581 Sum_probs=36.7
Q ss_pred Cccccccccccc--------cccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEE--------ESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (247)
Q Consensus 52 ~~C~ICle~L~~--------gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~ 107 (247)
.+|.||..+|+. || +-...+ .|.|.||..||.+|+.... +.-.||+||..
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgD-dCPLv~G~C~h~fh~hCI~~wl~~~t-----sq~~CPmcRq~ 79 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGD-DCPLVWGYCLHAFHAHCILKWLNTPT-----SQGQCPMCRQT 79 (84)
T ss_pred CccceEecccCCcCCCCcCCCC-CCccHHHHHHHHHHHHHHHHHhcCcc-----ccccCCcchhe
Confidence 478888888753 44 234444 5999999999999997643 23479999975
No 26
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.96 E-value=1.2e-06 Score=65.36 Aligned_cols=56 Identities=25% Similarity=0.460 Sum_probs=26.6
Q ss_pred CccccccccccccccCCeEEe-----cCCCccCHHHHHHHHhcCCCCC---CCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESGSETTRL-----GCLHVIHTSCLVSHIKSFPPHT---APAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-----~C~HvFH~~CLd~WL~~~p~nT---APagy~CP~Cr~~I~ 109 (247)
..|.||.+.+.+.+ ++.++ .|+.+||..||.+||+..+... .|-.-+||.|+++|-
T Consensus 3 ~~C~IC~~~~~~~~--~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 3 LECGICYSYRLDDG--EIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp -S-SSS--SS-TT-------B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCcCCcEecCCC--CcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 46999999876332 23222 5999999999999998754321 122336999999873
No 27
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.86 E-value=2.3e-05 Score=75.81 Aligned_cols=48 Identities=19% Similarity=0.499 Sum_probs=40.2
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
...|+||++.|.+ .+.++|+|.|...||..|+... ..||+|+.++...
T Consensus 26 ~l~C~IC~d~~~~-----PvitpCgH~FCs~CI~~~l~~~--------~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 26 SLRCHICKDFFDV-----PVLTSCSHTFCSLCIRRCLSNQ--------PKCPLCRAEDQES 73 (397)
T ss_pred ccCCCcCchhhhC-----ccCCCCCCchhHHHHHHHHhCC--------CCCCCCCCccccc
Confidence 4789999999854 5668999999999999999763 2599999998754
No 28
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=7.4e-06 Score=79.29 Aligned_cols=47 Identities=28% Similarity=0.668 Sum_probs=37.7
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
..|.|| ++|...+ .++-.. .|||+||..||..|++.-|.| -.||+|+
T Consensus 5 A~C~Ic-~d~~p~~-~~l~~i~~cGhifh~~cl~qwfe~~Ps~-----R~cpic~ 52 (465)
T KOG0827|consen 5 AECHIC-IDGRPND-HELGPIGTCGHIFHTTCLTQWFEGDPSN-----RGCPICQ 52 (465)
T ss_pred ceeeEe-ccCCccc-cccccccchhhHHHHHHHHHHHccCCcc-----CCCCcee
Confidence 579999 7777665 455555 499999999999999987664 4699998
No 29
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=7.3e-06 Score=81.33 Aligned_cols=52 Identities=27% Similarity=0.761 Sum_probs=38.1
Q ss_pred CCccccccccccc---cccCC------eEE---e-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 51 PPKCCQCQAVLEE---ESGSE------TTR---L-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 51 ~~~C~ICle~L~~---gD~~e------vvR---L-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
...|+||+.+++- +. .. +.| | ||.|+||..||..|++..+ ..||+||.++-|
T Consensus 571 t~dC~ICMt~I~l~~~~s-~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk-------l~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGS-DCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK-------LICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccC-cchhhhhhhhccccccchHHHHHHHHHHHHHhhhc-------ccCCccCCCCCC
Confidence 4789999998862 11 01 111 2 8999999999999998432 359999998865
No 30
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.78 E-value=8.5e-06 Score=79.85 Aligned_cols=49 Identities=29% Similarity=0.649 Sum_probs=40.9
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
.|+|+|||+.|+.+. ..++...|.|.||-.||.+|-.. +||+||-..-|
T Consensus 175 LPTCpVCLERMD~s~-~gi~t~~c~Hsfh~~cl~~w~~~----------scpvcR~~q~p 223 (493)
T KOG0804|consen 175 LPTCPVCLERMDSST-TGILTILCNHSFHCSCLMKWWDS----------SCPVCRYCQSP 223 (493)
T ss_pred CCCcchhHhhcCccc-cceeeeecccccchHHHhhcccC----------cChhhhhhcCc
Confidence 589999999998764 34566689999999999999764 49999988774
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.8e-05 Score=73.11 Aligned_cols=49 Identities=33% Similarity=0.624 Sum_probs=40.7
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHH-HHhcCCCCCCCCCCCCCCCCCCccCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVS-HIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~-WL~~~p~nTAPagy~CP~Cr~~I~P~~ 112 (247)
-.|+||++.... ..+++|||+|-|.||.. |-.++.. -||+||+-..|.+
T Consensus 216 ~kC~lC~e~~~~-----ps~t~CgHlFC~~Cl~~~~t~~k~~-------~CplCRak~~pk~ 265 (271)
T COG5574 216 YKCFLCLEEPEV-----PSCTPCGHLFCLSCLLISWTKKKYE-------FCPLCRAKVYPKK 265 (271)
T ss_pred cceeeeecccCC-----cccccccchhhHHHHHHHHHhhccc-------cCchhhhhccchh
Confidence 349999998643 88999999999999999 9776532 2999999999864
No 32
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=7.7e-06 Score=76.20 Aligned_cols=59 Identities=22% Similarity=0.467 Sum_probs=44.7
Q ss_pred CCcccccccccccccc-----CCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCC
Q 025846 51 PPKCCQCQAVLEEESG-----SETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVK 115 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~-----~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~ 115 (247)
+..|+||.+.|..+.+ +.+-+|.|+|+||..||.-|.--.+..| ||-|++.|.-.+.++
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqt------CPYCKekVdl~rmfs 287 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQT------CPYCKEKVDLKRMFS 287 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCC------CchHHHHhhHhhhcc
Confidence 4789999999975431 1356799999999999999955444455 999999887654443
No 33
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=2.6e-05 Score=68.72 Aligned_cols=47 Identities=28% Similarity=0.562 Sum_probs=39.2
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
-.|+|||+.+.+. .++--.|||||-.+||..-++.. .+||+|++.|-
T Consensus 132 ~~CPiCl~~~sek---~~vsTkCGHvFC~~Cik~alk~~--------~~CP~C~kkIt 178 (187)
T KOG0320|consen 132 YKCPICLDSVSEK---VPVSTKCGHVFCSQCIKDALKNT--------NKCPTCRKKIT 178 (187)
T ss_pred cCCCceecchhhc---cccccccchhHHHHHHHHHHHhC--------CCCCCcccccc
Confidence 5699999998774 46777999999999999999853 35999998664
No 34
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=97.64 E-value=5.7e-05 Score=56.19 Aligned_cols=48 Identities=13% Similarity=0.138 Sum_probs=36.4
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
-.|+|+.+-|.+ .|++++||+|=..+|..||+.. +.+||.|+.++-..
T Consensus 5 f~CpIt~~lM~d-----PVi~~~G~tyer~~I~~~l~~~-------~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 5 FLCPITGELMRD-----PVILPSGHTYERSAIERWLEQN-------GGTDPFTRQPLSES 52 (73)
T ss_dssp GB-TTTSSB-SS-----EEEETTSEEEEHHHHHHHHCTT-------SSB-TTT-SB-SGG
T ss_pred cCCcCcCcHhhC-----ceeCCcCCEEcHHHHHHHHHcC-------CCCCCCCCCcCCcc
Confidence 459999999854 8999999999999999999872 35699999988764
No 35
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.63 E-value=2.8e-05 Score=75.68 Aligned_cols=47 Identities=23% Similarity=0.542 Sum_probs=39.5
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
-.|..|.+.+-..+ +....|||.|+||..|+..+|++... -+||.||
T Consensus 366 L~Cg~CGe~~Glk~-e~LqALpCsHIfH~rCl~e~L~~n~~------rsCP~Cr 412 (518)
T KOG1941|consen 366 LYCGLCGESIGLKN-ERLQALPCSHIFHLRCLQEILENNGT------RSCPNCR 412 (518)
T ss_pred hhhhhhhhhhcCCc-ccccccchhHHHHHHHHHHHHHhCCC------CCCccHH
Confidence 78999999987665 45777999999999999999987543 4599998
No 36
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=97.41 E-value=6.5e-05 Score=69.74 Aligned_cols=46 Identities=33% Similarity=0.704 Sum_probs=40.7
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
.+|+||.+.+..+. ..+..|+|+|..|..|+...... +|+||+|.+
T Consensus 159 ~ncPic~e~l~~s~-~~~~~~~CgH~~h~~cf~e~~~~--------~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSF-EDAGVLKCGHYMHSRCFEEMICE--------GYTCPICSK 204 (276)
T ss_pred CCCchhHHHhcccc-ccCCccCcccchHHHHHHHHhcc--------CCCCCcccc
Confidence 77999999999886 56777999999999999999864 499999988
No 37
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=0.00013 Score=72.42 Aligned_cols=53 Identities=21% Similarity=0.422 Sum_probs=40.7
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
+..|+||+++-.. .++..|||+|-+.||..++....-- ..-.||+|+..|.+.
T Consensus 186 ~~~CPICL~~~~~-----p~~t~CGHiFC~~CiLqy~~~s~~~---~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSV-----PVRTNCGHIFCGPCILQYWNYSAIK---GPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCc-----ccccccCceeeHHHHHHHHhhhccc---CCccCCchhhhcccc
Confidence 3679999999633 5666799999999999998654111 234699999999883
No 38
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.20 E-value=7e-05 Score=77.80 Aligned_cols=75 Identities=20% Similarity=0.253 Sum_probs=51.7
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcc-hHHHHHHHHhh
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGS-RLHSLLKEAIM 130 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~d~~S-~l~~~Lre~i~ 130 (247)
..|++|+..+.++. ...+-+|.|.||.+||+.|-+.- +| ||+||....--.-..-.++ ++...|..-..
T Consensus 124 ~~CP~Ci~s~~DqL--~~~~k~c~H~FC~~Ci~sWsR~a--qT------CPiDR~EF~~v~V~eS~~~~~~vR~lP~EEs 193 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQL--EESEKHTAHYFCEECVGSWSRCA--QT------CPVDRGEFGEVKVLESTGIEANVRCLPSEES 193 (1134)
T ss_pred hhhhHHHHHHHHHh--hccccccccccHHHHhhhhhhhc--cc------CchhhhhhheeeeeccccccceeEecchhhh
Confidence 67999999999875 67778999999999999998764 34 9999986543211111223 55555555555
Q ss_pred hhhhhh
Q 025846 131 LTGLEK 136 (247)
Q Consensus 131 q~~WAr 136 (247)
+.+.|+
T Consensus 194 ~~~~e~ 199 (1134)
T KOG0825|consen 194 ENILEK 199 (1134)
T ss_pred hhhhhh
Confidence 554443
No 39
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.18 E-value=0.00012 Score=76.24 Aligned_cols=57 Identities=25% Similarity=0.684 Sum_probs=44.0
Q ss_pred cccCCCCCCCccccccccccccccCCeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 43 VIDGEYDWPPKCCQCQAVLEEESGSETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 43 L~Dsdyd~~~~C~ICle~L~~gD~~evvR-L~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
|....|+ |.||.+.+...+ .+-- -.||||||..||.+|.++ ...|.+++.+||.|..
T Consensus 187 l~~~~ye----CmIC~e~I~~t~--~~WSC~sCYhVFHl~CI~~WArs-~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 187 LSNRKYE----CMICTERIKRTA--PVWSCKSCYHVFHLNCIKKWARS-SEKTGQDGWRCPACQS 244 (950)
T ss_pred HhcCceE----EEEeeeeccccC--CceecchhhhhhhHHHHHHHHHH-hhhccCccccCCcccc
Confidence 3344455 999999998765 3333 269999999999999987 4556678999999974
No 40
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.15 E-value=8.2e-05 Score=70.35 Aligned_cols=68 Identities=24% Similarity=0.460 Sum_probs=50.4
Q ss_pred ccccccCCCCCCCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCC-----------C---C-CCCCCCCCCCC
Q 025846 40 SEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFP-----------P---H-TAPAGYVCPLC 104 (247)
Q Consensus 40 lqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p-----------~---n-TAPagy~CP~C 104 (247)
.++|.++... -..|.|||--|.+++ +.++-.|.|.||..||.++|...- . + +.+-.-.||+|
T Consensus 105 ~e~LT~nn~p-~gqCvICLygfa~~~--~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVc 181 (368)
T KOG4445|consen 105 SEFLTENNHP-NGQCVICLYGFASSP--AFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVC 181 (368)
T ss_pred HHHcccCCCC-CCceEEEEEeecCCC--ceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHh
Confidence 4567777643 257999999999987 899999999999999998874320 0 1 11233459999
Q ss_pred CCCccC
Q 025846 105 STTIWP 110 (247)
Q Consensus 105 r~~I~P 110 (247)
|..|--
T Consensus 182 re~i~~ 187 (368)
T KOG4445|consen 182 RERIKI 187 (368)
T ss_pred hhhccc
Confidence 998754
No 41
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.10 E-value=0.00021 Score=59.28 Aligned_cols=42 Identities=26% Similarity=0.600 Sum_probs=36.2
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
..|+||++.|.. .+.|+|+|.|=..||..++. ..+.||.||.
