Query 023728
Match_columns 278
No_of_seqs 211 out of 1622
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 06:13:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023728.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023728hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.5 9.8E-15 2.1E-19 139.1 5.3 66 155-250 206-274 (348)
2 PF13639 zf-RING_2: Ring finge 99.2 3.3E-12 7.3E-17 87.0 2.0 37 209-245 1-37 (44)
3 COG5540 RING-finger-containing 98.8 2.4E-09 5.1E-14 100.4 4.1 43 206-248 321-366 (374)
4 PF12678 zf-rbx1: RING-H2 zinc 98.7 6.6E-09 1.4E-13 78.7 2.9 40 207-246 18-67 (73)
5 PHA02929 N1R/p28-like protein; 98.6 3.1E-08 6.6E-13 90.8 4.0 63 155-245 149-216 (238)
6 cd00162 RING RING-finger (Real 98.3 4.1E-07 9E-12 59.7 2.7 33 210-244 1-33 (45)
7 COG5243 HRD1 HRD ubiquitin lig 98.3 3.3E-07 7.1E-12 88.2 2.7 43 206-248 285-337 (491)
8 PF13923 zf-C3HC4_2: Zinc fing 98.2 8E-07 1.7E-11 59.0 2.2 33 211-245 1-33 (39)
9 smart00184 RING Ring finger. E 98.2 1.2E-06 2.5E-11 55.6 2.3 30 211-243 1-30 (39)
10 KOG0802 E3 ubiquitin ligase [P 98.1 8.3E-07 1.8E-11 89.7 2.0 42 206-247 289-332 (543)
11 PLN03208 E3 ubiquitin-protein 98.1 3.4E-06 7.5E-11 75.1 4.5 37 206-245 16-52 (193)
12 PF00097 zf-C3HC4: Zinc finger 98.0 1.6E-06 3.4E-11 57.7 1.1 32 211-244 1-32 (41)
13 PF13445 zf-RING_UBOX: RING-ty 97.9 6.4E-06 1.4E-10 56.6 2.0 35 211-246 1-36 (43)
14 PHA02926 zinc finger-like prot 97.9 1E-05 2.2E-10 73.5 3.2 40 206-245 168-213 (242)
15 PF12861 zf-Apc11: Anaphase-pr 97.8 1.1E-05 2.4E-10 63.1 2.9 40 206-245 19-68 (85)
16 smart00744 RINGv The RING-vari 97.7 2E-05 4.2E-10 55.5 2.2 36 210-246 1-41 (49)
17 KOG0804 Cytoplasmic Zn-finger 97.7 3.1E-05 6.7E-10 76.3 4.0 43 206-248 173-216 (493)
18 PF14634 zf-RING_5: zinc-RING 97.5 5E-05 1.1E-09 51.8 2.1 33 210-242 1-33 (44)
19 PF15227 zf-C3HC4_4: zinc fing 97.5 6.2E-05 1.3E-09 51.2 2.5 35 211-248 1-35 (42)
20 KOG0801 Predicted E3 ubiquitin 97.5 2.8E-05 6.2E-10 67.6 0.1 30 206-235 175-204 (205)
21 PF13920 zf-C3HC4_3: Zinc fing 97.4 7.5E-05 1.6E-09 52.0 2.1 35 208-245 2-37 (50)
22 smart00504 Ubox Modified RING 97.4 0.00019 4E-09 51.5 4.1 33 209-244 2-34 (63)
23 KOG1734 Predicted RING-contain 97.3 8.4E-05 1.8E-09 69.3 1.7 57 205-261 221-289 (328)
24 KOG1645 RING-finger-containing 97.2 0.00025 5.4E-09 69.3 3.2 38 206-243 2-41 (463)
25 KOG2930 SCF ubiquitin ligase, 97.2 0.00016 3.4E-09 58.6 1.4 43 206-248 44-100 (114)
26 PF05883 Baculo_RING: Baculovi 97.1 0.00015 3.3E-09 61.2 0.9 35 207-241 25-65 (134)
27 COG5194 APC11 Component of SCF 97.1 0.00027 5.9E-09 54.8 2.0 36 210-245 33-70 (88)
28 TIGR00599 rad18 DNA repair pro 96.9 0.00053 1.1E-08 67.3 2.8 37 206-245 24-60 (397)
29 KOG2177 Predicted E3 ubiquitin 96.9 0.00029 6.3E-09 61.7 0.8 40 206-248 11-52 (386)
30 KOG0320 Predicted E3 ubiquitin 96.9 0.0015 3.2E-08 57.7 4.9 42 206-248 129-170 (187)
31 PF11793 FANCL_C: FANCL C-term 96.9 0.00034 7.4E-09 52.6 0.7 44 208-251 2-50 (70)
32 KOG0317 Predicted E3 ubiquitin 96.8 0.0008 1.7E-08 63.2 3.0 40 206-248 237-276 (293)
33 KOG0827 Predicted E3 ubiquitin 96.6 0.0008 1.7E-08 65.5 1.6 41 208-248 4-45 (465)
34 KOG0823 Predicted E3 ubiquitin 96.5 0.0025 5.4E-08 58.3 3.9 40 206-248 45-84 (230)
35 KOG1493 Anaphase-promoting com 96.5 0.00045 9.9E-09 53.2 -0.7 37 207-243 19-65 (84)
36 KOG0828 Predicted E3 ubiquitin 96.5 0.00086 1.9E-08 67.1 0.8 38 206-243 569-620 (636)
37 KOG4445 Uncharacterized conser 96.5 0.00097 2.1E-08 63.2 0.8 38 206-243 113-150 (368)
38 PF10367 Vps39_2: Vacuolar sor 96.3 0.0015 3.2E-08 51.3 1.1 33 206-239 76-108 (109)
39 KOG0825 PHD Zn-finger protein 96.0 0.0015 3.2E-08 68.4 -0.8 38 206-243 121-158 (1134)
40 PF04564 U-box: U-box domain; 95.5 0.012 2.5E-07 44.3 2.8 35 207-244 3-37 (73)
41 TIGR00570 cdk7 CDK-activating 95.4 0.014 3E-07 55.8 3.3 39 207-245 2-42 (309)
42 COG5219 Uncharacterized conser 94.8 0.0084 1.8E-07 64.1 0.2 43 206-248 1467-1513(1525)
43 KOG1941 Acetylcholine receptor 94.8 0.0095 2.1E-07 58.4 0.4 43 206-248 363-410 (518)
44 KOG1039 Predicted E3 ubiquitin 94.5 0.02 4.3E-07 55.4 2.0 54 206-259 159-227 (344)
45 KOG2164 Predicted E3 ubiquitin 94.5 0.022 4.8E-07 57.3 2.3 35 208-245 186-220 (513)
46 KOG1814 Predicted E3 ubiquitin 93.0 0.049 1.1E-06 53.7 1.6 37 207-243 183-219 (445)
47 PF11789 zf-Nse: Zinc-finger o 92.8 0.071 1.5E-06 38.6 1.8 36 206-243 9-44 (57)
48 COG5574 PEX10 RING-finger-cont 92.5 0.078 1.7E-06 49.5 2.2 39 206-247 213-252 (271)
49 PF12906 RINGv: RING-variant d 92.4 0.071 1.5E-06 37.0 1.4 33 211-244 1-38 (47)
50 PF14446 Prok-RING_1: Prokaryo 91.7 0.18 4E-06 36.4 2.9 34 207-240 4-38 (54)
51 KOG0287 Postreplication repair 90.7 0.081 1.7E-06 51.3 0.3 40 206-248 21-60 (442)
52 KOG1952 Transcription factor N 90.6 0.13 2.8E-06 54.7 1.7 39 206-244 189-228 (950)
53 KOG3970 Predicted E3 ubiquitin 90.2 0.36 7.8E-06 44.5 4.0 49 206-255 48-96 (299)
54 KOG0827 Predicted E3 ubiquitin 90.0 0.042 9E-07 53.9 -2.3 38 207-244 195-233 (465)
55 KOG1428 Inhibitor of type V ad 89.8 0.22 4.7E-06 56.1 2.6 40 206-245 3484-3523(3738)
56 KOG2034 Vacuolar sorting prote 89.8 0.15 3.2E-06 54.5 1.3 41 206-247 815-855 (911)
57 KOG0297 TNF receptor-associate 89.8 0.12 2.5E-06 50.8 0.5 44 206-251 19-62 (391)
58 PHA02825 LAP/PHD finger-like p 88.3 0.33 7.1E-06 42.4 2.2 36 206-245 6-46 (162)
59 KOG4265 Predicted E3 ubiquitin 87.0 0.51 1.1E-05 45.8 2.9 40 206-248 288-330 (349)
60 KOG0978 E3 ubiquitin ligase in 86.9 0.22 4.8E-06 52.2 0.4 47 206-255 641-690 (698)
61 PHA03096 p28-like protein; Pro 84.9 0.36 7.8E-06 45.7 0.7 37 209-245 179-220 (284)
62 KOG3039 Uncharacterized conser 84.0 1.1 2.4E-05 41.9 3.5 114 131-244 127-258 (303)
63 PHA02862 5L protein; Provision 81.5 0.85 1.8E-05 39.4 1.6 34 208-245 2-40 (156)
64 KOG0311 Predicted E3 ubiquitin 80.2 0.25 5.4E-06 48.0 -2.3 38 206-245 41-78 (381)
65 KOG0824 Predicted E3 ubiquitin 80.1 0.75 1.6E-05 44.0 0.9 36 207-245 6-43 (324)
66 KOG3268 Predicted E3 ubiquitin 79.4 1.1 2.4E-05 40.0 1.7 47 207-253 164-214 (234)
67 KOG0309 Conserved WD40 repeat- 78.9 1.2 2.7E-05 47.3 2.1 35 210-245 1030-1064(1081)
68 KOG2879 Predicted E3 ubiquitin 78.2 1.9 4.2E-05 40.8 3.0 36 206-243 237-272 (298)
69 COG5432 RAD18 RING-finger-cont 77.9 1.2 2.5E-05 42.7 1.4 39 206-247 23-61 (391)
70 KOG1609 Protein involved in mR 76.4 1.6 3.4E-05 40.3 1.9 37 207-243 77-119 (323)
71 smart00249 PHD PHD zinc finger 76.3 1.6 3.5E-05 28.2 1.4 30 210-239 1-30 (47)
72 PF14835 zf-RING_6: zf-RING of 74.3 0.95 2.1E-05 33.9 -0.1 40 207-248 6-45 (65)
73 PF07800 DUF1644: Protein of u 73.7 3.9 8.4E-05 35.8 3.4 48 207-255 1-58 (162)
74 KOG0825 PHD Zn-finger protein 72.7 2.8 6.1E-05 44.9 2.7 42 204-245 92-137 (1134)
75 KOG1812 Predicted E3 ubiquitin 68.4 2 4.3E-05 42.3 0.5 39 207-245 145-184 (384)
76 COG5152 Uncharacterized conser 68.2 2.5 5.4E-05 38.5 1.1 35 208-245 196-230 (259)
77 KOG1729 FYVE finger containing 65.8 1.7 3.8E-05 41.2 -0.4 41 208-248 214-254 (288)
78 PF11241 DUF3043: Protein of u 64.3 7.8 0.00017 34.2 3.4 33 20-52 61-94 (170)
79 PF00628 PHD: PHD-finger; Int 63.5 2.2 4.7E-05 29.1 -0.2 31 210-240 1-31 (51)
80 KOG2066 Vacuolar assembly/sort 63.1 3.3 7.1E-05 44.2 1.0 41 206-246 782-826 (846)
81 KOG4159 Predicted E3 ubiquitin 62.1 5.2 0.00011 39.7 2.1 41 206-249 82-122 (398)
82 KOG4185 Predicted E3 ubiquitin 61.8 5.1 0.00011 37.2 2.0 38 208-245 3-43 (296)
83 PF08746 zf-RING-like: RING-li 55.8 5.6 0.00012 27.1 0.8 36 211-246 1-36 (43)
84 KOG4692 Predicted E3 ubiquitin 55.4 9.6 0.00021 37.6 2.6 38 205-245 419-456 (489)
85 PF13832 zf-HC5HC2H_2: PHD-zin 54.2 11 0.00023 29.8 2.4 32 207-240 54-87 (110)
86 KOG1815 Predicted E3 ubiquitin 54.1 7 0.00015 38.9 1.5 38 206-245 68-105 (444)
87 KOG4367 Predicted Zn-finger pr 53.0 9.5 0.00021 38.6 2.2 64 206-273 2-69 (699)
88 PF04641 Rtf2: Rtf2 RING-finge 52.4 11 0.00025 34.7 2.6 36 206-241 111-147 (260)
89 COG5183 SSM4 Protein involved 51.4 9.7 0.00021 41.2 2.1 39 206-245 10-53 (1175)
90 KOG1940 Zn-finger protein [Gen 50.4 7.3 0.00016 36.9 1.0 39 207-245 157-196 (276)
91 COG5222 Uncharacterized conser 49.1 16 0.00034 35.3 3.0 52 207-261 273-328 (427)
92 KOG1829 Uncharacterized conser 47.5 4.9 0.00011 41.7 -0.7 57 206-265 509-570 (580)
93 PF11044 TMEMspv1-c74-12: Plec 47.1 48 0.001 23.3 4.3 29 59-87 2-34 (49)
94 KOG1785 Tyrosine kinase negati 46.4 8.7 0.00019 38.4 0.8 36 207-245 368-403 (563)
95 KOG0269 WD40 repeat-containing 43.5 19 0.00042 38.5 2.9 41 207-248 778-818 (839)
96 smart00132 LIM Zinc-binding do 43.0 21 0.00044 22.1 1.9 29 210-239 1-29 (39)
97 COG5220 TFB3 Cdk activating ki 41.7 9.9 0.00021 35.6 0.4 39 207-245 9-50 (314)
98 KOG2660 Locus-specific chromos 41.7 8.7 0.00019 37.2 0.0 43 206-250 13-55 (331)
99 KOG0826 Predicted E3 ubiquitin 41.2 26 0.00056 34.2 3.1 37 206-245 298-335 (357)
100 PF06667 PspB: Phage shock pro 40.2 34 0.00074 26.3 3.1 22 39-67 3-24 (75)
101 PF13901 DUF4206: Domain of un 40.0 16 0.00035 32.6 1.5 43 206-251 150-197 (202)
102 KOG1571 Predicted E3 ubiquitin 39.7 21 0.00045 35.0 2.3 26 206-234 303-328 (355)
103 PF10852 DUF2651: Protein of u 39.6 52 0.0011 25.8 4.0 31 41-71 32-62 (82)
104 KOG3161 Predicted E3 ubiquitin 39.5 9.8 0.00021 40.1 0.0 43 206-248 9-52 (861)
105 COG5236 Uncharacterized conser 38.1 26 0.00056 34.6 2.6 32 206-240 59-90 (493)
106 PF07649 C1_3: C1-like domain; 38.1 22 0.00049 21.9 1.5 29 210-238 2-30 (30)
107 KOG2114 Vacuolar assembly/sort 38.0 14 0.0003 40.1 0.8 31 207-239 839-869 (933)
108 PF10571 UPF0547: Uncharacteri 37.6 18 0.00039 22.2 1.0 23 210-234 2-25 (26)
109 PF03213 Pox_P35: Poxvirus P35 36.9 37 0.0008 32.9 3.4 16 58-73 308-323 (325)
110 KOG3579 Predicted E3 ubiquitin 35.6 46 0.00099 32.0 3.7 43 206-248 266-309 (352)
111 PHA02688 ORF059 IMV protein VP 35.3 39 0.00084 32.7 3.3 16 58-73 306-321 (323)
112 PF13571 DUF4133: Domain of un 35.0 41 0.00089 27.1 2.9 13 42-54 26-38 (96)
113 PRK09458 pspB phage shock prot 34.5 43 0.00093 25.8 2.8 22 39-67 3-24 (75)
114 PF05814 DUF843: Baculovirus p 34.1 1.6E+02 0.0035 23.2 5.9 40 40-79 4-44 (83)
115 KOG2932 E3 ubiquitin ligase in 33.5 16 0.00034 35.5 0.3 31 208-240 90-120 (389)
116 PF13717 zinc_ribbon_4: zinc-r 33.3 19 0.00042 23.5 0.7 26 209-234 3-36 (36)
117 PF05366 Sarcolipin: Sarcolipi 32.6 34 0.00073 21.7 1.6 26 31-56 5-30 (31)
