Query 041424
Match_columns 148
No_of_seqs 208 out of 1849
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 06:52:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041424hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01793 Fubi Fubi ubiquitin-li 99.8 1.1E-18 2.3E-23 113.2 6.4 62 2-70 9-70 (74)
2 cd01807 GDX_N ubiquitin-like d 99.7 1.9E-17 4.2E-22 107.2 6.2 62 2-70 11-72 (74)
3 cd01794 DC_UbP_C dendritic cel 99.7 2.8E-17 6.1E-22 105.7 5.9 61 2-69 9-69 (70)
4 cd01810 ISG15_repeat2 ISG15 ub 99.7 4.2E-17 9.2E-22 105.7 6.3 62 2-70 9-70 (74)
5 PTZ00044 ubiquitin; Provisiona 99.7 7E-17 1.5E-21 104.8 6.5 62 2-70 11-72 (76)
6 cd01800 SF3a120_C Ubiquitin-li 99.7 6.8E-17 1.5E-21 105.3 6.3 62 2-70 8-69 (76)
7 cd01798 parkin_N amino-termina 99.7 1E-16 2.2E-21 102.7 6.1 62 2-70 9-70 (70)
8 cd01802 AN1_N ubiquitin-like d 99.7 1.4E-16 3.1E-21 109.6 6.4 62 2-70 38-99 (103)
9 PF00240 ubiquitin: Ubiquitin 99.7 5E-16 1.1E-20 98.8 7.5 62 2-70 6-67 (69)
10 cd01791 Ubl5 UBL5 ubiquitin-li 99.6 3E-16 6.5E-21 101.7 5.8 61 2-69 12-72 (73)
11 cd01803 Ubiquitin Ubiquitin. U 99.6 4.6E-16 1E-20 100.5 6.4 62 2-70 11-72 (76)
12 cd01797 NIRF_N amino-terminal 99.6 4E-16 8.6E-21 102.3 5.9 60 4-70 14-74 (78)
13 cd01806 Nedd8 Nebb8-like ubiq 99.6 5.9E-16 1.3E-20 100.0 6.6 62 2-70 11-72 (76)
14 KOG0003 Ubiquitin/60s ribosoma 99.6 3.1E-17 6.6E-22 111.8 -0.2 62 2-70 11-72 (128)
15 cd01796 DDI1_N DNA damage indu 99.6 8.4E-16 1.8E-20 99.0 5.6 60 2-68 10-70 (71)
16 cd01809 Scythe_N Ubiquitin-lik 99.6 2E-15 4.3E-20 96.6 6.2 62 2-70 11-72 (72)
17 KOG0004 Ubiquitin/40S ribosoma 99.6 7.7E-16 1.7E-20 111.3 3.9 62 2-70 11-72 (156)
18 cd01808 hPLIC_N Ubiquitin-like 99.6 2.3E-15 5.1E-20 96.7 5.5 60 4-70 12-71 (71)
19 cd01805 RAD23_N Ubiquitin-like 99.6 4.4E-15 9.5E-20 96.5 6.6 62 2-70 11-74 (77)
20 KOG0005 Ubiquitin-like protein 99.6 1.4E-15 3E-20 93.4 2.8 60 2-68 11-70 (70)
21 cd01813 UBP_N UBP ubiquitin pr 99.6 6.7E-15 1.4E-19 95.6 5.9 61 2-69 10-73 (74)
22 cd01804 midnolin_N Ubiquitin-l 99.6 6.9E-15 1.5E-19 96.4 5.8 61 2-70 12-72 (78)
23 cd01799 Hoil1_N Ubiquitin-like 99.6 6.8E-15 1.5E-19 95.8 5.7 60 2-69 13-74 (75)
24 cd01812 BAG1_N Ubiquitin-like 99.6 8.6E-15 1.9E-19 93.5 5.6 61 2-69 10-70 (71)
25 cd01792 ISG15_repeat1 ISG15 ub 99.5 8E-15 1.7E-19 96.4 5.0 62 2-70 13-76 (80)
26 cd01790 Herp_N Homocysteine-re 99.5 2E-14 4.4E-19 94.3 4.8 60 3-69 15-78 (79)
27 cd01815 BMSC_UbP_N Ubiquitin-l 99.5 3.3E-14 7.2E-19 92.2 4.1 53 10-69 19-74 (75)
28 cd01802 AN1_N ubiquitin-like d 99.5 1.5E-13 3.2E-18 94.7 6.9 74 56-145 9-99 (103)
29 cd01763 Sumo Small ubiquitin-r 99.4 6.3E-13 1.4E-17 88.8 6.9 62 2-70 22-83 (87)
30 cd01795 USP48_C USP ubiquitin- 99.4 9.6E-13 2.1E-17 88.9 5.9 61 3-70 16-77 (107)
31 smart00213 UBQ Ubiquitin homol 99.4 8.2E-13 1.8E-17 82.1 5.2 54 3-63 11-64 (64)
32 cd01807 GDX_N ubiquitin-like d 99.4 9.9E-13 2.1E-17 85.0 4.8 55 91-145 1-72 (74)
33 cd01814 NTGP5 Ubiquitin-like N 99.3 1.8E-12 3.9E-17 89.7 3.3 58 6-70 20-90 (113)
34 cd01769 UBL Ubiquitin-like dom 99.3 9.1E-12 2E-16 78.3 6.0 61 2-69 8-68 (69)
35 cd01797 NIRF_N amino-terminal 99.2 1.2E-11 2.7E-16 81.0 5.0 55 91-145 1-74 (78)
36 TIGR00601 rad23 UV excision re 99.2 1.7E-11 3.7E-16 101.4 6.2 66 2-74 11-79 (378)
37 cd01798 parkin_N amino-termina 99.2 1.2E-11 2.6E-16 79.0 4.1 53 93-145 1-70 (70)
38 cd01810 ISG15_repeat2 ISG15 ub 99.2 1.7E-11 3.7E-16 79.2 4.4 53 93-145 1-70 (74)
39 cd01789 Alp11_N Ubiquitin-like 99.2 5.2E-11 1.1E-15 79.0 6.7 60 4-70 15-81 (84)
40 PTZ00044 ubiquitin; Provisiona 99.2 2.8E-11 6E-16 78.3 4.9 55 91-145 1-72 (76)
41 cd01793 Fubi Fubi ubiquitin-li 99.2 3E-11 6.5E-16 78.1 4.8 53 91-145 1-70 (74)
42 cd01792 ISG15_repeat1 ISG15 ub 99.1 7E-11 1.5E-15 77.5 4.6 58 90-147 2-78 (80)
43 cd01806 Nedd8 Nebb8-like ubiq 99.1 9.7E-11 2.1E-15 75.4 4.9 56 91-146 1-73 (76)
44 cd01809 Scythe_N Ubiquitin-lik 99.1 9.3E-11 2E-15 74.7 4.7 55 91-145 1-72 (72)
45 cd01808 hPLIC_N Ubiquitin-like 99.1 9.5E-11 2.1E-15 75.1 4.5 53 92-145 2-71 (71)
46 KOG0003 Ubiquitin/60s ribosoma 99.1 9.5E-12 2.1E-16 85.0 -0.2 55 91-145 1-72 (128)
47 KOG0004 Ubiquitin/40S ribosoma 99.1 3.4E-11 7.4E-16 87.3 2.1 55 91-145 1-72 (156)
48 cd01803 Ubiquitin Ubiquitin. U 99.1 1.6E-10 3.5E-15 74.4 4.9 55 91-145 1-72 (76)
49 cd01805 RAD23_N Ubiquitin-like 99.1 2.4E-10 5.2E-15 74.0 4.8 55 91-145 1-74 (77)
50 cd01804 midnolin_N Ubiquitin-l 99.1 2.3E-10 5E-15 74.8 4.4 54 91-145 2-72 (78)
51 cd01794 DC_UbP_C dendritic cel 99.0 2.5E-10 5.3E-15 73.3 4.1 51 94-144 2-69 (70)
52 cd01791 Ubl5 UBL5 ubiquitin-li 99.0 2.6E-10 5.5E-15 73.8 4.0 53 91-143 2-71 (73)
53 KOG0010 Ubiquitin-like protein 99.0 2.3E-10 4.9E-15 96.1 4.6 63 3-72 26-88 (493)
54 PF14560 Ubiquitin_2: Ubiquiti 99.0 4.9E-10 1.1E-14 74.6 5.4 61 3-70 15-83 (87)
55 PF00240 ubiquitin: Ubiquitin 99.0 8E-10 1.7E-14 70.0 4.0 50 96-145 1-67 (69)
56 KOG0001 Ubiquitin and ubiquiti 98.9 5.6E-09 1.2E-13 65.3 6.7 62 2-70 10-71 (75)
57 PF11976 Rad60-SLD: Ubiquitin- 98.9 4.1E-09 8.8E-14 67.4 5.3 61 2-69 11-72 (72)
58 KOG0011 Nucleotide excision re 98.9 3.9E-09 8.4E-14 84.9 5.4 65 2-73 11-77 (340)
59 cd01796 DDI1_N DNA damage indu 98.8 4.2E-09 9.2E-14 67.6 4.0 51 93-143 1-70 (71)
60 cd01788 ElonginB Ubiquitin-lik 98.8 9.2E-09 2E-13 71.2 5.6 62 3-71 13-81 (119)
61 cd01763 Sumo Small ubiquitin-r 98.8 9.2E-09 2E-13 68.5 4.9 57 89-145 10-83 (87)
62 cd01790 Herp_N Homocysteine-re 98.8 6E-09 1.3E-13 68.3 3.7 54 91-144 2-78 (79)
63 KOG0005 Ubiquitin-like protein 98.8 3.5E-09 7.7E-14 65.1 2.4 53 91-143 1-70 (70)
64 cd01800 SF3a120_C Ubiquitin-li 98.8 7.6E-09 1.6E-13 67.2 4.0 47 99-145 6-69 (76)
65 cd01812 BAG1_N Ubiquitin-like 98.7 1.7E-08 3.8E-13 64.1 4.2 52 91-143 1-69 (71)
66 cd01815 BMSC_UbP_N Ubiquitin-l 98.7 2.2E-08 4.7E-13 65.0 3.5 30 116-145 46-75 (75)
67 TIGR00601 rad23 UV excision re 98.6 3.1E-08 6.8E-13 82.1 4.7 55 91-145 1-75 (378)
68 KOG0010 Ubiquitin-like protein 98.5 8.1E-08 1.8E-12 80.9 3.9 55 91-146 16-87 (493)
69 cd01801 Tsc13_N Ubiquitin-like 98.5 2.9E-07 6.2E-12 59.9 4.4 52 9-67 20-74 (77)
70 cd00196 UBQ Ubiquitin-like pro 98.4 7.4E-07 1.6E-11 52.8 5.9 60 3-69 9-68 (69)
71 PLN02560 enoyl-CoA reductase 98.4 3.8E-07 8.2E-12 73.9 5.7 56 5-67 17-80 (308)
72 KOG4248 Ubiquitin-like protein 98.4 2.4E-07 5.3E-12 83.6 4.9 62 2-71 13-74 (1143)
73 PF13881 Rad60-SLD_2: Ubiquiti 98.4 1.2E-06 2.7E-11 61.0 6.8 61 3-70 15-88 (111)
74 cd01813 UBP_N UBP ubiquitin pr 98.3 7.3E-07 1.6E-11 57.7 4.3 51 92-143 2-72 (74)
75 smart00213 UBQ Ubiquitin homol 98.3 6.8E-07 1.5E-11 55.0 3.4 47 91-138 1-64 (64)
76 PF11543 UN_NPL4: Nuclear pore 98.3 1.2E-06 2.6E-11 57.6 4.2 59 3-68 15-78 (80)
77 PF11976 Rad60-SLD: Ubiquitin- 98.3 1.4E-06 3.1E-11 55.5 4.2 54 91-144 1-72 (72)
78 cd01799 Hoil1_N Ubiquitin-like 98.1 4.1E-06 8.8E-11 54.3 4.0 35 109-144 28-74 (75)
79 KOG0011 Nucleotide excision re 98.1 4E-06 8.6E-11 67.8 4.4 55 91-145 1-74 (340)
80 cd01814 NTGP5 Ubiquitin-like N 98.1 5.5E-06 1.2E-10 57.5 4.4 31 116-146 55-91 (113)
81 KOG0006 E3 ubiquitin-protein l 98.0 7.5E-06 1.6E-10 66.1 4.6 62 2-70 14-76 (446)
82 cd01769 UBL Ubiquitin-like dom 98.0 8E-06 1.7E-10 50.8 3.5 36 109-144 23-68 (69)
83 KOG1872 Ubiquitin-specific pro 98.0 1.2E-05 2.6E-10 67.6 5.5 62 4-72 15-77 (473)
84 cd01811 OASL_repeat1 2'-5' oli 98.0 2.8E-05 6.1E-10 50.1 5.6 60 3-70 12-76 (80)
85 KOG3493 Ubiquitin-like protein 97.9 4.8E-06 1E-10 52.1 1.5 61 2-69 12-72 (73)
86 KOG0001 Ubiquitin and ubiquiti 97.8 3.7E-05 8E-10 47.5 4.9 52 94-145 3-71 (75)
87 cd01795 USP48_C USP ubiquitin- 97.6 6.3E-05 1.4E-09 51.2 3.6 38 109-146 30-78 (107)
88 KOG4495 RNA polymerase II tran 97.6 6.1E-05 1.3E-09 50.8 3.2 50 3-59 13-64 (110)
89 PF13881 Rad60-SLD_2: Ubiquiti 97.6 0.00017 3.6E-09 50.3 5.1 30 116-145 53-88 (111)
90 KOG4248 Ubiquitin-like protein 97.1 0.00037 8E-09 63.6 3.4 53 92-145 4-73 (1143)
91 KOG0013 Uncharacterized conser 96.9 0.0015 3.3E-08 50.0 4.6 62 2-70 157-218 (231)
92 PF11470 TUG-UBL1: GLUT4 regul 96.9 0.0023 5.1E-08 40.3 4.7 59 2-67 7-65 (65)
93 PF10302 DUF2407: DUF2407 ubiq 96.8 0.0019 4.2E-08 43.9 3.9 42 4-45 14-59 (97)
94 cd01789 Alp11_N Ubiquitin-like 96.7 0.0046 1E-07 40.7 4.9 39 109-147 28-83 (84)
95 PLN02560 enoyl-CoA reductase 96.5 0.0028 6.1E-08 51.5 3.8 51 92-142 2-80 (308)
96 KOG1769 Ubiquitin-like protein 96.3 0.024 5.2E-07 38.5 6.5 61 3-70 32-92 (99)
97 KOG3206 Alpha-tubulin folding 96.1 0.016 3.5E-07 44.4 5.4 57 7-70 18-81 (234)
98 PF08817 YukD: WXG100 protein 95.7 0.024 5.1E-07 36.7 4.4 59 2-67 13-78 (79)
99 cd01788 ElonginB Ubiquitin-lik 95.5 0.035 7.7E-07 38.7 4.9 30 116-145 44-80 (119)
100 PF08817 YukD: WXG100 protein 95.4 0.018 3.9E-07 37.3 3.0 28 116-143 51-79 (79)
101 cd01801 Tsc13_N Ubiquitin-like 95.3 0.015 3.2E-07 37.5 2.4 27 116-142 48-74 (77)
102 COG5417 Uncharacterized small 94.6 0.065 1.4E-06 34.6 3.8 50 93-142 9-80 (81)
103 PF14560 Ubiquitin_2: Ubiquiti 94.5 0.036 7.9E-07 36.4 2.7 23 124-146 62-84 (87)
104 PF13019 Telomere_Sde2: Telome 94.0 0.2 4.3E-06 37.1 5.9 62 2-70 15-84 (162)
105 cd06406 PB1_P67 A PB1 domain i 93.9 0.22 4.8E-06 32.6 5.3 37 3-39 12-48 (80)
106 cd01811 OASL_repeat1 2'-5' oli 93.6 0.1 2.2E-06 33.8 3.3 52 92-143 2-74 (80)
107 cd00196 UBQ Ubiquitin-like pro 93.5 0.18 3.8E-06 28.8 4.2 29 116-144 40-68 (69)
108 PF11620 GABP-alpha: GA-bindin 93.1 0.39 8.3E-06 31.9 5.5 61 3-70 4-64 (88)
109 PF11543 UN_NPL4: Nuclear pore 92.7 0.12 2.5E-06 33.8 2.7 20 124-143 59-78 (80)
110 PF15044 CLU_N: Mitochondrial 92.4 0.2 4.4E-06 32.3 3.4 56 8-70 1-58 (76)
111 KOG4583 Membrane-associated ER 91.9 0.044 9.5E-07 44.9 -0.2 64 2-72 22-89 (391)
112 COG5417 Uncharacterized small 91.8 0.63 1.4E-05 30.1 5.1 59 2-67 17-80 (81)
113 KOG1769 Ubiquitin-like protein 91.6 0.41 9E-06 32.5 4.3 32 116-147 63-94 (99)
114 PF14836 Ubiquitin_3: Ubiquiti 91.1 1.9 4.2E-05 28.7 7.1 60 3-70 15-80 (88)
115 COG5227 SMT3 Ubiquitin-like pr 90.4 1.2 2.7E-05 29.8 5.6 60 3-69 36-95 (103)
116 PF00789 UBX: UBX domain; Int 90.3 2 4.3E-05 27.4 6.6 60 2-68 17-81 (82)
117 smart00166 UBX Domain present 88.7 1.6 3.5E-05 28.0 5.2 58 3-67 16-78 (80)
118 KOG1639 Steroid reductase requ 88.5 0.52 1.1E-05 37.4 3.2 55 6-67 17-76 (297)
119 KOG0006 E3 ubiquitin-protein l 88.3 0.24 5.3E-06 40.5 1.3 28 116-143 46-73 (446)
120 cd06411 PB1_p51 The PB1 domain 87.7 1.4 3.1E-05 28.7 4.4 36 3-38 8-43 (78)
121 KOG4250 TANK binding protein k 85.1 1.3 2.7E-05 39.9 4.1 38 3-40 326-363 (732)
122 cd00565 ThiS ThiaminS ubiquiti 83.9 4.2 9.2E-05 24.9 5.1 54 5-70 8-61 (65)
123 cd01772 SAKS1_UBX SAKS1-like U 83.4 4.9 0.00011 25.8 5.5 57 3-67 16-77 (79)
124 PF10790 DUF2604: Protein of U 83.0 1.3 2.8E-05 27.9 2.4 27 119-145 45-71 (76)
125 cd06407 PB1_NLP A PB1 domain i 82.8 3.2 7E-05 27.1 4.4 36 3-38 11-47 (82)
126 PF11470 TUG-UBL1: GLUT4 regul 82.2 2.6 5.6E-05 26.4 3.6 27 116-142 39-65 (65)
127 smart00666 PB1 PB1 domain. Pho 81.3 6.2 0.00013 24.9 5.3 35 3-37 12-46 (81)
128 PF14453 ThiS-like: ThiS-like 81.1 5.8 0.00012 24.3 4.7 49 4-70 8-56 (57)
129 cd00754 MoaD Ubiquitin domain 80.8 7.7 0.00017 24.3 5.7 56 3-70 17-76 (80)
130 TIGR01683 thiS thiamine biosyn 79.9 8.4 0.00018 23.5 5.4 54 5-70 7-60 (64)
131 PF14453 ThiS-like: ThiS-like 79.8 5.1 0.00011 24.5 4.2 42 99-145 6-56 (57)
132 cd06409 PB1_MUG70 The MUG70 pr 79.6 5.5 0.00012 26.4 4.7 29 2-30 11-39 (86)
133 cd01767 UBX UBX (ubiquitin reg 79.5 8.8 0.00019 24.2 5.6 54 2-63 13-71 (77)
134 KOG0012 DNA damage inducible p 78.2 2.4 5.3E-05 35.2 3.2 62 2-70 13-76 (380)
135 cd01770 p47_UBX p47-like ubiqu 77.1 9.2 0.0002 24.6 5.1 57 2-65 15-75 (79)
136 KOG2982 Uncharacterized conser 76.5 3.2 7E-05 34.3 3.4 61 7-67 353-414 (418)
137 PRK06437 hypothetical protein; 72.1 21 0.00045 22.2 5.9 51 4-70 13-63 (67)
138 PF14533 USP7_C2: Ubiquitin-sp 71.8 5.4 0.00012 30.6 3.5 28 3-30 134-161 (213)
139 smart00455 RBD Raf-like Ras-bi 71.7 11 0.00023 23.8 4.3 37 2-38 10-46 (70)
140 TIGR01682 moaD molybdopterin c 70.4 24 0.00053 22.3 6.2 55 4-70 18-76 (80)
141 TIGR01687 moaD_arch MoaD famil 69.6 27 0.00058 22.4 6.9 57 3-70 17-84 (88)
142 cd01773 Faf1_like1_UBX Faf1 ik 67.4 29 0.00062 22.7 5.7 59 4-70 18-81 (82)
143 PF00789 UBX: UBX domain; Int 67.4 9.6 0.00021 24.2 3.5 26 118-143 54-81 (82)
144 PRK08364 sulfur carrier protei 67.2 28 0.0006 21.7 5.9 50 5-70 17-66 (70)
145 cd01760 RBD Ubiquitin-like dom 65.5 13 0.00028 23.7 3.7 36 3-38 11-46 (72)
146 cd01771 Faf1_UBX Faf1 UBX doma 65.2 29 0.00064 22.3 5.5 59 3-69 16-79 (80)
147 PF14732 UAE_UbL: Ubiquitin/SU 64.8 10 0.00022 24.9 3.3 58 10-69 7-68 (87)
148 PF12754 Blt1: Cell-cycle cont 64.1 2.2 4.9E-05 34.7 0.0 42 11-59 103-159 (309)
149 PF00564 PB1: PB1 domain; Int 63.7 21 0.00046 22.4 4.6 32 6-37 16-47 (84)
150 KOG3439 Protein conjugation fa 63.4 16 0.00035 25.4 4.1 40 1-40 44-83 (116)
151 PF00276 Ribosomal_L23: Riboso 62.2 21 0.00045 23.6 4.4 40 2-41 21-61 (91)