T Consensus 14 ~~C~iC~~~~~~-----p~~l~C~H~~c~~C~~~~~~--------~~~~Cp~cr~ 55 (386)
T KOG2177|consen 14 LTCPICLEYFRE-----PVLLPCGHNFCRACLTRSWE--------GPLSCPVCRP 55 (386)
T ss_pred ccChhhHHHhhc-----CccccccchHhHHHHHHhcC--------CCcCCcccCC
Confidence 679999999966 47789999999999999997 2367999993
No 42
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.08 E-value=0.00018 Score=76.16 Aligned_cols=51 Identities=33% Similarity=0.666 Sum_probs=38.4
Q ss_pred CccccccccccccccCCeE-Ee-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 52 PKCCQCQAVLEEESGSETT-RL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evv-RL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
..|+||-.-|..-|..... |- .|.|-||.+||-+|+++...++ ||+||..|
T Consensus 1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~------CPlCRsei 1522 (1525)
T COG5219 1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSN------CPLCRSEI 1522 (1525)
T ss_pred chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCC------CCcccccc
Confidence 6899999998743311222 22 5999999999999999875554 99999765
No 43
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00071 Score=55.39 Aligned_cols=27 Identities=33% Similarity=0.689 Sum_probs=23.5
Q ss_pred cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 025846 73 GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (247)
Q Consensus 73 ~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~ 107 (247)
.|.|.||..||.+||+... .||+|.++
T Consensus 80 ~CNHaFH~hCisrWlktr~--------vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN--------VCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHhhcC--------cCCCcCcc
Confidence 7999999999999998752 59999775
No 44
>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=96.61 E-value=0.00072 Score=51.59 Aligned_cols=30 Identities=33% Similarity=0.654 Sum_probs=27.0
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHH
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLV 84 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd 84 (247)
..|++|...|.++ ..++.||+|+||..|++
T Consensus 79 ~~C~vC~k~l~~~---~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 79 TKCSVCGKPLGNS---VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCccCcCCcCCCc---eEEEeCCCeEEeccccc
Confidence 7799999999885 58889999999999985
No 45
>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=96.54 E-value=0.0025 Score=60.22 Aligned_cols=51 Identities=20% Similarity=0.383 Sum_probs=36.6
Q ss_pred CccccccccccccccCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 52 PKCCQCQAVLEEESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
..|++|+...-... ...-| .|||.|-..||+..+...+ ..||.|+.++...
T Consensus 4 ~~CP~Ck~~~y~np--~~kl~i~~CGH~~C~sCv~~l~~~~~-------~~CP~C~~~lrk~ 56 (309)
T TIGR00570 4 QGCPRCKTTKYRNP--SLKLMVNVCGHTLCESCVDLLFVRGS-------GSCPECDTPLRKN 56 (309)
T ss_pred CCCCcCCCCCccCc--ccccccCCCCCcccHHHHHHHhcCCC-------CCCCCCCCccchh
Confidence 57999999633221 22222 6999999999999875532 3699999988764
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.42 E-value=0.002 Score=63.08 Aligned_cols=49 Identities=24% Similarity=0.541 Sum_probs=38.9
Q ss_pred Cccccccccccc-cccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEE-ESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (247)
Q Consensus 52 ~~C~ICle~L~~-gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~ 107 (247)
.+|+||++.+.- |+ ..++.|.|+|.|-..||.+||-+. + --+||.|...
T Consensus 5 ~tcpiclds~~~~g~-hr~vsl~cghlFgs~cie~wl~k~---~---~~~cp~c~~k 54 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGN-HRIVSLQCGHLFGSQCIEKWLGKK---T---KMQCPLCSGK 54 (463)
T ss_pred ccCceeeeeeeecCc-eEEeeecccccccHHHHHHHHhhh---h---hhhCcccCCh
Confidence 689999999874 44 457778999999999999999532 2 2479999764
No 47
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.33 E-value=0.0029 Score=69.84 Aligned_cols=55 Identities=24% Similarity=0.484 Sum_probs=39.3
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcC---CCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF---PPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~---p~nTAPagy~CP~Cr~~I~ 109 (247)
..|.||..+--... ..++|.|+|+||..|...-|++. |.-| -.-..||+|..+|-
T Consensus 3487 DmCmICFTE~L~AA--P~IqL~C~HiFHlqC~R~vLE~RW~GPRIt-F~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3487 DMCMICFTEALSAA--PAIQLDCSHIFHLQCCRRVLENRWLGPRIT-FGFISCPICKNKIN 3544 (3738)
T ss_pred ceEEEEehhhhCCC--cceecCCccchhHHHHHHHHHhcccCCeeE-Eeeeecccccchhh
Confidence 77999976643332 58999999999999998877653 1111 01346999988874
No 48
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=96.08 E-value=0.0037 Score=60.38 Aligned_cols=87 Identities=24% Similarity=0.499 Sum_probs=57.2
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhh
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q 131 (247)
-.|.||.+.|.. .+..+|+|.|-.-||..+|..+| .||+|..++--+ .+. +.+ .|.|.+..
T Consensus 24 LRC~IC~eyf~i-----p~itpCsHtfCSlCIR~~L~~~p--------~CP~C~~~~~Es-~Lr--~n~---il~Eiv~S 84 (442)
T KOG0287|consen 24 LRCGICFEYFNI-----PMITPCSHTFCSLCIRKFLSYKP--------QCPTCCVTVTES-DLR--NNR---ILDEIVKS 84 (442)
T ss_pred HHHhHHHHHhcC-----ceeccccchHHHHHHHHHhccCC--------CCCceecccchh-hhh--hhh---HHHHHHHH
Confidence 469999999955 56668999999999999999876 399997655432 121 122 25556666
Q ss_pred hhhhhhhcCCCCCCccccccCCCCCCCCCCc
Q 025846 132 TGLEKNLFGNHPVSLAVAESRGPPPAFASDP 162 (247)
Q Consensus 132 ~~WAr~~lG~~li~~~~~~~~~~p~af~~~~ 162 (247)
-+.+|+-|-.-|. ++..|-||-.+-|
T Consensus 85 ~~~~R~~Ll~fl~-----~~~~p~P~~~~~p 110 (442)
T KOG0287|consen 85 LNFARNHLLQFLL-----ESPAPSPASSSSP 110 (442)
T ss_pred HHHHHHHHHHHHh-----cCCCCCcccccCC
Confidence 6677754433222 2235556666666
No 49
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.01 E-value=0.004 Score=45.08 Aligned_cols=42 Identities=19% Similarity=0.363 Sum_probs=28.6
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPL 103 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~ 103 (247)
..|+|.+.+|++ -++-..|+|+|=++.|.+||+.. ....||+
T Consensus 12 ~~CPiT~~~~~~----PV~s~~C~H~fek~aI~~~i~~~------~~~~CPv 53 (57)
T PF11789_consen 12 LKCPITLQPFED----PVKSKKCGHTFEKEAILQYIQRN------GSKRCPV 53 (57)
T ss_dssp SB-TTTSSB-SS----EEEESSS--EEEHHHHHHHCTTT------S-EE-SC
T ss_pred cCCCCcCChhhC----CcCcCCCCCeecHHHHHHHHHhc------CCCCCCC
Confidence 789999999965 24446999999999999999442 3567998
No 50
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.98 E-value=0.0057 Score=58.69 Aligned_cols=49 Identities=24% Similarity=0.504 Sum_probs=37.6
Q ss_pred CCccccccccccccccCCeEEecCCCc-cCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHV-IHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~Hv-FH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~ 112 (247)
...|.||+.+.. +++.|||.|+ +-..|.+...-+ .| .||+||.+|-..-
T Consensus 290 gkeCVIClse~r-----dt~vLPCRHLCLCs~Ca~~Lr~q--~n------~CPICRqpi~~ll 339 (349)
T KOG4265|consen 290 GKECVICLSESR-----DTVVLPCRHLCLCSGCAKSLRYQ--TN------NCPICRQPIEELL 339 (349)
T ss_pred CCeeEEEecCCc-----ceEEecchhhehhHhHHHHHHHh--hc------CCCccccchHhhh
Confidence 368999999864 4999999998 678888877522 12 3999999997643
No 51
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=95.73 E-value=0.0023 Score=48.12 Aligned_cols=46 Identities=35% Similarity=0.846 Sum_probs=24.1
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~ 112 (247)
-.|++|.+-|++ .+-| .|.|+|-+.|+..-+. ..||+|++|.|-.+
T Consensus 8 LrCs~C~~~l~~-----pv~l~~CeH~fCs~Ci~~~~~----------~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKE-----PVCLGGCEHIFCSSCIRDCIG----------SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS------B---SSS--B-TTTGGGGTT----------TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcC-----CceeccCccHHHHHHhHHhcC----------CCCCCcCChHHHHH
Confidence 569999999854 6666 7999999999977553 35999999999754
No 52
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=95.61 E-value=0.0045 Score=63.90 Aligned_cols=49 Identities=20% Similarity=0.477 Sum_probs=40.7
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
.-.|++|....+ +++...|||+|-..|+...+... .-+||.|.++.-|.
T Consensus 643 ~LkCs~Cn~R~K-----d~vI~kC~H~FC~~Cvq~r~etR-------qRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 643 LLKCSVCNTRWK-----DAVITKCGHVFCEECVQTRYETR-------QRKCPKCNAAFGAN 691 (698)
T ss_pred ceeCCCccCchh-----hHHHHhcchHHHHHHHHHHHHHh-------cCCCCCCCCCCCcc
Confidence 368999997754 48888999999999999998764 34699999988764
No 53
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.0042 Score=54.75 Aligned_cols=64 Identities=23% Similarity=0.396 Sum_probs=40.9
Q ss_pred eeeccCccCccc--ccCCCC-----ceeeeecccccccCCCCCCCccccccccccccccCCeEEecCCCccCH
Q 025846 15 FVHKVPVCGECI--CFPEHQ-----ICVVRTYSEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHT 80 (247)
Q Consensus 15 f~HrvnVCe~Ci--~~~~H~-----~CvVqsYlqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~ 80 (247)
..|.-..|-.|- |.++.- .|..+--+.+=+|-=-+..-.|.||||+|+.|| .+.||||.-+||+
T Consensus 134 ~~~~g~KCPvC~K~V~sDd~e~HlvMCLtkPrlsYNdDVL~ddkGECvICLEdL~~Gd--tIARLPCLCIYHK 204 (205)
T KOG0801|consen 134 MDHSGMKCPVCHKVVPSDDAEIHLVMCLTKPRLSYNDDVLKDDKGECVICLEDLEAGD--TIARLPCLCIYHK 204 (205)
T ss_pred eccCCccCCccccccCCCcceEEEEEEecccccccccchhcccCCcEEEEhhhccCCC--ceeccceEEEeec
Confidence 345555666664 223322 455555554433321111256999999999998 8999999999996
No 54
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=95.36 E-value=0.01 Score=56.45 Aligned_cols=44 Identities=23% Similarity=0.613 Sum_probs=36.7
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
..|-||.+.|.. .+.-+|||.|-.-||..+|..+|- ||+||.+.
T Consensus 26 lrC~IC~~~i~i-----p~~TtCgHtFCslCIR~hL~~qp~--------CP~Cr~~~ 69 (391)
T COG5432 26 LRCRICDCRISI-----PCETTCGHTFCSLCIRRHLGTQPF--------CPVCREDP 69 (391)
T ss_pred HHhhhhhheeec-----ceecccccchhHHHHHHHhcCCCC--------CccccccH
Confidence 579999999844 455589999999999999998763 99997653
No 55
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.30 E-value=0.0063 Score=42.29 Aligned_cols=42 Identities=31% Similarity=0.577 Sum_probs=27.2
Q ss_pred cccccccccccccCCeEEecCC--C---ccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCL--H---VIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~--H---vFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
|-||++.-.++ .....||. = ..|.+||.+|+.... ..+|++|
T Consensus 1 CrIC~~~~~~~---~~li~pC~C~Gs~~~vH~~CL~~W~~~~~------~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEED---EPLISPCRCKGSMKYVHRSCLERWIRESG------NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSS---S-EE-SSS-SSCCGSEECCHHHHHHHHHT-------SB-TTT
T ss_pred CeEeCCcCCCC---CceecccccCCCcchhHHHHHHHHHHhcC------CCcCCCC
Confidence 67888886554 34555654 3 889999999998743 3459987
No 56
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.93 E-value=0.015 Score=52.03 Aligned_cols=68 Identities=19% Similarity=0.389 Sum_probs=46.6
Q ss_pred cccccccCCCCCCCcccccccccccccc--CCeEEecCCCccCHHHHHHHHhcCCCCCCCCCC-----CCCCCCCCccC
Q 025846 39 YSEWVIDGEYDWPPKCCQCQAVLEEESG--SETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGY-----VCPLCSTTIWP 110 (247)
Q Consensus 39 YlqWL~Dsdyd~~~~C~ICle~L~~gD~--~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy-----~CP~Cr~~I~P 110 (247)
|.++|.-+|+- ..|.||...--+|.- ....-..|+--||.-||-.||+..- |....| .||-|+.||--
T Consensus 155 a~a~Lekdd~~--~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgil--TsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 155 AAAFLEKDDEL--GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGIL--TSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred HHHhcCcchhh--hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHh--hccceeeeeeccCCCCCCccee
Confidence 45666666666 678888765544420 1223357999999999999998763 333333 49999998853
No 57
>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=94.86 E-value=0.011 Score=50.05 Aligned_cols=34 Identities=9% Similarity=0.168 Sum_probs=30.2
Q ss_pred CccccccccccccccCCeEEecCC------CccCHHHHHHHH
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCL------HVIHTSCLVSHI 87 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~------HvFH~~CLd~WL 87 (247)
..|.||++.+.+++ .+|.++|+ |+||.+|+.+|-
T Consensus 27 ~EC~IC~~~I~~~~--GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 27 VECQICFDRIDNND--GVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred eeehhhhhhhhcCC--CEEEEecCCeehHHHHHHHHHHHHHH
Confidence 67999999998843 79999988 999999999994
No 58
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.61 E-value=0.0095 Score=57.48 Aligned_cols=50 Identities=24% Similarity=0.519 Sum_probs=41.0
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
...|+|||+-|.. .....-|+|-|-.+||..=++.. +..||+||+.+.-.