118 PF13829 DUF4191: Domain of un 32.5 91 0.002 28.8 5.1 32 39-73 33-64 (224)
119 PF14002 YniB: YniB-like prote 32.0 1.1E+02 0.0024 26.9 5.3 39 65-103 84-125 (166)
120 PF10066 DUF2304: Uncharacteri 30.6 1.1E+02 0.0024 24.7 4.8 19 69-87 75-93 (115)
121 PRK14584 hmsS hemin storage sy 30.3 1.7E+02 0.0037 25.5 6.1 47 39-85 29-86 (153)
122 PF14570 zf-RING_4: RING/Ubox 29.7 29 0.00062 24.5 1.1 32 211-243 1-34 (48)
123 KOG2071 mRNA cleavage and poly 29.5 23 0.00049 36.9 0.7 35 206-240 511-555 (579)
124 KOG3053 Uncharacterized conser 29.0 27 0.00059 33.0 1.1 40 206-245 18-63 (293)
125 KOG0957 PHD finger protein [Ge 28.7 38 0.00082 35.0 2.1 33 206-238 117-151 (707)
126 PF10942 DUF2619: Protein of u 28.7 58 0.0012 24.8 2.6 21 51-71 48-68 (69)
127 PF07219 HemY_N: HemY protein 28.6 2.6E+02 0.0057 22.0 6.7 44 30-80 8-51 (108)
128 KOG1001 Helicase-like transcri 28.1 29 0.00063 36.8 1.2 33 209-245 455-487 (674)
129 COG5081 Predicted membrane pro 27.4 1.3E+02 0.0028 26.5 4.8 36 39-74 119-155 (180)
130 KOG0298 DEAD box-containing he 27.2 19 0.00041 40.7 -0.3 44 206-251 1151-1196(1394)
131 COG4847 Uncharacterized protei 25.6 76 0.0017 25.7 2.9 42 207-249 5-46 (103)
132 KOG0230 Phosphatidylinositol-4 24.2 24 0.00051 40.5 -0.2 46 224-272 876-922 (1598)
133 PF13239 2TM: 2TM domain 22.6 2.7E+02 0.0059 20.9 5.5 42 38-79 19-62 (83)
134 PF13719 zinc_ribbon_5: zinc-r 21.7 54 0.0012 21.4 1.2 26 209-234 3-36 (37)
135 PF02109 DAD: DAD family; Int 21.7 1.7E+02 0.0037 24.2 4.4 40 39-78 30-74 (112)
136 PF09125 COX2-transmemb: Cytoc 21.7 90 0.002 21.0 2.2 16 39-54 17-32 (38)
137 PF09685 Tic20: Tic20-like pro 21.7 80 0.0017 24.3 2.4 23 24-46 35-57 (109)
138 TIGR02976 phageshock_pspB phag 21.5 1.1E+02 0.0024 23.4 3.1 16 39-54 3-18 (75)
139 PF15468 DUF4636: Domain of un 21.1 1E+02 0.0022 28.5 3.2 27 223-250 192-218 (243)
140 PF13771 zf-HC5HC2H: PHD-like 21.0 57 0.0012 24.6 1.4 33 206-240 34-68 (90)
141 PF06844 DUF1244: Protein of u 20.6 60 0.0013 24.6 1.3 15 232-246 11-25 (68)
142 TIGR00764 lon_rel lon-related 20.2 2E+02 0.0043 30.0 5.6 43 36-80 110-152 (608)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=9.8e-15 Score=139.09 Aligned_cols=66 Identities=26% Similarity=0.563 Sum_probs=55.1
Q ss_pred CCCHHHHhcCCeeEeecCCCCCCCCcccCCCCCCchhhhcccccccCCCCCCCCcccccccccccCCCeeEEeCCCCccC
Q 023728 155 SMSEEEINTLPVHKYKVSGSQSGASSMQLGSSSSPAEKKLETSISVGNLKTEDELTCTVCLEQVNVGEIVRSLPCLHQLF 234 (278)
Q Consensus 155 g~SeeeI~~LPv~~~~~~~~~~~ss~~~~sSSss~~e~kq~s~~a~~~~k~~d~~tCsICLEdf~~GE~Vr~LPC~H~FH 234 (278)
.+.+..+.++|+.+|+.... .+...+|+||||+|++||++|.|||.|.||
T Consensus 206 r~~k~~l~~~p~~~f~~~~~------------------------------~~~~~~CaIClEdY~~GdklRiLPC~H~FH 255 (348)
T KOG4628|consen 206 RLIKRLLKKLPVRTFTKGDD------------------------------EDATDTCAICLEDYEKGDKLRILPCSHKFH 255 (348)
T ss_pred hhHHHHHhhCCcEEeccccc------------------------------cCCCceEEEeecccccCCeeeEecCCCchh
Confidence 56889999999999986431 012259999999999999999999999999
Q ss_pred hhhHHHHHhcC---CCCcc
Q 023728 235 CSSMQIALTHG---CGNRE 250 (278)
Q Consensus 235 ~~CId~WLkrs---cg~~~ 250 (278)
..|||+||.+. |+-=+
T Consensus 256 ~~CIDpWL~~~r~~CPvCK 274 (348)
T KOG4628|consen 256 VNCIDPWLTQTRTFCPVCK 274 (348)
T ss_pred hccchhhHhhcCccCCCCC
Confidence 99999999977 66533
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=99.23 E-value=3.3e-12 Score=87.01 Aligned_cols=37 Identities=35% Similarity=0.605 Sum_probs=34.7
Q ss_pred cccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 209 LTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 209 ~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
++|+||+++|.+++.+..|+|+|.||.+||.+|++++
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~ 37 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN 37 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC
Confidence 4799999999999999999999999999999999986
No 3
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=2.4e-09 Score=100.43 Aligned_cols=43 Identities=21% Similarity=0.563 Sum_probs=38.5
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHh---cCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT---HGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk---rscg~ 248 (278)
+.+.+|+||+++|-.+|.++.|||.|.||..||++|+. ..|+.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPv 366 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPV 366 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCc
Confidence 56689999999999999999999999999999999997 44554
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.73 E-value=6.6e-09 Score=78.66 Aligned_cols=40 Identities=18% Similarity=0.289 Sum_probs=31.2
Q ss_pred CCcccccccccccC----------CCeeEEeCCCCccChhhHHHHHhcCC
Q 023728 207 DELTCTVCLEQVNV----------GEIVRSLPCLHQLFCSSMQIALTHGC 246 (278)
Q Consensus 207 d~~tCsICLEdf~~----------GE~Vr~LPC~H~FH~~CId~WLkrsc 246 (278)
.++.|+||++.+.+ +-.+...+|+|.||..||.+||+++-
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~ 67 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN 67 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC
Confidence 45569999999932 23566678999999999999998763
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.60 E-value=3.1e-08 Score=90.80 Aligned_cols=63 Identities=19% Similarity=0.308 Sum_probs=46.0
Q ss_pred CCCHHHHhcCCeeEeecCCCCCCCCcccCCCCCCchhhhcccccccCCCCCCCCcccccccccccCCCe----eEEe-CC
Q 023728 155 SMSEEEINTLPVHKYKVSGSQSGASSMQLGSSSSPAEKKLETSISVGNLKTEDELTCTVCLEQVNVGEI----VRSL-PC 229 (278)
Q Consensus 155 g~SeeeI~~LPv~~~~~~~~~~~ss~~~~sSSss~~e~kq~s~~a~~~~k~~d~~tCsICLEdf~~GE~----Vr~L-PC 229 (278)
+.+++-|+++|....+.... ....++.+|+||+|.+.+.+. +..+ +|
T Consensus 149 ~~~~~~i~~lp~vl~~~e~~----------------------------~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C 200 (238)
T PHA02929 149 KNYKKFLKTIPSVLSEYEKL----------------------------YNRSKDKECAICMEKVYDKEIKNMYFGILSNC 200 (238)
T ss_pred chhHHHHHhcchhhhhhhhh----------------------------hcCCCCCCCccCCcccccCccccccceecCCC
Confidence 44788899999776543211 011357899999999876542 3345 59
Q ss_pred CCccChhhHHHHHhcC
Q 023728 230 LHQLFCSSMQIALTHG 245 (278)
Q Consensus 230 ~H~FH~~CId~WLkrs 245 (278)
+|.||.+||.+|++++
T Consensus 201 ~H~FC~~CI~~Wl~~~ 216 (238)
T PHA02929 201 NHVFCIECIDIWKKEK 216 (238)
T ss_pred CCcccHHHHHHHHhcC
Confidence 9999999999999975
No 6
>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=98.31 E-value=4.1e-07 Score=59.73 Aligned_cols=33 Identities=36% Similarity=0.616 Sum_probs=28.8
Q ss_pred ccccccccccCCCeeEEeCCCCccChhhHHHHHhc
Q 023728 210 TCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTH 244 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkr 244 (278)
+|+||++.+ .+.+...+|+|.||.+|++.|+++
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~ 33 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKS 33 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHh
Confidence 599999998 456666679999999999999987
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=3.3e-07 Score=88.23 Aligned_cols=43 Identities=23% Similarity=0.478 Sum_probs=35.9
Q ss_pred CCCccccccccc-ccCCC---------eeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQ-VNVGE---------IVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEd-f~~GE---------~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
.++..|.||+|+ ++.+. +-++|||+|+||-+|++-|++|+..+
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTC 337 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTC 337 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCC
Confidence 578899999999 66552 34899999999999999999988443
No 8
>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=98.20 E-value=8e-07 Score=59.03 Aligned_cols=33 Identities=24% Similarity=0.553 Sum_probs=29.1
Q ss_pred cccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 211 CTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 211 CsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
|+||++.+.+ .+..++|+|.|+.+||.+|++++
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~ 33 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKN 33 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCc
Confidence 8999999876 67889999999999999999974
No 9
>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=98.17 E-value=1.2e-06 Score=55.56 Aligned_cols=30 Identities=33% Similarity=0.579 Sum_probs=27.2
Q ss_pred cccccccccCCCeeEEeCCCCccChhhHHHHHh
Q 023728 211 CTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 211 CsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk 243 (278)
|+||++. .+....++|+|.||..|++.|++
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~ 30 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLK 30 (39)
T ss_pred CCcCccC---CCCcEEecCCChHHHHHHHHHHH
Confidence 8999998 45788899999999999999998
No 10
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=8.3e-07 Score=89.71 Aligned_cols=42 Identities=24% Similarity=0.467 Sum_probs=37.6
Q ss_pred CCCcccccccccccCCCe--eEEeCCCCccChhhHHHHHhcCCC
Q 023728 206 EDELTCTVCLEQVNVGEI--VRSLPCLHQLFCSSMQIALTHGCG 247 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~--Vr~LPC~H~FH~~CId~WLkrscg 247 (278)
.....|+||+|++..++. .++|||+|+||..|+..||+|.-.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qt 332 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQT 332 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCc
Confidence 458899999999998886 899999999999999999998633
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.09 E-value=3.4e-06 Score=75.06 Aligned_cols=37 Identities=19% Similarity=0.354 Sum_probs=31.1
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
.++.+|+||++.+++. ..++|+|.|+..||.+|+..+
T Consensus 16 ~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s 52 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYAS 52 (193)
T ss_pred CCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhc
Confidence 5678999999998643 447899999999999999754
No 12
>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=98.05 E-value=1.6e-06 Score=57.72 Aligned_cols=32 Identities=31% Similarity=0.596 Sum_probs=28.6
Q ss_pred cccccccccCCCeeEEeCCCCccChhhHHHHHhc
Q 023728 211 CTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTH 244 (278)
Q Consensus 211 CsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkr 244 (278)
|+||++.+... +..++|+|.|+.+||.+|++.