152 PF08337 Plexin_cytopl: Plexin 60.9 18 0.00039 31.8 4.9 68 4-71 204-290 (539)
153 cd01774 Faf1_like2_UBX Faf1 ik 60.0 44 0.00096 21.7 5.7 56 4-67 17-82 (85)
154 PLN02799 Molybdopterin synthas 59.6 32 0.00069 21.8 4.9 56 3-70 20-78 (82)
155 PTZ00380 microtubule-associate 59.5 16 0.00035 25.7 3.7 40 6-45 45-84 (121)
156 PRK05738 rplW 50S ribosomal pr 59.2 19 0.00042 23.9 3.9 38 2-39 21-59 (92)
157 TIGR02958 sec_mycoba_snm4 secr 57.3 9.8 0.00021 32.6 2.7 29 117-145 52-80 (452)
158 PF10209 DUF2340: Uncharacteri 56.2 8.9 0.00019 27.1 1.9 23 124-146 87-109 (122)
159 cd06410 PB1_UP2 Uncharacterize 56.1 39 0.00085 22.7 5.0 34 2-36 23-56 (97)
160 PRK06488 sulfur carrier protei 56.1 43 0.00094 20.2 5.3 52 6-70 10-61 (65)
161 cd05992 PB1 The PB1 domain is 54.9 39 0.00085 21.0 4.7 35 3-37 11-46 (81)
162 TIGR03636 L23_arch archaeal ri 54.7 27 0.00059 22.5 3.9 33 2-34 15-47 (77)
163 PRK05659 sulfur carrier protei 54.6 46 0.00099 20.1 5.1 54 5-70 9-62 (66)
164 PF12436 USP7_ICP0_bdg: ICP0-b 52.2 27 0.00058 27.4 4.3 33 3-35 191-223 (249)
165 PF02192 PI3K_p85B: PI3-kinase 52.1 20 0.00043 23.3 2.9 22 4-25 2-23 (78)
166 PRK14548 50S ribosomal protein 51.8 32 0.00068 22.6 3.9 34 2-35 22-55 (84)
167 PRK05863 sulfur carrier protei 51.5 53 0.0012 20.0 4.8 53 5-70 9-61 (65)
168 KOG1639 Steroid reductase requ 50.7 18 0.00039 28.9 3.0 27 116-142 50-76 (297)
169 KOG2561 Adaptor protein NUB1, 50.6 5 0.00011 34.6 -0.1 56 8-70 56-111 (568)
170 PF14451 Ub-Mut7C: Mut7-C ubiq 50.6 61 0.0013 21.0 5.1 52 3-70 24-76 (81)
171 cd01775 CYR1_RA Ubiquitin doma 49.3 25 0.00054 23.8 3.1 67 4-70 15-87 (97)
172 PF02196 RBD: Raf-like Ras-bin 48.9 57 0.0012 20.4 4.7 43 3-45 12-56 (71)
173 PF02017 CIDE-N: CIDE-N domain 48.7 73 0.0016 20.7 5.5 34 12-45 21-56 (78)
174 PF09379 FERM_N: FERM N-termin 48.2 65 0.0014 19.9 8.0 61 3-70 8-75 (80)
175 smart00144 PI3K_rbd PI3-kinase 48.1 85 0.0018 21.3 6.6 62 2-70 29-104 (108)
176 PRK07440 hypothetical protein; 48.0 67 0.0014 20.0 5.2 53 6-70 14-66 (70)
177 cd06396 PB1_NBR1 The PB1 domai 47.4 67 0.0014 21.0 4.9 26 3-28 11-38 (81)
178 cd06398 PB1_Joka2 The PB1 doma 47.2 48 0.001 22.0 4.3 28 10-37 23-51 (91)
179 PRK06944 sulfur carrier protei 45.9 65 0.0014 19.3 6.0 53 5-70 9-61 (65)
180 PF10790 DUF2604: Protein of U 45.8 76 0.0016 20.0 5.2 60 4-70 8-71 (76)
181 PRK06083 sulfur carrier protei 45.6 81 0.0018 20.6 5.1 53 6-70 28-80 (84)
182 COG2104 ThiS Sulfur transfer p 45.2 76 0.0016 19.9 5.8 53 5-69 11-63 (68)
183 PF14533 USP7_C2: Ubiquitin-sp 45.1 81 0.0017 24.1 5.9 43 3-45 35-85 (213)
184 PF08783 DWNN: DWNN domain; I 45.0 34 0.00073 22.0 3.1 33 5-37 13-48 (74)
185 cd06408 PB1_NoxR The PB1 domai 43.9 93 0.002 20.6 5.4 36 3-39 13-48 (86)
186 COG0089 RplW Ribosomal protein 43.4 55 0.0012 22.0 4.1 33 2-34 22-54 (94)
187 KOG1872 Ubiquitin-specific pro 43.1 30 0.00066 29.9 3.4 45 99-143 11-73 (473)
188 cd01817 RGS12_RBD Ubiquitin do 42.9 89 0.0019 20.0 5.9 36 4-39 12-47 (73)
189 COG2164 Uncharacterized conser 42.8 5.5 0.00012 27.5 -0.8 26 32-70 79-104 (126)
190 PF10407 Cytokin_check_N: Cdc1 41.2 52 0.0011 21.0 3.6 25 2-26 3-27 (73)
191 TIGR02958 sec_mycoba_snm4 secr 41.1 98 0.0021 26.6 6.3 62 3-71 13-81 (452)
192 smart00266 CAD Domains present 40.5 93 0.002 20.0 4.6 35 11-45 18-54 (74)
193 PF11069 DUF2870: Protein of u 40.2 34 0.00074 23.2 2.7 17 116-132 4-20 (98)
194 smart00143 PI3K_p85B PI3-kinas 40.1 38 0.00082 22.0 2.8 22 4-25 2-23 (78)
195 PF02991 Atg8: Autophagy prote 39.9 54 0.0012 22.4 3.7 39 7-45 38-77 (104)
196 CHL00030 rpl23 ribosomal prote 39.3 57 0.0012 21.8 3.7 33 2-34 20-52 (93)
197 PF00788 RA: Ras association ( 38.8 95 0.0021 19.5 4.7 26 3-28 18-43 (93)
198 cd01764 Urm1 Urm1-like ubuitin 38.7 67 0.0015 21.3 4.0 59 6-70 23-90 (94)
199 COG5227 SMT3 Ubiquitin-like pr 38.4 25 0.00054 23.7 1.8 28 116-143 67-94 (103)
200 PF02597 ThiS: ThiS family; I 38.1 94 0.002 18.9 5.7 58 4-70 14-73 (77)
201 PRK07696 sulfur carrier protei 37.2 1E+02 0.0022 19.0 5.2 52 7-70 11-63 (67)
202 PRK08053 sulfur carrier protei 36.3 1E+02 0.0022 18.7 5.9 54 5-70 9-62 (66)
203 PF08825 E2_bind: E2 binding d 34.6 53 0.0011 21.5 2.9 55 6-68 1-69 (84)
204 smart00314 RA Ras association 34.2 94 0.002 19.8 4.1 28 3-30 17-44 (90)
205 cd01776 Rin1_RA Ubiquitin doma 34.1 82 0.0018 20.8 3.7 42 4-45 16-62 (87)
206 PF12436 USP7_ICP0_bdg: ICP0-b 33.6 44 0.00096 26.1 2.9 57 6-69 89-151 (249)
207 cd01768 RA RA (Ras-associating 32.7 1.1E+02 0.0024 19.2 4.3 26 3-28 14-39 (87)
208 smart00295 B41 Band 4.1 homolo 32.7 85 0.0018 22.8 4.2 27 3-29 15-41 (207)
209 PRK12280 rplW 50S ribosomal pr 32.0 82 0.0018 23.3 3.8 38 2-39 23-61 (158)
210 KOG4572 Predicted DNA-binding 31.7 66 0.0014 30.2 3.8 49 3-58 6-56 (1424)
211 PF09269 DUF1967: Domain of un 31.5 33 0.00072 21.4 1.5 17 126-142 46-62 (69)
212 TIGR03595 Obg_CgtA_exten Obg f 28.6 46 0.00099 20.8 1.8 18 126-143 46-63 (69)
213 PF08337 Plexin_cytopl: Plexin 28.5 36 0.00079 30.0 1.7 19 127-145 271-289 (539)
214 cd06539 CIDE_N_A CIDE_N domain 28.2 1.3E+02 0.0029 19.5 3.9 34 12-45 21-56 (78)
215 cd01611 GABARAP Ubiquitin doma 27.2 1.3E+02 0.0028 20.8 4.0 40 6-45 45-85 (112)
216 KOG0012 DNA damage inducible p 27.0 80 0.0017 26.5 3.3 28 116-143 45-74 (380)
217 cd01615 CIDE_N CIDE_N domain, 27.0 1.4E+02 0.0031 19.3 3.9 34 12-45 21-56 (78)
218 PRK01777 hypothetical protein; 25.9 2.1E+02 0.0045 19.1 6.3 52 3-70 18-76 (95)
219 cd01612 APG12_C Ubiquitin-like 25.4 2E+02 0.0044 18.8 4.5 35 5-39 19-53 (87)
220 PRK11840 bifunctional sulfur c 25.3 1.9E+02 0.0041 23.9 5.2 54 5-70 9-62 (326)
221 PF04110 APG12: Ubiquitin-like 24.8 1.3E+02 0.0029 19.8 3.5 38 2-39 16-53 (87)
222 KOG4598 Putative ubiquitin-spe 24.7 1E+02 0.0022 28.6 3.8 33 3-35 878-910 (1203)
223 KOG3391 Transcriptional co-rep 24.4 70 0.0015 23.2 2.3 30 116-145 107-136 (151)
224 cd06536 CIDE_N_ICAD CIDE_N dom 23.8 1.7E+02 0.0037 19.1 3.8 34 12-45 21-58 (80)
225 PRK08453 fliD flagellar cappin 22.9 2.2E+02 0.0048 26.0 5.6 23 2-24 138-160 (673)
226 PRK11347 antitoxin ChpS; Provi 22.1 93 0.002 20.2 2.4 18 129-146 21-38 (83)
227 cd01787 GRB7_RA RA (RAS-associ 22.0 2.1E+02 0.0046 18.9 4.0 30 2-31 13-42 (85)
228 COG5100 NPL4 Nuclear pore prot 21.3 81 0.0018 27.1 2.4 25 123-147 57-81 (571)
229 PTZ00191 60S ribosomal protein 21.0 1.7E+02 0.0037 21.3 3.8 32 2-33 83-114 (145)
230 PF05678 VQ: VQ motif; InterP 20.9 1.1E+02 0.0023 16.2 2.0 18 13-30 11-28 (31)
231 cd01777 SNX27_RA Ubiquitin dom 20.8 1.2E+02 0.0027 20.1 2.7 33 2-34 12-44 (87)
232 cd01766 Ufm1 Urm1-like ubiquit 20.7 2.5E+02 0.0054 18.2 4.3 59 5-70 19-78 (82)
233 cd06537 CIDE_N_B CIDE_N domain 20.6 2.1E+02 0.0047 18.7 3.8 33 12-45 21-55 (81)
No 1
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.76 E-value=1.1e-18 Score=113.20 Aligned_cols=62 Identities=29% Similarity=0.305 Sum_probs=60.6
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++++|+|++||+++|++|++.+|+|+++|+|+|+|+.|+|+. +|++|++++++++|++++
T Consensus 9 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~-------tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01793 9 NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDA-------TLGQCGVEELCTLEVAGR 70 (74)
T ss_pred CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence 57899999999999999999999999999999999999999999 999999999999999999
No 2
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=99.71 E-value=1.9e-17 Score=107.23 Aligned_cols=62 Identities=24% Similarity=0.454 Sum_probs=60.2
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+. +|++|||+++++++++.+
T Consensus 11 ~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~-------~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 11 RECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDK-------RLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred CEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCC-------CHHHCCCCCCCEEEEEEc
Confidence 57899999999999999999999999999999999999999999 999999999999999987
No 3
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=99.70 E-value=2.8e-17 Score=105.71 Aligned_cols=61 Identities=26% Similarity=0.462 Sum_probs=59.2
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+++++++++++||+++|++|++.+|+|+++|+|+|+|+.|+|+. +|++|+++++++||+++
T Consensus 9 ~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~-------~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 9 KDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKT-------RLQETKIQKDYVVQVIV 69 (70)
T ss_pred CEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCC-------CHHHcCCCCCCEEEEEe
Confidence 57899999999999999999999999999999999999999999 99999999999999986
No 4
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.70 E-value=4.2e-17 Score=105.68 Aligned_cols=62 Identities=21% Similarity=0.266 Sum_probs=60.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||++||++|++..|+|+++|+|+|+|+.|+|+. +|++|||++++++++..+
T Consensus 9 ~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~-------tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01810 9 RSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEH-------PLGEYGLKPGCTVFMNLR 70 (74)
T ss_pred CEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCC-------CHHHcCCCCCCEEEEEEE
Confidence 57899999999999999999999999999999999999999999 999999999999999998
No 5
>PTZ00044 ubiquitin; Provisional
Probab=99.69 E-value=7e-17 Score=104.81 Aligned_cols=62 Identities=24% Similarity=0.396 Sum_probs=60.3
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+. +|++|++++++++|++++
T Consensus 11 ~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~-------~l~~~~i~~~~~i~l~~~ 72 (76)
T PTZ00044 11 KKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDL-------KLSDYKVVPGSTIHMVLQ 72 (76)
T ss_pred CEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCC-------cHHHcCCCCCCEEEEEEE
Confidence 57899999999999999999999999999999999999999999 999999999999999998
No 6
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=99.68 E-value=6.8e-17 Score=105.29 Aligned_cols=62 Identities=21% Similarity=0.328 Sum_probs=60.5
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||++||++|+..+|+|+++|+|+|+|+.|+|+. +|++|+++++++|+|+.+
T Consensus 8 ~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~-------tL~~~~i~~g~~l~v~~~ 69 (76)
T cd01800 8 QMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSN-------SLAYYNLANGTIIHLQLK 69 (76)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCC-------cHHHcCCCCCCEEEEEEe
Confidence 57899999999999999999999999999999999999999999 999999999999999998
No 7
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=99.67 E-value=1e-16 Score=102.75 Aligned_cols=62 Identities=24% Similarity=0.405 Sum_probs=59.5
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||+++|++|++.+|+|+++|+|+|+|+.|+|+. +|++||+++++++|++.|
T Consensus 9 ~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~-------~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 9 HTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTT-------TIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCC-------cHHHcCCCCCCEEEEEeC
Confidence 57899999999999999999999999999999999999999999 999999999999999864
No 8
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.67 E-value=1.4e-16 Score=109.64 Aligned_cols=62 Identities=23% Similarity=0.318 Sum_probs=60.3
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+. +|++|+|+++++|+++++
T Consensus 38 ~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~-------tL~dy~I~~~stL~l~~~ 99 (103)
T cd01802 38 TCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEY-------CLNDYNISEGCTLKLVLA 99 (103)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence 47899999999999999999999999999999999999999999 999999999999999998
No 9
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.65 E-value=5e-16 Score=98.84 Aligned_cols=62 Identities=31% Similarity=0.509 Sum_probs=60.1
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||++||++|++.+|+|++.|+|+|+|+.|+|+. +|++||++++++|+|+.+
T Consensus 6 ~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~-------tL~~~~i~~~~~I~l~~k 67 (69)
T PF00240_consen 6 KTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDK-------TLSDYGIKDGSTIHLVIK 67 (69)
T ss_dssp EEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTS-------BTGGGTTSTTEEEEEEES
T ss_pred cEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcC-------cHHHcCCCCCCEEEEEEe
Confidence 57999999999999999999999999999999999999999999 999999999999999987
No 10
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.65 E-value=3e-16 Score=101.68 Aligned_cols=61 Identities=18% Similarity=0.234 Sum_probs=58.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+++.++++|++||++||++|++..|+|+++|||+|+|+.|.|+. +|++||+++|++|||..