T Consensus 43 ~v~c~icl~llk~----tmttkeClhrfc~~ci~~a~r~g-------n~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 43 QVICPICLSLLKK----TMTTKECLHRFCFDCIWKALRSG-------NNECPTCRKKLVSK 92 (381)
T ss_pred hhccHHHHHHHHh----hcccHHHHHHHHHHHHHHHHHhc-------CCCCchHHhhcccc
Confidence 3679999999976 35667899999999999999863 45699999987653
No 59
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.021 Score=54.22 Aligned_cols=47 Identities=21% Similarity=0.405 Sum_probs=37.2
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
..|+||+.... -.++|.|+|.|-..||.--..... .+|++||.+|.-
T Consensus 8 ~eC~IC~nt~n-----~Pv~l~C~HkFCyiCiKGsy~ndk-------~~CavCR~pids 54 (324)
T KOG0824|consen 8 KECLICYNTGN-----CPVNLYCFHKFCYICIKGSYKNDK-------KTCAVCRFPIDS 54 (324)
T ss_pred CcceeeeccCC-----cCccccccchhhhhhhcchhhcCC-------CCCceecCCCCc
Confidence 67999998753 479999999999999976655432 249999999863
No 60
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.06 E-value=0.062 Score=48.67 Aligned_cols=50 Identities=30% Similarity=0.681 Sum_probs=40.8
Q ss_pred CccccccccccccccCCeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 52 PKCCQCQAVLEEESGSETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvR-L~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
+.|-||.++|..+|+..+-| |.|||.|=..|+.+.+... ...||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~-------~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS-------RILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCc-------eeeccCCCCcc
Confidence 57999999999876434444 7899999999999998763 34689999987
No 61
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.02 E-value=0.03 Score=56.92 Aligned_cols=73 Identities=19% Similarity=0.386 Sum_probs=53.7
Q ss_pred CCCCceeeeecccccccCCCCCCCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 29 PEHQICVVRTYSEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 29 ~~H~~CvVqsYlqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
.+|+-=|+.|-..-|.|.+-. ...|.+|.++-+ +.+.-.|+|+|-+.||.+++..+..+ .+.+||+|...+
T Consensus 515 aDHP~LVl~S~~~n~~~enk~-~~~C~lc~d~ae-----d~i~s~ChH~FCrlCi~eyv~~f~~~---~nvtCP~C~i~L 585 (791)
T KOG1002|consen 515 ADHPDLVLYSANANLPDENKG-EVECGLCHDPAE-----DYIESSCHHKFCRLCIKEYVESFMEN---NNVTCPVCHIGL 585 (791)
T ss_pred ccCcceeeehhhcCCCccccC-ceeecccCChhh-----hhHhhhhhHHHHHHHHHHHHHhhhcc---cCCCCccccccc
Confidence 477777776544444444322 378999998843 36677899999999999999987654 468999998776
Q ss_pred cC
Q 025846 109 WP 110 (247)
Q Consensus 109 ~P 110 (247)
--
T Consensus 586 si 587 (791)
T KOG1002|consen 586 SI 587 (791)
T ss_pred cc
Confidence 54
No 62
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.77 E-value=0.038 Score=52.99 Aligned_cols=56 Identities=20% Similarity=0.514 Sum_probs=37.8
Q ss_pred CCccccccccccccccCCeEE---e-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 51 PPKCCQCQAVLEEESGSETTR---L-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvR---L-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
+..|.||++...+-- ....| | +|.|.|-..||+.|-.....++ .-...||.||.+.
T Consensus 161 ~k~CGICme~i~ek~-~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~-~~sksCP~CRv~s 220 (344)
T KOG1039|consen 161 EKECGICMETINEKA-ASERRFGILPNCNHSFCLNCIRKWRQATQFES-KTSKSCPFCRVPS 220 (344)
T ss_pred cccceehhhhccccc-hhhhhcccCCCcchhhhhcHhHhhhhhhcccc-ccccCCCcccCcc
Confidence 478999999986532 11233 3 5999999999999974332111 1245799998764
No 63
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.60 E-value=0.078 Score=46.25 Aligned_cols=48 Identities=21% Similarity=0.444 Sum_probs=34.3
Q ss_pred CCccccccccccccccCCeEEec--CCC---ccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLG--CLH---VIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~--C~H---vFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
+..|-||.++-. + +. -| |.. ..|.+||..|+..... -.|++|+++.--
T Consensus 8 ~~~CRIC~~~~~--~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~------~~CeiC~~~Y~i 60 (162)
T PHA02825 8 DKCCWICKDEYD--V--VT--NYCNCKNENKIVHKECLEEWINTSKN------KSCKICNGPYNI 60 (162)
T ss_pred CCeeEecCCCCC--C--cc--CCcccCCCchHHHHHHHHHHHhcCCC------CcccccCCeEEE
Confidence 488999987731 1 22 35 545 6699999999987533 359999988654
No 64
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.57 E-value=0.061 Score=52.96 Aligned_cols=73 Identities=21% Similarity=0.243 Sum_probs=47.8
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhh
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q 131 (247)
-.|.||.++....+ ..+-|+|.|||-+.|+..++...-...--...+||.+.-.=..+.. .|++.+..
T Consensus 185 f~C~ICf~e~~G~~--c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g----------~vKelvg~ 252 (445)
T KOG1814|consen 185 FDCCICFEEQMGQH--CFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPG----------QVKELVGD 252 (445)
T ss_pred ccceeeehhhcCcc--eeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCch----------HHHHHHHH
Confidence 34999999976544 6777899999999999999876543322234567766543222221 46666665
Q ss_pred hhhhh
Q 025846 132 TGLEK 136 (247)
Q Consensus 132 ~~WAr 136 (247)
.-.||
T Consensus 253 EL~ar 257 (445)
T KOG1814|consen 253 ELFAR 257 (445)
T ss_pred HHHHH
Confidence 55444
No 65
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=92.92 E-value=0.041 Score=54.36 Aligned_cols=48 Identities=29% Similarity=0.549 Sum_probs=38.1
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
.|-||-+. | +++..-+|||++-..||-.|-.+-. |-+||-||..|--.
T Consensus 371 LCKICaen----d-KdvkIEPCGHLlCt~CLa~WQ~sd~------gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 371 LCKICAEN----D-KDVKIEPCGHLLCTSCLAAWQDSDE------GQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHhhcc----C-CCcccccccchHHHHHHHhhcccCC------CCCCCceeeEeccc
Confidence 68888765 2 4577779999999999999986642 45699999988654
No 66
>PHA02862 5L protein; Provisional
Probab=92.43 E-value=0.11 Score=44.98 Aligned_cols=48 Identities=25% Similarity=0.455 Sum_probs=34.4
Q ss_pred CccccccccccccccCCeEEecC-----CCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGC-----LHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C-----~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
+.|-||.++= ++ + + -|| .-..|.+||.+|+..... -.|++|+.+..-.
T Consensus 3 diCWIC~~~~--~e--~-~-~PC~C~GS~K~VHq~CL~~WIn~S~k------~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVC--DE--R-N-NFCGCNEEYKVVHIKCMQLWINYSKK------KECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcC--CC--C-c-ccccccCcchhHHHHHHHHHHhcCCC------cCccCCCCeEEEE
Confidence 6799999872 22 2 2 354 478999999999965432 3599999987543
No 67
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.34 E-value=0.049 Score=57.54 Aligned_cols=40 Identities=30% Similarity=0.673 Sum_probs=33.3
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
..|..|...|+- ..|...|+|.||..|+. ++ ...||.|+.
T Consensus 841 skCs~C~~~Ldl----P~VhF~CgHsyHqhC~e---~~--------~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDL----PFVHFLCGHSYHQHCLE---DK--------EDKCPKCLP 880 (933)
T ss_pred eeecccCCcccc----ceeeeecccHHHHHhhc---cC--------cccCCccch
Confidence 689999999966 47888999999999999 22 246999965
No 68
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.29 E-value=0.26 Score=44.78 Aligned_cols=67 Identities=15% Similarity=0.188 Sum_probs=44.9
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC--CCCCcchHHHHHHHH
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN--VKDSGSRLHSLLKEA 128 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~--i~d~~S~l~~~Lre~ 128 (247)
-.|+|...+|...- -.+.| +|||||=..+|.+-- .. -.||+|.+++-..+- +.+... -.+.|+++
T Consensus 114 ~~CPvt~~~~~~~~--~fv~l~~cG~V~s~~alke~k---~~------~~Cp~c~~~f~~~DiI~Lnp~~e-e~~~l~~~ 181 (260)
T PF04641_consen 114 FICPVTGKEFNGKH--KFVYLRPCGCVFSEKALKELK---KS------KKCPVCGKPFTEEDIIPLNPPEE-ELEKLRER 181 (260)
T ss_pred eECCCCCcccCCce--eEEEEcCCCCEeeHHHHHhhc---cc------ccccccCCccccCCEEEecCCcc-HHHHHHHH
Confidence 56999999995442 56666 999999999999983 11 249999999774322 122222 34556655
Q ss_pred hh
Q 025846 129 IM 130 (247)
Q Consensus 129 i~ 130 (247)
+.
T Consensus 182 ~~ 183 (260)
T PF04641_consen 182 ME 183 (260)
T ss_pred HH
Confidence 53
No 69
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.00 E-value=0.076 Score=56.30 Aligned_cols=36 Identities=28% Similarity=0.561 Sum_probs=30.6
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (247)
..|.+|..+|... .-...+|||.||+.||.+.....
T Consensus 818 d~C~~C~~~ll~~---pF~vf~CgH~FH~~Cl~~~v~~~ 853 (911)
T KOG2034|consen 818 DSCDHCGRPLLIK---PFYVFPCGHCFHRDCLIRHVLSL 853 (911)
T ss_pred cchHHhcchhhcC---cceeeeccchHHHHHHHHHHHcc
Confidence 7899999999774 36667999999999999997665
No 70
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.66 E-value=0.054 Score=40.15 Aligned_cols=48 Identities=23% Similarity=0.582 Sum_probs=32.5
Q ss_pred CCCccccccccccccccCCeEEecCCCc-cCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 50 WPPKCCQCQAVLEEESGSETTRLGCLHV-IHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 50 ~~~~C~ICle~L~~gD~~evvRL~C~Hv-FH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
|...|.||.+.-.+ .|.-.|||. +-.+|-.+..+.. +-.||+||++|-
T Consensus 6 ~~dECTICye~pvd-----sVlYtCGHMCmCy~Cg~rl~~~~-------~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVD-----SVLYTCGHMCMCYACGLRLKKAL-------HGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcch-----HHHHHcchHHhHHHHHHHHHHcc-------CCcCcchhhHHH
Confidence 34789999886322 455589997 4566766655543 336999999873
No 71
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=91.39 E-value=0.052 Score=51.86 Aligned_cols=48 Identities=31% Similarity=0.636 Sum_probs=40.2
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
-.|.+|.+.|-+. ++.--|+|.|-..||-++|... + .||.|...|--.