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~ 32 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLEN 32 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHH
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHh
Confidence 89999998754 478999999999999999996
No 13
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.89 E-value=6.4e-06 Score=56.61 Aligned_cols=35 Identities=26% Similarity=0.426 Sum_probs=22.5
Q ss_pred cccccccccCCC-eeEEeCCCCccChhhHHHHHhcCC
Q 023728 211 CTVCLEQVNVGE-IVRSLPCLHQLFCSSMQIALTHGC 246 (278)
Q Consensus 211 CsICLEdf~~GE-~Vr~LPC~H~FH~~CId~WLkrsc 246 (278)
|+||.| |...+ .-..|||+|.|-.+||++|++++-
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~ 36 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD 36 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC
Confidence 899999 76555 447799999999999999999653
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=97.85 E-value=1e-05 Score=73.49 Aligned_cols=40 Identities=23% Similarity=0.405 Sum_probs=31.2
Q ss_pred CCCcccccccccccC----CC-eeEEe-CCCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNV----GE-IVRSL-PCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~----GE-~Vr~L-PC~H~FH~~CId~WLkrs 245 (278)
.++.+|+||+|..-+ ++ .-..| +|+|.|+..||+.|-+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r 213 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTR 213 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhc
Confidence 468999999998632 22 23456 499999999999999854
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.85 E-value=1.1e-05 Score=63.13 Aligned_cols=40 Identities=15% Similarity=0.296 Sum_probs=31.0
Q ss_pred CCCccccccccccc--------CCCe--eEEeCCCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVN--------VGEI--VRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~--------~GE~--Vr~LPC~H~FH~~CId~WLkrs 245 (278)
.+++.|.||...|+ +||. +..-.|+|.||..||.+||+..
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~ 68 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQ 68 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccc
Confidence 35889999998885 4443 3333599999999999999965
No 16
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.72 E-value=2e-05 Score=55.48 Aligned_cols=36 Identities=11% Similarity=0.268 Sum_probs=28.1
Q ss_pred ccccccccccCCCeeEEeCCC-----CccChhhHHHHHhcCC
Q 023728 210 TCTVCLEQVNVGEIVRSLPCL-----HQLFCSSMQIALTHGC 246 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LPC~-----H~FH~~CId~WLkrsc 246 (278)
.|.||++. .+++.....||. |.+|.+|+++|+..+-
T Consensus 1 ~CrIC~~~-~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~ 41 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSPCRCKGSLKYVHQECLERWINESG 41 (49)
T ss_pred CccCCCCC-CCCCCeeEeccccCCchhHHHHHHHHHHHHHcC
Confidence 48999994 444445578984 9999999999997663
No 17
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.70 E-value=3.1e-05 Score=76.25 Aligned_cols=43 Identities=26% Similarity=0.549 Sum_probs=38.4
Q ss_pred CCCcccccccccccCCC-eeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGE-IVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE-~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
.+..+|+||||.+.... .|+...|.|.||+.|+.+|--.+|+.
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpv 216 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPV 216 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChh
Confidence 57889999999997654 67888899999999999999999987
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.54 E-value=5e-05 Score=51.76 Aligned_cols=33 Identities=18% Similarity=0.374 Sum_probs=30.1
Q ss_pred ccccccccccCCCeeEEeCCCCccChhhHHHHH
Q 023728 210 TCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIAL 242 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WL 242 (278)
.|.||.++|.+.+....++|+|.|...||+++.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~ 33 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK 33 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc
Confidence 499999999767788899999999999999988
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.53 E-value=6.2e-05 Score=51.20 Aligned_cols=35 Identities=29% Similarity=0.578 Sum_probs=27.6
Q ss_pred cccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 211 CTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 211 CsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
|+||++-|.+ =..|+|+|.|-.+||..|.++.-+.
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~ 35 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGS 35 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCc
Confidence 8999999984 3458999999999999999876443
No 20
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=2.8e-05 Score=67.65 Aligned_cols=30 Identities=33% Similarity=0.816 Sum_probs=28.1
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccCh
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFC 235 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~ 235 (278)
++.-+|.||||+++.|+.|.+|||..+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 567799999999999999999999999996
No 21
>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=97.45 E-value=7.5e-05 Score=51.98 Aligned_cols=35 Identities=26% Similarity=0.475 Sum_probs=29.2
Q ss_pred CcccccccccccCCCeeEEeCCCCc-cChhhHHHHHhcC
Q 023728 208 ELTCTVCLEQVNVGEIVRSLPCLHQ-LFCSSMQIALTHG 245 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~LPC~H~-FH~~CId~WLkrs 245 (278)
+..|.||++...+ +..+||+|. |...|+..|++++
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~ 37 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRK 37 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTT
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccC
Confidence 5689999998653 788899999 9999999999843
No 22
>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=97.43 E-value=0.00019 Score=51.47 Aligned_cols=33 Identities=18% Similarity=0.204 Sum_probs=28.8
Q ss_pred cccccccccccCCCeeEEeCCCCccChhhHHHHHhc
Q 023728 209 LTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTH 244 (278)
Q Consensus 209 ~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkr 244 (278)
..|+||++-+++- ..+||+|.|.+.||.+|+++
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~ 34 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLS 34 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHH
Confidence 5799999998863 34699999999999999987
No 23
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=8.4e-05 Score=69.27 Aligned_cols=57 Identities=19% Similarity=0.358 Sum_probs=42.9
Q ss_pred CCCCcccccccccccCCC-------eeEEeCCCCccChhhHHHHH----hcCCCC-ccccccccCCCCC
Q 023728 205 TEDELTCTVCLEQVNVGE-------IVRSLPCLHQLFCSSMQIAL----THGCGN-RERAQFANSEQDP 261 (278)
Q Consensus 205 ~~d~~tCsICLEdf~~GE-------~Vr~LPC~H~FH~~CId~WL----krscg~-~~~~~~~~~~~~~ 261 (278)
..++..|+||-.++.+.+ .+-.|.|+|.||..||+-|- |+-|+- .|+-|-+.--.+|
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnp 289 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNP 289 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCc
Confidence 357889999999887665 67899999999999999995 344654 5555555444444
No 24
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.00025 Score=69.34 Aligned_cols=38 Identities=26% Similarity=0.481 Sum_probs=31.9
Q ss_pred CCCccccccccccc-CCC-eeEEeCCCCccChhhHHHHHh
Q 023728 206 EDELTCTVCLEQVN-VGE-IVRSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 206 ~d~~tCsICLEdf~-~GE-~Vr~LPC~H~FH~~CId~WLk 243 (278)
+...+|+|||+.|. .|| .+..|.|+|.|-.+||++||-
T Consensus 2 d~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~ 41 (463)
T KOG1645|consen 2 DCGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG 41 (463)
T ss_pred CccccCceeeeeeeecCceEEeeecccccccHHHHHHHHh
Confidence 36789999999996 566 456667999999999999994
No 25
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=0.00016 Score=58.61 Aligned_cols=43 Identities=14% Similarity=0.191 Sum_probs=31.0
Q ss_pred CCCcccccccccc-------------cCCCeeEEe-CCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQV-------------NVGEIVRSL-PCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf-------------~~GE~Vr~L-PC~H~FH~~CId~WLkrscg~ 248 (278)
-..++|+||...+ ..+|-...- -|.|.||..||.+||++.--+
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vC 100 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVC 100 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcC
Confidence 4677999996543 233434444 499999999999999987444
No 26
>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=97.13 E-value=0.00015 Score=61.19 Aligned_cols=35 Identities=9% Similarity=0.198 Sum_probs=31.7
Q ss_pred CCcccccccccccCCCeeEEeCCC------CccChhhHHHH
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCL------HQLFCSSMQIA 241 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~------H~FH~~CId~W 241 (278)
...+|.||++.+.+.+.|..++|+ |.||.+|+++|
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 477999999999997788889984 99999999999
No 27
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.10 E-value=0.00027 Score=54.80 Aligned_cols=36 Identities=19% Similarity=0.269 Sum_probs=23.9
Q ss_pred ccccccccccCCCee-EEe-CCCCccChhhHHHHHhcC
Q 023728 210 TCTVCLEQVNVGEIV-RSL-PCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 210 tCsICLEdf~~GE~V-r~L-PC~H~FH~~CId~WLkrs 245 (278)
+|+-|.-...+|++. ... -|.|.||.+||.+||...
T Consensus 33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk 70 (88)
T COG5194 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTK 70 (88)
T ss_pred cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhC
Confidence 333344434455543 333 499999999999999864
No 28
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.94 E-value=0.00053 Score=67.33 Aligned_cols=37 Identities=22% Similarity=0.510 Sum_probs=31.6
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
++...|+||++.|.. .+ .+||+|.|+..||..|+...
T Consensus 24 e~~l~C~IC~d~~~~--Pv-itpCgH~FCs~CI~~~l~~~ 60 (397)
T TIGR00599 24 DTSLRCHICKDFFDV--PV-LTSCSHTFCSLCIRRCLSNQ 60 (397)
T ss_pred ccccCCCcCchhhhC--cc-CCCCCCchhHHHHHHHHhCC
Confidence 678899999999864 33 57999999999999999874
No 29
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=0.00029 Score=61.70 Aligned_cols=40 Identities=30% Similarity=0.600 Sum_probs=34.8
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHh--cCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT--HGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk--rscg~ 248 (278)
.++.+|+||++.|..- ..|||+|.|-..||..|.. -.|+.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~ 52 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPV 52 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcc
Confidence 6889999999999976 8899999999999999997 34444
No 30
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.0015 Score=57.72 Aligned_cols=42 Identities=24% Similarity=0.376 Sum_probs=32.9
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
+.-..|+|||+.|..... ....|||+|...||+.-|+....+
T Consensus 129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~C 170 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKC 170 (187)
T ss_pred ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCC
Confidence 455789999999885433 347899999999999999866333
No 31
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.86 E-value=0.00034 Score=52.58 Aligned_cols=44 Identities=14% Similarity=0.214 Sum_probs=21.3
Q ss_pred CcccccccccccCCCeeEEe-----CCCCccChhhHHHHHhcCCCCccc
Q 023728 208 ELTCTVCLEQVNVGEIVRSL-----PCLHQLFCSSMQIALTHGCGNRER 251 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~L-----PC~H~FH~~CId~WLkrscg~~~~ 251 (278)
+..|.||.+.+.+++.+-.+ .|++.||..|+.+||+...+.+.+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~ 50 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQS 50 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-T
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCee
Confidence 56899999987744332222 489999999999999977766543
No 32
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.84 E-value=0.0008 Score=63.18 Aligned_cols=40 Identities=23% Similarity=0.362 Sum_probs=32.8
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
+....|++|||.-.+ -...||||+|.=.||..|+.....+
T Consensus 237 ~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eC 276 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAEC 276 (293)
T ss_pred CCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCC
Confidence 456789999998643 4678999999999999999876544
No 33
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.0008 Score=65.55 Aligned_cols=41 Identities=12% Similarity=0.288 Sum_probs=32.2
Q ss_pred CcccccccccccCCCeeEEeC-CCCccChhhHHHHHhcCCCC
Q 023728 208 ELTCTVCLEQVNVGEIVRSLP-CLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~LP-C~H~FH~~CId~WLkrscg~ 248 (278)
...|+||.+-+...+.+..+- |+|+||..|+.+|+.--+.|
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~ 45 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN 45 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc
Confidence 467999955555556788887 99999999999999854444
No 34
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.54 E-value=0.0025 Score=58.26 Aligned_cols=40 Identities=15% Similarity=0.223 Sum_probs=31.6
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
...-+|.||||.-++ . ....|+|.|.=.||.+||.-+..+
T Consensus 45 ~~~FdCNICLd~akd--P-VvTlCGHLFCWpClyqWl~~~~~~ 84 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD--P-VVTLCGHLFCWPCLYQWLQTRPNS 84 (230)
T ss_pred CCceeeeeeccccCC--C-EEeecccceehHHHHHHHhhcCCC
Confidence 467799999998654 2 345699999999999999855443
No 35
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.00045 Score=53.16 Aligned_cols=37 Identities=22% Similarity=0.415 Sum_probs=27.8
Q ss_pred CCccccccccccc--------CCCeeE-Ee-CCCCccChhhHHHHHh
Q 023728 207 DELTCTVCLEQVN--------VGEIVR-SL-PCLHQLFCSSMQIALT 243 (278)
Q Consensus 207 d~~tCsICLEdf~--------~GE~Vr-~L-PC~H~FH~~CId~WLk 243 (278)
.+++|-||.-.|+ +||..- .+ -|.|.||..||.+||.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~ 65 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLN 65 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhc
Confidence 4559999988884 444322 22 3999999999999996
No 36
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.50 E-value=0.00086 Score=67.06 Aligned_cols=38 Identities=16% Similarity=0.443 Sum_probs=29.4
Q ss_pred CCCcccccccccccC---CCee-----------EEeCCCCccChhhHHHHHh
Q 023728 206 EDELTCTVCLEQVNV---GEIV-----------RSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 206 ~d~~tCsICLEdf~~---GE~V-----------r~LPC~H~FH~~CId~WLk 243 (278)
++...|+||+.++.- |... ...||.|+||..|+.+|..
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd 620 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMD 620 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHh
Confidence 577899999998742 2221 2349999999999999998
No 37
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.46 E-value=0.00097 Score=63.16 Aligned_cols=38 Identities=18% Similarity=0.333 Sum_probs=35.1
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHh
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk 243 (278)
-..-.|+|||-.|.+++.+.+.+|-|+||..|+.+.|.