T Consensus 12 k~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~-------tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHI-------SLGDYEIHDGMNLELYY 72 (73)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCC-------CHHHcCCCCCCEEEEEe
Confidence 56889999999999999999999999999999999999999999 99999999999999874
No 11
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.64 E-value=4.6e-16 Score=100.55 Aligned_cols=62 Identities=47% Similarity=0.745 Sum_probs=60.1
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+. +|++|+++++++++++.+
T Consensus 11 ~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~-------~L~~~~i~~~~~i~l~~~ 72 (76)
T cd01803 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR 72 (76)
T ss_pred CEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEE
Confidence 47889999999999999999999999999999999999999999 999999999999999998
No 12
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=99.64 E-value=4e-16 Score=102.34 Aligned_cols=60 Identities=23% Similarity=0.404 Sum_probs=58.0
Q ss_pred EEEE-EcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLN-VEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~-v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++ +++++||++||++|++.+|+|+++|+|+|+|+.|+|+. +|++|||+++++|+++++
T Consensus 14 ~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~-------tL~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 14 RTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGH-------TLFDYNVGLNDIIQLLVR 74 (78)
T ss_pred EEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence 6785 89999999999999999999999999999999999999 999999999999999998
No 13
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=99.64 E-value=5.9e-16 Score=100.03 Aligned_cols=62 Identities=23% Similarity=0.497 Sum_probs=60.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++.+++++++||++||++|++.+|+|++.|+|+|+|+.|.|+. +|++|++++|+++|++.+
T Consensus 11 ~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~-------tl~~~~i~~g~~i~l~~~ 72 (76)
T cd01806 11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDK-------TAADYKLEGGSVLHLVLA 72 (76)
T ss_pred CEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCC-------CHHHcCCCCCCEEEEEEE
Confidence 56889999999999999999999999999999999999999999 999999999999999998
No 14
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.63 E-value=3.1e-17 Score=111.79 Aligned_cols=62 Identities=48% Similarity=0.748 Sum_probs=61.2
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
||++++++|++||..+|++|+..+|+||++|+|+|+|++|+|+. |+++||++..+|+|++.+
T Consensus 11 KT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~-------Tla~Y~i~~~~Tl~~~~r 72 (128)
T KOG0003|consen 11 KTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQKESTLHLVLR 72 (128)
T ss_pred ceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCC-------cccccCccchhhhhhhHH
Confidence 78999999999999999999999999999999999999999999 999999999999999999
No 15
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.62 E-value=8.4e-16 Score=98.96 Aligned_cols=60 Identities=27% Similarity=0.427 Sum_probs=56.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC-cccccccccccCCCcccccceeEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG-RLIDYEDMALASPNVKRESTMQLL 68 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~ 68 (148)
+++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+ . +|++||+++++++++-
T Consensus 10 ~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~-------~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 10 TTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKR-------LLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcc-------cHHHcCCCCCCEEEEe
Confidence 5789999999999999999999999999999999999999987 6 8999999999999863
No 16
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.60 E-value=2e-15 Score=96.57 Aligned_cols=62 Identities=27% Similarity=0.380 Sum_probs=59.1
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||++||++|++.+|+|++.|+|+|+|+.|+|+. +|++||+++|++++++.+
T Consensus 11 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~-------~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 11 QTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDE-------TLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcC-------cHHHCCCCCCCEEEEEeC
Confidence 47899999999999999999999999999999999999999999 999999999999998864
No 17
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.59 E-value=7.7e-16 Score=111.35 Aligned_cols=62 Identities=45% Similarity=0.736 Sum_probs=60.9
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||..+|++|++.+|||+++|||+|.|++|+|++ +|++|+|+..+++|++++
T Consensus 11 kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgr-------tlSDY~Iqkestl~l~l~ 72 (156)
T KOG0004|consen 11 KTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR 72 (156)
T ss_pred cceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCC-------ccccccccccceEEEEEE
Confidence 58999999999999999999999999999999999999999999 999999999999999999
No 18
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.59 E-value=2.3e-15 Score=96.68 Aligned_cols=60 Identities=23% Similarity=0.364 Sum_probs=57.4
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.++++++++||++||++|++.+|+|+++|+|+|+|+.|.|+. +|++||+++++++||++|
T Consensus 12 ~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~-------tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 12 EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTD-------TLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCC-------cHHHcCCCCCCEEEEEEC
Confidence 478999999999999999999999999999999999999999 999999999999999874
No 19
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=99.58 E-value=4.4e-15 Score=96.47 Aligned_cols=62 Identities=19% Similarity=0.424 Sum_probs=59.6
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCC--CCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGT--SEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gi--p~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++++++++++||++||++|++.+|+ |+++|+|+|+|+.|+|+. +|++||+++|++++++++
T Consensus 11 ~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~-------~L~~~~i~~~~~i~~~~~ 74 (77)
T cd01805 11 QTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDT-------TLEEYKIDEKDFVVVMVS 74 (77)
T ss_pred CEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCC-------CHHHcCCCCCCEEEEEEe
Confidence 57899999999999999999999999 999999999999999999 999999999999999887
No 20
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=1.4e-15 Score=93.35 Aligned_cols=60 Identities=27% Similarity=0.501 Sum_probs=57.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL 68 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~ 68 (148)
|.+.++++|+++|..+|+++++++||||.+|||+|.|+++.|+. +-++|++..||.+|++
T Consensus 11 KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~-------tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDK-------TAAHYNLLGGSVLHLV 70 (70)
T ss_pred ceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccc-------cHHHhhhccceeEeeC
Confidence 56889999999999999999999999999999999999999999 9999999999999974
No 21
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=99.56 E-value=6.7e-15 Score=95.58 Aligned_cols=61 Identities=13% Similarity=0.231 Sum_probs=58.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE---cCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF---AGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~---~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+++++++++++||++||++|++.+|+||++|+|+| .|+.+.|+. +|++|++++|+.++|+.
T Consensus 10 ~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~-------~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 10 QEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDV-------KISALKLKPNTKIMMMG 73 (74)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCc-------CHHHcCCCCCCEEEEEe
Confidence 57899999999999999999999999999999996 899999999 99999999999999874
No 22
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.56 E-value=6.9e-15 Score=96.36 Aligned_cols=61 Identities=21% Similarity=0.296 Sum_probs=57.7
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++++++++.||++||++|++..|+|+++|+|+|+|+.|.|+ +|++||++++++|+|+..
T Consensus 12 ~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~--------~L~~~gi~~~~~i~l~~~ 72 (78)
T cd01804 12 TRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG--------KLQDLGLGDGSKLTLVPT 72 (78)
T ss_pred CEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC--------cHHHcCCCCCCEEEEEee
Confidence 4678999999999999999999999999999999999999875 899999999999999988
No 23
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=99.56 E-value=6.8e-15 Score=95.81 Aligned_cols=60 Identities=25% Similarity=0.306 Sum_probs=55.3
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecC-CCcccccccccccCCCcc-cccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLM-NGRLIDYEDMALASPNVK-RESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~-d~~~~~~~~~~L~~~~i~-~~s~i~l~~ 69 (148)
+|++++++|++||++||++|++++|+||++|+| |+|+.|. |+. +|++||++ +|+++++.+
T Consensus 13 ~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~-------tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 13 VTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQE-------TLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred CeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcC-------CHHHcCCCCCCCEEEEEe
Confidence 578999999999999999999999999999999 9999985 668 99999999 889998864
No 24
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.55 E-value=8.6e-15 Score=93.52 Aligned_cols=61 Identities=26% Similarity=0.337 Sum_probs=58.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+++++++++++||++||++|++.+|+|+++|+|+|+|+.|.|+. +|++||+++|++++++.
T Consensus 10 ~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~-------~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 10 ESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAE-------TLDMSGVKDGSKVMLLE 70 (71)
T ss_pred EEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccC-------cHHHcCCCCCCEEEEec
Confidence 46789999999999999999999999999999999999999999 99999999999999874
No 25
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.54 E-value=8e-15 Score=96.39 Aligned_cols=62 Identities=24% Similarity=0.273 Sum_probs=59.5
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEE--EEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDL--FFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L--~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++++++++.||++||++|++.+|+|+++|+| +|+|+.|.|+. +|++||+++|++++++.+
T Consensus 13 ~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~-------tL~~~gi~~gs~l~l~~~ 76 (80)
T cd01792 13 NEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGV-------PLVSQGLGPGSTVLLVVQ 76 (80)
T ss_pred CEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCC-------CHHHcCCCCCCEEEEEEE
Confidence 578899999999999999999999999999999 89999999999 999999999999999987
No 26
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=99.51 E-value=2e-14 Score=94.25 Aligned_cols=60 Identities=18% Similarity=0.115 Sum_probs=54.5
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhC--CCCcccEEEEcCeecCCCcccccccccccCCC--cccccceeEEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEG--TSEDIQDLFFAGDRLMNGRLIDYEDMALASPN--VKRESTMQLLF 69 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~g--ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~--i~~~s~i~l~~ 69 (148)
++++++++++||++||++|++..+ .|+++|||+|+|+.|.|+. +|++|. +.++.++||+.
T Consensus 15 ~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~-------tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 15 DQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHL-------KLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred EEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchh-------hHHHHhhcccCCceEEEEe
Confidence 477777999999999999999875 5579999999999999999 999996 99999999985
No 27
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.48 E-value=3.3e-14 Score=92.19 Aligned_cols=53 Identities=19% Similarity=0.333 Sum_probs=49.2
Q ss_pred CCCcHHHHHHHHHhhh--CCC-CcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 10 KSETIKNLKGMVHEKE--GTS-EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 10 ~~~tV~~lK~~i~~~~--gip-~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
.++||.+||++|+++. |++ +++|||+|+|+.|+|+. +|++|||+++++|||+.
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~-------TL~dygI~~gstlhLv~ 74 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQ-------TLDFYGIQSGSTIHILR 74 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCC-------cHHHcCCCCCCEEEEEe
Confidence 5799999999999995 575 99999999999999999 99999999999999874
No 28
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.47 E-value=1.5e-13 Score=94.66 Aligned_cols=74 Identities=19% Similarity=0.262 Sum_probs=67.7
Q ss_pred CCCcccccceeEEEeeeeeccccccCCchhhhhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eee
Q 041424 56 SPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFC 118 (148)
Q Consensus 56 ~~~i~~~s~i~l~~~~~~~~~~~~~~p~~~~~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f 118 (148)
.+++.+-+++|+.++ ++++|+|+||...|+++.++|+ +|++|++ |+|
T Consensus 9 ~~~~~~~~~~~~~~~----------------~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~ 72 (103)
T cd01802 9 FFNEDNMGPFHYKLP----------------FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIW 72 (103)
T ss_pred ccccCCcceeEEeec----------------cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEE
Confidence 356677789999999 8889999999999999998888 9999986 999
Q ss_pred cCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 119 TGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 119 ~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
+|+.|+|+++|++|+|++|++|+++++
T Consensus 73 ~Gk~L~D~~tL~dy~I~~~stL~l~~~ 99 (103)
T cd01802 73 NNMELEDEYCLNDYNISEGCTLKLVLA 99 (103)
T ss_pred CCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence 999999999999999999999999986
No 29
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.42 E-value=6.3e-13 Score=88.75 Aligned_cols=62 Identities=15% Similarity=0.347 Sum_probs=60.3
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++++|.+++|+..||.++++..|+|+++|+|+|+|+.|+++. |+++|++.++++|+++.+
T Consensus 22 ~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~-------T~~~l~m~d~d~I~v~l~ 83 (87)
T cd01763 22 NEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQ-------TPDDLGMEDGDEIEVMLE 83 (87)
T ss_pred CEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence 56899999999999999999999999999999999999999999 999999999999999998
No 30
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.38 E-value=9.6e-13 Score=88.94 Aligned_cols=61 Identities=25% Similarity=0.173 Sum_probs=57.4
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC-cccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG-RLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..+++|++++||.+||.+|...+++||+.|+|+|.|+.|.|+ + +|++||+.++|++.|..+
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsr-------TLssyGv~sgSvl~Llid 77 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCA-------TLGTLGVIPESVILLKAD 77 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCc-------cHHhcCCCCCCEEEEEec
Confidence 468899999999999999999999999999999999999766 6 999999999999999986
No 31
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.38 E-value=8.2e-13 Score=82.07 Aligned_cols=54 Identities=35% Similarity=0.511 Sum_probs=51.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCccccc
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRES 63 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s 63 (148)
++.+++++++||++||++|+..+|+|++.|+|+|+|+.|.|+. +|++||+++|+
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~-------tL~~~~i~~~~ 64 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDR-------TLADYNIQDGS 64 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCC-------CHHHcCCcCCC
Confidence 6789999999999999999999999999999999999999999 99999999875
No 32
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=99.36 E-value=9.9e-13 Score=85.03 Aligned_cols=55 Identities=22% Similarity=0.324 Sum_probs=51.2
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+||+.+|++++++|+ +|++|++ |+|+|+.|+|+++|++|||++|++|+++++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence 578999999999998887 9999886 999999999999999999999999999987
No 33
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=99.29 E-value=1.8e-12 Score=89.67 Aligned_cols=58 Identities=22% Similarity=0.177 Sum_probs=52.3
Q ss_pred EEEcCCCcHHHHHHHHH-----hhhCCC--CcccEEEEcCeecCCCcccccccccccCCC------cccccceeEEEe
Q 041424 6 LNVEKSETIKNLKGMVH-----EKEGTS--EDIQDLFFAGDRLMNGRLIDYEDMALASPN------VKRESTMQLLFC 70 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~-----~~~gip--~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~------i~~~s~i~l~~~ 70 (148)
..+++++||++||++|+ .++|+| +++|+|+|+|+.|+|+. ||++|+ +....|+|+++|
T Consensus 20 ~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~-------TL~d~~~p~g~~~~~~~TmHvvlr 90 (113)
T cd01814 20 KRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSK-------TVGECRSPVGDIAGGVITMHVVVQ 90 (113)
T ss_pred cccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCC-------cHHHhCCcccccCCCceEEEEEec
Confidence 45789999999999999 555666 99999999999999999 999999 677799999999
No 34
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.28 E-value=9.1e-12 Score=78.32 Aligned_cols=61 Identities=31% Similarity=0.527 Sum_probs=57.2
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+.+.+.+++++||++||++|+..+|+|++.|+|.|+|+.|.|+. +|++|++.+++.|+++.
T Consensus 8 ~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~-------~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 8 KTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDK-------TLSDYGIQDGSTLHLVL 68 (69)
T ss_pred CEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcC-------CHHHCCCCCCCEEEEEE
Confidence 46788999999999999999999999999999999999999999 99999999999998864
No 35
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=99.24 E-value=1.2e-11 Score=80.96 Aligned_cols=55 Identities=20% Similarity=0.295 Sum_probs=48.7
Q ss_pred eeeeeeeeeeee-eehh-hh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEI-VKLK-VK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~-~~l~-v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|.|+||+.+|++ ++++ ++ +|.+|++ |+|+|+.|+|+.+|++|||++|++|+|+++
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVR 74 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence 578999999986 5663 44 9999886 999999999999999999999999999986
No 36
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.22 E-value=1.7e-11 Score=101.39 Aligned_cols=66 Identities=20% Similarity=0.382 Sum_probs=61.7
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhC---CCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeee
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEG---TSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKV 74 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~ 74 (148)
++++++|++++||.+||++|+...| +|+++|+|+|+|+.|.|+. +|++|+|+++++|++++...+.
T Consensus 11 ~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~-------tL~dy~I~e~~~Ivvmv~k~k~ 79 (378)
T TIGR00601 11 QKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDK-------TVREYKIKEKDFVVVMVSKPKT 79 (378)
T ss_pred CEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCC-------cHHHcCCCCCCEEEEEeccCCC
Confidence 5789999999999999999999999 9999999999999999999 9999999999999999886443
No 37
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=99.22 E-value=1.2e-11 Score=79.01 Aligned_cols=53 Identities=11% Similarity=0.219 Sum_probs=48.3
Q ss_pred eeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 93 IFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 93 I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+||++.|++++++++ +|+.|++ |+|+|+.|+|+.+|++|||++||+||++.|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 5788889999998887 8888876 999999999999999999999999999875
No 38
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.21 E-value=1.7e-11 Score=79.24 Aligned_cols=53 Identities=21% Similarity=0.231 Sum_probs=48.9
Q ss_pred eeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 93 IFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 93 I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+||++.|++++++++ +|++|++ |+|+|+.|+|+++|++|||++|++|+|+++
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLR 70 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence 5789999999888888 9999885 999999999999999999999999999987
No 39
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.21 E-value=5.2e-11 Score=79.04 Aligned_cols=60 Identities=23% Similarity=0.253 Sum_probs=52.1
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE-EcCe-----ec-CCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF-FAGD-----RL-MNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~g~-----~L-~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+..+++++||.+||++++..+|+||+.|+|. |.|+ .| +|+. +|++||+++|++||++-.