T Consensus 16 itC~LC~GYliDA----TTI~eCLHTFCkSCivk~l~~~--~------~CP~C~i~ih~t 63 (331)
T KOG2660|consen 16 ITCRLCGGYLIDA----TTITECLHTFCKSCIVKYLEES--K------YCPTCDIVIHKT 63 (331)
T ss_pred eehhhccceeecc----hhHHHHHHHHHHHHHHHHHHHh--c------cCCccceeccCc
Confidence 6799999999773 6667799999999999999873 3 399999888653
No 72
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.98 E-value=0.13 Score=50.16 Aligned_cols=46 Identities=26% Similarity=0.586 Sum_probs=37.0
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
-.|.||..-|.. .+.++|||.|-..||++-+.+.. .||.||.++.-
T Consensus 85 f~c~vc~~~l~~-----pv~tpcghs~c~~Cl~r~ld~~~--------~cp~Cr~~l~e 130 (398)
T KOG4159|consen 85 FECCVCSRALYP-----PVVTPCGHSFCLECLDRSLDQET--------ECPLCRDELVE 130 (398)
T ss_pred hhhhhhHhhcCC-----CccccccccccHHHHHHHhccCC--------CCccccccccc
Confidence 459999888754 66669999999999999666432 49999999984
No 73
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.89 E-value=0.23 Score=46.88 Aligned_cols=50 Identities=22% Similarity=0.440 Sum_probs=39.2
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
...|++|.+.=.. --+..+|+|+|---|+..-+.-- +.++||.|..+.-|
T Consensus 239 ~~~C~~Cg~~Pti----P~~~~~C~HiyCY~Ci~ts~~~~------asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 239 DTECPVCGEPPTI----PHVIGKCGHIYCYYCIATSRLWD------ASFTCPLCGENVEP 288 (298)
T ss_pred CceeeccCCCCCC----Ceeeccccceeehhhhhhhhcch------hhcccCccCCCCcc
Confidence 4789999987322 24456799999999999887642 57889999998875
No 74
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=89.49 E-value=0.36 Score=34.37 Aligned_cols=45 Identities=24% Similarity=0.504 Sum_probs=20.1
Q ss_pred cccccccccccccCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 54 CCQCQAVLEEESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
|++|.++|...| ...+ .|++-+=+.|...-++. .+-.||.||++.
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 789999996554 4444 58876666666655542 245799999863
No 75
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=89.13 E-value=0.3 Score=47.15 Aligned_cols=51 Identities=22% Similarity=0.572 Sum_probs=41.4
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNV 114 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i 114 (247)
-.|++|...+.+- +....|+|.|=..|+++|+..++ .||.|+..+.....+
T Consensus 22 l~C~~C~~vl~~p----~~~~~cgh~fC~~C~~~~~~~~~--------~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 22 LLCPICMSVLRDP----VQTTTCGHRFCAGCLLESLSNHQ--------KCPVCRQELTQAEEL 72 (391)
T ss_pred ccCccccccccCC----CCCCCCCCcccccccchhhccCc--------CCcccccccchhhcc
Confidence 5699999999763 33379999999999999998732 499999998876444
No 76
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.98 E-value=0.38 Score=45.07 Aligned_cols=49 Identities=18% Similarity=0.253 Sum_probs=41.0
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
-.|+||...|.+.. ....| +|||||-.+|..+.++.- -.||+|.+++--
T Consensus 222 yiCpvtrd~LtNt~--~ca~Lr~sg~Vv~~ecvEklir~D--------~v~pv~d~plkd 271 (303)
T KOG3039|consen 222 YICPVTRDTLTNTT--PCAVLRPSGHVVTKECVEKLIRKD--------MVDPVTDKPLKD 271 (303)
T ss_pred eecccchhhhcCcc--ceEEeccCCcEeeHHHHHHhcccc--------ccccCCCCcCcc
Confidence 45999999998864 66777 899999999999999763 369999988754
No 77
>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 PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=88.33 E-value=0.24 Score=36.29 Aligned_cols=34 Identities=29% Similarity=0.539 Sum_probs=26.9
Q ss_pred CeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 68 ETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 68 evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
.-+.|+|+|+.=..|.+-+=-+ .||.|.+++.+.
T Consensus 19 ~~~~~pCgH~I~~~~f~~~rYn----------gCPfC~~~~~~~ 52 (55)
T PF14447_consen 19 KGTVLPCGHLICDNCFPGERYN----------GCPFCGTPFEFD 52 (55)
T ss_pred ccccccccceeeccccChhhcc----------CCCCCCCcccCC
Confidence 3566899999999998876433 299999999875
No 79
>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=88.08 E-value=0.26 Score=33.72 Aligned_cols=43 Identities=19% Similarity=0.581 Sum_probs=21.8
Q ss_pred cccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
|.+|.+-...|. ......|.=.+|..|+..+++..... +||.|
T Consensus 1 C~~C~~iv~~G~--~C~~~~C~~r~H~~C~~~y~r~~~~~------~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQ--RCSNRDCNVRLHDDCFKKYFRHRSNP------KCPNC 43 (43)
T ss_dssp -TTT-SB-SSSE--E-SS--S--EE-HHHHHHHTTT-SS-------B-TTT
T ss_pred CcccchhHeeec--cCCCCccCchHHHHHHHHHHhcCCCC------CCcCC
Confidence 556666655542 22222477789999999999876432 59988
No 80
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.14 E-value=0.37 Score=46.60 Aligned_cols=44 Identities=27% Similarity=0.633 Sum_probs=31.5
Q ss_pred CCCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 50 WPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 50 ~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
.++.|.||+++..+ .+-++|||+-- |..-... .+ +||+||..|-
T Consensus 304 ~p~lcVVcl~e~~~-----~~fvpcGh~cc--ct~cs~~-l~--------~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS-----AVFVPCGHVCC--CTLCSKH-LP--------QCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc-----eeeecCCcEEE--chHHHhh-CC--------CCchhHHHHH
Confidence 46899999998644 78899999943 4444332 11 4999998774
No 81
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.98 E-value=0.55 Score=46.01 Aligned_cols=53 Identities=23% Similarity=0.325 Sum_probs=41.5
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
--.|+|=.+.=.+.. -+.+|.||||.=.+-|++..++.. ..|+||-|-....+
T Consensus 334 vF~CPVlKeqtsdeN--PPm~L~CGHVISkdAlnrLS~ng~-----~sfKCPYCP~e~~~ 386 (394)
T KOG2817|consen 334 VFICPVLKEQTSDEN--PPMMLICGHVISKDALNRLSKNGS-----QSFKCPYCPVEQLA 386 (394)
T ss_pred eeecccchhhccCCC--CCeeeeccceecHHHHHHHhhCCC-----eeeeCCCCCcccCH
Confidence 367999888766554 799999999999999999987643 25899999554443
No 82
>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=86.97 E-value=0.86 Score=39.85 Aligned_cols=54 Identities=22% Similarity=0.447 Sum_probs=35.9
Q ss_pred CccccccccccccccCCeEEecC------------C-CccCHHHHHHHHhcCCCCC-----------------------C
Q 025846 52 PKCCQCQAVLEEESGSETTRLGC------------L-HVIHTSCLVSHIKSFPPHT-----------------------A 95 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C------------~-HvFH~~CLd~WL~~~p~nT-----------------------A 95 (247)
..|+||++-=.+ .|-|.| . -.-|..|||++-+.....+ .
T Consensus 3 ~~CpICme~PHN-----AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (162)
T PF07800_consen 3 VTCPICMEHPHN-----AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQE 77 (162)
T ss_pred ccCceeccCCCc-----eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccc
Confidence 679999987544 344443 2 3459999999976543221 1
Q ss_pred CCCCCCCCCCCCccC
Q 025846 96 PAGYVCPLCSTTIWP 110 (247)
Q Consensus 96 Pagy~CP~Cr~~I~P 110 (247)
.....||+||..|.-
T Consensus 78 ~~~L~CPLCRG~V~G 92 (162)
T PF07800_consen 78 QPELACPLCRGEVKG 92 (162)
T ss_pred cccccCccccCceec
Confidence 126789999999874
No 83
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.36 E-value=0.41 Score=45.49 Aligned_cols=64 Identities=23% Similarity=0.336 Sum_probs=47.5
Q ss_pred CCCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchHHHHHHHHh
Q 025846 50 WPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAI 129 (247)
Q Consensus 50 ~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i 129 (247)
.|..|-||...|.. .|+-.|+|.|-..|..+-++..+ .|++|.+.+.-..++ +.-|...|+..-
T Consensus 240 ~Pf~c~icr~~f~~-----pVvt~c~h~fc~~ca~~~~qk~~--------~c~vC~~~t~g~~~~---akeL~~~L~~kk 303 (313)
T KOG1813|consen 240 LPFKCFICRKYFYR-----PVVTKCGHYFCEVCALKPYQKGE--------KCYVCSQQTHGSFNV---AKELLVSLKLKK 303 (313)
T ss_pred CCcccccccccccc-----chhhcCCceeehhhhccccccCC--------cceecccccccccch---HHHHHHHHHhhh
Confidence 35779999999955 78889999999999999887643 599999988754332 344555555443
No 84
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=85.84 E-value=0.52 Score=49.98 Aligned_cols=36 Identities=25% Similarity=0.462 Sum_probs=28.4
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (247)
..|++|.-..... -.+-+.|+|+.|..|..+|++..
T Consensus 1029 ~~C~~C~l~V~gs---s~~Cg~C~Hv~H~sc~~eWf~~g 1064 (1081)
T KOG0309|consen 1029 FQCAICHLAVRGS---SNFCGTCGHVGHTSCMMEWFRTG 1064 (1081)
T ss_pred eeeeeEeeEeecc---chhhccccccccHHHHHHHHhcC
Confidence 3488887666543 36667899999999999999865
No 85
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=83.88 E-value=1.3 Score=32.42 Aligned_cols=32 Identities=19% Similarity=0.396 Sum_probs=27.6
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHH
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVS 85 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~ 85 (247)
..|.+|.+.|+++| ++|.= .|+=.+|++|-+.
T Consensus 6 ~~C~~Cg~~~~~~d--DiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDGD--DIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCCC--CEEECCCCCCcccHHHHhh
Confidence 68999999999876 78886 5999999999654
No 86
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=83.64 E-value=0.96 Score=42.93 Aligned_cols=49 Identities=20% Similarity=0.422 Sum_probs=35.7
Q ss_pred ccccccccccccccCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 53 KCCQCQAVLEEESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
.|++|...---.. .++.| +|+|..-.+|.|.-+...+ +.||-|++.+--
T Consensus 2 ~Cp~CKt~~Y~np--~lk~~in~C~H~lCEsCvd~iF~~g~-------~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNP--DLKLMINECGHRLCESCVDRIFSLGP-------AQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCc--cceeeeccccchHHHHHHHHHHhcCC-------CCCCcccchhhh
Confidence 4888876543221 24443 7999999999999998754 469999887654
No 87
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.91 E-value=0.7 Score=43.45 Aligned_cols=60 Identities=25% Similarity=0.463 Sum_probs=42.3
Q ss_pred CCccccccccccccccCCeE--EecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC---ccCCCC
Q 025846 51 PPKCCQCQAVLEEESGSETT--RLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT---IWPPKN 113 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evv--RL~C~-----HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~---I~P~~~ 113 (247)
+-.|=||...=++. ... .-||. |=.|.+||..|+..+..+.+-+...||.|++. ++|+-.
T Consensus 20 eR~CWiCF~TdeDn---~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~ 89 (293)
T KOG3053|consen 20 ERCCWICFATDEDN---RLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLG 89 (293)
T ss_pred ceeEEEEeccCccc---chhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccC
Confidence 47899998763222 111 12554 88999999999988766555677889999997 456543
No 88
>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=80.75 E-value=0.65 Score=43.50 Aligned_cols=47 Identities=23% Similarity=0.501 Sum_probs=36.7
Q ss_pred CCccccccccccccccCCeEEe--c-CCCccCHHHHHHHHhcCCCCCCCCCCCCC--CCCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRL--G-CLHVIHTSCLVSHIKSFPPHTAPAGYVCP--LCST 106 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL--~-C~HvFH~~CLd~WL~~~p~nTAPagy~CP--~Cr~ 106 (247)
+..|+||..+---.. ++..| | |+|-+-.+|.|+-|...|+ +|| -|.+
T Consensus 10 d~~CPvCksDrYLnP--dik~linPECyHrmCESCvdRIFs~GpA-------qCP~~gC~k 61 (314)
T COG5220 10 DRRCPVCKSDRYLNP--DIKILINPECYHRMCESCVDRIFSRGPA-------QCPYKGCGK 61 (314)
T ss_pred cccCCccccccccCC--CeEEEECHHHHHHHHHHHHHHHhcCCCC-------CCCCccHHH
Confidence 368999988755433 46666 4 9999999999999988775 499 7854
No 89
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.21 E-value=0.15 Score=50.09 Aligned_cols=50 Identities=16% Similarity=0.280 Sum_probs=41.2
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
..|+||.+.|+..- +.+..+.|+|..|..||.+||.... +||.|+..+--
T Consensus 197 ~sl~I~~~slK~~y-~k~~~~~~g~~~~~~kL~k~L~~~~--------kl~~~~rel~~ 246 (465)
T KOG0827|consen 197 GSLSICFESLKQNY-DKISAIVCGHIYHHGKLSKWLATKR--------KLPSCRRELPK 246 (465)
T ss_pred hhhHhhHHHHHHHH-HHHHHHhhcccchhhHHHHHHHHHH--------HhHHHHhhhhh
Confidence 57999999998762 2577789999999999999998742 59999998753
No 90
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=79.38 E-value=0.78 Score=41.95 Aligned_cols=47 Identities=19% Similarity=0.448 Sum_probs=38.9
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
|..|.||.++++. .|.-.|||.|-..|.-.-.+..+ .|-+|.+...-
T Consensus 196 PF~C~iCKkdy~s-----pvvt~CGH~FC~~Cai~~y~kg~--------~C~~Cgk~t~G 242 (259)
T COG5152 196 PFLCGICKKDYES-----PVVTECGHSFCSLCAIRKYQKGD--------ECGVCGKATYG 242 (259)
T ss_pred ceeehhchhhccc-----hhhhhcchhHHHHHHHHHhccCC--------cceecchhhcc
Confidence 4689999999854 67789999999999998887643 59999887664
No 91
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=76.85 E-value=2.2 Score=41.93 Aligned_cols=46 Identities=28% Similarity=0.531 Sum_probs=34.2
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~ 107 (247)
..+|.||.+.+.- +.++||+|-.--.|-...-.-. ....||+||+.