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLT 150 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHH
Confidence 35668999999999999999999999999999999886
No 38
>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=96.35 E-value=0.0015 Score=51.28 Aligned_cols=33 Identities=21% Similarity=0.558 Sum_probs=28.6
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHH
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQ 239 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId 239 (278)
.+...|+||-..+.. ......||+|.||..|++
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 467789999999877 577788999999999986
No 39
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.95 E-value=0.0015 Score=68.42 Aligned_cols=38 Identities=16% Similarity=0.070 Sum_probs=35.2
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHh
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk 243 (278)
.....|++||..+.++......+|.|+||.+||+.|-+
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR 158 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR 158 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh
Confidence 45678999999999999999999999999999999987
No 40
>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=95.52 E-value=0.012 Score=44.30 Aligned_cols=35 Identities=29% Similarity=0.312 Sum_probs=28.7
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHHHHHhc
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTH 244 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkr 244 (278)
+...|+||.+=+.+ -| .+||+|.|-+.||..||++
T Consensus 3 ~~f~CpIt~~lM~d--PV-i~~~G~tyer~~I~~~l~~ 37 (73)
T PF04564_consen 3 DEFLCPITGELMRD--PV-ILPSGHTYERSAIERWLEQ 37 (73)
T ss_dssp GGGB-TTTSSB-SS--EE-EETTSEEEEHHHHHHHHCT
T ss_pred cccCCcCcCcHhhC--ce-eCCcCCEEcHHHHHHHHHc
Confidence 56789999998874 44 4799999999999999998
No 41
>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=95.35 E-value=0.014 Score=55.75 Aligned_cols=39 Identities=21% Similarity=0.346 Sum_probs=27.9
Q ss_pred CCccccccccc-ccCCC-eeEEeCCCCccChhhHHHHHhcC
Q 023728 207 DELTCTVCLEQ-VNVGE-IVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 207 d~~tCsICLEd-f~~GE-~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
++..|+||+.+ |..-+ .+..-+|+|.|...||+..+..+
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~ 42 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG 42 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC
Confidence 45789999997 33222 23333899999999999976543
No 42
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.79 E-value=0.0084 Score=64.14 Aligned_cols=43 Identities=9% Similarity=0.315 Sum_probs=30.8
Q ss_pred CCCcccccccccccCCC-e---eEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGE-I---VRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE-~---Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
..-++|+||-.-...-| . -|.-.|.|.||..|+.+|++.|..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s 1513 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARS 1513 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCC
Confidence 67789999976654211 1 2333489999999999999977444
No 43
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=94.76 E-value=0.0095 Score=58.41 Aligned_cols=43 Identities=35% Similarity=0.695 Sum_probs=36.8
Q ss_pred CCCcccccccccccC-CCeeEEeCCCCccChhhHHHHHh----cCCCC
Q 023728 206 EDELTCTVCLEQVNV-GEIVRSLPCLHQLFCSSMQIALT----HGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~-GE~Vr~LPC~H~FH~~CId~WLk----rscg~ 248 (278)
+-+.-|-.|-|.+.. .|.+..|||.|+||..|+...|. |+|+|
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~ 410 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPN 410 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCcc
Confidence 457789999999864 46799999999999999999998 45777
No 44
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.54 E-value=0.02 Score=55.44 Aligned_cols=54 Identities=26% Similarity=0.498 Sum_probs=40.3
Q ss_pred CCCcccccccccccCCC----eeEEeC-CCCccChhhHHHHH--h-------cCCCC-ccccccccCCC
Q 023728 206 EDELTCTVCLEQVNVGE----IVRSLP-CLHQLFCSSMQIAL--T-------HGCGN-RERAQFANSEQ 259 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE----~Vr~LP-C~H~FH~~CId~WL--k-------rscg~-~~~~~~~~~~~ 259 (278)
..+.+|.||+|...+-- ..+.|| |.|.|...||++|= + ++|+- |-.-.|++.+.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~ 227 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSS 227 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccc
Confidence 46899999999865322 123446 99999999999998 3 45664 77778887764
No 45
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.52 E-value=0.022 Score=57.35 Aligned_cols=35 Identities=26% Similarity=0.489 Sum_probs=28.4
Q ss_pred CcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 208 ELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
+..|+|||+.... .++.. |||+|...||-+.+..+
T Consensus 186 ~~~CPICL~~~~~--p~~t~-CGHiFC~~CiLqy~~~s 220 (513)
T KOG2164|consen 186 DMQCPICLEPPSV--PVRTN-CGHIFCGPCILQYWNYS 220 (513)
T ss_pred CCcCCcccCCCCc--ccccc-cCceeeHHHHHHHHhhh
Confidence 7899999998653 23333 99999999999998876
No 46
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.95 E-value=0.049 Score=53.73 Aligned_cols=37 Identities=24% Similarity=0.477 Sum_probs=34.0
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHHHHHh
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk 243 (278)
.--.|.||.++....+.+.-|||+|+|...|.+..+.
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 4568999999988889999999999999999999987
No 47
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=92.76 E-value=0.071 Score=38.62 Aligned_cols=36 Identities=19% Similarity=0.336 Sum_probs=27.3
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHh
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk 243 (278)
.....|+|.+..|+ +.|+...|+|.|=++.|..||+
T Consensus 9 ~~~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~ 44 (57)
T PF11789_consen 9 TISLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQ 44 (57)
T ss_dssp B--SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCT
T ss_pred EeccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHH
Confidence 35789999999988 6899999999999999999993
No 48
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.47 E-value=0.078 Score=49.54 Aligned_cols=39 Identities=23% Similarity=0.431 Sum_probs=32.7
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHH-HHhcCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQI-ALTHGCG 247 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~-WLkrscg 247 (278)
..+..|.||+|..+ .-..+||+|+|.-.||.. |=++..+
T Consensus 213 ~~d~kC~lC~e~~~---~ps~t~CgHlFC~~Cl~~~~t~~k~~ 252 (271)
T COG5574 213 LADYKCFLCLEEPE---VPSCTPCGHLFCLSCLLISWTKKKYE 252 (271)
T ss_pred ccccceeeeecccC---CcccccccchhhHHHHHHHHHhhccc
Confidence 35678999999754 456789999999999999 9888765
No 49
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=92.44 E-value=0.071 Score=37.03 Aligned_cols=33 Identities=24% Similarity=0.450 Sum_probs=24.2
Q ss_pred cccccccccCCCeeEEeCCC-----CccChhhHHHHHhc
Q 023728 211 CTVCLEQVNVGEIVRSLPCL-----HQLFCSSMQIALTH 244 (278)
Q Consensus 211 CsICLEdf~~GE~Vr~LPC~-----H~FH~~CId~WLkr 244 (278)
|-||+++-.+++ --..||. -..|.+|+.+|++.
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~ 38 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRE 38 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHH
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHh
Confidence 779999987766 3346863 36799999999997
No 50
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=91.71 E-value=0.18 Score=36.40 Aligned_cols=34 Identities=18% Similarity=0.374 Sum_probs=28.9
Q ss_pred CCcccccccccccCCCeeEEeC-CCCccChhhHHH
Q 023728 207 DELTCTVCLEQVNVGEIVRSLP-CLHQLFCSSMQI 240 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LP-C~H~FH~~CId~ 240 (278)
....|.+|-+.|.++|.+..=| |+-.+|++|.++
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 5678999999999777776666 999999999654
No 51
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=90.67 E-value=0.081 Score=51.25 Aligned_cols=40 Identities=25% Similarity=0.467 Sum_probs=33.8
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
++...|-||.|-|.. -...||+|.|..=||.+.|...+-+
T Consensus 21 D~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~C 60 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQC 60 (442)
T ss_pred HHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCC
Confidence 678899999999985 3456899999999999999977544
No 52
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=90.60 E-value=0.13 Score=54.71 Aligned_cols=39 Identities=18% Similarity=0.387 Sum_probs=32.1
Q ss_pred CCCcccccccccccCCCeeEEeC-CCCccChhhHHHHHhc
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLP-CLHQLFCSSMQIALTH 244 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LP-C~H~FH~~CId~WLkr 244 (278)
.+..+|.||.|.+...+.+=.=. |=|+||..||.+|-+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs 228 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARS 228 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHH
Confidence 45678999999998877653332 8899999999999986
No 53
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.16 E-value=0.36 Score=44.54 Aligned_cols=49 Identities=18% Similarity=0.383 Sum_probs=40.5
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCCccccccc
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGNRERAQFA 255 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~~~~~~~ 255 (278)
+-...|..|--.+..||.+| |-|-|.||=+|++.|-.+=+-|---+-|+
T Consensus 48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyq 96 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQ 96 (299)
T ss_pred CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCccc
Confidence 45678999999999999887 89999999999999988766665444444
No 54
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.04 E-value=0.042 Score=53.92 Aligned_cols=38 Identities=13% Similarity=0.270 Sum_probs=34.6
Q ss_pred CCcccccccccccCC-CeeEEeCCCCccChhhHHHHHhc
Q 023728 207 DELTCTVCLEQVNVG-EIVRSLPCLHQLFCSSMQIALTH 244 (278)
Q Consensus 207 d~~tCsICLEdf~~G-E~Vr~LPC~H~FH~~CId~WLkr 244 (278)
-...|+||.+.|+.. +.+..+-|+|.+|.+||.+||..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~ 233 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT 233 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH
Confidence 467899999999987 89999999999999999999973
No 55
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=89.85 E-value=0.22 Score=56.05 Aligned_cols=40 Identities=15% Similarity=0.346 Sum_probs=34.0
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
+.++.|.||..+-.......+|.|+|+||-.|...-|++.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~R 3523 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENR 3523 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhc
Confidence 5677899999887777778889999999999999888754
No 56
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.80 E-value=0.15 Score=54.55 Aligned_cols=41 Identities=15% Similarity=0.244 Sum_probs=32.0
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCG 247 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg 247 (278)
+..++|.+|.-.+.. ..-..-||+|.||++||.+=....-.
T Consensus 815 ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~~~~~ 855 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVLSLLS 855 (911)
T ss_pred cCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHHcccc
Confidence 678899999877654 35667899999999999987654433
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=89.77 E-value=0.12 Score=50.82 Aligned_cols=44 Identities=16% Similarity=0.379 Sum_probs=35.3
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCCccc
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGNRER 251 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~~~ 251 (278)
++...|++|..-+.+ .+....|+|.|-..||..|+.++..++..
T Consensus 19 ~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~ 62 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVC 62 (391)
T ss_pred cccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCccc
Confidence 577999999998775 34447899999999999999995555444
No 58
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=88.35 E-value=0.33 Score=42.37 Aligned_cols=36 Identities=8% Similarity=0.238 Sum_probs=27.2
Q ss_pred CCCcccccccccccCCCeeEEeCCC--C---ccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCL--H---QLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~--H---~FH~~CId~WLkrs 245 (278)
..+..|-||.++-. +. .-||. . .-|.+|+.+|+..+
T Consensus 6 ~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s 46 (162)
T PHA02825 6 LMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTS 46 (162)
T ss_pred CCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcC
Confidence 46789999998843 22 24864 3 55999999999977
No 59
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.04 E-value=0.51 Score=45.82 Aligned_cols=40 Identities=28% Similarity=0.521 Sum_probs=31.0
Q ss_pred CCCcccccccccccCCCeeEEeCCCCc-cChhhHHHHH--hcCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQ-LFCSSMQIAL--THGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~-FH~~CId~WL--krscg~ 248 (278)
+...+|.|||.+-++ ...|||+|. ...+|-+.-- ..+|+-
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPI 330 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPI 330 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCc
Confidence 458899999998664 678999998 6888887654 455664
No 60
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=86.87 E-value=0.22 Score=52.23 Aligned_cols=47 Identities=21% Similarity=0.282 Sum_probs=34.7
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHh---cCCCCccccccc
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT---HGCGNRERAQFA 255 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk---rscg~~~~~~~~ 255 (278)
..-.+|++|-..+++ +....|+|.|...||.+-+. |.||.-+.+-++
T Consensus 641 K~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 641 KELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred HhceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 457799999988875 23345999999999999887 557765444333
No 61
>PHA03096 p28-like protein; Provisional
Probab=84.94 E-value=0.36 Score=45.69 Aligned_cols=37 Identities=22% Similarity=0.368 Sum_probs=30.4
Q ss_pred cccccccccccCCC----eeEEeC-CCCccChhhHHHHHhcC
Q 023728 209 LTCTVCLEQVNVGE----IVRSLP-CLHQLFCSSMQIALTHG 245 (278)
Q Consensus 209 ~tCsICLEdf~~GE----~Vr~LP-C~H~FH~~CId~WLkrs 245 (278)
..|.||+|...... .-..|+ |.|.|-..||..|-..+
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 68999999976532 346787 99999999999998754
No 62
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.03 E-value=1.1 Score=41.86 Aligned_cols=114 Identities=17% Similarity=0.230 Sum_probs=66.1
Q ss_pred ccCCCcccHHHHHhhccCCCCCCCCCCHHHHhcCCeeEeecCCCCCCCCcccCCCCC-------Cchh------hhcc--
Q 023728 131 DREFDELDYETLRALDADNVPTAASMSEEEINTLPVHKYKVSGSQSGASSMQLGSSS-------SPAE------KKLE-- 195 (278)
Q Consensus 131 drdfD~~DyE~LlaLde~n~~~~~g~SeeeI~~LPv~~~~~~~~~~~ss~~~~sSSs-------s~~e------~kq~-- 195 (278)
.|.-+-+..+.-...+..+......++++....||.+-+....+.....-....++. -+-. .+..