T Consensus 15 ~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~-------~L~~y~~~dg~~IhVvD~ 81 (84)
T cd01789 15 FEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDA-------LLGSYPVDDGCRIHVIDV 81 (84)
T ss_pred eeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCcc-------EeeeccCCCCCEEEEEeC
Confidence 44558999999999999999999999999995 7777 46 4566 999999999999998754
No 40
>PTZ00044 ubiquitin; Provisional
Probab=99.19 E-value=2.8e-11 Score=78.32 Aligned_cols=55 Identities=20% Similarity=0.377 Sum_probs=50.9
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+||+.+|++++++++ +|++|++ |+|+|+.|+|+.+|++|++++|++|++.++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~ 72 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQ 72 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEE
Confidence 578999999999998888 9998876 999999999999999999999999999986
No 41
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.19 E-value=3e-11 Score=78.08 Aligned_cols=53 Identities=23% Similarity=0.318 Sum_probs=45.9
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+||.. ++++++|+ +|++|++ |+|+|+.|+|+++|++|||++++|||++++
T Consensus 1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01793 1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGR 70 (74)
T ss_pred CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 56788874 56666666 9999886 999999999999999999999999999986
No 42
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.13 E-value=7e-11 Score=77.54 Aligned_cols=58 Identities=19% Similarity=0.195 Sum_probs=51.6
Q ss_pred eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------e--eecCeeeCCCCchhhhCCCCCCEEEEEeecc
Q 041424 90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------L--FCTGMKLKDCKTLACYGVKDDRGVACFISDI 147 (148)
Q Consensus 90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L--~f~g~~L~d~~tL~~y~I~~gstI~l~l~~~ 147 (148)
+|+|+|+...|+++.++++ +|++|++ | +|+|+.|+|+++|++|||++|++|+++++..
T Consensus 2 ~~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~ 78 (80)
T cd01792 2 GWDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC 78 (80)
T ss_pred ceEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 3788999999999988766 8988875 6 8999999999999999999999999998853
No 43
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=99.12 E-value=9.7e-11 Score=75.40 Aligned_cols=56 Identities=21% Similarity=0.322 Sum_probs=50.3
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD 146 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~ 146 (148)
|+|+|+..+|+++.++++ +|+++++ |+|+|+.|+|+++|++|++++|++|+++++.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~ 73 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLAL 73 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEc
Confidence 568899999998887776 9998876 8899999999999999999999999999874
No 44
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.12 E-value=9.3e-11 Score=74.73 Aligned_cols=55 Identities=29% Similarity=0.378 Sum_probs=49.3
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+||..+|++++++++ +|+++++ |+|+|+.|+|+++|++||+++|++|+++++
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence 568899999988888777 8888875 999999999999999999999999999875
No 45
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.11 E-value=9.5e-11 Score=75.10 Aligned_cols=53 Identities=26% Similarity=0.328 Sum_probs=44.8
Q ss_pred eeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 92 KIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
.|+||+..|+. .++++ +|++|++ |+|+|+.|+|+++|++||+++|++||++++
T Consensus 2 ~i~vk~~~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 2 KVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred EEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 46777777763 55555 8888864 999999999999999999999999999986
No 46
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.11 E-value=9.5e-12 Score=85.00 Aligned_cols=55 Identities=35% Similarity=0.573 Sum_probs=50.8
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
+.+++++++|++++++++ +|++|++ |+|+|++|||++||++|||+..|||+++++
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~r 72 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHH
Confidence 357899999999999988 9999997 999999999999999999999999998864
No 47
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.10 E-value=3.4e-11 Score=87.30 Aligned_cols=55 Identities=33% Similarity=0.565 Sum_probs=51.4
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|.|||++.+|+++..+++ +|++|++ |+|.|++|+|+++|+||+|+..+|||++++
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~ 72 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEE
Confidence 468999999999998887 9999997 999999999999999999999999999986
No 48
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.09 E-value=1.6e-10 Score=74.36 Aligned_cols=55 Identities=33% Similarity=0.565 Sum_probs=49.9
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+|+..+|+.+.++++ +|++|++ |+|+|+.|+|+++|++|++++|++|+++++
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~ 72 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence 568899988998888777 8888875 899999999999999999999999999987
No 49
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=99.06 E-value=2.4e-10 Score=74.00 Aligned_cols=55 Identities=29% Similarity=0.410 Sum_probs=48.9
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+|++.+|+.+.++++ +|+.|++ |+|+|+.|+|+.+|++|||++|++|++.++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~ 74 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVS 74 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEe
Confidence 578899999999888877 8877753 999999999999999999999999999876
No 50
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.05 E-value=2.3e-10 Score=74.81 Aligned_cols=54 Identities=17% Similarity=0.198 Sum_probs=48.8
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+|+...|+.++++++ +|++|++ |+|+|+.|+|+ +|++|||++|++|+++.+
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~ 72 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPT 72 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEee
Confidence 678999998999888877 9998875 99999999999 999999999999999875
No 51
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=99.04 E-value=2.5e-10 Score=73.29 Aligned_cols=51 Identities=25% Similarity=0.290 Sum_probs=46.0
Q ss_pred eeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424 94 FVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI 144 (148)
Q Consensus 94 ~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l 144 (148)
.||..+|++++++++ +|++|++ |+|+|+.|+|+.+|.+|+|++|++||+.+
T Consensus 2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 467788899888888 9999875 99999999999999999999999999975
No 52
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.03 E-value=2.6e-10 Score=73.83 Aligned_cols=53 Identities=17% Similarity=0.178 Sum_probs=47.7
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
|.|.|++..|+.+.++++ ||++|++ |+|+|+.|+|+++|++|||++|++|||-
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~ 71 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY 71 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence 568888888898888766 9999876 9999999999999999999999999985
No 53
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.03 E-value=2.3e-10 Score=96.10 Aligned_cols=63 Identities=21% Similarity=0.339 Sum_probs=59.9
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI 72 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~ 72 (148)
.+.+.|..+.||.+||++|...+++|+++|+|||.|+.|+|+. +|..|||++|.||||+.+..
T Consensus 26 k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~d-------TL~~~gI~Dg~TvHLVik~~ 88 (493)
T KOG0010|consen 26 KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDD-------TLKQYGIQDGHTVHLVIKSQ 88 (493)
T ss_pred ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChh-------hHHHcCCCCCcEEEEEeccC
Confidence 4678999999999999999999999999999999999999999 99999999999999999853
No 54
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=99.03 E-value=4.9e-10 Score=74.57 Aligned_cols=61 Identities=20% Similarity=0.213 Sum_probs=49.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc-C------eecC-CCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA-G------DRLM-NGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~-g------~~L~-d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.++..+++++||++||++|+..+|+|++.|+|.+. . ..+. |.. +|.+||+++|.+||+.-.
T Consensus 15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~-------~L~~y~~~dg~~i~V~D~ 83 (87)
T PF14560_consen 15 SVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDA-------TLGSYGIKDGMRIHVVDT 83 (87)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSS-------BCCHHT-STTEEEEEEE-
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCcc-------EeecCCCCCCCEEEEEeC
Confidence 56788999999999999999999999999999876 1 1243 455 999999999999998754
No 55
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=98.96 E-value=8e-10 Score=70.00 Aligned_cols=50 Identities=34% Similarity=0.505 Sum_probs=42.9
Q ss_pred eeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 96 KMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 96 k~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+.+|+.+.++++ +|+.|++ |+|+|+.|+|+.+|.+|||++|++|+++++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k 67 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIK 67 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEES
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEe
Confidence 3456777777666 8888776 999999999999999999999999999876
No 56
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.91 E-value=5.6e-09 Score=65.27 Aligned_cols=62 Identities=42% Similarity=0.644 Sum_probs=59.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++.+.+.++.++..+|.+++...|+|++.|++.+.|+.|+|+. ++++|+|..++++++..+
T Consensus 10 k~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~-------~l~~~~i~~~~~~~l~~~ 71 (75)
T KOG0001|consen 10 KTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGR-------TLADYNIQEGSTLHLVLS 71 (75)
T ss_pred CEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCC-------cHHHhCCCCCCEEEEEEe
Confidence 57889999999999999999999999999999999999999999 999999999999999887
No 57
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=98.88 E-value=4.1e-09 Score=67.38 Aligned_cols=61 Identities=21% Similarity=0.366 Sum_probs=55.5
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCC-cccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSE-DIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~-~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+.+.+.|.+++++..|++..++..|+|+ +..+|+|.|+.|.++. |++++|+.+|++|++++
T Consensus 11 ~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~-------T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 11 KEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPND-------TPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTS-------CHHHHT-STTEEEEEE-
T ss_pred CEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCC-------CHHHCCCCCCCEEEEEC
Confidence 4688999999999999999999999999 9999999999999999 99999999999999863
No 58
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=98.85 E-value=3.9e-09 Score=84.91 Aligned_cols=65 Identities=20% Similarity=0.374 Sum_probs=61.6
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhC--CCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeee
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEG--TSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIK 73 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~g--ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~ 73 (148)
.+|++++.|++||.++|.+|+...| .|+++|+|+|+|+.|.|+. ++.+|++.+++.|.+++...+
T Consensus 11 ~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~-------tv~Eykv~E~~fiVvMlsK~k 77 (340)
T KOG0011|consen 11 QTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDET-------TVGEYKVKEKKFIVVMLSKDK 77 (340)
T ss_pred ceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCc-------chhhhccccCceEEEEEecCc
Confidence 3689999999999999999999999 9999999999999999999 999999999999999998665
No 59
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=98.83 E-value=4.2e-09 Score=67.57 Aligned_cols=51 Identities=33% Similarity=0.337 Sum_probs=43.7
Q ss_pred eeeeee-eeeeeehhhh-------Hhhhhhe----------eeecCeeeCCC-CchhhhCCCCCCEEEEE
Q 041424 93 IFVKML-TEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDC-KTLACYGVKDDRGVACF 143 (148)
Q Consensus 93 I~Vk~~-~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~-~tL~~y~I~~gstI~l~ 143 (148)
++|++. +|+++.++++ +|++|++ |+|+|+.|+|+ .+|++|||++|++|+|.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 356777 7888887777 8988876 99999999987 68999999999999984
No 60
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=98.82 E-value=9.2e-09 Score=71.20 Aligned_cols=62 Identities=23% Similarity=0.287 Sum_probs=57.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCc-------ccccceeEEEee
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNV-------KRESTMQLLFCA 71 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i-------~~~s~i~l~~~~ 71 (148)
|+.+++.++.||.+||++|+.+...||+.|+|+-.+..|+|++ +|++||+ +..+++-+.+|.
T Consensus 13 TiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~k-------TL~d~g~t~~~akaq~pA~vgLa~r~ 81 (119)
T cd01788 13 TIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGK-------TLGDCGFTSQTARPQAPATVGLAFRS 81 (119)
T ss_pred EEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccc-------cHHHcCccccccccCCCCeEEEEEec
Confidence 6889999999999999999999999999999996667799999 9999999 778889888883
No 61
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=98.80 E-value=9.2e-09 Score=68.53 Aligned_cols=57 Identities=18% Similarity=0.300 Sum_probs=50.7
Q ss_pred heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
..|.|+|+..+|+.+.++|+ |+..+++ |+|+|+.|+++.|+.+|++++||+|+++++
T Consensus 10 ~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~ 83 (87)
T cd01763 10 EHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE 83 (87)
T ss_pred CeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 45788999999999988888 6666665 999999999999999999999999999875
No 62
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=98.79 E-value=6e-09 Score=68.35 Aligned_cols=54 Identities=17% Similarity=0.100 Sum_probs=45.1
Q ss_pred eeeeeeeeeeeeeehhh--h-------Hhhhhhe------------eeecCeeeCCCCchhhhC--CCCCCEEEEEe
Q 041424 91 VKIFVKMLTEEIVKLKV--K-------VLLTIRD------------LFCTGMKLKDCKTLACYG--VKDDRGVACFI 144 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v--~-------lK~~i~e------------L~f~g~~L~d~~tL~~y~--I~~gstI~l~l 144 (148)
+.++||+.+++...+++ + +|++|++ |+|+||.|+|..||++|. +++|.||||+-
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 56788888888744444 3 8877765 999999999999999996 99999999985
No 63
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=3.5e-09 Score=65.15 Aligned_cols=53 Identities=23% Similarity=0.336 Sum_probs=48.0
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
|.|.|++++|+.+.++++ +|..+++ |+|.|++|.|++|-.+|++..||++|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 357889999999998887 7888776 9999999999999999999999999985
No 64
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=98.78 E-value=7.6e-09 Score=67.16 Aligned_cols=47 Identities=17% Similarity=0.389 Sum_probs=41.0
Q ss_pred eeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 99 TEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 99 ~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
+|++++++++ +|++|++ |+|+|+.|+|+++|++|+|++|++|+++++
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~ 69 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLK 69 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEe
Confidence 4666666666 8888875 999999999999999999999999999986
No 65
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=98.72 E-value=1.7e-08 Score=64.06 Aligned_cols=52 Identities=27% Similarity=0.326 Sum_probs=44.6
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
|+|.||.. |+...++++ +|++|++ |+|+|+.|+|+.+|++||+++|++|+++
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL 69 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence 35777775 777777766 8888875 9999999999999999999999999986
No 66
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=98.67 E-value=2.2e-08 Score=64.97 Aligned_cols=30 Identities=33% Similarity=0.513 Sum_probs=28.6
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+|+.|+|++||++|||++|++|||+.+
T Consensus 46 LIy~GKiL~D~~TL~dygI~~gstlhLv~~ 75 (75)
T cd01815 46 LIHCGRKLKDDQTLDFYGIQSGSTIHILRK 75 (75)
T ss_pred EEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence 999999999999999999999999999853
No 67
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.64 E-value=3.1e-08 Score=82.13 Aligned_cols=55 Identities=25% Similarity=0.368 Sum_probs=50.0
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+||++.|+++.++|+ ||++|++ |+|+|+.|+|+++|.+|+|++|++|+++++
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~ 75 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVS 75 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEec
Confidence 578999999999999888 8888753 999999999999999999999999999876
No 68
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.52 E-value=8.1e-08 Score=80.93 Aligned_cols=55 Identities=29% Similarity=0.405 Sum_probs=45.6
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD 146 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~ 146 (148)
+.|.||+.++ +..+.|. +|+.|.. |||.||.|.|..||..|||++|.|||||.+-
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~ 87 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKS 87 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEecc
Confidence 5678888766 4444444 7877775 9999999999999999999999999999863
No 69
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=98.45 E-value=2.9e-07 Score=59.87 Aligned_cols=52 Identities=21% Similarity=0.252 Sum_probs=46.5
Q ss_pred cCCCcHHHHHHHHHhhhC-CCCcccEEE--EcCeecCCCcccccccccccCCCcccccceeE
Q 041424 9 EKSETIKNLKGMVHEKEG-TSEDIQDLF--FAGDRLMNGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 9 ~~~~tV~~lK~~i~~~~g-ip~~~Q~L~--~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
+++.||.+||..+++..+ +++++|||. +.|+.|.|+. +|++||+.+|+++++
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~-------tL~~~gv~~g~~lyv 74 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDD-------TLVDLGVGAGATLYV 74 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcc-------cHhhcCCCCCCEEEE
Confidence 588999999999999876 589999995 7889999999 999999999998764
No 70
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=98.45 E-value=7.4e-07 Score=52.78 Aligned_cols=60 Identities=25% Similarity=0.303 Sum_probs=54.5
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
...+.+++..|+.++|+++.++.|++++.|.|++.|..+.+.. .+.++++.+++++++..
T Consensus 9 ~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~-------~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 9 TVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSL-------TLEDYGLQDGDELVLVP 68 (69)
T ss_pred EEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCC-------cHHHcCCCCCCEEEEEe
Confidence 5678888999999999999999999999999999999999888 77889999999998764
No 71
>PLN02560 enoyl-CoA reductase
Probab=98.43 E-value=3.8e-07 Score=73.91 Aligned_cols=56 Identities=23% Similarity=0.332 Sum_probs=49.9
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCC-CCcccEEEEc---C----eecCCCcccccccccccCCCcccccceeE
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGT-SEDIQDLFFA---G----DRLMNGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gi-p~~~Q~L~~~---g----~~L~d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
+++++++.||++||++|+++.++ ++++|||.+. | ..|.|+. +|+++|+++++++++
T Consensus 17 ~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~k-------tL~d~gv~~gstLy~ 80 (308)
T PLN02560 17 GLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSK-------SLKDYGLGDGGTVVF 80 (308)
T ss_pred eEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCC-------CHHhcCCCCCceEEE
Confidence 78999999999999999999986 8999999983 3 3788898 999999999998764
No 72
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=2.4e-07 Score=83.59 Aligned_cols=62 Identities=21% Similarity=0.299 Sum_probs=59.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEee
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCA 71 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~ 71 (148)
++.++.|..++||.+||..+.+...|+.+.|||+|.|+.|.|++ ++.+|+| +|.+|||+.|+
T Consensus 13 r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k-------~vq~~~v-dgk~~hlverp 74 (1143)
T KOG4248|consen 13 RTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDK-------KVQEYNV-DGKVIHLVERP 74 (1143)
T ss_pred ceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccch-------hhhhccC-CCeEEEeeccC
Confidence 46788899999999999999999999999999999999999999 9999999 99999999993
No 73
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.40 E-value=1.2e-06 Score=60.97 Aligned_cols=61 Identities=20% Similarity=0.252 Sum_probs=47.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhh-------CCCCcccEEEEcCeecCCCcccccccccccCCCccccc------ceeEEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKE-------GTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRES------TMQLLF 69 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~-------gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s------~i~l~~ 69 (148)
+.++..++++||++||+.|.... -..++..||+|.|+.|+|+. +|+++.+..+. ++||++
T Consensus 15 ~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~-------tL~~~~~~~~~~~~~~~vmHlvv 87 (111)
T PF13881_consen 15 IGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNK-------TLSDCRLPSGETPGGPTVMHLVV 87 (111)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSS-------BTGGGT--TTSETT--EEEEEEE
T ss_pred ccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcC-------cHHHhCCCCCCCCCCCEEEEEEe
Confidence 56788999999999999999743 13467899999999999999 99999988765 678888
Q ss_pred e
Q 041424 70 C 70 (148)
Q Consensus 70 ~ 70 (148)
+
T Consensus 88 r 88 (111)
T PF13881_consen 88 R 88 (111)
T ss_dssp -
T ss_pred c
Confidence 7
No 74
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=98.34 E-value=7.3e-07 Score=57.69 Aligned_cols=51 Identities=14% Similarity=0.184 Sum_probs=43.1
Q ss_pred eeeeeeeeeeeeehhhh-------Hhhhhhe----------eee---cCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 92 KIFVKMLTEEIVKLKVK-------VLLTIRD----------LFC---TGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f---~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
.|.||. .|+.++++|+ +|++|++ |+| +|+.++|+.+|++|+|++|+.|.|+
T Consensus 2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence 455555 5788888777 8999886 885 9999999999999999999999886
No 75
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.30 E-value=6.8e-07 Score=55.01 Aligned_cols=47 Identities=34% Similarity=0.513 Sum_probs=37.4
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCC
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDR 138 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gs 138 (148)
|+|+|+..+ +.+.++++ +|+.+++ |+|+|+.|+|+.+|++||+++|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 356777765 55555555 8888764 99999999999999999999986
No 76
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.27 E-value=1.2e-06 Score=57.59 Aligned_cols=59 Identities=22% Similarity=0.287 Sum_probs=36.8
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC---eec--CCCcccccccccccCCCcccccceeEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG---DRL--MNGRLIDYEDMALASPNVKRESTMQLL 68 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g---~~L--~d~~~~~~~~~~L~~~~i~~~s~i~l~ 68 (148)
+..++++|++|+++|+++|++..++|.+.|.|.... ..+ .++. +|+++|++.|+.+++-
T Consensus 15 ~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~-------tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 15 MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSK-------TLSSLGLKHGDMLYLK 78 (80)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT--------CCCCT---TT-EEE--
T ss_pred CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcC-------CHHHcCCCCccEEEEe
Confidence 578999999999999999999999999999886432 234 3456 9999999999988753
No 77
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=98.26 E-value=1.4e-06 Score=55.47 Aligned_cols=54 Identities=24% Similarity=0.361 Sum_probs=39.3
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe-----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD-----------LFCTGMKLKDCKTLACYGVKDDRGVACFI 144 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e-----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l 144 (148)
|+|+|+..+|+.+.+.|. +...+++ |+|.|+.|+++.|+.+||+++||+|++.+
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 456677777776666666 3333322 99999999999999999999999999864
No 78
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=98.11 E-value=4.1e-06 Score=54.35 Aligned_cols=35 Identities=20% Similarity=0.270 Sum_probs=30.8
Q ss_pred Hhhhhhe----------eeecCeeeC-CCCchhhhCCC-CCCEEEEEe
Q 041424 109 VLLTIRD----------LFCTGMKLK-DCKTLACYGVK-DDRGVACFI 144 (148)
Q Consensus 109 lK~~i~e----------L~f~g~~L~-d~~tL~~y~I~-~gstI~l~l 144 (148)
+|+++++ | |+|+.|. |+++|++||++ +|++++|.+
T Consensus 28 lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 28 LKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred HHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 8888876 8 9999995 77999999998 899999875
No 79
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=98.09 E-value=4e-06 Score=67.77 Aligned_cols=55 Identities=33% Similarity=0.465 Sum_probs=50.9
Q ss_pred eeeeeeeeeeeeeehhhh-------Hhhhhhe------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 91 VKIFVKMLTEEIVKLKVK-------VLLTIRD------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
|+|+||++.+.++++++. +|.+|+. |||.|+.|.|..|+.+|++++++-|.++++
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMls 74 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLS 74 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEe
Confidence 578999999999999988 8888885 999999999999999999999999998876
No 80
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=98.08 E-value=5.5e-06 Score=57.54 Aligned_cols=31 Identities=16% Similarity=0.174 Sum_probs=29.1
Q ss_pred eeecCeeeCCCCchhhhC------CCCCCEEEEEeec
Q 041424 116 LFCTGMKLKDCKTLACYG------VKDDRGVACFISD 146 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~------I~~gstI~l~l~~ 146 (148)
|||+|+.|+|++||++|+ +....|+|++++.