T Consensus 61 n~~C~ICA~~~TY-----s~~~PC~H~~CH~Ca~RlRALY------~~K~C~~CrTE 106 (493)
T COG5236 61 NMNCQICAGSTTY-----SARYPCGHQICHACAVRLRALY------MQKGCPLCRTE 106 (493)
T ss_pred cceeEEecCCceE-----EEeccCCchHHHHHHHHHHHHH------hccCCCccccc
Confidence 4799999988744 6789999999888877652211 12359999986
No 92
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=76.17 E-value=1.3 Score=39.55 Aligned_cols=53 Identities=23% Similarity=0.402 Sum_probs=37.8
Q ss_pred CccccccccccccccCCeEEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~-----HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
..|-||..+..... .+....+|. +..|..|++.|+.... ...|..|.....+.
T Consensus 79 ~~cRIc~~~~~~~~-~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~------~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 79 PICRICHEEDEESN-GLLLISPCSCKGSLAYVHRSCLEKWFSIKG------NITCEICKSFFINV 136 (323)
T ss_pred CcEEEEeccccccc-ccccccCccccCcHHHHHHHHHHhhhcccc------Ceeeecccccceec
Confidence 56999999876543 123444554 7789999999998543 34699998866553
No 93
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=74.28 E-value=4 Score=28.63 Aligned_cols=45 Identities=22% Similarity=0.532 Sum_probs=19.5
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHH--HHHhcCCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLV--SHIKSFPPHTAPAGYVCPLCSTT 107 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd--~WL~~~p~nTAPagy~CP~Cr~~ 107 (247)
-.|+|....+.. .+|- .|.|+ +|+| .||.....+ ..+.||+|.++
T Consensus 3 L~CPls~~~i~~-----P~Rg~~C~H~---~CFDl~~fl~~~~~~---~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI-----PVRGKNCKHL---QCFDLESFLESNQRT---PKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS-----EEEETT--SS-----EEHHHHHHHHHHS------B-TTT---
T ss_pred eeCCCCCCEEEe-----CccCCcCccc---ceECHHHHHHHhhcc---CCeECcCCcCc
Confidence 357887777743 6664 79976 4643 455543322 24889999874
No 94
>PHA03096 p28-like protein; Provisional
Probab=73.22 E-value=2.1 Score=40.18 Aligned_cols=39 Identities=13% Similarity=0.141 Sum_probs=27.9
Q ss_pred Ccccccccccccccc--CCeEEe-cCCCccCHHHHHHHHhcC
Q 025846 52 PKCCQCQAVLEEESG--SETTRL-GCLHVIHTSCLVSHIKSF 90 (247)
Q Consensus 52 ~~C~ICle~L~~gD~--~evvRL-~C~HvFH~~CLd~WL~~~ 90 (247)
-.|.||++...+... ..=..| .|.|.|-..|+..|....
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~ 220 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTES 220 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhh
Confidence 469999998765310 111225 599999999999997654
No 95
>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=72.92 E-value=2.9 Score=29.24 Aligned_cols=36 Identities=33% Similarity=0.645 Sum_probs=23.5
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
.|+.|.+.|.... |...+....... ...+.||+|..
T Consensus 4 ~CP~C~~~~~~~~-----------------L~~H~~~~H~~~-~~~v~CPiC~~ 39 (54)
T PF05605_consen 4 TCPYCGKGFSESS-----------------LVEHCEDEHRSE-SKNVVCPICSS 39 (54)
T ss_pred CCCCCCCccCHHH-----------------HHHHHHhHCcCC-CCCccCCCchh
Confidence 5999999776544 555554443322 24688999975
No 96
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=68.12 E-value=4.4 Score=34.50 Aligned_cols=29 Identities=24% Similarity=0.437 Sum_probs=24.1
Q ss_pred CCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhh
Q 025846 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (247)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q 131 (247)
+|.||.|..++..-+ ++.+.++|+++|.+
T Consensus 128 ~F~Cp~Cg~~L~~~d-----n~~~i~~l~~~i~~ 156 (158)
T TIGR00373 128 NFTCPRCGAMLDYLD-----NSEAIEKLEEQIKF 156 (158)
T ss_pred CCcCCCCCCEeeecc-----CHHHHHHHHHHHHh
Confidence 789999999988654 47889999998864
No 97
>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=68.03 E-value=0.26 Score=33.44 Aligned_cols=47 Identities=19% Similarity=0.444 Sum_probs=31.3
Q ss_pred cccccccccccccCCeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 54 CCQCQAVLEEESGSETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 54 C~ICle~L~~gD~~evvR-L~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
|.||.....++ +.+. -.|.-.||..|+..-....... ...+.||.|+
T Consensus 2 C~vC~~~~~~~---~~i~C~~C~~~~H~~C~~~~~~~~~~~--~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDDDG---DMIQCDSCNRWYHQECVGPPEKAEEIP--SGDWYCPNCR 49 (51)
T ss_dssp BTTTTSSCTTS---SEEEBSTTSCEEETTTSTSSHSHHSHH--SSSBSSHHHH
T ss_pred CcCCCCcCCCC---CeEEcCCCChhhCcccCCCChhhccCC--CCcEECcCCc
Confidence 88999843332 3444 3799999999998765533211 1378899885
No 98
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=67.78 E-value=2.3 Score=41.19 Aligned_cols=44 Identities=27% Similarity=0.600 Sum_probs=31.7
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
.-|--|-.++.. --|| +|.|||-.+|...--. ..||.|...|.-
T Consensus 91 HfCd~Cd~PI~I-----YGRmIPCkHvFCl~CAr~~~d----------K~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 91 HFCDRCDFPIAI-----YGRMIPCKHVFCLECARSDSD----------KICPLCDDRVQR 135 (389)
T ss_pred EeecccCCccee-----eecccccchhhhhhhhhcCcc----------ccCcCcccHHHH
Confidence 467888777644 4565 8999999999754332 359999887754
No 99
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=66.89 E-value=3.5 Score=39.92 Aligned_cols=43 Identities=26% Similarity=0.675 Sum_probs=34.7
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
..|++|..-|.+ .++- -|+|.|-.+||..-|.. ..|.||.|.+
T Consensus 275 LkCplc~~Llrn-----p~kT~cC~~~fc~eci~~al~d-------sDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN-----PMKTPCCGHTFCDECIGTALLD-------SDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC-----cccCccccchHHHHHHhhhhhh-------ccccCCCccc
Confidence 689999998866 3444 69999999999977654 3688999976
No 100
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=66.20 E-value=5.9 Score=34.52 Aligned_cols=31 Identities=32% Similarity=0.461 Sum_probs=25.4
Q ss_pred CCCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhhh
Q 025846 97 AGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIMLT 132 (247)
Q Consensus 97 agy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q~ 132 (247)
.+|.||.|...+..-+ ++.+.++|+++|.+-
T Consensus 135 ~~F~Cp~Cg~~L~~~d-----n~~~~~~l~~~I~~l 165 (178)
T PRK06266 135 YGFRCPQCGEMLEEYD-----NSELIKELKEQIKEL 165 (178)
T ss_pred cCCcCCCCCCCCeecc-----cHHHHHHHHHHHHHH
Confidence 3789999999998754 478889999988865
No 101
>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=63.91 E-value=6.6 Score=24.11 Aligned_cols=37 Identities=22% Similarity=0.525 Sum_probs=24.1
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
.|..|.+.+..++ .....=+..||.+|+ +|..|+.+|
T Consensus 1 ~C~~C~~~i~~~~---~~~~~~~~~~H~~Cf----------------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGE---LVLRALGKVWHPECF----------------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCc---EEEEeCCccccccCC----------------CCcccCCcC
Confidence 3888988887652 222233668887764 488887765
No 102
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.33 E-value=2.8 Score=44.03 Aligned_cols=46 Identities=22% Similarity=0.368 Sum_probs=37.0
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
..|.||+..|.... -+.+-|.|+|+.-..|+..-..+ +|| |...=+
T Consensus 12 l~c~ic~n~f~~~~-~~Pvsl~cghtic~~c~~~lyn~----------scp-~~~De~ 57 (861)
T KOG3161|consen 12 LLCDICLNLFVVQR-LEPVSLQCGHTICGHCVQLLYNA----------SCP-TKRDED 57 (861)
T ss_pred hhchHHHHHHHHHh-cCcccccccchHHHHHHHhHhhc----------cCC-CCcccc
Confidence 57999999998765 57888999999999999887765 399 655444
No 103
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=61.79 E-value=4.2 Score=35.84 Aligned_cols=38 Identities=32% Similarity=0.718 Sum_probs=25.4
Q ss_pred Cccccccc-----cccccccCCeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQA-----VLEEESGSETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 52 ~~C~ICle-----~L~~gD~~evvR-L~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
..|.+|.. +|+.. .+++ -.|+-+||.+|..+ . .||-|.
T Consensus 153 fiCe~C~~~~~IfPF~~~---~~~~C~~C~~v~H~~C~~~---~----------~CpkC~ 196 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQID---TTVRCPKCKSVFHKSCFRK---K----------SCPKCA 196 (202)
T ss_pred CCCccCCCCCCCCCCCCC---CeeeCCcCccccchhhcCC---C----------CCCCcH
Confidence 34777764 22231 4666 47999999999883 1 299994
No 104
>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=61.31 E-value=10 Score=28.05 Aligned_cols=48 Identities=23% Similarity=0.528 Sum_probs=38.0
Q ss_pred CccccccccccccccCCeEEecCC--CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCL--HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~--HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~ 112 (247)
++|-.|-.+|..+. .....|. -+|-.+|.+..|.. .||.|...+.+.+
T Consensus 6 pnCE~C~~dLp~~s---~~A~ICSfECTFC~~C~e~~l~~----------~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDS---PEAYICSFECTFCADCAETMLNG----------VCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCC---CcceEEeEeCcccHHHHHHHhcC----------cCcCCCCccccCC
Confidence 88999999997753 4555555 47999999999965 4999999888753
No 105
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.17 E-value=3.7 Score=43.67 Aligned_cols=38 Identities=18% Similarity=0.418 Sum_probs=28.3
Q ss_pred Ccccccccccccccc--CCeEEecCCCccCHHHHHHHHhc
Q 025846 52 PKCCQCQAVLEEESG--SETTRLGCLHVIHTSCLVSHIKS 89 (247)
Q Consensus 52 ~~C~ICle~L~~gD~--~evvRL~C~HvFH~~CLd~WL~~ 89 (247)
..|..|.++.-.... ..++++.|+|+||.+|+-.-..+
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~ 824 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR 824 (846)
T ss_pred hhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh
Confidence 578888777652210 25889999999999999877655
No 106
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=58.96 E-value=7.1 Score=38.00 Aligned_cols=47 Identities=23% Similarity=0.393 Sum_probs=36.9
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
.-.|+|=.+.-.+.. -.+-|.||||.-.+-|+..-+... -.|+||-|
T Consensus 336 ~FiCPVlKe~~t~EN--pP~ml~CgHVIskeal~~LS~nG~-----~~FKCPYC 382 (396)
T COG5109 336 LFICPVLKELCTDEN--PPVMLECGHVISKEALSVLSQNGV-----LSFKCPYC 382 (396)
T ss_pred eeeccccHhhhcccC--CCeeeeccceeeHHHHHHHhhcCc-----EEeeCCCC
Confidence 367998877765554 688899999999999998776532 37999999
No 107
>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=58.32 E-value=6.3 Score=26.80 Aligned_cols=39 Identities=18% Similarity=0.433 Sum_probs=29.5
Q ss_pred cccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
|..|.+.+..+ +.+...-+..||.+|+ +|-.|+++|.+.