T Consensus 127 ~r~~~~~~ae~~a~~~~~~~~~~sn~~~d~~k~lpsFWlPs~tP~A~atklekP~~~v~CP~s~kplklkdL~~VkFT~l 206 (303)
T KOG3039|consen 127 PRNPDTNSAEDAASFHGANSVSTSNMEEDKLKTLPSFWLPSLTPTAAATKLEKPSTTVVCPVSGKPLKLKDLFAVKFTPL 206 (303)
T ss_pred cCCCCcchhhhccCccccCCccccCccccccccccceecCccCchhhhhcccCCCceeeccCCCCccchhhcceeeeeec
Confidence 344455555555555556666667888888899997777654442222111111110 0000 0000
Q ss_pred -cccccCCCCC-CCCcccccccccccCCCeeEEe-CCCCccChhhHHHHHhc
Q 023728 196 -TSISVGNLKT-EDELTCTVCLEQVNVGEIVRSL-PCLHQLFCSSMQIALTH 244 (278)
Q Consensus 196 -s~~a~~~~k~-~d~~tCsICLEdf~~GE~Vr~L-PC~H~FH~~CId~WLkr 244 (278)
+...+.++.. .....|+||-+.+...-....| ||+|+|..+|+.+.++.
T Consensus 207 ~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~ 258 (303)
T KOG3039|consen 207 NSEETETKLIAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK 258 (303)
T ss_pred CCchhhhhhhhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc
Confidence 0000111111 3566899999999988877777 69999999999998764
No 63
>PHA02862 5L protein; Provisional
Probab=81.49 E-value=0.85 Score=39.38 Aligned_cols=34 Identities=18% Similarity=0.252 Sum_probs=25.6
Q ss_pred CcccccccccccCCCeeEEeCCC-----CccChhhHHHHHhcC
Q 023728 208 ELTCTVCLEQVNVGEIVRSLPCL-----HQLFCSSMQIALTHG 245 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~LPC~-----H~FH~~CId~WLkrs 245 (278)
...|=||.++-+ |.+ =||. -.-|.+|+.+|++.+
T Consensus 2 ~diCWIC~~~~~--e~~--~PC~C~GS~K~VHq~CL~~WIn~S 40 (156)
T PHA02862 2 SDICWICNDVCD--ERN--NFCGCNEEYKVVHIKCMQLWINYS 40 (156)
T ss_pred CCEEEEecCcCC--CCc--ccccccCcchhHHHHHHHHHHhcC
Confidence 467999999853 333 5764 467999999999755
No 64
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.19 E-value=0.25 Score=48.04 Aligned_cols=38 Identities=24% Similarity=0.575 Sum_probs=30.1
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
..+..|+|||+=++. .+....|.|.|..+||.+=|+.+
T Consensus 41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~g 78 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSG 78 (381)
T ss_pred hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhc
Confidence 568899999998763 34444599999999999877754
No 65
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.14 E-value=0.75 Score=43.95 Aligned_cols=36 Identities=17% Similarity=0.367 Sum_probs=28.0
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHHH--HHhcC
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQI--ALTHG 245 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~--WLkrs 245 (278)
...+|+||+..-..- ..|+|.|.|..-||+- |+...
T Consensus 6 ~~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~ 43 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKK 43 (324)
T ss_pred cCCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCC
Confidence 467899999875432 6799999999999986 44443
No 66
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.36 E-value=1.1 Score=40.03 Aligned_cols=47 Identities=13% Similarity=0.176 Sum_probs=29.5
Q ss_pred CCcccccccccccCC----CeeEEeCCCCccChhhHHHHHhcCCCCccccc
Q 023728 207 DELTCTVCLEQVNVG----EIVRSLPCLHQLFCSSMQIALTHGCGNRERAQ 253 (278)
Q Consensus 207 d~~tCsICLEdf~~G----E~Vr~LPC~H~FH~~CId~WLkrscg~~~~~~ 253 (278)
....|-||-.--.+| ...-...|+.-||.-|+..||+.=-..|.|-+
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFd 214 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFD 214 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceee
Confidence 344566664322222 34456679999999999999985444444433
No 67
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=78.91 E-value=1.2 Score=47.26 Aligned_cols=35 Identities=26% Similarity=0.312 Sum_probs=24.9
Q ss_pred ccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 210 TCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
.|+||--.+ .|.......|+|.-|.+|...|++.+
T Consensus 1030 ~C~~C~l~V-~gss~~Cg~C~Hv~H~sc~~eWf~~g 1064 (1081)
T KOG0309|consen 1030 QCAICHLAV-RGSSNFCGTCGHVGHTSCMMEWFRTG 1064 (1081)
T ss_pred eeeeEeeEe-eccchhhccccccccHHHHHHHHhcC
Confidence 455554443 23445567899999999999999954
No 68
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.24 E-value=1.9 Score=40.78 Aligned_cols=36 Identities=17% Similarity=0.146 Sum_probs=28.6
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHh
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALT 243 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLk 243 (278)
....+|++|-+. +--.-...+|+|+|..-||..=+.
T Consensus 237 t~~~~C~~Cg~~--PtiP~~~~~C~HiyCY~Ci~ts~~ 272 (298)
T KOG2879|consen 237 TSDTECPVCGEP--PTIPHVIGKCGHIYCYYCIATSRL 272 (298)
T ss_pred cCCceeeccCCC--CCCCeeeccccceeehhhhhhhhc
Confidence 478899999887 223445678999999999998666
No 69
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=77.86 E-value=1.2 Score=42.69 Aligned_cols=39 Identities=15% Similarity=0.292 Sum_probs=31.2
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCG 247 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg 247 (278)
+....|-||-+-+.. -...+|+|.|..=||...|...+-
T Consensus 23 Ds~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~ 61 (391)
T COG5432 23 DSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPF 61 (391)
T ss_pred hhHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCC
Confidence 567899999998763 123469999999999999987743
No 70
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=76.37 E-value=1.6 Score=40.27 Aligned_cols=37 Identities=16% Similarity=0.301 Sum_probs=28.3
Q ss_pred CCcccccccccccCCCe-eEEeCCC-----CccChhhHHHHHh
Q 023728 207 DELTCTVCLEQVNVGEI-VRSLPCL-----HQLFCSSMQIALT 243 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~-Vr~LPC~-----H~FH~~CId~WLk 243 (278)
++..|-||.++...... .-..||. +..|+.|+++|+.
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~ 119 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFS 119 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhc
Confidence 46789999998765432 4556763 6679999999999
No 71
>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 PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=74.28 E-value=0.95 Score=33.91 Aligned_cols=40 Identities=23% Similarity=0.470 Sum_probs=21.4
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
+...|++|.+-++ +.|..-.|.|.|-..||.+=+...|+.
T Consensus 6 ~lLrCs~C~~~l~--~pv~l~~CeH~fCs~Ci~~~~~~~CPv 45 (65)
T PF14835_consen 6 ELLRCSICFDILK--EPVCLGGCEHIFCSSCIRDCIGSECPV 45 (65)
T ss_dssp HTTS-SSS-S--S--S-B---SSS--B-TTTGGGGTTTB-SS
T ss_pred HhcCCcHHHHHhc--CCceeccCccHHHHHHhHHhcCCCCCC
Confidence 4678999999876 456666799999999998765555554
No 73
>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=73.74 E-value=3.9 Score=35.79 Aligned_cols=48 Identities=15% Similarity=0.423 Sum_probs=30.6
Q ss_pred CCcccccccccccCCCee---------EEeCCCCcc-ChhhHHHHHhcCCCCccccccc
Q 023728 207 DELTCTVCLEQVNVGEIV---------RSLPCLHQL-FCSSMQIALTHGCGNRERAQFA 255 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~V---------r~LPC~H~F-H~~CId~WLkrscg~~~~~~~~ 255 (278)
++.+|+||||-=...-.+ |--=|.-.| |..|+++. ++..++..+..-+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqf-kka~~~~~~~~~~ 58 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQF-KKAYGKSSSSSSQ 58 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHH-HHHhcCCCCcccc
Confidence 467999999985543322 223376666 99999985 5566665544433
No 74
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=72.69 E-value=2.8 Score=44.91 Aligned_cols=42 Identities=14% Similarity=0.117 Sum_probs=32.5
Q ss_pred CCCCCcccccccccccC-CCeeEEeC---CCCccChhhHHHHHhcC
Q 023728 204 KTEDELTCTVCLEQVNV-GEIVRSLP---CLHQLFCSSMQIALTHG 245 (278)
Q Consensus 204 k~~d~~tCsICLEdf~~-GE~Vr~LP---C~H~FH~~CId~WLkrs 245 (278)
+..+..+|.||.-++.+ .|....+| |.|.|...||..|+.+=
T Consensus 92 K~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL 137 (1134)
T KOG0825|consen 92 KTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQL 137 (1134)
T ss_pred ccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHh
Confidence 33567788888888876 34455666 99999999999999853
No 75
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.40 E-value=2 Score=42.27 Aligned_cols=39 Identities=13% Similarity=0.346 Sum_probs=30.3
Q ss_pred CCcccccccccccCC-CeeEEeCCCCccChhhHHHHHhcC
Q 023728 207 DELTCTVCLEQVNVG-EIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 207 d~~tCsICLEdf~~G-E~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
...+|.||..+.... +....+.|+|.|-.+|+.+-++-.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 578999999554444 555567799999999999988744
No 76
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=68.20 E-value=2.5 Score=38.48 Aligned_cols=35 Identities=14% Similarity=0.306 Sum_probs=28.1
Q ss_pred CcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 208 ELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
...|.||-++|+.- ....|+|.|...|..+=.+..
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg 230 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKG 230 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccC
Confidence 44899999999852 335699999999988877765
No 77
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=65.82 E-value=1.7 Score=41.22 Aligned_cols=41 Identities=20% Similarity=0.293 Sum_probs=34.9
Q ss_pred CcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 208 ELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
...|.+|.++|..|......-|.-+||..|+-.|++.....
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 254 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGAAS 254 (288)
T ss_pred ceecHHHHHHHhcccccchhhcccccccccccccccccccc
Confidence 34899999999987777777777799999999999977644
No 78
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=64.34 E-value=7.8 Score=34.20 Aligned_cols=33 Identities=27% Similarity=0.233 Sum_probs=16.2
Q ss_pred CCCcceeeec-cCcccCCChhHHHHHHHHHHHHH
Q 023728 20 IPERRTVRIH-AGRPVNSNSLAFLVTVLLLFMIL 52 (278)
Q Consensus 20 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 52 (278)
-|+|+.+|.. -+|--=.+.+..++.|+|+.++.
T Consensus 61 GP~Rr~vRD~VDsR~~i~e~fmP~alv~lv~~~v 94 (170)
T PF11241_consen 61 GPVRRYVRDYVDSRRNIGEFFMPVALVLLVLSFV 94 (170)
T ss_pred cchhhhhhhhhhcccchHHHHHHHHHHHHHHHHH
Confidence 3788889866 44442233333333333333333
No 79
>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=63.46 E-value=2.2 Score=29.13 Aligned_cols=31 Identities=16% Similarity=0.363 Sum_probs=25.1
Q ss_pred ccccccccccCCCeeEEeCCCCccChhhHHH
Q 023728 210 TCTVCLEQVNVGEIVRSLPCLHQLFCSSMQI 240 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~ 240 (278)
.|.||...-..++.|.---|.-.||..|+.+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~ 31 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGP 31 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTS
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCC
Confidence 3889999666666777777999999999865
No 80
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.09 E-value=3.3 Score=44.22 Aligned_cols=41 Identities=20% Similarity=0.337 Sum_probs=33.6
Q ss_pred CCCccccccccccc-CC---CeeEEeCCCCccChhhHHHHHhcCC
Q 023728 206 EDELTCTVCLEQVN-VG---EIVRSLPCLHQLFCSSMQIALTHGC 246 (278)
Q Consensus 206 ~d~~tCsICLEdf~-~G---E~Vr~LPC~H~FH~~CId~WLkrsc 246 (278)
..+..|+-|.+... .| +.+.++-|+|.||..|+.--..++.
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~ 826 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA 826 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc
Confidence 45568999999875 34 5789999999999999988877774
No 81
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.06 E-value=5.2 Score=39.69 Aligned_cols=41 Identities=20% Similarity=0.374 Sum_probs=31.9
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCCc
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGNR 249 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~ 249 (278)
..+..|.||..-+.. . ..+||+|.|-..||++=|.++-.++
T Consensus 82 ~sef~c~vc~~~l~~--p-v~tpcghs~c~~Cl~r~ld~~~~cp 122 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP--P-VVTPCGHSFCLECLDRSLDQETECP 122 (398)
T ss_pred cchhhhhhhHhhcCC--C-ccccccccccHHHHHHHhccCCCCc
Confidence 678899999777653 2 3449999999999999777665554
No 82
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.76 E-value=5.1 Score=37.15 Aligned_cols=38 Identities=21% Similarity=0.390 Sum_probs=30.8
Q ss_pred CcccccccccccCCC--ee-EEeCCCCccChhhHHHHHhcC
Q 023728 208 ELTCTVCLEQVNVGE--IV-RSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 208 ~~tCsICLEdf~~GE--~V-r~LPC~H~FH~~CId~WLkrs 245 (278)
...|-||=++|..++ .+ |.|.|+|.|-..|+.+-+..+
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~ 43 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS 43 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCc
Confidence 468999999998664 33 666799999999999877655
No 83
>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=55.78 E-value=5.6 Score=27.07 Aligned_cols=36 Identities=22% Similarity=0.406 Sum_probs=21.7
Q ss_pred cccccccccCCCeeEEeCCCCccChhhHHHHHhcCC
Q 023728 211 CTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGC 246 (278)
Q Consensus 211 CsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrsc 246 (278)
|.+|-+-...|..-..-.|.=.+|..|++.++++..