T Consensus 55 LIysGKiLeD~~TL~d~~~p~g~~~~~~~TmHvvlr~ 91 (113)
T cd01814 55 LISAGKILENSKTVGECRSPVGDIAGGVITMHVVVQP 91 (113)
T ss_pred EEeCCeecCCCCcHHHhCCcccccCCCceEEEEEecC
Confidence 999999999999999999 7788999999874
No 81
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=7.5e-06 Score=66.11 Aligned_cols=62 Identities=21% Similarity=0.430 Sum_probs=57.1
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE-Ee
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL-FC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~-~~ 70 (148)
.+++++|+.+.+|.+||+.++...|+|+++.+++|.|+.|+|+. ++..+.+..-+.+|++ +|
T Consensus 14 h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~t-------tv~~cDL~qqs~~hi~~lR 76 (446)
T KOG0006|consen 14 HGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDT-------TVQNCDLSQQSATHIMLLR 76 (446)
T ss_pred CceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCc-------eeecccccccchhhhhccC
Confidence 36889999999999999999999999999999999999999999 9998888888888887 44
No 82
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=97.98 E-value=8e-06 Score=50.82 Aligned_cols=36 Identities=33% Similarity=0.474 Sum_probs=32.1
Q ss_pred Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424 109 VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI 144 (148)
Q Consensus 109 lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l 144 (148)
+|..|++ |+|+|+.|+|..+|.+|++.+|++|++..
T Consensus 23 lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 23 LKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred HHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 7777764 88999999999999999999999999864
No 83
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=1.2e-05 Score=67.65 Aligned_cols=62 Identities=16% Similarity=0.199 Sum_probs=57.1
Q ss_pred EEEE-EcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424 4 VTLN-VEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI 72 (148)
Q Consensus 4 ~~l~-v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~ 72 (148)
+.++ ++.++|+..||+++...+|+||++|++.+.|..+.|+- .+....|+++.+++|+..+.
T Consensus 15 y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~-------~~~al~iKpn~~lmMmGt~e 77 (473)
T KOG1872|consen 15 YPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDV-------DWGALQIKPNETLMMMGTAE 77 (473)
T ss_pred ccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccc-------cccccccCCCCEEEeecccc
Confidence 4555 88999999999999999999999999999999999997 88889999999999999854
No 84
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=97.96 E-value=2.8e-05 Score=50.07 Aligned_cols=60 Identities=23% Similarity=0.312 Sum_probs=51.9
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc---C--eecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA---G--DRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~---g--~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+++.|+|..+|..+|++|....|++- .|||.|. | ..|++.. +|++|||..+-.|.++..
T Consensus 12 dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~-------sLA~yGiFs~~~i~lleT 76 (80)
T cd01811 12 DWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRK-------SLADYGIFSKTNICLLET 76 (80)
T ss_pred ceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccc-------cHhhhcceeccEEEEEec
Confidence 478999999999999999999999995 9999985 3 2478888 999999999888877765
No 85
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=4.8e-06 Score=52.11 Aligned_cols=61 Identities=18% Similarity=0.239 Sum_probs=54.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
|.+.+...+++||+++|..|+.++|..++...|.-.+..+.|.. +|++|.+.+|..+.+..
T Consensus 12 KKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I-------~L~dyeihdg~~lelyy 72 (73)
T KOG3493|consen 12 KKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHI-------TLSDYEIHDGMNLELYY 72 (73)
T ss_pred ceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhccc-------ceeeEEeccCccEEEee
Confidence 67889999999999999999999999999888876667788888 99999999999887753
No 86
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.85 E-value=3.7e-05 Score=47.54 Aligned_cols=52 Identities=37% Similarity=0.547 Sum_probs=41.5
Q ss_pred eeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 94 FVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 94 ~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
++++..|+.+.+++. +|.+|.. +.|+|+.|+|+.++.+|+|..+++++++.+
T Consensus 3 ~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~ 71 (75)
T KOG0001|consen 3 FVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLS 71 (75)
T ss_pred EEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEe
Confidence 445556666666555 6666664 889999999999999999999999998865
No 87
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=97.64 E-value=6.3e-05 Score=51.19 Aligned_cols=38 Identities=26% Similarity=0.358 Sum_probs=32.8
Q ss_pred Hhhhhhe----------eeecCeeeC-CCCchhhhCCCCCCEEEEEeec
Q 041424 109 VLLTIRD----------LFCTGMKLK-DCKTLACYGVKDDRGVACFISD 146 (148)
Q Consensus 109 lK~~i~e----------L~f~g~~L~-d~~tL~~y~I~~gstI~l~l~~ 146 (148)
+|.+|++ |+|.|+.|. |.+||++|||.+||+|.|.+.+
T Consensus 30 LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide 78 (107)
T cd01795 30 LKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE 78 (107)
T ss_pred HHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence 7777775 999999996 5599999999999999998753
No 88
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.61 E-value=6.1e-05 Score=50.79 Aligned_cols=50 Identities=20% Similarity=0.211 Sum_probs=44.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE-cC-eecCCCcccccccccccCCCc
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF-AG-DRLMNGRLIDYEDMALASPNV 59 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~-~g-~~L~d~~~~~~~~~~L~~~~i 59 (148)
++.++..++.||.+||.+++.++.-|+..|+|.. .. ..|+|++ +|+++|.
T Consensus 13 tif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~k-------tL~d~gf 64 (110)
T KOG4495|consen 13 TIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGK-------TLGDCGF 64 (110)
T ss_pred eEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccc-------hhhhccc
Confidence 5888999999999999999999999999999986 33 4688999 9999975
No 89
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=97.57 E-value=0.00017 Score=50.27 Aligned_cols=30 Identities=23% Similarity=0.261 Sum_probs=24.0
Q ss_pred eeecCeeeCCCCchhhhCCCCCC------EEEEEee
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDR------GVACFIS 145 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gs------tI~l~l~ 145 (148)
|+|.||.|+|+.||++|++..|+ ++||+++
T Consensus 53 LI~~GriL~d~~tL~~~~~~~~~~~~~~~vmHlvvr 88 (111)
T PF13881_consen 53 LIYAGRILEDNKTLSDCRLPSGETPGGPTVMHLVVR 88 (111)
T ss_dssp EEETTEEE-SSSBTGGGT--TTSETT--EEEEEEE-
T ss_pred EEeCCeecCCcCcHHHhCCCCCCCCCCCEEEEEEec
Confidence 99999999999999999999877 5788875
No 90
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.00037 Score=63.65 Aligned_cols=53 Identities=25% Similarity=0.306 Sum_probs=43.9
Q ss_pred eeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 92 KIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
.+.||+++.++-++.|. +|..|.+ +||+|+.|.|++++.+||| +|-+|||+-|
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 36788888776665544 6666664 9999999999999999999 9999999865
No 91
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.92 E-value=0.0015 Score=50.02 Aligned_cols=62 Identities=19% Similarity=0.315 Sum_probs=55.3
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+.+.+.+...+|+.++|.+++...|+.+..|+++|+|..+-+.. .|.++++..++...+...
T Consensus 157 ~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt-------~LeEc~iekg~rYvlqvi 218 (231)
T KOG0013|consen 157 EDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKT-------DLEECKIEKGQRYVLQVI 218 (231)
T ss_pred hheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccc-------cceeeeecCCCEEEEEEE
Confidence 34778889999999999999999999999999999999999998 999999999976655544
No 92
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=96.91 E-value=0.0023 Score=40.34 Aligned_cols=59 Identities=15% Similarity=0.178 Sum_probs=43.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
+.+++.++|+.++.++=+....++|+++++=.|.|+++.++-.. ++.-.|+.+|+.+.|
T Consensus 7 rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlsl-------p~R~snL~n~akLeL 65 (65)
T PF11470_consen 7 RRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSL-------PFRLSNLPNNAKLEL 65 (65)
T ss_dssp -EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS--------BHHHH---SS-EEEE
T ss_pred cEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEecccc-------ceeecCCCCCCEEeC
Confidence 46889999999999999999999999999989999999998887 888889999998765
No 93
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=96.79 E-value=0.0019 Score=43.88 Aligned_cols=42 Identities=24% Similarity=0.368 Sum_probs=35.9
Q ss_pred EEEEEc--CCCcHHHHHHHHHhhhC--CCCcccEEEEcCeecCCCc
Q 041424 4 VTLNVE--KSETIKNLKGMVHEKEG--TSEDIQDLFFAGDRLMNGR 45 (148)
Q Consensus 4 ~~l~v~--~~~tV~~lK~~i~~~~g--ip~~~Q~L~~~g~~L~d~~ 45 (148)
++|+|+ .+.||..||+.|.+..+ ..-..+||+|+|+.|.|+.
T Consensus 14 l~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t 59 (97)
T PF10302_consen 14 LPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHT 59 (97)
T ss_pred ceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccc
Confidence 567777 89999999999999984 4455688999999999997
No 94
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=96.66 E-value=0.0046 Score=40.71 Aligned_cols=39 Identities=23% Similarity=0.207 Sum_probs=32.0
Q ss_pred Hhhhhhe----------e-eecCe-----ee-CCCCchhhhCCCCCCEEEEEeecc
Q 041424 109 VLLTIRD----------L-FCTGM-----KL-KDCKTLACYGVKDDRGVACFISDI 147 (148)
Q Consensus 109 lK~~i~e----------L-~f~g~-----~L-~d~~tL~~y~I~~gstI~l~l~~~ 147 (148)
+|.++.. | +|.|+ .| +|.++|.+||+++|++||++-.|-
T Consensus 28 lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD~~p 83 (84)
T cd01789 28 LKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVIDVSG 83 (84)
T ss_pred HHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEeCCC
Confidence 7887765 5 57888 45 788999999999999999987663
No 95
>PLN02560 enoyl-CoA reductase
Probab=96.52 E-value=0.0028 Score=51.48 Aligned_cols=51 Identities=27% Similarity=0.298 Sum_probs=35.1
Q ss_pred eeeeeeeeeeee---ehhhh-------Hhhhhhe-----------eeec-------CeeeCCCCchhhhCCCCCCEEEE
Q 041424 92 KIFVKMLTEEIV---KLKVK-------VLLTIRD-----------LFCT-------GMKLKDCKTLACYGVKDDRGVAC 142 (148)
Q Consensus 92 ~I~Vk~~~gk~~---~l~v~-------lK~~i~e-----------L~f~-------g~~L~d~~tL~~y~I~~gstI~l 142 (148)
.|.|+..+|+.+ +++++ +|..|++ +++. |+.|+|+++|.+||+++|++|++
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~ 80 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence 345555555554 34433 7777764 6662 34889999999999999999765
No 96
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.024 Score=38.51 Aligned_cols=61 Identities=16% Similarity=0.322 Sum_probs=57.2
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++.+.|..+.+...|+..-++..|++.+..|.+|.|+++.... |-++++..+++.|.++..
T Consensus 32 ~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~-------TP~~L~mEd~D~Iev~~~ 92 (99)
T KOG1769|consen 32 VVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETH-------TPADLEMEDGDEIEVVQE 92 (99)
T ss_pred EEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCC-------ChhhhCCcCCcEEEEEee
Confidence 4577888999999999999999999999999999999999999 999999999999998876
No 97
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.06 E-value=0.016 Score=44.44 Aligned_cols=57 Identities=19% Similarity=0.246 Sum_probs=48.1
Q ss_pred EEcCCCcHHHHHHHHHhhhCCCCcccEEE-EcC-----eecCCC-cccccccccccCCCcccccceeEEEe
Q 041424 7 NVEKSETIKNLKGMVHEKEGTSEDIQDLF-FAG-----DRLMNG-RLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 7 ~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~g-----~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..+++.||++||.+++..+|.+++...|. |.| ..|+|+ . .|..|+..+|-.||++-.
T Consensus 18 r~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~-------~lg~~~~~Dg~rihviD~ 81 (234)
T KOG3206|consen 18 RLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDA-------DLGFYKVEDGLRIHVIDS 81 (234)
T ss_pred hcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcc-------cccccCCCCceEEEEEec
Confidence 45789999999999999999999999996 544 246554 5 899999999999998865
No 98
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=95.69 E-value=0.024 Score=36.74 Aligned_cols=59 Identities=22% Similarity=0.227 Sum_probs=41.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcc---c---EEE-EcCeecCCCcccccccccccCCCcccccceeE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDI---Q---DLF-FAGDRLMNGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~---Q---~L~-~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
+.+.+.++.+.+|++|...+-+..+.+... + .|. -+|..|+++. +|+++|+.+|+.+.+
T Consensus 13 ~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~-------tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 13 RQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQ-------TLADAGVRDGDVLVL 78 (79)
T ss_dssp -EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTS-------BCGGGT--TT-EEEE
T ss_pred cEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcC-------cHhHcCCCCCCEEEe
Confidence 467788899999999999999988864332 2 233 4578899999 999999999998876
No 99
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=95.52 E-value=0.035 Score=38.73 Aligned_cols=30 Identities=27% Similarity=0.262 Sum_probs=25.8
Q ss_pred eeecCeeeCCCCchhhhCC-------CCCCEEEEEee
Q 041424 116 LFCTGMKLKDCKTLACYGV-------KDDRGVACFIS 145 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I-------~~gstI~l~l~ 145 (148)
|+-.+..|+|++||+|||+ +..+++-|.++
T Consensus 44 L~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 44 LYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred eecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 5555578999999999999 77999999888
No 100
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=95.39 E-value=0.018 Score=37.28 Aligned_cols=28 Identities=32% Similarity=0.265 Sum_probs=21.6
Q ss_pred ee-ecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 116 LF-CTGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 116 L~-f~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
|. -+|..|.++.||++|||.+|+++.|.