T Consensus 1 C~~C~~~I~~~---~~~~~~~~~~~H~~Cf----------------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGT---EIVIKAMGKFWHPECF----------------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSS---SEEEEETTEEEETTTS----------------BETTTTCBTTTS
T ss_pred CCCCCCCccCc---EEEEEeCCcEEEcccc----------------ccCCCCCccCCC
Confidence 78899998864 3554467788998763 599999988764
No 108
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.54 E-value=2.7 Score=41.04 Aligned_cols=68 Identities=22% Similarity=0.459 Sum_probs=48.5
Q ss_pred cCcccccCCCCceeeeecccccccCCCC-----C----CCccccccccccccccC---CeEEecCCCccCHHHHHHHHhc
Q 025846 22 CGECICFPEHQICVVRTYSEWVIDGEYD-----W----PPKCCQCQAVLEEESGS---ETTRLGCLHVIHTSCLVSHIKS 89 (247)
Q Consensus 22 Ce~Ci~~~~H~~CvVqsYlqWL~Dsdyd-----~----~~~C~ICle~L~~gD~~---evvRL~C~HvFH~~CLd~WL~~ 89 (247)
|..|. .+.|..+..+....||+....+ | ...|+.|..+++...+- ......|.|.|+|-|+..|-.+
T Consensus 189 C~~C~-~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 189 CFACG-EESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred Hhhcc-ccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 66787 4889999999999998754321 1 24599999999765310 1112259999999999999876
Q ss_pred C
Q 025846 90 F 90 (247)
Q Consensus 90 ~ 90 (247)
.
T Consensus 268 ~ 268 (444)
T KOG1815|consen 268 G 268 (444)
T ss_pred c
Confidence 4
No 109
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=56.55 E-value=4.2 Score=37.43 Aligned_cols=32 Identities=38% Similarity=0.697 Sum_probs=23.4
Q ss_pred eEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 69 TTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 69 vvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
.-.| .|+|||-..|.-.=.. -.||+|+++|--
T Consensus 17 ~f~LTaC~HvfC~~C~k~~~~----------~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 17 PFFLTACRHVFCEPCLKASSP----------DVCPLCKKSIRI 49 (233)
T ss_pred ceeeeechhhhhhhhcccCCc----------cccccccceeee
Confidence 5566 7999999999743222 169999998643
No 110
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=56.11 E-value=7.9 Score=38.13 Aligned_cols=54 Identities=19% Similarity=0.309 Sum_probs=35.0
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNV 114 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i 114 (247)
.-|++|.++++-.| +.----+||--.-.-|.+.--+.+ |. +||.||+-.. .+|+
T Consensus 15 d~cplcie~mditd-knf~pc~cgy~ic~fc~~~irq~l--ng-----rcpacrr~y~-denv 68 (480)
T COG5175 15 DYCPLCIEPMDITD-KNFFPCPCGYQICQFCYNNIRQNL--NG-----RCPACRRKYD-DENV 68 (480)
T ss_pred ccCccccccccccc-CCcccCCcccHHHHHHHHHHHhhc--cC-----CChHhhhhcc-ccce
Confidence 66999999998876 344445788665555655444332 22 6999998544 3443
No 111
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=55.96 E-value=6.1 Score=39.54 Aligned_cols=18 Identities=28% Similarity=0.573 Sum_probs=14.4
Q ss_pred cccceeeeeccCccCccc
Q 025846 9 ATKLYCFVHKVPVCGECI 26 (247)
Q Consensus 9 ~T~~fCf~HrvnVCe~Ci 26 (247)
+-..|=++-.+.-||.|+
T Consensus 313 ~Gq~FY~v~~k~~CE~cy 330 (468)
T KOG1701|consen 313 AGQSFYQVDGKPYCEGCY 330 (468)
T ss_pred ccccccccCCcccchHHH
Confidence 666777788888888887
No 112
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=55.11 E-value=11 Score=35.76 Aligned_cols=58 Identities=26% Similarity=0.392 Sum_probs=35.5
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchHHHHHHHHh
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAI 129 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i 129 (247)
...|+||.+.|.. -.+.|. -+|..|-.=-.+.. ..||.|+.+|- ++ .++..+++-|.+
T Consensus 48 lleCPvC~~~l~~------Pi~QC~-nGHlaCssC~~~~~--------~~CP~Cr~~~g---~~---R~~amEkV~e~~ 105 (299)
T KOG3002|consen 48 LLDCPVCFNPLSP------PIFQCD-NGHLACSSCRTKVS--------NKCPTCRLPIG---NI---RCRAMEKVAEAV 105 (299)
T ss_pred hccCchhhccCcc------cceecC-CCcEehhhhhhhhc--------ccCCccccccc---cH---HHHHHHHHHHhc
Confidence 3579999999854 345663 34444444332221 24999999886 23 466677765543
No 113
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=54.85 E-value=3.2 Score=42.72 Aligned_cols=26 Identities=42% Similarity=0.896 Sum_probs=19.8
Q ss_pred CeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 025846 68 ETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (247)
Q Consensus 68 evvR-L~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~C 104 (247)
.+.| +.|+++||..|+..--. .||.|
T Consensus 530 ~~~rC~~C~avfH~~C~~r~s~-----------~CPrC 556 (580)
T KOG1829|consen 530 NTRRCSTCLAVFHKKCLRRKSP-----------CCPRC 556 (580)
T ss_pred cceeHHHHHHHHHHHHHhccCC-----------CCCch
Confidence 4556 68999999999875432 29999
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=53.91 E-value=5.7 Score=41.65 Aligned_cols=51 Identities=25% Similarity=0.439 Sum_probs=41.5
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
...|+||.+.+.+ .+.+.|.|.|=..|++.-|...+ +...||+|+..+--.
T Consensus 21 ~lEc~ic~~~~~~-----p~~~kc~~~~l~~~~n~~f~~~~-----~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 21 ILECPICLEHVKE-----PSLLKCDHIFLKFCLNKLFESKK-----GPKQCALCKSDIEKR 71 (684)
T ss_pred hccCCceeEEeec-----cchhhhhHHHHhhhhhceeeccC-----ccccchhhhhhhhhh
Confidence 3689999999865 57889999999999999988754 256799999877643
No 115
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=47.96 E-value=19 Score=30.28 Aligned_cols=29 Identities=17% Similarity=0.479 Sum_probs=22.2
Q ss_pred CCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhh
Q 025846 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (247)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q 131 (247)
..+||.|.. .++.|++++++..||..+.+
T Consensus 40 ~LRC~vCqn-----qsiadSna~iA~dmR~~Vr~ 68 (126)
T PRK10144 40 QLRCPQCQN-----QNLLESNAPVAVSMRHQVYS 68 (126)
T ss_pred cCCCCCCCC-----CChhhcCCHHHHHHHHHHHH
Confidence 467999955 45677788999988887663
No 116
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.92 E-value=3.7 Score=39.43 Aligned_cols=41 Identities=27% Similarity=0.554 Sum_probs=28.5
Q ss_pred CccccccccccccccCCeEEecCCCcc-CHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVI-HTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvF-H~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
..|.||++.- .+.+-|.|||.. -.+|-...- .||+||+-|.
T Consensus 301 ~LC~ICmDaP-----~DCvfLeCGHmVtCt~CGkrm~------------eCPICRqyi~ 342 (350)
T KOG4275|consen 301 RLCAICMDAP-----RDCVFLECGHMVTCTKCGKRMN------------ECPICRQYIV 342 (350)
T ss_pred HHHHHHhcCC-----cceEEeecCcEEeehhhccccc------------cCchHHHHHH
Confidence 6799998763 248999999975 344433222 3999998765
No 117
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=46.64 E-value=19 Score=38.56 Aligned_cols=36 Identities=28% Similarity=0.274 Sum_probs=26.6
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (247)
..|.+|.-.+..-+ +---.|+|.-|.+||.+|+...
T Consensus 780 ~~CtVC~~vi~G~~---~~c~~C~H~gH~sh~~sw~~~~ 815 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVD---VWCQVCGHGGHDSHLKSWFFKA 815 (839)
T ss_pred cCceeecceeeeeE---eecccccccccHHHHHHHHhcC
Confidence 46888877765421 2223699999999999999864
No 118
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=46.60 E-value=5.9 Score=25.81 Aligned_cols=26 Identities=27% Similarity=0.589 Sum_probs=21.2
Q ss_pred cccceeeeeccCccCcccccCCCCcee
Q 025846 9 ATKLYCFVHKVPVCGECICFPEHQICV 35 (247)
Q Consensus 9 ~T~~fCf~HrvnVCe~Ci~~~~H~~Cv 35 (247)
..++||...++.+|..|+. ..|..-.
T Consensus 13 ~~~~~C~~C~~~~C~~C~~-~~H~~H~ 38 (42)
T PF00643_consen 13 PLSLFCEDCNEPLCSECTV-SGHKGHK 38 (42)
T ss_dssp BEEEEETTTTEEEEHHHHH-TSTTTSE
T ss_pred ceEEEecCCCCccCccCCC-CCCCCCE
Confidence 3899999999999999996 4476533
No 119
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=44.98 E-value=14 Score=40.08 Aligned_cols=48 Identities=19% Similarity=0.428 Sum_probs=35.0
Q ss_pred CccccccccccccccCCeEEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~-----HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
..|-||..+=..+| ..-=||. -..|.+||-+|+... +...|-+|..++
T Consensus 13 ~~CRICr~e~~~d~---pLfhPCKC~GSIkYiH~eCL~eW~~~s------~~~kCdiChy~~ 65 (1175)
T COG5183 13 RSCRICRTEDIRDD---PLFHPCKCSGSIKYIHRECLMEWMECS------GTKKCDICHYEY 65 (1175)
T ss_pred hhceeecCCCCCCC---cCcccccccchhHHHHHHHHHHHHhcC------CCcceeeeccee
Confidence 68999998855543 3333554 468999999999853 234699999775
No 120
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=44.17 E-value=21 Score=30.01 Aligned_cols=29 Identities=24% Similarity=0.508 Sum_probs=21.9
Q ss_pred CCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhh
Q 025846 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (247)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q 131 (247)
..+||.|.. .++.|++++++..||..+.+
T Consensus 40 ~LRC~vCqn-----qsiadS~a~iA~dmR~~Vr~ 68 (126)
T TIGR03147 40 SLRCPQCQN-----QNLVESNSPIAYDLRHEVYS 68 (126)
T ss_pred hCCCCCCCC-----CChhhcCCHHHHHHHHHHHH
Confidence 467999955 45677788998888887663
No 121
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=43.44 E-value=20 Score=34.71 Aligned_cols=50 Identities=22% Similarity=0.347 Sum_probs=37.6
Q ss_pred CCccccccccccccccCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
++.|++|-+++...| -..| +|++..++.|+..-.... .+||.||++.+-.
T Consensus 249 ~~s~p~~~~~~~~~d---~~~lP~~~~~~~~l~~~~t~~~~~--------~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTD---SNFLPCPCGFRLCLFCHKTISDGD--------GRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccc---cccccccccccchhhhhhcccccC--------CCCCccCCccccC
Confidence 478999999986665 4444 688888888877766543 4699999888754
No 122
>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=43.20 E-value=20 Score=34.95 Aligned_cols=36 Identities=19% Similarity=0.455 Sum_probs=25.2
Q ss_pred CCCccCHHHHHHHHhcCCCCCCCC-----CCCCCCCCCCcc
Q 025846 74 CLHVIHTSCLVSHIKSFPPHTAPA-----GYVCPLCSTTIW 109 (247)
Q Consensus 74 C~HvFH~~CLd~WL~~~p~nTAPa-----gy~CP~Cr~~I~ 109 (247)
|.-..-.+|+-+|+.+...+..|. .-.||+||+..-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 556677899999987765443332 446999998753
No 123
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=40.05 E-value=18 Score=34.28 Aligned_cols=53 Identities=25% Similarity=0.516 Sum_probs=39.7
Q ss_pred CccccccccccccccCCeEEec-----CCCccCHHHHHH-HHhcCCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLG-----CLHVIHTSCLVS-HIKSFPPHTAPAGYVCPLCSTT 107 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~-----C~HvFH~~CLd~-WL~~~p~nTAPagy~CP~Cr~~ 107 (247)
..|-+|.+++.+.| -.|+. |.=++|..||-. -+.-.+.|--|-+-.||.|++-
T Consensus 183 ~~celc~~ei~e~~---~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 183 VECELCEKEILETD---WSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred hhhHHHHHHhcccc---ceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 58999999996543 44442 788999999999 4555555555667789999873
No 124
>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=38.91 E-value=10 Score=37.65 Aligned_cols=50 Identities=24% Similarity=0.333 Sum_probs=0.0
Q ss_pred Ccccccccccccc---------ccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 025846 52 PKCCQCQAVLEEE---------SGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (247)
Q Consensus 52 ~~C~ICle~L~~g---------D~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~ 106 (247)
+.|+|=+..|.-- +.+--|-|.||||+-+ ..|-..... .+...+||+|+.