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~ 36 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRS 36 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-S
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCC
Confidence 778888887777666667888999999999998654
No 84
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.42 E-value=9.6 Score=37.57 Aligned_cols=38 Identities=16% Similarity=0.328 Sum_probs=29.1
Q ss_pred CCCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 205 TEDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 205 ~~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
..++..|+||-..=- ...--||+|.=..+||.+-|..+
T Consensus 419 ~sEd~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN~ 456 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMNC 456 (489)
T ss_pred CcccccCcceecccc---hhhccCCCCchHHHHHHHHHhcC
Confidence 367889999976411 23345899999999999999855
No 85
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=54.19 E-value=11 Score=29.83 Aligned_cols=32 Identities=16% Similarity=0.400 Sum_probs=25.2
Q ss_pred CCcccccccccccCCCeeEEeC--CCCccChhhHHH
Q 023728 207 DELTCTVCLEQVNVGEIVRSLP--CLHQLFCSSMQI 240 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LP--C~H~FH~~CId~ 240 (278)
....|.||... .|-.++--- |...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 47799999998 565665554 889999999854
No 86
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.05 E-value=7 Score=38.89 Aligned_cols=38 Identities=18% Similarity=0.355 Sum_probs=33.4
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
....+|-||.+.+.. .+..+.|+|.|-..|+...|++.
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 367899999999887 77788999999999999999865
No 87
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=53.01 E-value=9.5 Score=38.55 Aligned_cols=64 Identities=27% Similarity=0.331 Sum_probs=42.7
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCCccccccccCCCCCC----CCCccceeEEE
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGNRERAQFANSEQDPV----GMKPDKLKWML 273 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~~~~~~~~~~~~~~----~~~~~~~~~~~ 273 (278)
+++..|+||..=|++ -..|||+|.....|...-+.+++.. ++.|-..++-.|+ -+.-||..+|.
T Consensus 2 eeelkc~vc~~f~~e---piil~c~h~lc~~ca~~~~~~tp~~-~spq~~~aa~s~vs~~~~~~~d~msl~~ 69 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILPCSHNLCQACARNILVQTPES-ESPQSHRAAGSGVSDYDYLDLDKMSLYS 69 (699)
T ss_pred cccccCceehhhccC---ceEeecccHHHHHHHHhhcccCCCC-CCchhhhhcCCCCCccccccccceeeEe
Confidence 478999999998874 3579999999999999877765433 3334333333333 23446665553
No 88
>PF04641 Rtf2: Rtf2 RING-finger
Probab=52.37 E-value=11 Score=34.74 Aligned_cols=36 Identities=19% Similarity=0.244 Sum_probs=30.1
Q ss_pred CCCcccccccccccCCCeeEEe-CCCCccChhhHHHH
Q 023728 206 EDELTCTVCLEQVNVGEIVRSL-PCLHQLFCSSMQIA 241 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~L-PC~H~FH~~CId~W 241 (278)
.....|+|+..+|........| ||||+|=..||+.-
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~ 147 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL 147 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh
Confidence 5677999999999666655555 89999999999986
No 89
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=51.35 E-value=9.7 Score=41.16 Aligned_cols=39 Identities=15% Similarity=0.320 Sum_probs=29.6
Q ss_pred CCCcccccccccccCCCeeEEeCCC-----CccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCL-----HQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~-----H~FH~~CId~WLkrs 245 (278)
+|..+|-||-.+=.+|+.+- =||. -+-|.+|+..|+..|
T Consensus 10 ~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s 53 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECS 53 (1175)
T ss_pred ccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcC
Confidence 56799999988876666654 3654 357999999999843
No 90
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=50.40 E-value=7.3 Score=36.88 Aligned_cols=39 Identities=21% Similarity=0.433 Sum_probs=31.3
Q ss_pred CCcccccccccccCCC-eeEEeCCCCccChhhHHHHHhcC
Q 023728 207 DELTCTVCLEQVNVGE-IVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 207 d~~tCsICLEdf~~GE-~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
....|+||.|.+-.+. .+..++|+|.-|..|...-...+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~ 196 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG 196 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC
Confidence 3445999999987776 67889999999988887776655
No 91
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=49.10 E-value=16 Score=35.35 Aligned_cols=52 Identities=23% Similarity=0.446 Sum_probs=38.0
Q ss_pred CCcccccccccccCCCeeEEeC-CCCccChhhHHHHHhcC---CCCccccccccCCCCC
Q 023728 207 DELTCTVCLEQVNVGEIVRSLP-CLHQLFCSSMQIALTHG---CGNRERAQFANSEQDP 261 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LP-C~H~FH~~CId~WLkrs---cg~~~~~~~~~~~~~~ 261 (278)
-.+.|+.|-.-.. ..++. | |+|.|..+||..-|-.+ |+|-++-+-+-..+.|
T Consensus 273 i~LkCplc~~Llr--np~kT-~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~p 328 (427)
T COG5222 273 ISLKCPLCHCLLR--NPMKT-PCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTP 328 (427)
T ss_pred ccccCcchhhhhh--CcccC-ccccchHHHHHHhhhhhhccccCCCcccccchhhccCc
Confidence 3488999977654 34555 6 78999999999988876 8987776665544433
No 92
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=47.47 E-value=4.9 Score=41.71 Aligned_cols=57 Identities=9% Similarity=0.195 Sum_probs=34.8
Q ss_pred CCCccccccccc-----ccCCCeeEEeCCCCccChhhHHHHHhcCCCCccccccccCCCCCCCCC
Q 023728 206 EDELTCTVCLEQ-----VNVGEIVRSLPCLHQLFCSSMQIALTHGCGNRERAQFANSEQDPVGMK 265 (278)
Q Consensus 206 ~d~~tCsICLEd-----f~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~~~~~~~~~~~~~~~~~ 265 (278)
.....|-+|... |+.....+..-|+++||..|... +++.+++=...+.-+.++--++
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R~q~r~~~~~~~~ 570 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCERRQKRAEQGAQLS 570 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHHHHHHhhcccccC
Confidence 456788888433 55555677788999999999664 4443444444444444443333
No 93
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=47.13 E-value=48 Score=23.25 Aligned_cols=29 Identities=21% Similarity=0.399 Sum_probs=18.4
Q ss_pred hhHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Q 023728 59 SNFLLWIVLGIFLLA----TSLRMYATCQQLHA 87 (278)
Q Consensus 59 ~~fl~~~~~~~~~~~----~~~r~~~~~~~lq~ 87 (278)
|..|-||+..|.+++ .+|-+|...+|++.
T Consensus 2 p~wlt~iFsvvIil~If~~iGl~IyQkikqIrg 34 (49)
T PF11044_consen 2 PTWLTTIFSVVIILGIFAWIGLSIYQKIKQIRG 34 (49)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344555554444433 47888999999865
No 94
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=46.41 E-value=8.7 Score=38.42 Aligned_cols=36 Identities=25% Similarity=0.380 Sum_probs=28.6
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
.-+-|-||-|. +..|+.=||+|.....|+..|=..+
T Consensus 368 TFeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd 403 (563)
T KOG1785|consen 368 TFELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSD 403 (563)
T ss_pred hHHHHHHhhcc---CCCcccccccchHHHHHHHhhcccC
Confidence 34469999886 3358888999999999999998433
No 95
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=43.50 E-value=19 Score=38.50 Aligned_cols=41 Identities=22% Similarity=0.187 Sum_probs=28.9
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCC
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
....|+||-.-+ .|..+-.--|+|.=|.+|+.+|+.++-.+
T Consensus 778 a~~~CtVC~~vi-~G~~~~c~~C~H~gH~sh~~sw~~~~s~c 818 (839)
T KOG0269|consen 778 ASAKCTVCDLVI-RGVDVWCQVCGHGGHDSHLKSWFFKASPC 818 (839)
T ss_pred hhcCceeeccee-eeeEeecccccccccHHHHHHHHhcCCCC
Confidence 345788885443 34444444599999999999999976433
No 96
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=42.98 E-value=21 Score=22.05 Aligned_cols=29 Identities=17% Similarity=0.261 Sum_probs=19.4
Q ss_pred ccccccccccCCCeeEEeCCCCccChhhHH
Q 023728 210 TCTVCLEQVNVGEIVRSLPCLHQLFCSSMQ 239 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LPC~H~FH~~CId 239 (278)
.|..|-+.+.+++..... =+..||.+|..
T Consensus 1 ~C~~C~~~i~~~~~~~~~-~~~~~H~~Cf~ 29 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA-LGKVWHPECFK 29 (39)
T ss_pred CccccCCcccCCcEEEEe-CCccccccCCC
Confidence 488898888777333222 26789988853
No 97
>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=41.70 E-value=9.9 Score=35.63 Aligned_cols=39 Identities=21% Similarity=0.437 Sum_probs=30.1
Q ss_pred CCcccccccccc-c-CCCeeEEeC-CCCccChhhHHHHHhcC
Q 023728 207 DELTCTVCLEQV-N-VGEIVRSLP-CLHQLFCSSMQIALTHG 245 (278)
Q Consensus 207 d~~tCsICLEdf-~-~GE~Vr~LP-C~H~FH~~CId~WLkrs 245 (278)
.+..|+||..+- . ++-++-.=| |=|....+|+++-+.++
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~G 50 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRG 50 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCC
Confidence 466899998874 3 333444447 99999999999999876
No 98
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=41.70 E-value=8.7 Score=37.18 Aligned_cols=43 Identities=19% Similarity=0.233 Sum_probs=33.0
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCCcc
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGNRE 250 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~~ 250 (278)
....+|.+|-.=|.+... ..-|.|.|.+.||-+.|..+--++.
T Consensus 13 n~~itC~LC~GYliDATT--I~eCLHTFCkSCivk~l~~~~~CP~ 55 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATT--ITECLHTFCKSCIVKYLEESKYCPT 55 (331)
T ss_pred ccceehhhccceeecchh--HHHHHHHHHHHHHHHHHHHhccCCc
Confidence 467899999888776433 2359999999999999998744443
No 99
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=41.23 E-value=26 Score=34.16 Aligned_cols=37 Identities=16% Similarity=0.186 Sum_probs=27.8
Q ss_pred CCCcccccccccccCCCeeEEeC-CCCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLP-CLHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LP-C~H~FH~~CId~WLkrs 245 (278)
.+...|+||+....... .|. -|=+|...||...+...
T Consensus 298 ~~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~ 335 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNY 335 (357)
T ss_pred CccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhc
Confidence 57889999998855432 222 37889999999999854
No 100
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=40.23 E-value=34 Score=26.26 Aligned_cols=22 Identities=36% Similarity=0.919 Sum_probs=16.0
Q ss_pred hHHHHHHHHHHHHHhccCCChhHHHHHHH
Q 023728 39 LAFLVTVLLLFMILNSHQMSSNFLLWIVL 67 (278)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~fl~~~~~ 67 (278)
..|++..+++|||+.. .+|+++
T Consensus 3 ~~fl~~plivf~ifVa-------p~WL~l 24 (75)
T PF06667_consen 3 FEFLFVPLIVFMIFVA-------PIWLIL 24 (75)
T ss_pred hHHHHHHHHHHHHHHH-------HHHHHH
Confidence 4678888888888776 467665
No 101
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=40.05 E-value=16 Score=32.63 Aligned_cols=43 Identities=19% Similarity=0.464 Sum_probs=32.2
Q ss_pred CCCccccccccc-----ccCCCeeEEeCCCCccChhhHHHHHhcCCCCccc
Q 023728 206 EDELTCTVCLEQ-----VNVGEIVRSLPCLHQLFCSSMQIALTHGCGNRER 251 (278)
Q Consensus 206 ~d~~tCsICLEd-----f~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~~~ 251 (278)
..+..|-||-++ |+.+..++--.|+-.||+.|..+ ++|++=.+
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---KSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---CCCCCcHh
Confidence 356789999753 56656677777999999999884 78887433
No 102
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.70 E-value=21 Score=34.98 Aligned_cols=26 Identities=27% Similarity=0.531 Sum_probs=21.3
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLF 234 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH 234 (278)
.....|.||+++..+ ..-+||+|.=-
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvpcGh~cc 328 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVPCGHVCC 328 (355)
T ss_pred CCCCceEEecCCccc---eeeecCCcEEE
Confidence 456789999999875 77899999943
No 103
>PF10852 DUF2651: Protein of unknown function (DUF2651) ; InterPro: IPR020258 This entry contains transmembrane proteins with no known function.
Probab=39.62 E-value=52 Score=25.80 Aligned_cols=31 Identities=16% Similarity=0.490 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHhccCCChhHHHHHHHHHHH
Q 023728 41 FLVTVLLLFMILNSHQMSSNFLLWIVLGIFL 71 (278)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~fl~~~~~~~~~ 71 (278)
--+.++++|.|++..--.+.|+.|+++-.++
T Consensus 32 mPivtf~i~Lil~~t~fn~SFf~WvvvYT~~ 62 (82)
T PF10852_consen 32 MPIVTFAISLILTFTLFNPSFFFWVVVYTIF 62 (82)
T ss_pred HHHHHHHHHHHHHHHhhChHHHHHHHHHHHH
Confidence 3445566788888888899999999875433
No 104
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.55 E-value=9.8 Score=40.11 Aligned_cols=43 Identities=26% Similarity=0.454 Sum_probs=36.1
Q ss_pred CCCcccccccccccCCCe-eEEeCCCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGEI-VRSLPCLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~-Vr~LPC~H~FH~~CId~WLkrscg~ 248 (278)
.+-..|.||+..|..... =+.|-|+|.-...|+..-..++|.+
T Consensus 9 ~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~scp~ 52 (861)
T KOG3161|consen 9 VLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNASCPT 52 (861)
T ss_pred HHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhccCCC
Confidence 567889999998876553 3566799999999999999999995
No 105
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=38.09 E-value=26 Score=34.59 Aligned_cols=32 Identities=22% Similarity=0.558 Sum_probs=26.1
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHH
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQI 240 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~ 240 (278)
+++..|.||-+... -+.++||+|.-...|--+
T Consensus 59 Een~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~R 90 (493)
T COG5236 59 EENMNCQICAGSTT---YSARYPCGHQICHACAVR 90 (493)
T ss_pred cccceeEEecCCce---EEEeccCCchHHHHHHHH
Confidence 67888999988754 568899999998888654
No 106
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=38.08 E-value=22 Score=21.89 Aligned_cols=29 Identities=21% Similarity=0.400 Sum_probs=11.9
Q ss_pred ccccccccccCCCeeEEeCCCCccChhhH
Q 023728 210 TCTVCLEQVNVGEIVRSLPCLHQLFCSSM 238 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LPC~H~FH~~CI 238 (278)
.|.+|-+....+-.-+-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 58888888776455666779999999996
No 107
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.99 E-value=14 Score=40.06 Aligned_cols=31 Identities=13% Similarity=0.367 Sum_probs=23.5
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHH
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQ 239 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId 239 (278)
....|+.|--.++. ....--|+|.||.+|+.