T Consensus 51 L~~~~g~~L~~~~tL~~~gV~dGd~L~L~ 79 (79)
T PF08817_consen 51 LARAGGRPLDPDQTLADAGVRDGDVLVLR 79 (79)
T ss_dssp EG-GGTEEEETTSBCGGGT--TT-EEEE-
T ss_pred EEecCCcccCCcCcHhHcCCCCCCEEEeC
Confidence 44 67999999999999999999999873
No 101
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=95.32 E-value=0.015 Score=37.50 Aligned_cols=27 Identities=33% Similarity=0.268 Sum_probs=24.5
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVAC 142 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l 142 (148)
+.+.|+.|.|+.+|.+||+.+|++|++
T Consensus 48 ~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 48 LEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 358999999999999999999999875
No 102
>COG5417 Uncharacterized small protein [Function unknown]
Probab=94.58 E-value=0.065 Score=34.63 Aligned_cols=50 Identities=12% Similarity=0.073 Sum_probs=37.4
Q ss_pred eeeeeeeeeeeehhhh----Hhhhhhe------------------eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424 93 IFVKMLTEEIVKLKVK----VLLTIRD------------------LFCTGMKLKDCKTLACYGVKDDRGVAC 142 (148)
Q Consensus 93 I~Vk~~~gk~~~l~v~----lK~~i~e------------------L~f~g~~L~d~~tL~~y~I~~gstI~l 142 (148)
+-++.++|.++.+.+. +|+.|.- .+-+++.|.++..|.+|+|.+||.+.+
T Consensus 9 vD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 9 VDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 4445667777777666 4444331 667889999999999999999999875
No 103
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=94.51 E-value=0.036 Score=36.39 Aligned_cols=23 Identities=30% Similarity=0.491 Sum_probs=18.7
Q ss_pred CCCCchhhhCCCCCCEEEEEeec
Q 041424 124 KDCKTLACYGVKDDRGVACFISD 146 (148)
Q Consensus 124 ~d~~tL~~y~I~~gstI~l~l~~ 146 (148)
+|..+|..||+++|++||+.-.|
T Consensus 62 dd~~~L~~y~~~dg~~i~V~D~~ 84 (87)
T PF14560_consen 62 DDDATLGSYGIKDGMRIHVVDTN 84 (87)
T ss_dssp GSSSBCCHHT-STTEEEEEEE-T
T ss_pred CCccEeecCCCCCCCEEEEEeCC
Confidence 57899999999999999997654
No 104
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=94.00 E-value=0.2 Score=37.11 Aligned_cols=62 Identities=21% Similarity=0.220 Sum_probs=43.5
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCccc-EEEEc-Ceec--CCCcccccccccccCCCcccc----cceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQ-DLFFA-GDRL--MNGRLIDYEDMALASPNVKRE----STMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q-~L~~~-g~~L--~d~~~~~~~~~~L~~~~i~~~----s~i~l~~~ 70 (148)
.++.+.++++.||.+|+..|.+..++|+..| .|.+. ++.| .++. .++++.-.+. .++++..+
T Consensus 15 ~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~-------~~s~l~~~~~~~~~~~l~l~~r 84 (162)
T PF13019_consen 15 PTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDI-------PLSSLLSSSQDSDFITLRLSLR 84 (162)
T ss_pred CeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccc-------cHHhhccCcCCCCceEEEEEEe
Confidence 4788899999999999999999999999885 34443 4455 3444 5555543333 35666666
No 105
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=93.86 E-value=0.22 Score=32.63 Aligned_cols=37 Identities=16% Similarity=0.214 Sum_probs=34.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD 39 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~ 39 (148)
|+.+.|.+..+.++|.++|.++.++|++...|.|...
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde 48 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSE 48 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccC
Confidence 7889999999999999999999999999999998744
No 106
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=93.60 E-value=0.1 Score=33.77 Aligned_cols=52 Identities=23% Similarity=0.234 Sum_probs=37.6
Q ss_pred eeeeeeeeeeeeehhhh-------Hhhhhhe---------eee-----cCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 92 KIFVKMLTEEIVKLKVK-------VLLTIRD---------LFC-----TGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e---------L~f-----~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
++.|+..++..+++.|+ +|++|.. |.| .-+.|.+..+|++|||=..-.|.|.
T Consensus 2 qVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~ll 74 (80)
T cd01811 2 QVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSGLQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLL 74 (80)
T ss_pred EEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCcccceEEEeecCCcccccccccccHhhhcceeccEEEEE
Confidence 46677766666666666 8888876 555 2236788999999999877777664
No 107
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=93.55 E-value=0.18 Score=28.76 Aligned_cols=29 Identities=31% Similarity=0.441 Sum_probs=26.8
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVACFI 144 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l 144 (148)
|.+.|..+++...+.+|++.+|++|++..
T Consensus 40 l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 40 LLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred EEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 88999999999999999999999999864
No 108
>PF11620 GABP-alpha: GA-binding protein alpha chain; InterPro: IPR024668 GA-binding protein alpha is a transcription factor capable of interacting with purine rich repeats (GA repeats). This N-terminal domain found in the transcription factor GABP alpha consists of a five-stranded beta-sheet crossed by a distorted helix and has been termed OST domain. The surface of the GABP alpha OST domain contains two clusters of negatively-charged residues suggesting there are positively-charged partner proteins. The OST domain binds to the CH1 and CH3 domains of the co-activator histone acetyltransferase CBP/p300 [].; PDB: 2JUO_A.
Probab=93.14 E-value=0.39 Score=31.85 Aligned_cols=61 Identities=18% Similarity=0.256 Sum_probs=44.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+...++-.++++.||..++.+.|++-+.-.+......|+.++ +|.+.+++-...+++.+.
T Consensus 4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k-------~L~dQcVqgeGlVQlnvQ 64 (88)
T PF11620_consen 4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHK-------SLVDQCVQGEGLVQLNVQ 64 (88)
T ss_dssp EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTS-------BTTTSS----SEEEEEEE
T ss_pred eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCc-------cHHHhhccccCEEEEEEE
Confidence 3566788899999999999999999988888888888899999 999999998888888776
No 109
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=92.72 E-value=0.12 Score=33.82 Aligned_cols=20 Identities=30% Similarity=0.316 Sum_probs=11.3
Q ss_pred CCCCchhhhCCCCCCEEEEE
Q 041424 124 KDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 124 ~d~~tL~~y~I~~gstI~l~ 143 (148)
.++.+|+++||+.||.|+|.
T Consensus 59 ~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 59 SDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -TT-CCCCT---TT-EEE--
T ss_pred CCcCCHHHcCCCCccEEEEe
Confidence 46899999999999999985
No 110
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=92.38 E-value=0.2 Score=32.34 Aligned_cols=56 Identities=18% Similarity=0.208 Sum_probs=45.0
Q ss_pred EcCCCcHHHHHHHHHhhhC-CCCcccEEEEcCeecCCCcccccccccccCC-CcccccceeEEEe
Q 041424 8 VEKSETIKNLKGMVHEKEG-TSEDIQDLFFAGDRLMNGRLIDYEDMALASP-NVKRESTMQLLFC 70 (148)
Q Consensus 8 v~~~~tV~~lK~~i~~~~g-ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~-~i~~~s~i~l~~~ 70 (148)
|+++++|.++++-+..... ..-..-.|.++|..|++.. .+++. |+++++.+.|+..
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~-------el~~i~~~~~~~~L~lve~ 58 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFV-------ELSEIEGIKDGCVLELVEE 58 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCch-------hhhhhhCCCCCcEEEEEec
Confidence 5789999999999988754 3445567889999998877 77776 4788999998876
No 111
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=91.86 E-value=0.044 Score=44.95 Aligned_cols=64 Identities=20% Similarity=0.240 Sum_probs=49.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhC-CC-CcccEEEEcCeecCCCcccccccccccCCCcc--cccceeEEEeee
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEG-TS-EDIQDLFFAGDRLMNGRLIDYEDMALASPNVK--RESTMQLLFCAI 72 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~g-ip-~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~--~~s~i~l~~~~~ 72 (148)
+..++..+..|||++||..++...- -| +..|||+|.|+.|.|.. .+.++-.+ ....+|++...+
T Consensus 22 ~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~q-------cl~d~lrkq~k~Hv~hlvcnsk 89 (391)
T KOG4583|consen 22 KDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQ-------CLTDWLRKQVKEHVKHLVCNSK 89 (391)
T ss_pred cceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccch-------hHHHHHHHHHHHHHHHHhcCCC
Confidence 3467777889999999999998863 33 45799999999999998 88887654 445677766533
No 112
>COG5417 Uncharacterized small protein [Function unknown]
Probab=91.77 E-value=0.63 Score=30.11 Aligned_cols=59 Identities=17% Similarity=0.148 Sum_probs=47.6
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCC-----CcccEEEEcCeecCCCcccccccccccCCCcccccceeE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTS-----EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip-----~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
+++-|.++...++..|-..+-+...++ -...+..-.++.|+++. .|++|+|.+|+.+.+
T Consensus 17 ~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~-------kL~d~~IadGD~Lei 80 (81)
T COG5417 17 GTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDD-------KLIDYQIADGDILEI 80 (81)
T ss_pred ceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCc-------eEEeccccCCCEEEe
Confidence 467788899999999988888766543 23456777888999999 999999999998765
No 113
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=91.57 E-value=0.41 Score=32.54 Aligned_cols=32 Identities=13% Similarity=0.280 Sum_probs=29.2
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEEEeecc
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVACFISDI 147 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~~ 147 (148)
+.|.|+.+.+.+|=++.+..+||.|.++..-.
T Consensus 63 FlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~ 94 (99)
T KOG1769|consen 63 FLFDGQRIRETHTPADLEMEDGDEIEVVQEQT 94 (99)
T ss_pred EEECCcCcCCCCChhhhCCcCCcEEEEEeecc
Confidence 88999999999999999999999999887543
No 114
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=91.09 E-value=1.9 Score=28.71 Aligned_cols=60 Identities=12% Similarity=0.045 Sum_probs=41.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE-Ec---Ce-ecCC-CcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF-FA---GD-RLMN-GRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~---g~-~L~d-~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.++-.++..+||+.++..+.+.+.| +..-||- ++ +. .|.+ +. |+.+.++..|..|.+-.+
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~-------Tv~da~L~~gQ~vliE~r 80 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEI-------TVEDAGLYDGQVVLIEER 80 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTS-------BTTTTT--TTEEEEEEE-
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCc-------cHHHccCcCCCEEEEEee
Confidence 5788899999999999999999999 5566774 22 11 3544 35 999999999998888777
No 115
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=90.42 E-value=1.2 Score=29.85 Aligned_cols=60 Identities=13% Similarity=0.303 Sum_probs=54.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
++.++|..+.|...|-......-|-.-+.-|+.|.|+.+.-++ |-++++...+..|..+.
T Consensus 36 elfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dq-------TP~dldmEdnd~iEav~ 95 (103)
T COG5227 36 ELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQ-------TPGDLDMEDNDEIEAVT 95 (103)
T ss_pred EEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCC-------ChhhcCCccchHHHHHH
Confidence 5678899999999999999999999999999999999999999 99999999988776543
No 116
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=90.29 E-value=2 Score=27.43 Aligned_cols=60 Identities=18% Similarity=0.292 Sum_probs=45.9
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcc-cEEE--EcCeecCC--CcccccccccccCCCcccccceeEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDI-QDLF--FAGDRLMN--GRLIDYEDMALASPNVKRESTMQLL 68 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~-Q~L~--~~g~~L~d--~~~~~~~~~~L~~~~i~~~s~i~l~ 68 (148)
+.+.-...+++||.+|..-|......+... -.|+ |-.+.+.+ +. +|++.|+.+.+++++-
T Consensus 17 ~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~-------tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 17 SRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSK-------TLEEAGLLPSATLIVE 81 (82)
T ss_dssp TEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTS-------BTCCCTTSSCEEEEEE
T ss_pred CEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccc-------cHHHhcCCCCeEEEEE
Confidence 356677889999999999999988777654 4564 44456643 26 9999999999988763
No 117
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=88.66 E-value=1.6 Score=28.00 Aligned_cols=58 Identities=17% Similarity=0.203 Sum_probs=43.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecCC---CcccccccccccCCCcccccceeE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMN---GRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d---~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
.+.-...+++||.++.+-+....+.+...-.|+ |-.+.+.+ +. +|.+.|+.+.+++.+
T Consensus 16 ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~-------tL~e~gL~p~~~l~v 78 (80)
T smart00166 16 RLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSK-------TLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccC-------CHHHCCCCCceEEEE
Confidence 466778899999999999976666665555665 44455643 35 899999988887765
No 118
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=88.50 E-value=0.52 Score=37.37 Aligned_cols=55 Identities=20% Similarity=0.195 Sum_probs=42.6
Q ss_pred EEEcCCCcHHHHHHHHHhh-hCCCCcccEEEE----cCeecCCCcccccccccccCCCcccccceeE
Q 041424 6 LNVEKSETIKNLKGMVHEK-EGTSEDIQDLFF----AGDRLMNGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~-~gip~~~Q~L~~----~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
.+.+.+.|+.+++.++... ..+.+..+|+.+ +|+.|-|+. +|++|+..+++++.+
T Consensus 17 ~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s-------~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 17 KDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNS-------KLQEYGDGSGATIYV 76 (297)
T ss_pred ecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchh-------HHHHhccCCCCEEEE
Confidence 5678899999999666654 567776666653 588899998 999999988866653
No 119
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=88.33 E-value=0.24 Score=40.52 Aligned_cols=28 Identities=11% Similarity=0.214 Sum_probs=26.4
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
++|.|++|.+.-|+..+++.-.+.+|++
T Consensus 46 viFaGKeLs~~ttv~~cDL~qqs~~hi~ 73 (446)
T KOG0006|consen 46 VIFAGKELSNDTTVQNCDLSQQSATHIM 73 (446)
T ss_pred EEEeccccccCceeecccccccchhhhh
Confidence 9999999999999999999999988877
No 120
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=87.74 E-value=1.4 Score=28.67 Aligned_cols=36 Identities=14% Similarity=0.288 Sum_probs=33.3
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG 38 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g 38 (148)
|+.+.+.+..+.++|.++|.++...+++.-.|-|..
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~ 43 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA 43 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence 688899999999999999999999999999998863
No 121
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=85.08 E-value=1.3 Score=39.91 Aligned_cols=38 Identities=24% Similarity=0.399 Sum_probs=34.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCee
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR 40 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~ 40 (148)
.+.+-++++.|+..+++.|+..+|+|+..|.|+|.|..
T Consensus 326 ~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~ 363 (732)
T KOG4250|consen 326 SHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGL 363 (732)
T ss_pred EEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCc
Confidence 46778999999999999999999999999999998754
No 122
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=83.93 E-value=4.2 Score=24.90 Aligned_cols=54 Identities=15% Similarity=0.210 Sum_probs=39.9
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.++++...|+.+|.+.+ +++++.-.+..+|+....+ ..++.-+++|+.+.++..
T Consensus 8 ~~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~--------~~~~~~L~~gD~V~ii~~ 61 (65)
T cd00565 8 PREVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRS--------EWASTPLQDGDRIEIVTA 61 (65)
T ss_pred EEEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHH--------HcCceecCCCCEEEEEEe
Confidence 46677888999988775 5777777777888877554 344566889999987754
No 123
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=83.43 E-value=4.9 Score=25.79 Aligned_cols=57 Identities=12% Similarity=0.211 Sum_probs=41.4
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecCC---CcccccccccccCCCcccccceeE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMN---GRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d---~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
.+.-..+.++|+.++.+-|+...+-+ ..-.|+ |-.+.+.+ +. +|.+.|+.+.+++.|
T Consensus 16 ~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~-------TL~elgL~Psa~L~v 77 (79)
T cd01772 16 TLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEK-------PLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccC-------CHHHCCCCCceEEEE
Confidence 45567788999999999999765543 334454 44566753 35 999999999888765
No 124
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=83.00 E-value=1.3 Score=27.91 Aligned_cols=27 Identities=15% Similarity=0.203 Sum_probs=24.6
Q ss_pred cCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 119 TGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 119 ~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
.|..|+-++.+.|||+.+|-+++|.|.
T Consensus 45 ~G~vlD~~kKveD~GftngvkLFLsLK 71 (76)
T PF10790_consen 45 SGQVLDVNKKVEDFGFTNGVKLFLSLK 71 (76)
T ss_pred CCcEeeccchhhhccccccceEEEEee
Confidence 578888899999999999999999885
No 125
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=82.84 E-value=3.2 Score=27.12 Aligned_cols=36 Identities=14% Similarity=0.174 Sum_probs=29.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCC-cccEEEEcC
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSE-DIQDLFFAG 38 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~-~~Q~L~~~g 38 (148)
++.+.+.|+++..+|+++|.++.++.. ..-.|-|-.
T Consensus 11 ~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~D 47 (82)
T cd06407 11 KIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLD 47 (82)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEEC
Confidence 578899999999999999999999875 455565643
No 126
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=82.24 E-value=2.6 Score=26.44 Aligned_cols=27 Identities=7% Similarity=-0.004 Sum_probs=20.7
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVAC 142 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l 142 (148)
|.|+++.++-..+++-.|+.+|+.+.|
T Consensus 39 L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 39 LKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp EEETTEEESSS-BHHHH---SS-EEEE
T ss_pred EEECCEEeccccceeecCCCCCCEEeC
Confidence 999999999999999999999999875
No 127
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=81.28 E-value=6.2 Score=24.95 Aligned_cols=35 Identities=20% Similarity=0.302 Sum_probs=31.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA 37 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~ 37 (148)
+..+.++++.|..+|+.+|..+.+.+.....|.|.
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~ 46 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ 46 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence 56788999999999999999999998777788776
No 128
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=81.05 E-value=5.8 Score=24.27 Aligned_cols=49 Identities=14% Similarity=0.141 Sum_probs=37.0
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
-.+++....|+.+||.++.. +.=.++++|-+..++. . +++|+.+.++-|
T Consensus 8 k~~~~~~~~tl~~lr~~~k~------~~DI~I~NGF~~~~d~-------~-----L~e~D~v~~Ikk 56 (57)
T PF14453_consen 8 KEIETEENTTLFELRKESKP------DADIVILNGFPTKEDI-------E-----LKEGDEVFLIKK 56 (57)
T ss_pred EEEEcCCCcCHHHHHHhhCC------CCCEEEEcCcccCCcc-------c-----cCCCCEEEEEeC
Confidence 35778889999999998765 3337889999887776 4 556888877654
No 129
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=80.85 E-value=7.7 Score=24.28 Aligned_cols=56 Identities=9% Similarity=0.068 Sum_probs=37.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCC----CCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGT----SEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gi----p~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
...++++...||.+|.+.+....+- ......+..+|+....+ .-+++|+.|.++..
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~------------~~l~~gD~v~i~pp 76 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD------------TPLKDGDEVAIIPP 76 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC------------cccCCCCEEEEeCC
Confidence 3566777789999999999987542 22334455666665433 34778888887754
No 130
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=79.89 E-value=8.4 Score=23.49 Aligned_cols=54 Identities=13% Similarity=0.178 Sum_probs=38.2
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.++++...|+.+|.+.+ +++++.-.+..+|.....+ ...++-+++|+.+.++..
T Consensus 7 ~~~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~iv~~~--------~~~~~~L~~gD~veii~~ 60 (64)
T TIGR01683 7 PVEVEDGLTLAALLESL----GLDPRRVAVAVNGEIVPRS--------EWDDTILKEGDRIEIVTF 60 (64)
T ss_pred EEEcCCCCcHHHHHHHc----CCCCCeEEEEECCEEcCHH--------HcCceecCCCCEEEEEEe
Confidence 45667788999988864 6777666667788776433 234566889999887754
No 131
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=79.82 E-value=5.1 Score=24.52 Aligned_cols=42 Identities=12% Similarity=0.144 Sum_probs=29.2
Q ss_pred eeeeeehhhh-----Hhhhhhe----eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 99 TEEIVKLKVK-----VLLTIRD----LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 99 ~gk~~~l~v~-----lK~~i~e----L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
+|+.+.++.. +|..+.. ++|+|=...+ ++-+++||.|.+--+
T Consensus 6 N~k~~~~~~~~tl~~lr~~~k~~~DI~I~NGF~~~~-----d~~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 6 NEKEIETEENTTLFELRKESKPDADIVILNGFPTKE-----DIELKEGDEVFLIKK 56 (57)
T ss_pred CCEEEEcCCCcCHHHHHHhhCCCCCEEEEcCcccCC-----ccccCCCCEEEEEeC
Confidence 5566555443 6666554 8899977766 677889999987543
No 132
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=79.62 E-value=5.5 Score=26.38 Aligned_cols=29 Identities=14% Similarity=0.401 Sum_probs=26.5
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCc
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSED 30 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~ 30 (148)
+++.+.+.|++.+.+|++.|..+.|+...