T Consensus 278 pQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg~~~~~--~~~~r~CPlCr~ 336 (416)
T PF04710_consen 278 PQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWGQDSDR--DPRSRTCPLCRQ 336 (416)
T ss_dssp ----------------------------------------------------------------
T ss_pred CCCCcCCCccccccccccccccccCceeeccccceeee---ccccccccc--ccccccCCCccc
Confidence 6677777666411 0012344789999875 467543321 123567999975
No 125
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=38.59 E-value=19 Score=36.13 Aligned_cols=32 Identities=28% Similarity=0.691 Sum_probs=24.7
Q ss_pred CCcccccccccccccc-CCeEEecCC-CccCHHH
Q 025846 51 PPKCCQCQAVLEEESG-SETTRLGCL-HVIHTSC 82 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~-~evvRL~C~-HvFH~~C 82 (247)
.+.|++|.+++-..|+ +++||..|. --||.+|
T Consensus 394 APrCs~C~~PI~P~~G~~etvRvvamdr~fHv~C 427 (468)
T KOG1701|consen 394 APRCSVCGNPILPRDGKDETVRVVAMDRDFHVNC 427 (468)
T ss_pred CcchhhccCCccCCCCCcceEEEEEccccccccc
Confidence 4899999999975554 458998776 4688777
No 126
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=37.78 E-value=13 Score=31.10 Aligned_cols=17 Identities=24% Similarity=0.681 Sum_probs=14.0
Q ss_pred CCCCCCCCCCCccCCCC
Q 025846 97 AGYVCPLCSTTIWPPKN 113 (247)
Q Consensus 97 agy~CP~Cr~~I~P~~~ 113 (247)
..|.||.|...|...+|
T Consensus 122 ~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 122 GTFTCPRCGEELEEDDN 138 (147)
T ss_pred CcEECCCCCCEEEEcCc
Confidence 34999999999988654
No 127
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=36.61 E-value=27 Score=28.50 Aligned_cols=35 Identities=17% Similarity=0.274 Sum_probs=26.2
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcC
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (247)
.|.||.+++-.|. .-...=.=+.||+|+..-+...
T Consensus 4 kC~iCg~~I~~gq---lFTF~~kG~VH~~C~~~~~~~k 38 (101)
T PF09943_consen 4 KCYICGKPIYEGQ---LFTFTKKGPVHYECFREKASKK 38 (101)
T ss_pred EEEecCCeeeecc---eEEEecCCcEeHHHHHHHHhhh
Confidence 4999999998874 3333333688999999988654
No 128
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=36.55 E-value=16 Score=38.22 Aligned_cols=47 Identities=26% Similarity=0.449 Sum_probs=36.2
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
..|.+|++ + + ..+.-.|+|.|=.+|+..-++.... -.||.|+..+--
T Consensus 455 ~~c~ic~~-~---~--~~~it~c~h~~c~~c~~~~i~~~~~------~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-L---D--SFFITRCGHDFCVECLKKSIQQSEN------APCPLCRNVLKE 501 (674)
T ss_pred cccccccc-c---c--cceeecccchHHHHHHHhccccccC------CCCcHHHHHHHH
Confidence 46999999 2 1 4777799999999999998876422 169999987654
No 129
>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=36.18 E-value=12 Score=37.18 Aligned_cols=75 Identities=24% Similarity=0.336 Sum_probs=0.0
Q ss_pred eeecccccccCCCC-CCCccccccccc-----ccc-------ccC-CeEE-ecCCCccCHHHHHHHHhcC-CCCCCCCCC
Q 025846 36 VRTYSEWVIDGEYD-WPPKCCQCQAVL-----EEE-------SGS-ETTR-LGCLHVIHTSCLVSHIKSF-PPHTAPAGY 99 (247)
Q Consensus 36 VqsYlqWL~Dsdyd-~~~~C~ICle~L-----~~g-------D~~-evvR-L~C~HvFH~~CLd~WL~~~-p~nTAPagy 99 (247)
|+-|-.|-.+.+-+ ....|++|+..= .-| |.. .+-. -||||+--.+...-|-+-- |..|.--.-
T Consensus 312 VhG~h~Wg~~~~~~~~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a 391 (416)
T PF04710_consen 312 VHGYHNWGQDSDRDPRSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHA 391 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred eeeecccccccccccccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccc
Confidence 67788897766531 237899998641 111 100 1222 3899999999999996543 333322234
Q ss_pred CCCCCCCCccC
Q 025846 100 VCPLCSTTIWP 110 (247)
Q Consensus 100 ~CP~Cr~~I~P 110 (247)
.||-|..+|-.
T Consensus 392 ~CPFCa~~L~g 402 (416)
T PF04710_consen 392 ACPFCATPLDG 402 (416)
T ss_dssp -----------
T ss_pred cCCcccCcccC
Confidence 69999888864
No 130
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.99 E-value=20 Score=34.80 Aligned_cols=39 Identities=23% Similarity=0.368 Sum_probs=29.3
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (247)
...|.||..+....+ +.-..+.|+|-|=.+|..++++..
T Consensus 146 ~~~C~iC~~e~~~~~-~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAE-DMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHh-hhHHHhcccchhhhHHhHHHhhhh
Confidence 368999995555443 123356899999999999999865
No 131
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.93 E-value=39 Score=27.67 Aligned_cols=36 Identities=22% Similarity=0.428 Sum_probs=27.7
Q ss_pred ccccccccccccccCCeEEecCCCccCHHHHHHHHhcCC
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFP 91 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p 91 (247)
.|.||.+++.+|. .-...=.-..|++|+.+-.++++
T Consensus 8 kC~VCg~~iieGq---kFTF~~kGsVH~eCl~~s~~~k~ 43 (103)
T COG4847 8 KCYVCGGTIIEGQ---KFTFTKKGSVHYECLAESKRKKP 43 (103)
T ss_pred eEeeeCCEeeecc---EEEEeeCCcchHHHHHHHHhcCc
Confidence 3999999999984 33332266789999999988764
No 132
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.91 E-value=70 Score=31.30 Aligned_cols=87 Identities=21% Similarity=0.277 Sum_probs=56.0
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCC-CCCCC--CCCCccCCCCCCCCcchHHHHHHHH
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAG-YVCPL--CSTTIWPPKNVKDSGSRLHSLLKEA 128 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPag-y~CP~--Cr~~I~P~~~i~d~~S~l~~~Lre~ 128 (247)
..|.||.+.+.. +++++.|+|.|=..|...++..+-... +.. .+||. |...+-+. .+....++. .+.++
T Consensus 71 ~~c~ic~~~~~~----~~~~~~c~H~~c~~cw~~yl~~kI~~~-~~~~i~cp~~~C~a~v~~~-~i~~~~s~~--~~~~k 142 (444)
T KOG1815|consen 71 VQCGICVESYDG----EIIGLGCGHPFCPPCWTGYLGTKIHEG-EEAKIKCPAHGCPALVGED-TVEKLVSDK--EDKEK 142 (444)
T ss_pred ccCCcccCCCcc----hhhhcCCCcHHHHHHHHHHhhheeecc-ccccccCCCCCccccCCCc-eeeeecCCH--HHHHH
Confidence 679999999755 488999999999999999987653222 111 45664 54444332 233233332 36666
Q ss_pred hhhhhhhhhhcCCCCCCc
Q 025846 129 IMLTGLEKNLFGNHPVSL 146 (247)
Q Consensus 129 i~q~~WAr~~lG~~li~~ 146 (247)
+...-+..++=++..++.
T Consensus 143 y~~~i~~syve~~~~lkw 160 (444)
T KOG1815|consen 143 YQRYILRSYVEDNVPLKW 160 (444)
T ss_pred HHHHHHHHHHhcCCcccc
Confidence 666666667767766553
No 133
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=33.22 E-value=29 Score=35.44 Aligned_cols=35 Identities=26% Similarity=0.501 Sum_probs=28.8
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCC
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFP 91 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p 91 (247)
-.|+||..-|+ +.+.|+|+|-+-..|...-+-+-|
T Consensus 5 lkc~vc~~f~~-----epiil~c~h~lc~~ca~~~~~~tp 39 (699)
T KOG4367|consen 5 LKCPVCGSFYR-----EPIILPCSHNLCQACARNILVQTP 39 (699)
T ss_pred ccCceehhhcc-----CceEeecccHHHHHHHHhhcccCC
Confidence 67999998874 489999999999999887765543
No 134
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=33.12 E-value=46 Score=32.51 Aligned_cols=45 Identities=18% Similarity=0.284 Sum_probs=34.7
Q ss_pred CccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
..|+||+..-.+ .++--.-|=||-+.|+.+++..+. .||+=..|+
T Consensus 301 ~~CpvClk~r~N----ptvl~vSGyVfCY~Ci~~Yv~~~~--------~CPVT~~p~ 345 (357)
T KOG0826|consen 301 EVCPVCLKKRQN----PTVLEVSGYVFCYPCIFSYVVNYG--------HCPVTGYPA 345 (357)
T ss_pred ccChhHHhccCC----CceEEecceEEeHHHHHHHHHhcC--------CCCccCCcc
Confidence 689999999765 255556788999999999998653 499865443
No 135
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.94 E-value=41 Score=26.44 Aligned_cols=48 Identities=23% Similarity=0.538 Sum_probs=37.5
Q ss_pred CCccccccccccccccCCeEEecCC--CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCL--HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~--HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~ 111 (247)
-++|--|-.+|-.+. ...+.|- |.|-..|...-|... ||.|...+.-.
T Consensus 5 RPnCECCDrDLpp~s---~dA~ICtfEcTFCadCae~~l~g~----------CPnCGGelv~R 54 (84)
T COG3813 5 RPNCECCDRDLPPDS---TDARICTFECTFCADCAENRLHGL----------CPNCGGELVAR 54 (84)
T ss_pred cCCCcccCCCCCCCC---CceeEEEEeeehhHhHHHHhhcCc----------CCCCCchhhcC
Confidence 378999999987653 5556564 899999999988763 99999887754
No 136
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=31.90 E-value=23 Score=36.62 Aligned_cols=38 Identities=21% Similarity=0.437 Sum_probs=28.4
Q ss_pred Cccccccccccc---cc-c----CCeEEecCCCccCHHHHHHHHhc
Q 025846 52 PKCCQCQAVLEE---ES-G----SETTRLGCLHVIHTSCLVSHIKS 89 (247)
Q Consensus 52 ~~C~ICle~L~~---gD-~----~evvRL~C~HvFH~~CLd~WL~~ 89 (247)
..|+||.+.|++ .+ + ++.|+|.=|-+||..|+..-..+
T Consensus 514 ~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~~~ 559 (579)
T KOG2071|consen 514 ASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKRAQ 559 (579)
T ss_pred cCCcccccccceeecchhhheeecceeeeccCceeeccccchHHHh
Confidence 789999999973 11 0 34777777889999999877533
No 138
>PF15353 HECA: Headcase protein family homologue
Probab=31.82 E-value=35 Score=28.23 Aligned_cols=22 Identities=18% Similarity=0.428 Sum_probs=17.2
Q ss_pred CeEEecC-------CCccCHHHHHHHHhc
Q 025846 68 ETTRLGC-------LHVIHTSCLVSHIKS 89 (247)
Q Consensus 68 evvRL~C-------~HvFH~~CLd~WL~~ 89 (247)
+.|++.| ++.+|.+|++.|=.+
T Consensus 27 d~vkv~Cnne~Cp~~~~MH~~CF~~wE~~ 55 (107)
T PF15353_consen 27 DGVKVICNNESCPFGQYMHRECFEKWEDS 55 (107)
T ss_pred ccEEEEeCCCCCCCCCchHHHHHHHHHHH
Confidence 5777644 689999999999554
No 139
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=31.56 E-value=41 Score=29.74 Aligned_cols=30 Identities=20% Similarity=0.361 Sum_probs=22.7
Q ss_pred CCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhhh
Q 025846 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIMLT 132 (247)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q~ 132 (247)
+|+||.|...+---. +|+..+.|++++.+.
T Consensus 132 ~F~Cp~Cg~~L~~~d-----~s~~i~~l~~~i~~l 161 (176)
T COG1675 132 GFTCPKCGEDLEEYD-----SSEEIEELESELDEL 161 (176)
T ss_pred CCCCCCCCchhhhcc-----chHHHHHHHHHHHHH
Confidence 578999999887543 477888888877653
No 140
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=31.43 E-value=46 Score=28.32 Aligned_cols=29 Identities=21% Similarity=0.531 Sum_probs=18.9
Q ss_pred CCCCCCCCCCccCCCCCCCCcchHHHHHHHHhhh
Q 025846 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (247)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~q 131 (247)
...||.|.. .++.+++++++..||+.+.+
T Consensus 40 ~LrCp~Cq~-----qsi~~s~a~~A~dmR~~I~~ 68 (148)
T PF03918_consen 40 ELRCPVCQN-----QSIADSNAPIARDMRREIRE 68 (148)
T ss_dssp CCE-TTTTS------CTTT--SHHHHHHHHHHHH
T ss_pred cccCCCCCC-----CchhhcCcHHHHHHHHHHHH
Confidence 357999965 35667778999998887763
No 141
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=31.41 E-value=29 Score=22.80 Aligned_cols=13 Identities=38% Similarity=0.723 Sum_probs=9.8
Q ss_pred ccccccccccccc
Q 025846 53 KCCQCQAVLEEES 65 (247)
Q Consensus 53 ~C~ICle~L~~gD 65 (247)
.|+-|...|.-.|
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5888888887655
No 142
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=30.82 E-value=57 Score=24.55 Aligned_cols=46 Identities=24% Similarity=0.596 Sum_probs=34.1
Q ss_pred CCccccccccccccccCCeEEe---cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRL---GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL---~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
++.|.-|...|..+. .-+.. +||-+.=+.|..---.. +-|+||.|.