T Consensus 839 q~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e 869 (933)
T KOG2114|consen 839 QVSKCSACEGTLDL--PFVHFLCGHSYHQHCLE 869 (933)
T ss_pred eeeeecccCCcccc--ceeeeecccHHHHHhhc
Confidence 34689999776542 34556699999999998
No 108
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=37.59 E-value=18 Score=22.17 Aligned_cols=23 Identities=26% Similarity=0.465 Sum_probs=14.8
Q ss_pred ccccccccccCCCeeEEeC-CCCccC
Q 023728 210 TCTVCLEQVNVGEIVRSLP-CLHQLF 234 (278)
Q Consensus 210 tCsICLEdf~~GE~Vr~LP-C~H~FH 234 (278)
+|+-|-.++... .+.=| |+|.|-
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCCc
Confidence 577787776543 33446 888873
No 109
>PF03213 Pox_P35: Poxvirus P35 protein; InterPro: IPR004900 The Poxvirus P35 protein is an immunodominant envelope protein. It binds to heparan sulphate on the cell surface to provide virion attachment to target cell [].; GO: 0019031 viral envelope
Probab=36.94 E-value=37 Score=32.89 Aligned_cols=16 Identities=31% Similarity=0.675 Sum_probs=12.8
Q ss_pred ChhHHHHHHHHHHHHH
Q 023728 58 SSNFLLWIVLGIFLLA 73 (278)
Q Consensus 58 ~~~fl~~~~~~~~~~~ 73 (278)
--+=|||+.+|+|+.+
T Consensus 308 vnSkllWFLaG~l~ty 323 (325)
T PF03213_consen 308 VNSKLLWFLAGILFTY 323 (325)
T ss_pred CCchHHHHHHHhHHhe
Confidence 3567999999998754
No 110
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.58 E-value=46 Score=32.03 Aligned_cols=43 Identities=16% Similarity=0.318 Sum_probs=33.9
Q ss_pred CCCcccccccccccCCCeeEEeC-CCCccChhhHHHHHhcCCCC
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLP-CLHQLFCSSMQIALTHGCGN 248 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LP-C~H~FH~~CId~WLkrscg~ 248 (278)
...+.|++|.|.+++-.-|..-. =.|.|.-.|=..-+|+.|+-
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~s 309 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGAS 309 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCC
Confidence 45689999999999876555332 37999999999999988765
No 111
>PHA02688 ORF059 IMV protein VP55; Provisional
Probab=35.26 E-value=39 Score=32.74 Aligned_cols=16 Identities=25% Similarity=0.580 Sum_probs=13.0
Q ss_pred ChhHHHHHHHHHHHHH
Q 023728 58 SSNFLLWIVLGIFLLA 73 (278)
Q Consensus 58 ~~~fl~~~~~~~~~~~ 73 (278)
-.+=|||+.+|+|+.+
T Consensus 306 vnSkLlWFLaG~l~ty 321 (323)
T PHA02688 306 VNSKLLWFLAGTLFTY 321 (323)
T ss_pred CCchHHHHHHHhHHhe
Confidence 3567999999999865
No 112
>PF13571 DUF4133: Domain of unknown function (DUF4133)
Probab=34.98 E-value=41 Score=27.11 Aligned_cols=13 Identities=38% Similarity=0.736 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHhc
Q 023728 42 LVTVLLLFMILNS 54 (278)
Q Consensus 42 ~~~~~~~~~~~~~ 54 (278)
|+.++++|+||+.
T Consensus 26 ll~~~il~~iLYi 38 (96)
T PF13571_consen 26 LLGLFILFVILYI 38 (96)
T ss_pred HHHHHHHHHHHHH
Confidence 5677788888886
No 113
>PRK09458 pspB phage shock protein B; Provisional
Probab=34.49 E-value=43 Score=25.82 Aligned_cols=22 Identities=27% Similarity=0.652 Sum_probs=17.1
Q ss_pred hHHHHHHHHHHHHHhccCCChhHHHHHHH
Q 023728 39 LAFLVTVLLLFMILNSHQMSSNFLLWIVL 67 (278)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~fl~~~~~ 67 (278)
+.||+.-+++|||+.. .+|+++
T Consensus 3 ~~fl~~PliiF~ifVa-------PiWL~L 24 (75)
T PRK09458 3 ALFLAIPLTIFVLFVA-------PIWLWL 24 (75)
T ss_pred chHHHHhHHHHHHHHH-------HHHHHH
Confidence 5688888889998876 467765
No 114
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=34.12 E-value=1.6e+02 Score=23.15 Aligned_cols=40 Identities=18% Similarity=0.248 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHH-HHHHH
Q 023728 40 AFLVTVLLLFMILNSHQMSSNFLLWIVLGIFLLAT-SLRMY 79 (278)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~fl~~~~~~~~~~~~-~~r~~ 79 (278)
.+++.++++|..+.--.-+.+-++|.++..|++.. -+++|
T Consensus 4 ~~~~~~Li~~~fi~~k~~~~s~li~~~LilfviF~~~L~~y 44 (83)
T PF05814_consen 4 YSLFLALIVLGFIFDKNEGFSELIITLLILFVIFFCVLQVY 44 (83)
T ss_pred HHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555554444434455566666666666655 45665
No 115
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=33.47 E-value=16 Score=35.51 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=19.8
Q ss_pred CcccccccccccCCCeeEEeCCCCccChhhHHH
Q 023728 208 ELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQI 240 (278)
Q Consensus 208 ~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~ 240 (278)
...|--|=--+. ---|.+||.|+|..+|-.-
T Consensus 90 VHfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~ 120 (389)
T KOG2932|consen 90 VHFCDRCDFPIA--IYGRMIPCKHVFCLECARS 120 (389)
T ss_pred eEeecccCCcce--eeecccccchhhhhhhhhc
Confidence 334555533222 2347889999999999754
No 116
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=33.26 E-value=19 Score=23.47 Aligned_cols=26 Identities=31% Similarity=0.708 Sum_probs=17.3
Q ss_pred cccccccccccCCCe--------eEEeCCCCccC
Q 023728 209 LTCTVCLEQVNVGEI--------VRSLPCLHQLF 234 (278)
Q Consensus 209 ~tCsICLEdf~~GE~--------Vr~LPC~H~FH 234 (278)
.+|+=|.-.|+..|. ++--.|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 368888888865553 44445788875
No 117
>PF05366 Sarcolipin: Sarcolipin; InterPro: IPR008028 Sarcolipin is a 31 amino acid integral membrane protein that regulates Ca-ATPase activity in skeletal muscle [].; GO: 0030234 enzyme regulator activity, 0016020 membrane; PDB: 1JDM_A.
Probab=32.64 E-value=34 Score=21.72 Aligned_cols=26 Identities=31% Similarity=0.465 Sum_probs=16.8
Q ss_pred CcccCCChhHHHHHHHHHHHHHhccC
Q 023728 31 GRPVNSNSLAFLVTVLLLFMILNSHQ 56 (278)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 (278)
.|-.--|+-+-||||++.++..-|-|
T Consensus 5 trel~lnftvvlitvilmwllvrsyq 30 (31)
T PF05366_consen 5 TRELFLNFTVVLITVILMWLLVRSYQ 30 (31)
T ss_dssp SSSSHHHHHHHHHHHHHHHHHTTS--
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHhhc
Confidence 34455577888899988777655533
No 118
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=32.45 E-value=91 Score=28.77 Aligned_cols=32 Identities=25% Similarity=0.626 Sum_probs=17.0
Q ss_pred hHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHH
Q 023728 39 LAFLVTVLLLFMILNSHQMSSNFLLWIVLGIFLLA 73 (278)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~fl~~~~~~~~~~~ 73 (278)
.+|++++.+ |.++.. +...+++|+++|+++-+
T Consensus 33 ~a~l~~~~v-~v~ig~--l~~~~~~~~i~gi~~g~ 64 (224)
T PF13829_consen 33 GAFLGPIAV-FVLIGL--LFGSWWYWLIIGILLGL 64 (224)
T ss_pred HHHHHHHHH-HHHHHH--HHccHHHHHHHHHHHHH
Confidence 355555544 333333 22267888887776543
No 119
>PF14002 YniB: YniB-like protein
Probab=32.03 E-value=1.1e+02 Score=26.91 Aligned_cols=39 Identities=26% Similarity=0.337 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh--Hh-hcCcccccc
Q 023728 65 IVLGIFLLATSLRMYATCQQLHAQAQAH--AV-ASGLLGHTE 103 (278)
Q Consensus 65 ~~~~~~~~~~~~r~~~~~~~lq~~~~~~--aa-~~G~~~~~~ 103 (278)
+++|+.|-+++.|||.+...+....+.+ .- +-|--|+|.
T Consensus 84 iFvGlAL~aSG~rm~rqvk~ire~IEdqlIlE~akG~~g~tr 125 (166)
T PF14002_consen 84 IFVGLALQASGARMSRQVKFIREGIEDQLILEQAKGSEGRTR 125 (166)
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHhHHHHHHHHHhcCCccccH
Confidence 3467888999999999988887644444 22 666666653
No 120
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=30.58 E-value=1.1e+02 Score=24.71 Aligned_cols=19 Identities=26% Similarity=0.576 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 023728 69 IFLLATSLRMYATCQQLHA 87 (278)
Q Consensus 69 ~~~~~~~~r~~~~~~~lq~ 87 (278)
++++...+++|....+++.
T Consensus 75 ~~ll~~~~~l~~~is~le~ 93 (115)
T PF10066_consen 75 LFLLVIIFSLYVRISRLEE 93 (115)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444433
No 121
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=30.31 E-value=1.7e+02 Score=25.48 Aligned_cols=47 Identities=23% Similarity=0.188 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHhccCCChh-HH----------HHHHHHHHHHHHHHHHHHHHHHH
Q 023728 39 LAFLVTVLLLFMILNSHQMSSN-FL----------LWIVLGIFLLATSLRMYATCQQL 85 (278)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~-fl----------~~~~~~~~~~~~~~r~~~~~~~l 85 (278)
.+||+...++=||.+++-|+|. |- +.-.+.+.+-|..|-.+|.+.|+
T Consensus 29 fi~l~~~~~~~~~~~~~~~gp~~~~~~~~s~~~tl~~yl~ial~nAvlLI~WA~YN~~ 86 (153)
T PRK14584 29 FLFLLVRGLLEMISRAPHMGPIPLRIYILSGLTTIALYLAIAAFNAVLLIIWAKYNQV 86 (153)
T ss_pred HHHHHHHHHHHHhccCcccCCcchhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556666666677888888877 32 22223333445577779999999
No 122
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=29.72 E-value=29 Score=24.49 Aligned_cols=32 Identities=22% Similarity=0.370 Sum_probs=15.3
Q ss_pred cccccccccCCCeeEEeC--CCCccChhhHHHHHh
Q 023728 211 CTVCLEQVNVGEIVRSLP--CLHQLFCSSMQIALT 243 (278)
Q Consensus 211 CsICLEdf~~GE~Vr~LP--C~H~FH~~CId~WLk 243 (278)
|++|.|++. ......+| |+++.-..|...-++
T Consensus 1 cp~C~e~~d-~~d~~~~PC~Cgf~IC~~C~~~i~~ 34 (48)
T PF14570_consen 1 CPLCDEELD-ETDKDFYPCECGFQICRFCYHDILE 34 (48)
T ss_dssp -TTTS-B---CCCTT--SSTTS----HHHHHHHTT
T ss_pred CCCcccccc-cCCCccccCcCCCcHHHHHHHHHHh
Confidence 789999993 33345566 678778888777665
No 123
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=29.54 E-value=23 Score=36.86 Aligned_cols=35 Identities=20% Similarity=0.326 Sum_probs=24.0
Q ss_pred CCCcccccccccccC----CCe------eEEeCCCCccChhhHHH
Q 023728 206 EDELTCTVCLEQVNV----GEI------VRSLPCLHQLFCSSMQI 240 (278)
Q Consensus 206 ~d~~tCsICLEdf~~----GE~------Vr~LPC~H~FH~~CId~ 240 (278)
+....|+||.|.|++ .+. ...+-=+-+||..|+..
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e 555 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSE 555 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccch
Confidence 567789999999842 111 12233678999999876
No 124
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.05 E-value=27 Score=33.02 Aligned_cols=40 Identities=18% Similarity=0.300 Sum_probs=28.0
Q ss_pred CCCcccccccccccCCCee-EEeCC-----CCccChhhHHHHHhcC
Q 023728 206 EDELTCTVCLEQVNVGEIV-RSLPC-----LHQLFCSSMQIALTHG 245 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~V-r~LPC-----~H~FH~~CId~WLkrs 245 (278)
+.+..|=||+..=++.-.- =+=|| .|-.|..|+..|+.+.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK 63 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEK 63 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHH
Confidence 5677889999874433221 23476 3789999999999743
No 125
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=28.70 E-value=38 Score=34.98 Aligned_cols=33 Identities=27% Similarity=0.532 Sum_probs=25.8
Q ss_pred CCCcccccccccc--cCCCeeEEeCCCCccChhhH
Q 023728 206 EDELTCTVCLEQV--NVGEIVRSLPCLHQLFCSSM 238 (278)
Q Consensus 206 ~d~~tCsICLEdf--~~GE~Vr~LPC~H~FH~~CI 238 (278)
.+-..|.|||.+- ..||.|..=.|+-..|..|-
T Consensus 117 kk~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCY 151 (707)
T KOG0957|consen 117 KKAVICCVCLGQRSVDAGEILQCDKCGINVHEGCY 151 (707)
T ss_pred ccceEEEEeecCccccccceeeccccCceeccccc
Confidence 3555899999985 35567777779999999995
No 126
>PF10942 DUF2619: Protein of unknown function (DUF2619); InterPro: IPR020390 This entry contains membrane proteins with no known function.