T Consensus 11 rvhRf~~~~s~~~~~L~~~I~~Rl~~d~~ 39 (86)
T cd06409 11 RVHRFRLRPSESLEELRTLISQRLGDDDF 39 (86)
T ss_pred CEEEEEecCCCCHHHHHHHHHHHhCCccc
Confidence 57889999999999999999999998864
No 133
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=79.49 E-value=8.8 Score=24.23 Aligned_cols=54 Identities=13% Similarity=0.238 Sum_probs=38.1
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecCC---CcccccccccccCCCccccc
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMN---GRLIDYEDMALASPNVKRES 63 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d---~~~~~~~~~~L~~~~i~~~s 63 (148)
+.+.-...+++||.++.+-|.....- ...-.|+ |-.+.+.+ +. +|.+.|+.+.+
T Consensus 13 ~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~-------TL~e~gL~~s~ 71 (77)
T cd01767 13 KRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYEL-------TLQEAGLVNEV 71 (77)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccC-------cHHHcCCccce
Confidence 34667788999999999999876543 3444554 33456654 45 99999999543
No 134
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=78.21 E-value=2.4 Score=35.24 Aligned_cols=62 Identities=19% Similarity=0.313 Sum_probs=53.8
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC--cccccccccccCCCcccccceeEEEe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG--RLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~--~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++.+.++....+..|+...+..+|++.+.--|+|+++.+... . .+.++|++.+.++.+-.+
T Consensus 13 ~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~-------~l~Q~g~~~~dsl~lr~k 76 (380)
T KOG0012|consen 13 KKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQ-------GLTQIGLKDGDSLALRCK 76 (380)
T ss_pred eeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhh-------hhhhcccccceeEeccCC
Confidence 4677888889999999999999999999999999999998655 4 899999999998876554
No 135
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=77.14 E-value=9.2 Score=24.64 Aligned_cols=57 Identities=12% Similarity=0.196 Sum_probs=40.2
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCC-CcccEEE--EcCeecCC-CcccccccccccCCCcccccce
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTS-EDIQDLF--FAGDRLMN-GRLIDYEDMALASPNVKRESTM 65 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip-~~~Q~L~--~~g~~L~d-~~~~~~~~~~L~~~~i~~~s~i 65 (148)
+.++..+..++||++|.+-+....+-+ ...-.|. |=.+.|.| +. ||.+.|+.+.+.+
T Consensus 15 ~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~-------Tl~eagL~~s~v~ 75 (79)
T cd01770 15 KRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESL-------TLKEANLLNAVIV 75 (79)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCC-------cHHHCCCcCcEEE
Confidence 356677889999999999999876432 2334554 44566754 45 9999999865443
No 136
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.54 E-value=3.2 Score=34.31 Aligned_cols=61 Identities=11% Similarity=0.104 Sum_probs=45.5
Q ss_pred EEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeec-CCCcccccccccccCCCcccccceeE
Q 041424 7 NVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRL-MNGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 7 ~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L-~d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
-|.-.-||.++|.++..+-|+.+.+.+|+|-..-- .|+...-+-+|.|-.|+|++|+.+.+
T Consensus 353 ~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lv 414 (418)
T KOG2982|consen 353 LICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLV 414 (418)
T ss_pred EEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeee
Confidence 34556799999999999999999999999753322 23333334677888889999987754
No 137
>PRK06437 hypothetical protein; Provisional
Probab=72.12 E-value=21 Score=22.16 Aligned_cols=51 Identities=20% Similarity=0.332 Sum_probs=37.4
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+++++...|+++|=+. .|++++.-.+..+|.....+. -+++|+++.++.-
T Consensus 13 ~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~~~~------------~L~dgD~Veiv~~ 63 (67)
T PRK06437 13 KTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVLEDH------------NVKKEDDVLILEV 63 (67)
T ss_pred eEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECCCce------------EcCCCCEEEEEec
Confidence 45677788898887655 588888777778888876443 4667888887643
No 138
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=71.84 E-value=5.4 Score=30.58 Aligned_cols=28 Identities=21% Similarity=0.335 Sum_probs=20.4
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCc
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSED 30 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~ 30 (148)
.|.+.|.|++|.+++|++|++++|+|..
T Consensus 134 PF~f~v~~gE~f~~tK~Rl~~rlgv~~k 161 (213)
T PF14533_consen 134 PFLFVVKPGETFSDTKERLQKRLGVSDK 161 (213)
T ss_dssp EEEEEEETT--HHHHHHHHHHHH---HH
T ss_pred CEEEEeeCCCcHHHHHHHHHHHhCCChh
Confidence 4678899999999999999999999954
No 139
>smart00455 RBD Raf-like Ras-binding domain.
Probab=71.73 E-value=11 Score=23.80 Aligned_cols=37 Identities=14% Similarity=0.241 Sum_probs=33.1
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG 38 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g 38 (148)
+...+.+.|+.|+.++=.++.++.|+.++.-.++..|
T Consensus 10 ~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g 46 (70)
T smart00455 10 QRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRG 46 (70)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence 3568899999999999999999999999988888755
No 140
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=70.38 E-value=24 Score=22.26 Aligned_cols=55 Identities=9% Similarity=0.095 Sum_probs=35.1
Q ss_pred EEEEEcCC-CcHHHHHHHHHhhhC-CC--CcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKS-ETIKNLKGMVHEKEG-TS--EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~-~tV~~lK~~i~~~~g-ip--~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.++++++. .||.+|.+.+.+..+ .- .....+..+++...+ +.-+++|+.|.++..
T Consensus 18 ~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~------------~~~l~dgDevai~Pp 76 (80)
T TIGR01682 18 ETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD------------DALLNEGDEVAFIPP 76 (80)
T ss_pred EEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC------------CcCcCCCCEEEEeCC
Confidence 46777766 899999999988864 11 112234445554433 345778888887754
No 141
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=69.64 E-value=27 Score=22.41 Aligned_cols=57 Identities=11% Similarity=0.136 Sum_probs=35.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCC------C-----CcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGT------S-----EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gi------p-----~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..+++++ ..||.+|.+.+.+...- . -....+..+|+....+. . ..+++|+.|.++..
T Consensus 17 ~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~-------~---~~l~dgdev~i~Pp 84 (88)
T TIGR01687 17 SEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGL-------G---TELKDGDVVAIFPP 84 (88)
T ss_pred eEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccC-------C---CCCCCCCEEEEeCC
Confidence 3566665 89999999999887631 0 01233445555444332 1 45788998887754
No 142
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=67.40 E-value=29 Score=22.74 Aligned_cols=59 Identities=14% Similarity=0.190 Sum_probs=44.6
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecCC---CcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMN---GRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d---~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+.-....++++++|-.-++. .|.+++...|+ |=.+.+.. +. +|.+.|+.+.+++.+--|
T Consensus 18 ~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~-------TL~e~GL~P~~~LfVq~r 81 (82)
T cd01773 18 EQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDI-------TLQEAGLCPQETVFVQER 81 (82)
T ss_pred EEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCC-------CHHHcCCCCCcEEEEecC
Confidence 44556778999999999998 57788888886 33445532 35 999999999998887543
No 143
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=67.38 E-value=9.6 Score=24.18 Aligned_cols=26 Identities=23% Similarity=0.125 Sum_probs=21.6
Q ss_pred ecCeeeCCC--CchhhhCCCCCCEEEEE
Q 041424 118 CTGMKLKDC--KTLACYGVKDDRGVACF 143 (148)
Q Consensus 118 f~g~~L~d~--~tL~~y~I~~gstI~l~ 143 (148)
|-.+.+.+. .||.+.|+.++++|++.
T Consensus 54 ~Pr~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 54 FPRRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp SSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred CCCcCCCccccccHHHhcCCCCeEEEEE
Confidence 677888655 59999999999999874
No 144
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=67.18 E-value=28 Score=21.66 Aligned_cols=50 Identities=12% Similarity=0.149 Sum_probs=34.3
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+++++..|+++|-+.+ ++++..-.+..+|.....+ .-+++|+.+.++.-
T Consensus 17 ~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~~------------~~l~~gD~Veii~~ 66 (70)
T PRK08364 17 EIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALED------------DPVKDGDYVEVIPV 66 (70)
T ss_pred EEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCCC------------cCcCCCCEEEEEcc
Confidence 55667778999888765 7777665566777766443 34677888887643
No 145
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=65.49 E-value=13 Score=23.69 Aligned_cols=36 Identities=17% Similarity=0.372 Sum_probs=32.0
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG 38 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g 38 (148)
.-.+.+.|+.|+.++=.++.++.|+.++.-.+++.|
T Consensus 11 ~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~ 46 (72)
T cd01760 11 RTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG 46 (72)
T ss_pred eEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence 357889999999999999999999999988887764
No 146
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=65.16 E-value=29 Score=22.33 Aligned_cols=59 Identities=17% Similarity=0.121 Sum_probs=43.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecC---CCcccccccccccCCCcccccceeEEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLM---NGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~---d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
.+.-....++++++|-.-+... |.++..-+|+ |=-+.+. .+. +|.+.|+.+..++.+-.
T Consensus 16 r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~-------TL~e~gL~p~~~L~Vee 79 (80)
T cd01771 16 FLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNF-------TLLELKLYPQETLILEE 79 (80)
T ss_pred EEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCC-------cHHHcCCCCCcEEEEEc
Confidence 3445677899999999999875 7777777776 3344553 234 99999999988887643
No 147
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=64.81 E-value=10 Score=24.94 Aligned_cols=58 Identities=21% Similarity=0.125 Sum_probs=28.3
Q ss_pred CCCcHHHHHHHHH-hhhCCCCcccEEEEcCeecCCCccc---ccccccccCCCcccccceeEEE
Q 041424 10 KSETIKNLKGMVH-EKEGTSEDIQDLFFAGDRLMNGRLI---DYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 10 ~~~tV~~lK~~i~-~~~gip~~~Q~L~~~g~~L~d~~~~---~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
..+|+.+|-.++- .+.|+..-. +.++|..+-+..-- .....+|+++||.+|+.+.+.-
T Consensus 7 ~~~TL~~lv~~Vlk~~Lg~~~P~--v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~D 68 (87)
T PF14732_consen 7 KKMTLGDLVEKVLKKKLGMNEPD--VSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVDD 68 (87)
T ss_dssp TT-BHHHHHHHCCCCCS--SSEE--EEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEEE
T ss_pred hhCcHHHHHHHHHHhccCCCCCE--EEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEEE
Confidence 5789999998764 467755421 22233333111100 0022389999999999877654
No 148
>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures. Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.
Probab=64.06 E-value=2.2 Score=34.71 Aligned_cols=42 Identities=17% Similarity=0.294 Sum_probs=0.0
Q ss_pred CCcHHHHHHHHHh----------hhCCCCcccE-----EEEcCeecCCCcccccccccccCCCc
Q 041424 11 SETIKNLKGMVHE----------KEGTSEDIQD-----LFFAGDRLMNGRLIDYEDMALASPNV 59 (148)
Q Consensus 11 ~~tV~~lK~~i~~----------~~gip~~~Q~-----L~~~g~~L~d~~~~~~~~~~L~~~~i 59 (148)
+.+|.++|..++. .+++|.+..+ |.|+-+++.|.+ +|.+..-
T Consensus 103 ttSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~k-------tl~e~l~ 159 (309)
T PF12754_consen 103 TTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSK-------TLAEVLA 159 (309)
T ss_dssp ----------------------------------------------------------------
T ss_pred cCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcC-------cHHHHHh
Confidence 6899999999999 8999999988 999999998888 7777543
No 149
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=63.70 E-value=21 Score=22.42 Aligned_cols=32 Identities=16% Similarity=0.311 Sum_probs=29.0
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA 37 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~ 37 (148)
+.+.++.|..+|..+|++..+.+...-.|.|.
T Consensus 16 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~ 47 (84)
T PF00564_consen 16 ISLPSDVSFDDLRSKIREKFGLLDEDFQLKYK 47 (84)
T ss_dssp EEECSTSHHHHHHHHHHHHHTTSTSSEEEEEE
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCCccEEEEee
Confidence 78889999999999999999999777788775
No 150
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=63.44 E-value=16 Score=25.40 Aligned_cols=40 Identities=5% Similarity=0.129 Sum_probs=34.4
Q ss_pred CeEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCee
Q 041424 1 MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR 40 (148)
Q Consensus 1 ~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~ 40 (148)
+|+-...|++++|++.+-..|....+++.++|...|-...
T Consensus 44 lK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~s 83 (116)
T KOG3439|consen 44 LKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNS 83 (116)
T ss_pred eecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCc
Confidence 3556678999999999999999999999999988876553
No 151
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=62.20 E-value=21 Score=23.63 Aligned_cols=40 Identities=15% Similarity=0.276 Sum_probs=33.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccE-EEEcCeec
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQD-LFFAGDRL 41 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~-L~~~g~~L 41 (148)
+++++.|+++.|=.++|+.++..+|+++..-+ +.+.|+.-
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~k 61 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKK 61 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCce
Confidence 57899999999999999999999999987654 45666643
No 152
>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e.g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....
Probab=60.87 E-value=18 Score=31.84 Aligned_cols=68 Identities=21% Similarity=0.170 Sum_probs=42.2
Q ss_pred EEEEEcCCCcHHHHHHHHHhhh--CCCCcc------cEEEE--c--Ce-ecCCCcccc---c---ccccccCCCcccccc
Q 041424 4 VTLNVEKSETIKNLKGMVHEKE--GTSEDI------QDLFF--A--GD-RLMNGRLID---Y---EDMALASPNVKREST 64 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~--gip~~~------Q~L~~--~--g~-~L~d~~~~~---~---~~~~L~~~~i~~~s~ 64 (148)
+.+.|=..+||.++|+||-... +.|-++ .-|-+ + |. .|.|..... . .--||+.|+|.+|++
T Consensus 204 i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dga~ 283 (539)
T PF08337_consen 204 IPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPDGAT 283 (539)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--TTEE
T ss_pred EEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCCCce
Confidence 5667778899999999998763 455333 23332 2 23 466654111 1 556899999999999
Q ss_pred eeEEEee
Q 041424 65 MQLLFCA 71 (148)
Q Consensus 65 i~l~~~~ 71 (148)
+.|+.+.
T Consensus 284 vaLv~k~ 290 (539)
T PF08337_consen 284 VALVPKQ 290 (539)
T ss_dssp EEEEES-
T ss_pred EEEeecc
Confidence 9999874
No 153
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=59.97 E-value=44 Score=21.75 Aligned_cols=56 Identities=5% Similarity=0.069 Sum_probs=39.8
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc--CeecC--------CCcccccccccccCCCcccccceeE
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA--GDRLM--------NGRLIDYEDMALASPNVKRESTMQL 67 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~--g~~L~--------d~~~~~~~~~~L~~~~i~~~s~i~l 67 (148)
+.-....++||++|-.-+... +-.+..-.|+.+ .+.++ .+. ||.+.|+.+.+++.+
T Consensus 17 l~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~-------TL~eaGL~~s~~L~V 82 (85)
T cd01774 17 VERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPP-------TLLEAGLSNSEVLFV 82 (85)
T ss_pred EEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCC-------CHHHcCCCCccEEEE
Confidence 344567899999999999754 445567777643 24564 245 999999998776654
No 154
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=59.64 E-value=32 Score=21.80 Aligned_cols=56 Identities=13% Similarity=0.084 Sum_probs=34.4
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhh-CCCC--cccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKE-GTSE--DIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~-gip~--~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..+++++...|+.+|.+.+.... +... ..-.+..+++...++ .-+++|++|.++..
T Consensus 20 ~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~------------~~l~dgDeVai~Pp 78 (82)
T PLN02799 20 DMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTES------------AALKDGDELAIIPP 78 (82)
T ss_pred eEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCC------------cCcCCCCEEEEeCC
Confidence 45677888999999999997764 1111 111234455544333 34677888887654
No 155
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=59.52 E-value=16 Score=25.75 Aligned_cols=40 Identities=23% Similarity=0.274 Sum_probs=29.5
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCc
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR 45 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~ 45 (148)
+-|+.+.||+++...|....++++++--|+.++.....+.
T Consensus 45 llVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~lp~~s~ 84 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALGTSAKKVTLAIEGSTPAVTA 84 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCccCCccc
Confidence 4589999999999999999999998833333443344444
No 156
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=59.17 E-value=19 Score=23.92 Aligned_cols=38 Identities=18% Similarity=0.226 Sum_probs=31.8
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccE-EEEcCe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQD-LFFAGD 39 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~-L~~~g~ 39 (148)
+++++.|++..|=.++|+.++..+|+++..-. +...|+
T Consensus 21 n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk 59 (92)
T PRK05738 21 NKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGK 59 (92)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCc
Confidence 47899999999999999999999999987654 345444
No 157
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=57.31 E-value=9.8 Score=32.63 Aligned_cols=29 Identities=24% Similarity=0.188 Sum_probs=26.2
Q ss_pred eecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 117 FCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 117 ~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
.-+|..|+.++||.+.+|.+|++++|.-+
T Consensus 52 r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 52 RAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred cCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 35788999999999999999999999863
No 158
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=56.23 E-value=8.9 Score=27.11 Aligned_cols=23 Identities=30% Similarity=0.469 Sum_probs=20.1
Q ss_pred CCCCchhhhCCCCCCEEEEEeec
Q 041424 124 KDCKTLACYGVKDDRGVACFISD 146 (148)
Q Consensus 124 ~d~~tL~~y~I~~gstI~l~l~~ 146 (148)
+++.+|.++||.++..|.++.++
T Consensus 87 ~~~~tL~~~gv~nETEiSfF~~~ 109 (122)
T PF10209_consen 87 DDDKTLKELGVENETEISFFNME 109 (122)
T ss_pred CCCCcHHHcCCCccceeeeeCHH
Confidence 68999999999999999887653
No 159
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=56.14 E-value=39 Score=22.73 Aligned_cols=34 Identities=24% Similarity=0.259 Sum_probs=28.7
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF 36 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~ 36 (148)
.|-.+.|+.+.|..+|++++.+..+++.. ..|-|
T Consensus 23 ~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 23 ETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred ceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 35678899999999999999999999876 55655
No 160
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=56.10 E-value=43 Score=20.25 Aligned_cols=52 Identities=15% Similarity=0.114 Sum_probs=34.5
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++ ..|+.+|.+.+ +++++...+-.++.....+ ..++.-+++|+.|.++..