T Consensus 9 ~~~CtSCg~~i~p~e--~~v~F~CPnCGe~~I~Rc~~CRk~g-------~~Y~Cp~CG 57 (61)
T COG2888 9 PPVCTSCGREIAPGE--TAVKFPCPNCGEVEIYRCAKCRKLG-------NPYRCPKCG 57 (61)
T ss_pred CceeccCCCEeccCC--ceeEeeCCCCCceeeehhhhHHHcC-------CceECCCcC
Confidence 478999999997764 44443 58988888887665443 359999995
No 143
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=30.21 E-value=32 Score=24.46 Aligned_cols=12 Identities=42% Similarity=1.309 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCC
Q 025846 96 PAGYVCPLCSTT 107 (247)
Q Consensus 96 Pagy~CP~Cr~~ 107 (247)
|..++||+|+.+
T Consensus 32 p~~w~CP~C~a~ 43 (50)
T cd00730 32 PDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCCCc
Confidence 567899999753
No 144
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=28.61 E-value=28 Score=37.80 Aligned_cols=60 Identities=8% Similarity=0.078 Sum_probs=41.5
Q ss_pred CccccccccccccccCCeEEe---cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRL---GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNV 114 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL---~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i 114 (247)
..|.+|..+|.+.+ +..-.+ .|+|-|-..||..|+.++-. ++..-.|+.|...|..=..+
T Consensus 97 ~Ss~~C~~E~S~~~-ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~--~~k~c~H~FC~~Ci~sWsR~ 159 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDV-DSSNICPVQTHVENQCPNCLKSCNDQLEE--SEKHTAHYFCEECVGSWSRC 159 (1134)
T ss_pred cccchhheecCCcc-cccCcCchhhhhhhhhhHHHHHHHHHhhc--cccccccccHHHHhhhhhhh
Confidence 57888888887633 223334 49999999999999877632 33445688888777654333
No 145
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=27.40 E-value=33 Score=20.59 Aligned_cols=8 Identities=50% Similarity=1.389 Sum_probs=5.4
Q ss_pred CCCCCCCc
Q 025846 101 CPLCSTTI 108 (247)
Q Consensus 101 CP~Cr~~I 108 (247)
||.|.++|
T Consensus 16 C~~CG~~l 23 (23)
T PF13240_consen 16 CPNCGTPL 23 (23)
T ss_pred hhhhCCcC
Confidence 77776654
No 146
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=26.69 E-value=33 Score=24.14 Aligned_cols=12 Identities=42% Similarity=1.342 Sum_probs=7.2
Q ss_pred CCCCCCCCCCCC
Q 025846 96 PAGYVCPLCSTT 107 (247)
Q Consensus 96 Pagy~CP~Cr~~ 107 (247)
|..++||+|..+
T Consensus 32 p~~w~CP~C~a~ 43 (47)
T PF00301_consen 32 PDDWVCPVCGAP 43 (47)
T ss_dssp -TT-B-TTTSSB
T ss_pred CCCCcCcCCCCc
Confidence 567899999764
No 147
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.46 E-value=1.2e+02 Score=29.00 Aligned_cols=50 Identities=18% Similarity=0.204 Sum_probs=35.1
Q ss_pred CccccccccccccccCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 025846 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P~~~ 113 (247)
-.|+|=.-+|...- .-..| .|||||-..-|.+.=.+ .|++|..+.--.+.
T Consensus 112 fiCPvtgleMng~~--~F~~l~~CGcV~SerAlKeikas----------~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 112 FICPVTGLEMNGKY--RFCALRCCGCVFSERALKEIKAS----------VCHVCGAAYQEDDV 162 (293)
T ss_pred eecccccceecceE--EEEEEeccceeccHHHHHHhhhc----------cccccCCcccccCe
Confidence 56888777764421 33334 89999999999876543 49999998765544
No 148
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=25.85 E-value=57 Score=24.32 Aligned_cols=46 Identities=30% Similarity=0.738 Sum_probs=29.1
Q ss_pred CCccccccccccccccCCeEEe---cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 025846 51 PPKCCQCQAVLEEESGSETTRL---GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL---~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr 105 (247)
++.|..|...|...+ .-++. .||.+.=+.|-.=--+. +.|+||.|.
T Consensus 7 ~~~CtSCg~~i~~~~--~~~~F~CPnCG~~~I~RC~~CRk~~-------~~Y~CP~CG 55 (59)
T PRK14890 7 PPKCTSCGIEIAPRE--KAVKFLCPNCGEVIIYRCEKCRKQS-------NPYTCPKCG 55 (59)
T ss_pred CccccCCCCcccCCC--ccCEeeCCCCCCeeEeechhHHhcC-------CceECCCCC
Confidence 367888888887653 24444 47777555565433222 468899985
No 149
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=25.77 E-value=35 Score=24.38 Aligned_cols=40 Identities=30% Similarity=0.570 Sum_probs=19.4
Q ss_pred cccccCCCCCCCccccccccccccccCCeEEe---cCCCccCHHHHHHHH
Q 025846 41 EWVIDGEYDWPPKCCQCQAVLEEESGSETTRL---GCLHVIHTSCLVSHI 87 (247)
Q Consensus 41 qWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL---~C~HvFH~~CLd~WL 87 (247)
+|+.|.+- ..|.+|...|.- ...|- .||++|=..|....+
T Consensus 2 ~W~~d~~~---~~C~~C~~~F~~----~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 2 HWVPDSEA---SNCMICGKKFSL----FRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SSSGGG----SB-TTT--B-BS----SS-EEE-TTT--EEECCCS-EEE
T ss_pred CcCCCCCC---CcCcCcCCcCCC----ceeeEccCCCCCEECCchhCCEE
Confidence 58877654 489999999933 23332 688888776665443
No 150
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.54 E-value=27 Score=31.29 Aligned_cols=40 Identities=28% Similarity=0.664 Sum_probs=26.0
Q ss_pred ccccccccccccccCCeEEecCCCccC-HHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 025846 53 KCCQCQAVLEEESGSETTRLGCLHVIH-TSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (247)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH-~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~ 109 (247)
.|-.|.+. + ..++-|||.|+-| ..|-.. +. .||+|+.+..
T Consensus 160 ~Cr~C~~~--~---~~VlllPCrHl~lC~~C~~~-~~-----------~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGER--E---ATVLLLPCRHLCLCGICDES-LR-----------ICPICRSPKT 200 (207)
T ss_pred cceecCcC--C---ceEEeecccceEeccccccc-Cc-----------cCCCCcChhh
Confidence 38888765 2 1366679998765 445444 22 3999987664
No 151
>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=23.52 E-value=29 Score=30.01 Aligned_cols=27 Identities=30% Similarity=0.869 Sum_probs=20.7
Q ss_pred cCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 025846 78 IHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (247)
Q Consensus 78 FH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I 108 (247)
||..||+.=|..-|. ....||.|...-
T Consensus 2 ~H~~CL~Ppl~~~P~----g~W~Cp~C~~~~ 28 (148)
T cd04718 2 FHLCCLRPPLKEVPE----GDWICPFCEVEK 28 (148)
T ss_pred cccccCCCCCCCCCC----CCcCCCCCcCCC
Confidence 899999988876654 357899997543
No 152
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.90 E-value=56 Score=32.56 Aligned_cols=47 Identities=23% Similarity=0.407 Sum_probs=35.0
Q ss_pred CCccccccccccccccCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 025846 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (247)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTAPagy~CP~Cr~~I~P 110 (247)
+..|+||-..=. ..+--||+|-=-..||.+++.+.+ .|=-|++.+.-
T Consensus 422 d~lCpICyA~pi-----~Avf~PC~H~SC~~CI~qHlmN~k--------~CFfCktTv~~ 468 (489)
T KOG4692|consen 422 DNLCPICYAGPI-----NAVFAPCSHRSCYGCITQHLMNCK--------RCFFCKTTVID 468 (489)
T ss_pred cccCcceecccc-----hhhccCCCCchHHHHHHHHHhcCC--------eeeEecceeee
Confidence 378999965411 134459999999999999998643 59999887763
No 153
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=22.61 E-value=30 Score=24.08 Aligned_cols=39 Identities=26% Similarity=0.418 Sum_probs=19.0
Q ss_pred HHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchHHHHHHHHhh
Q 025846 83 LVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIM 130 (247)
Q Consensus 83 Ld~WL~~~p~nTAPagy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~ 130 (247)
+.+++...... .+ .||+|.+++-+.. ...|...++..+.
T Consensus 9 ~~k~i~~l~~~---~~-~CPlC~r~l~~e~-----~~~li~~~~~~i~ 47 (54)
T PF04423_consen 9 LKKYIEELKEA---KG-CCPLCGRPLDEEH-----RQELIKKYKSEIE 47 (54)
T ss_dssp HHHHHHHHTT----SE-E-TTT--EE-HHH-----HHHHHHHHHHHHH
T ss_pred HHHHHHHHhcC---CC-cCCCCCCCCCHHH-----HHHHHHHHHHHHH
Confidence 45555544321 12 7999999998643 2455666655543
No 154
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.60 E-value=47 Score=29.82 Aligned_cols=16 Identities=25% Similarity=0.758 Sum_probs=13.4
Q ss_pred CCCCCCCCCCCccCCC
Q 025846 97 AGYVCPLCSTTIWPPK 112 (247)
Q Consensus 97 agy~CP~Cr~~I~P~~ 112 (247)
+|++||+|.+.+.+.+
T Consensus 137 ~g~KCPvC~K~V~sDd 152 (205)
T KOG0801|consen 137 SGMKCPVCHKVVPSDD 152 (205)
T ss_pred CCccCCccccccCCCc
Confidence 5899999999887754
No 155
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=22.39 E-value=67 Score=28.07 Aligned_cols=28 Identities=21% Similarity=0.561 Sum_probs=20.6
Q ss_pred CCCCCCCCCCccCCCCCCCCcchHHHHHHHHhh
Q 025846 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIM 130 (247)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~S~l~~~Lre~i~ 130 (247)
..+||.|.. .+|.|++.+++.-||..+-
T Consensus 44 ~LRCp~CQN-----qsIadSnA~IA~DlR~~V~ 71 (153)
T COG3088 44 ELRCPQCQN-----QSIADSNAPIARDLRHQVY 71 (153)
T ss_pred hcCCCcCCC-----CChhhhccHHHHHHHHHHH
Confidence 567999943 5677888888888776543
No 156
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=22.21 E-value=97 Score=23.95 Aligned_cols=30 Identities=23% Similarity=0.550 Sum_probs=22.8
Q ss_pred CccccccccccccccCCeEE---ecCCCccCHHHHHHH
Q 025846 52 PKCCQCQAVLEEESGSETTR---LGCLHVIHTSCLVSH 86 (247)
Q Consensus 52 ~~C~ICle~L~~gD~~evvR---L~C~HvFH~~CLd~W 86 (247)
..|.||... .| ..++ -.|...||..|....
T Consensus 56 ~~C~iC~~~--~G---~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 56 LKCSICGKS--GG---ACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CcCcCCCCC--Cc---eeEEcCCCCCCcCCCHHHHHHC
Confidence 789999998 33 3444 249999999998653
No 157
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=21.54 E-value=48 Score=21.74 Aligned_cols=28 Identities=25% Similarity=0.490 Sum_probs=16.6
Q ss_pred Ccccccccccccccc-----CCeEEe-cCCCccC
Q 025846 52 PKCCQCQAVLEEESG-----SETTRL-GCLHVIH 79 (247)
Q Consensus 52 ~~C~ICle~L~~gD~-----~evvRL-~C~HvFH 79 (247)
-.|+-|...|...|. ...+|= .|+|+|+
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 368899988876541 112222 4777774
No 158
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=21.35 E-value=61 Score=19.64 Aligned_cols=13 Identities=23% Similarity=0.567 Sum_probs=7.0
Q ss_pred Ccccccccccccc
Q 025846 52 PKCCQCQAVLEEE 64 (247)
Q Consensus 52 ~~C~ICle~L~~g 64 (247)
..|+-|...+..+
T Consensus 3 ~~Cp~Cg~~~~~~ 15 (26)
T PF13248_consen 3 MFCPNCGAEIDPD 15 (26)
T ss_pred CCCcccCCcCCcc
Confidence 3466666655443
No 159
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=21.14 E-value=72 Score=23.73 Aligned_cols=24 Identities=21% Similarity=0.642 Sum_probs=17.8
Q ss_pred cccccC-CCCCCCcccccccccccc
Q 025846 41 EWVIDG-EYDWPPKCCQCQAVLEEE 64 (247)
Q Consensus 41 qWL~Ds-dyd~~~~C~ICle~L~~g 64 (247)
-|+.|+ .++..+.|++|..++..+
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMVSG 52 (59)
T ss_pred cccccccccCCCccCCCcCCccccc
Confidence 466654 355459999999999875
No 160
>PRK00420 hypothetical protein; Validated
Probab=21.06 E-value=62 Score=26.72 Aligned_cols=13 Identities=31% Similarity=0.475 Sum_probs=10.8
Q ss_pred CCccccccccccc
Q 025846 51 PPKCCQCQAVLEE 63 (247)
Q Consensus 51 ~~~C~ICle~L~~ 63 (247)
...|++|..+|..
T Consensus 23 ~~~CP~Cg~pLf~ 35 (112)
T PRK00420 23 SKHCPVCGLPLFE 35 (112)
T ss_pred cCCCCCCCCccee
Confidence 3689999999875
Done!