Probab=28.67 E-value=58 Score=24.75 Aligned_cols=21 Identities=33% Similarity=0.545 Sum_probs=17.0
Q ss_pred HHhccCCChhHHHHHHHHHHH
Q 023728 51 ILNSHQMSSNFLLWIVLGIFL 71 (278)
Q Consensus 51 ~~~~~~~~~~fl~~~~~~~~~ 71 (278)
+--+.++|+.-++||..||.+
T Consensus 48 ~gla~kls~~kl~~I~~GV~l 68 (69)
T PF10942_consen 48 AGLADKLSPSKLLWIFAGVAL 68 (69)
T ss_pred HHHhcccCHHHHHHHHhccee
Confidence 334568999999999999875
No 127
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=28.57 E-value=2.6e+02 Score=22.05 Aligned_cols=44 Identities=25% Similarity=0.502 Sum_probs=27.8
Q ss_pred cCcccCCChhHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHH
Q 023728 30 AGRPVNSNSLAFLVTVLLLFMILNSHQMSSNFLLWIVLGIFLLATSLRMYA 80 (278)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fl~~~~~~~~~~~~~~r~~~ 80 (278)
++--|.++...|++.++++|.++. +++|++..++-+-..++-+-
T Consensus 8 ~~~~ie~sl~~~~~~l~~~~~~l~-------ll~~ll~~~~~~p~~~~~~~ 51 (108)
T PF07219_consen 8 GGYRIETSLWVALILLLLLFVVLY-------LLLRLLRRLLSLPSRVRRWR 51 (108)
T ss_pred CCEEEEeeHHHHHHHHHHHHHHHH-------HHHHHHHHHHhChHHHHHHH
Confidence 444566766667666666666654 37777776666666555443
No 128
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=28.05 E-value=29 Score=36.79 Aligned_cols=33 Identities=12% Similarity=0.347 Sum_probs=27.6
Q ss_pred cccccccccccCCCeeEEeCCCCccChhhHHHHHhcC
Q 023728 209 LTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG 245 (278)
Q Consensus 209 ~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs 245 (278)
..|.||++ -+..-..+|+|.|..+|+.+=++.+
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~ 487 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQS 487 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccc
Confidence 89999999 3566777899999999998877654
No 129
>COG5081 Predicted membrane protein [Function unknown]
Probab=27.39 E-value=1.3e+02 Score=26.48 Aligned_cols=36 Identities=28% Similarity=0.424 Sum_probs=22.5
Q ss_pred hHHHHHH-HHHHHHHhccCCChhHHHHHHHHHHHHHH
Q 023728 39 LAFLVTV-LLLFMILNSHQMSSNFLLWIVLGIFLLAT 74 (278)
Q Consensus 39 ~~~~~~~-~~~~~~~~~~~~~~~fl~~~~~~~~~~~~ 74 (278)
..||+.| +++|.+.|-.-----||.|++...+++++
T Consensus 119 rkfll~~PiilFl~sn~y~~~n~~lF~~ni~~lf~v~ 155 (180)
T COG5081 119 RKFLLLVPIILFLASNHYVHYNIFLFLINITSLFLVV 155 (180)
T ss_pred hhHHHHHHHHHHHHHhhheeehhhhHHHHHHHHHhhh
Confidence 4566554 56888877544444577788776655544
No 130
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=27.23 E-value=19 Score=40.71 Aligned_cols=44 Identities=18% Similarity=0.396 Sum_probs=32.7
Q ss_pred CCCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcC--CCCccc
Q 023728 206 EDELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHG--CGNRER 251 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrs--cg~~~~ 251 (278)
.+...|.||++....- -...-|+|.+-+.|+..|+.++ |+-.++
T Consensus 1151 ~~~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred hcccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 3555899999987631 2345699999999999999976 554443
No 131
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.62 E-value=76 Score=25.68 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=35.3
Q ss_pred CCcccccccccccCCCeeEEeCCCCccChhhHHHHHhcCCCCc
Q 023728 207 DELTCTVCLEQVNVGEIVRSLPCLHQLFCSSMQIALTHGCGNR 249 (278)
Q Consensus 207 d~~tCsICLEdf~~GE~Vr~LPC~H~FH~~CId~WLkrscg~~ 249 (278)
..-.|.||-+.+..|+.-.-.+ .-..|.+|+..=.++..|..
T Consensus 5 kewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~k~~~d 46 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRKKPGGD 46 (103)
T ss_pred ceeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhcCcCcc
Confidence 3567999999999999998888 77789999998777766653
No 132
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=24.23 E-value=24 Score=40.51 Aligned_cols=46 Identities=20% Similarity=0.163 Sum_probs=28.4
Q ss_pred eEEeCCCCccChhhHHHHHhcCCCC-ccccccccCCCCCCCCCccceeEE
Q 023728 224 VRSLPCLHQLFCSSMQIALTHGCGN-RERAQFANSEQDPVGMKPDKLKWM 272 (278)
Q Consensus 224 Vr~LPC~H~FH~~CId~WLkrscg~-~~~~~~~~~~~~~~~~~~~~~~~~ 272 (278)
.|.-+|+|.||++|+.-..-++-.. -+-.+-..-+.++ .|.+|+|-
T Consensus 876 ~R~~~C~Hsl~rD~L~ffgf~~mva~f~ys~i~v~~v~l---pp~~l~~~ 922 (1598)
T KOG0230|consen 876 NRVASCGHSLHRDCLRFFGFGNMVACFRYSPIEVYEVDL---PPSKLEFN 922 (1598)
T ss_pred ccccCCcchhhhhhhhhcccCCceeeeeeccceeEEEeC---Chhhcccc
Confidence 4555699999999999876655544 1222222223333 38888876
No 133
>PF13239 2TM: 2TM domain
Probab=22.61 E-value=2.7e+02 Score=20.88 Aligned_cols=42 Identities=21% Similarity=0.320 Sum_probs=20.9
Q ss_pred hhHHHHHHHHHHHHHhccCCChhHHHH--HHHHHHHHHHHHHHH
Q 023728 38 SLAFLVTVLLLFMILNSHQMSSNFLLW--IVLGIFLLATSLRMY 79 (278)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~fl~~--~~~~~~~~~~~~r~~ 79 (278)
-.+|+|+..+++.|-....-....-+| +..|+.|+.-+++.|
T Consensus 19 l~~y~ivn~~l~~in~~~~~~~~W~~~~~~~Wgi~L~~h~~~vf 62 (83)
T PF13239_consen 19 LAVYLIVNSFLIFINLFTGPGYFWPLWPILGWGIGLAIHALKVF 62 (83)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHHH
Confidence 356666655554443321112223556 345566666666665
No 134
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=21.73 E-value=54 Score=21.36 Aligned_cols=26 Identities=31% Similarity=0.571 Sum_probs=17.6
Q ss_pred cccccccccccCCC--------eeEEeCCCCccC
Q 023728 209 LTCTVCLEQVNVGE--------IVRSLPCLHQLF 234 (278)
Q Consensus 209 ~tCsICLEdf~~GE--------~Vr~LPC~H~FH 234 (278)
.+|+-|...|+..+ .|+--.|+|.|+
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 46888888886544 344445888886
No 135
>PF02109 DAD: DAD family; InterPro: IPR003038 Members of this family are thought to be integral membrane proteins. Some members of this family have been shown to cause apoptosis if mutated [], these proteins are known as DAD for defender against death. The family also includes the epsilon subunit of the oligosaccharyltransferase that is involved in N-linked glycosylation [].; GO: 0016021 integral to membrane
Probab=21.69 E-value=1.7e+02 Score=24.16 Aligned_cols=40 Identities=38% Similarity=0.538 Sum_probs=23.8
Q ss_pred hHHHHHHH---HHHHHHhccCCChhHH--HHHHHHHHHHHHHHHH
Q 023728 39 LAFLVTVL---LLFMILNSHQMSSNFL--LWIVLGIFLLATSLRM 78 (278)
Q Consensus 39 ~~~~~~~~---~~~~~~~~~~~~~~fl--~~~~~~~~~~~~~~r~ 78 (278)
++|++.+. .+|++|...-==-.|| ++.++|-|+++.+|||
T Consensus 30 l~f~~~~gilQfvYc~lvgtFPFNaFLsGf~s~VG~fVL~vsLR~ 74 (112)
T PF02109_consen 30 LAFLVLTGILQFVYCILVGTFPFNAFLSGFISCVGQFVLTVSLRI 74 (112)
T ss_pred HHHHHHHHHHHHhHheeecCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 45554443 2566666432223344 3456788999999997
No 136
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=21.66 E-value=90 Score=20.96 Aligned_cols=16 Identities=31% Similarity=0.706 Sum_probs=11.5
Q ss_pred hHHHHHHHHHHHHHhc
Q 023728 39 LAFLVTVLLLFMILNS 54 (278)
Q Consensus 39 ~~~~~~~~~~~~~~~~ 54 (278)
++|-++++++|.++..
T Consensus 17 i~F~l~mi~vFi~li~ 32 (38)
T PF09125_consen 17 IAFALAMILVFIALIG 32 (38)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5677777777777654
No 137
>PF09685 Tic20: Tic20-like protein; InterPro: IPR019109 This entry represents a group of uncharacterised conserved proteins including a chloroplast protein import component called Tic20. Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. Tic20 is a core member of the Tic complex and is deeply embedded in the inner envelope membrane. It is thought to function as a protein conducting component of the Tic complex [].
Probab=21.65 E-value=80 Score=24.33 Aligned_cols=23 Identities=22% Similarity=0.414 Sum_probs=16.8
Q ss_pred ceeeeccCcccCCChhHHHHHHH
Q 023728 24 RTVRIHAGRPVNSNSLAFLVTVL 46 (278)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~ 46 (278)
+.+|.|+.+-+|.+-..++++++
T Consensus 35 ~~vr~ha~qal~~~i~~~i~~~i 57 (109)
T PF09685_consen 35 PFVRFHAKQALNFQITFLIISII 57 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999888655555544
No 138
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=21.53 E-value=1.1e+02 Score=23.39 Aligned_cols=16 Identities=31% Similarity=0.673 Sum_probs=10.7
Q ss_pred hHHHHHHHHHHHHHhc
Q 023728 39 LAFLVTVLLLFMILNS 54 (278)
Q Consensus 39 ~~~~~~~~~~~~~~~~ 54 (278)
..||+.-+++|+|+..
T Consensus 3 ~~fl~~Pliif~ifVa 18 (75)
T TIGR02976 3 IFFLAIPLIIFVIFVA 18 (75)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 4566777777777655
No 139
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=21.12 E-value=1e+02 Score=28.51 Aligned_cols=27 Identities=26% Similarity=0.252 Sum_probs=20.1
Q ss_pred eeEEeCCCCccChhhHHHHHhcCCCCcc
Q 023728 223 IVRSLPCLHQLFCSSMQIALTHGCGNRE 250 (278)
Q Consensus 223 ~Vr~LPC~H~FH~~CId~WLkrscg~~~ 250 (278)
.||.-||+|. .+-=...||.|+.-.+.
T Consensus 192 qIRErPClHC-KAmRt~EWLtrHFlq~~ 218 (243)
T PF15468_consen 192 QIRERPCLHC-KAMRTNEWLTRHFLQPA 218 (243)
T ss_pred eeecccchhh-HHHHHHHHHHHhccCCc
Confidence 5889999985 33346799999976643
No 140
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=21.01 E-value=57 Score=24.55 Aligned_cols=33 Identities=15% Similarity=0.462 Sum_probs=23.5
Q ss_pred CCCcccccccccccCCCeeEEe--CCCCccChhhHHH
Q 023728 206 EDELTCTVCLEQVNVGEIVRSL--PCLHQLFCSSMQI 240 (278)
Q Consensus 206 ~d~~tCsICLEdf~~GE~Vr~L--PC~H~FH~~CId~ 240 (278)
.....|.+|-.. .|-.|.-- .|.-.||..|...
T Consensus 34 ~~~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 34 RRKLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HhCCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 356799999976 35544333 3999999999654
No 141
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=20.62 E-value=60 Score=24.56 Aligned_cols=15 Identities=0% Similarity=-0.053 Sum_probs=10.4
Q ss_pred ccChhhHHHHHhcCC
Q 023728 232 QLFCSSMQIALTHGC 246 (278)
Q Consensus 232 ~FH~~CId~WLkrsc 246 (278)
-|.+.|+.+|.+.-.
T Consensus 11 gFCRNCLskWy~~aA 25 (68)
T PF06844_consen 11 GFCRNCLSKWYREAA 25 (68)
T ss_dssp S--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 388999999998543
No 142
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=20.19 E-value=2e+02 Score=30.04 Aligned_cols=43 Identities=19% Similarity=0.269 Sum_probs=28.7
Q ss_pred CChhHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHH
Q 023728 36 SNSLAFLVTVLLLFMILNSHQMSSNFLLWIVLGIFLLATSLRMYA 80 (278)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~~~fl~~~~~~~~~~~~~~r~~~ 80 (278)
+..+.|++..++.+.++ ..+++++++|.++++.++...+|...
T Consensus 110 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 (608)
T TIGR00764 110 NLLLFMIGFIVLSEYFL--KNLPPNYLLAAVIAAALILLIFGFFI 152 (608)
T ss_pred hHHHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHHHHHhc
Confidence 33444444444555554 35889999999988888877777643
Done!