T Consensus 10 ~~~~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~~~--------~~~~~~L~dgD~Ieiv~~ 61 (65)
T PRK06488 10 LQTE-ATTLALLLAEL----DYEGNWLATAVNGELVHKE--------ARAQFVLHEGDRIEILSP 61 (65)
T ss_pred EEcC-cCcHHHHHHHc----CCCCCeEEEEECCEEcCHH--------HcCccccCCCCEEEEEEe
Confidence 3443 45888888765 6776555566777766533 445667888999987754
No 161
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=54.86 E-value=39 Score=20.97 Aligned_cols=35 Identities=20% Similarity=0.217 Sum_probs=27.8
Q ss_pred EEEEEEc-CCCcHHHHHHHHHhhhCCCCcccEEEEc
Q 041424 3 TVTLNVE-KSETIKNLKGMVHEKEGTSEDIQDLFFA 37 (148)
Q Consensus 3 ~~~l~v~-~~~tV~~lK~~i~~~~gip~~~Q~L~~~ 37 (148)
...+.+. .+.|..+|+++|.+..+.+...-.+.|.
T Consensus 11 ~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~ 46 (81)
T cd05992 11 IRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYP 46 (81)
T ss_pred CEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEee
Confidence 3566777 8999999999999999998645555554
No 162
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=54.67 E-value=27 Score=22.54 Aligned_cols=33 Identities=15% Similarity=0.168 Sum_probs=29.5
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDL 34 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L 34 (148)
+++++.|++..|=.++|+.++..+|+.+..-+-
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt 47 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNT 47 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 578999999999999999999999998876554
No 163
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=54.62 E-value=46 Score=20.06 Aligned_cols=54 Identities=13% Similarity=0.210 Sum_probs=37.0
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++....|+.++=.. .|++++.-.+..+|..+... ...+.-+++|+++.++.-
T Consensus 9 ~~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~--------~~~~~~l~~gD~vei~~~ 62 (66)
T PRK05659 9 PRELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRS--------QHASTALREGDVVEIVHA 62 (66)
T ss_pred EEEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHH--------HcCcccCCCCCEEEEEEE
Confidence 4566677888877654 58888777777887766533 233455788998887653
No 164
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=52.24 E-value=27 Score=27.39 Aligned_cols=33 Identities=24% Similarity=0.230 Sum_probs=27.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF 35 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~ 35 (148)
.+++.++..+|-.+|-++|++..|++|...|++
T Consensus 191 ~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~ 223 (249)
T PF12436_consen 191 EFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFF 223 (249)
T ss_dssp -EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE
T ss_pred CEEEEECCCCCHHHHHHHHHHHHCCChHHEEEE
Confidence 589999999999999999999999999987775
No 165
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=52.12 E-value=20 Score=23.25 Aligned_cols=22 Identities=23% Similarity=0.450 Sum_probs=18.1
Q ss_pred EEEEEcCCCcHHHHHHHHHhhh
Q 041424 4 VTLNVEKSETIKNLKGMVHEKE 25 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~ 25 (148)
++++++.+.|+.++|+.+-+.-
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~A 23 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEEA 23 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHHG
T ss_pred eEEEccCcCcHHHHHHHHHHHH
Confidence 6899999999999999887653
No 166
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=51.80 E-value=32 Score=22.64 Aligned_cols=34 Identities=18% Similarity=0.208 Sum_probs=30.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF 35 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~ 35 (148)
+++++.|++..+=.++|+.++..+|+.+..-+-.
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~ 55 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTL 55 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 4789999999999999999999999998765543
No 167
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=51.47 E-value=53 Score=20.00 Aligned_cols=53 Identities=13% Similarity=0.154 Sum_probs=36.8
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..++++..|+.+|=.. .++++..--+.+++..+..+. .+.+ +++|+++.++.-
T Consensus 9 ~~~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~--------~~~~-L~~gD~ieIv~~ 61 (65)
T PRK05863 9 QVEVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSD--------WATK-LRDGARLEVVTA 61 (65)
T ss_pred EEEcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhH--------hhhh-cCCCCEEEEEee
Confidence 3455667777776554 588888888888888775442 2345 899999987753
No 168
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=50.68 E-value=18 Score=28.89 Aligned_cols=27 Identities=22% Similarity=0.193 Sum_probs=23.8
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVAC 142 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l 142 (148)
+.-+|+.+-|+.+|++|+..+|++|++
T Consensus 50 ~e~kgkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 50 VEPKGKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred ccCCCccccchhHHHHhccCCCCEEEE
Confidence 556799999999999999999988765
No 169
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=50.65 E-value=5 Score=34.57 Aligned_cols=56 Identities=18% Similarity=0.207 Sum_probs=47.7
Q ss_pred EcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 8 VEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 8 v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+...|-.++...+.++.||+....+.+.+|+.|+-.+ ||++-|++.+....++..
T Consensus 56 ~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~~k-------tlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 56 CSLHITGSELQALIAKKLGIKENHVKCIINGKILSCRK-------TLAEQGLKINQELMVAVG 111 (568)
T ss_pred cccccccHHHHHHHHHHcCCchhhhheeeccceeeccc-------chhhhhhhhhhHHHHHhc
Confidence 34455678899999999999999899999999999999 999999988876666554
No 170
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=50.60 E-value=61 Score=21.04 Aligned_cols=52 Identities=13% Similarity=0.131 Sum_probs=36.9
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE-cCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF-AGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~-~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
++++...+..||+++=+. .|+|..+--+++ +|+.-.- +|-+++|+.+.+...
T Consensus 24 ~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~------------~~~~~~Gd~v~V~P~ 76 (81)
T PF14451_consen 24 PFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDF------------DYRLKDGDRVAVYPV 76 (81)
T ss_pred ceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCC------------cccCCCCCEEEEEec
Confidence 567788899999886544 899988877764 5554432 356778888887643
No 171
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=49.33 E-value=25 Score=23.84 Aligned_cols=67 Identities=12% Similarity=-0.026 Sum_probs=48.0
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCc-c-cEEEEcC---eec-CCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSED-I-QDLFFAG---DRL-MNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~-~-Q~L~~~g---~~L-~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.++.++.+.||+++-..+..++.++.+ + |.++..| +.| ..++++.-+...|...|-.+.+.++.+.+
T Consensus 15 ~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~l~RvL~p~ErPl~IqkrlL~q~GY~~~D~l~~lGr 87 (97)
T cd01775 15 TTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHDLSRVLRPTEKPLLIQKRLLLQVGYEERDRIEDIGR 87 (97)
T ss_pred EEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECCeeeecCCcCCcHHHHHHHHHHcCCCCCCcHHHhCc
Confidence 678999999999999999999988763 3 3333333 345 35666555666677777777777776655
No 172
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=48.90 E-value=57 Score=20.42 Aligned_cols=43 Identities=19% Similarity=0.235 Sum_probs=30.5
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC--eecCCCc
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG--DRLMNGR 45 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g--~~L~d~~ 45 (148)
...+.+.|+.|+.++=.++-++.|+.++.-.++..| +.|+-+.
T Consensus 12 ~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~ 56 (71)
T PF02196_consen 12 RTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQ 56 (71)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTS
T ss_pred EEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCC
Confidence 467899999999999999999999999876665443 4455443
No 173
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=48.66 E-value=73 Score=20.66 Aligned_cols=34 Identities=15% Similarity=0.214 Sum_probs=26.8
Q ss_pred CcHHHHHHHHHhhhCCCCcccEEEE--cCeecCCCc
Q 041424 12 ETIKNLKGMVHEKEGTSEDIQDLFF--AGDRLMNGR 45 (148)
Q Consensus 12 ~tV~~lK~~i~~~~gip~~~Q~L~~--~g~~L~d~~ 45 (148)
.++.+|+.+..++++++.+.-+|.. .|...+|+.
T Consensus 21 ~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEe 56 (78)
T PF02017_consen 21 SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEE 56 (78)
T ss_dssp SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCH
T ss_pred CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHH
Confidence 6899999999999999987777775 566776654
No 174
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=48.19 E-value=65 Score=19.92 Aligned_cols=61 Identities=26% Similarity=0.283 Sum_probs=41.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcc-cEEEE----cCe--ecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDI-QDLFF----AGD--RLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~-Q~L~~----~g~--~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+.+++++++.|+.++=..|....|+.... --|.| .|. -|+.++ ++.++....+....+.++
T Consensus 8 ~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k-------~l~~q~~~~~~~~~l~fr 75 (80)
T PF09379_consen 8 TKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDK-------KLKKQLKKNNPPFTLYFR 75 (80)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSS-------BGGGSTBTSSSSEEEEEE
T ss_pred cEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcc-------cHHHHcCCCCCCEEEEEE
Confidence 57899999999999999999999987433 34556 111 255666 777776664455555444
No 175
>smart00144 PI3K_rbd PI3-kinase family, Ras-binding domain. Certain members of the PI3K family possess Ras-binding domains in their N-termini. These regions show some similarity (although not highly significant similarity) to Ras-binding RA domains (unpublished observation).
Probab=48.11 E-value=85 Score=21.27 Aligned_cols=62 Identities=21% Similarity=0.195 Sum_probs=41.0
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhh----hC--CCCc-ccEEEEcCee--cCCCcccccccccccCCC-----cccccceeE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEK----EG--TSED-IQDLFFAGDR--LMNGRLIDYEDMALASPN-----VKRESTMQL 67 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~----~g--ip~~-~Q~L~~~g~~--L~d~~~~~~~~~~L~~~~-----i~~~s~i~l 67 (148)
.++++.+++++|+.++.+.+-.+ .+ -+++ .-.|--.|+. |..+. .|.+|. ++.|..+++
T Consensus 29 ~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~-------~L~~~~yIr~cl~~~~~~~L 101 (108)
T smart00144 29 QTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDH-------PLGSFEYIRNCLKNGREPHL 101 (108)
T ss_pred eeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCe-------eeechHHHHHHHhcCCCceE
Confidence 46899999999999999877765 12 2222 3344455553 55555 677664 466778887
Q ss_pred EEe
Q 041424 68 LFC 70 (148)
Q Consensus 68 ~~~ 70 (148)
++.
T Consensus 102 ~L~ 104 (108)
T smart00144 102 VLM 104 (108)
T ss_pred EEE
Confidence 765
No 176
>PRK07440 hypothetical protein; Provisional
Probab=48.02 E-value=67 Score=20.02 Aligned_cols=53 Identities=9% Similarity=0.183 Sum_probs=36.9
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+++...||.+|-. ..++++..--+-.+|..+.-+ ..++.-+++|+.|.++.-
T Consensus 14 ~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r~--------~w~~~~L~~gD~IEIv~~ 66 (70)
T PRK07440 14 RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQ--------FWEQTQVQPGDRLEIVTI 66 (70)
T ss_pred EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHH--------HcCceecCCCCEEEEEEE
Confidence 45667778887665 357777777777888877544 345566888998887653
No 177
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=47.45 E-value=67 Score=21.01 Aligned_cols=26 Identities=19% Similarity=0.244 Sum_probs=23.6
Q ss_pred EEEEEEcC--CCcHHHHHHHHHhhhCCC
Q 041424 3 TVTLNVEK--SETIKNLKGMVHEKEGTS 28 (148)
Q Consensus 3 ~~~l~v~~--~~tV~~lK~~i~~~~gip 28 (148)
++.+.++| +++..+|++.+...++++
T Consensus 11 ~~rf~~~~~~~~~~~~L~~ev~~rf~l~ 38 (81)
T cd06396 11 SQSFLVSDSENTTWASVEAMVKVSFGLN 38 (81)
T ss_pred EEEEEecCCCCCCHHHHHHHHHHHhCCC
Confidence 56778888 889999999999999999
No 178
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=47.21 E-value=48 Score=21.99 Aligned_cols=28 Identities=18% Similarity=0.103 Sum_probs=22.8
Q ss_pred CCCcHHHHHHHHHhhhCCCC-cccEEEEc
Q 041424 10 KSETIKNLKGMVHEKEGTSE-DIQDLFFA 37 (148)
Q Consensus 10 ~~~tV~~lK~~i~~~~gip~-~~Q~L~~~ 37 (148)
++++..+|+++|++.+.+|+ ..-.|.|.
T Consensus 23 ~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~ 51 (91)
T cd06398 23 LDLNMDGLREKVEELFSLSPDADLSLTYT 51 (91)
T ss_pred CCCCHHHHHHHHHHHhCCCCCCcEEEEEE
Confidence 57999999999999999998 44445554
No 179
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=45.89 E-value=65 Score=19.26 Aligned_cols=53 Identities=15% Similarity=0.162 Sum_probs=33.4
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+++++..|+.++-+.+ ++++ ...+..+|...... ...+.-+++|+++.++..
T Consensus 9 ~~~~~~~~tl~~ll~~l----~~~~-~~~v~vN~~~v~~~--------~~~~~~L~~gD~vei~~~ 61 (65)
T PRK06944 9 TLSLPDGATVADALAAY----GARP-PFAVAVNGDFVART--------QHAARALAAGDRLDLVQP 61 (65)
T ss_pred EEECCCCCcHHHHHHhh----CCCC-CeEEEECCEEcCch--------hcccccCCCCCEEEEEee
Confidence 45667778999888775 3332 23455677665432 223445788999988754
No 180
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=45.75 E-value=76 Score=20.03 Aligned_cols=60 Identities=12% Similarity=0.148 Sum_probs=43.9
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhC---CCCcccEEE-EcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEG---TSEDIQDLF-FAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~g---ip~~~Q~L~-~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+.++..+...+--..++--+.+| -|+++=.|- -+|..|+-++ .+.+||+.++.++.+.++
T Consensus 8 v~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~k-------KveD~GftngvkLFLsLK 71 (76)
T PF10790_consen 8 VQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNK-------KVEDFGFTNGVKLFLSLK 71 (76)
T ss_pred eeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccc-------hhhhccccccceEEEEee
Confidence 45666677777777666666554 677765554 3577788888 999999999999888776
No 181
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=45.64 E-value=81 Score=20.57 Aligned_cols=53 Identities=9% Similarity=0.058 Sum_probs=35.6
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+++...||.+|=.. .++++..--+-.+|..+.-+ ..++.-+++|+.|.++--
T Consensus 28 ~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr~--------~w~~t~L~egD~IEIv~~ 80 (84)
T PRK06083 28 IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPRS--------EWQSTVLSSGDAISLFQA 80 (84)
T ss_pred EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCHH--------HcCcccCCCCCEEEEEEE
Confidence 455666777766554 47777666667888777544 456667888888887643
No 182
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=45.18 E-value=76 Score=19.88 Aligned_cols=53 Identities=11% Similarity=0.193 Sum_probs=37.4
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+++++...|+++|=+. .|++++.--...+|...... ..++.-+++++.+.++-
T Consensus 11 ~~e~~~~~tv~dLL~~----l~~~~~~vav~vNg~iVpr~--------~~~~~~l~~gD~ievv~ 63 (68)
T COG2104 11 EVEIAEGTTVADLLAQ----LGLNPEGVAVAVNGEIVPRS--------QWADTILKEGDRIEVVR 63 (68)
T ss_pred EEEcCCCCcHHHHHHH----hCCCCceEEEEECCEEccch--------hhhhccccCCCEEEEEE
Confidence 4556666888887655 68888877778888887654 23456677788887664
No 183
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=45.12 E-value=81 Score=24.05 Aligned_cols=43 Identities=26% Similarity=0.258 Sum_probs=25.2
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCc---ccEEE--EcCee---cCCCc
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSED---IQDLF--FAGDR---LMNGR 45 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~---~Q~L~--~~g~~---L~d~~ 45 (148)
.+.+-|+.+.||++|-..+..+.+++.+ ..||. ++++. +..+.
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~ 85 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDE 85 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCC
Confidence 5788999999999999999999999765 33432 45543 55555
No 184
>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes. The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.
Probab=45.05 E-value=34 Score=21.97 Aligned_cols=33 Identities=21% Similarity=0.334 Sum_probs=20.9
Q ss_pred EEEEc-CCCcHHHHHHHHHhhhCC--CCcccEEEEc
Q 041424 5 TLNVE-KSETIKNLKGMVHEKEGT--SEDIQDLFFA 37 (148)
Q Consensus 5 ~l~v~-~~~tV~~lK~~i~~~~gi--p~~~Q~L~~~ 37 (148)
++.++ +..+|.+||..|.++.+. ..+-.-.+++
T Consensus 13 ~i~fdG~~Isv~dLKr~I~~~~~lg~~~dfdL~i~n 48 (74)
T PF08783_consen 13 TITFDGTSISVFDLKREIIEKKKLGKGTDFDLVIYN 48 (74)
T ss_dssp EEEESSSEEEHHHHHHHHHHHHT---TTTEEEEEEE
T ss_pred EEEECCCeeEHHHHHHHHHHHhCCCcCCcCCEEEEC
Confidence 34444 578999999999777655 3443344454
No 185
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=43.94 E-value=93 Score=20.55 Aligned_cols=36 Identities=11% Similarity=0.158 Sum_probs=28.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD 39 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~ 39 (148)
+..+.|+++.+..+|..+|.+++|+. ..-.+-|...
T Consensus 13 v~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDE 48 (86)
T cd06408 13 TRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDD 48 (86)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcC
Confidence 56788999999999999999999995 4444555543
No 186
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=43.43 E-value=55 Score=22.05 Aligned_cols=33 Identities=18% Similarity=0.181 Sum_probs=28.9
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDL 34 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L 34 (148)
+++++.|++..|=.++|+.+++.+|+-+..-.-
T Consensus 22 nk~vF~V~~~AtK~~IK~AvE~lF~VkV~kVNT 54 (94)
T COG0089 22 NKYVFIVDPDATKPEIKAAVEELFGVKVEKVNT 54 (94)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEE
Confidence 478999999999999999999999988776443
No 187
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=43.09 E-value=30 Score=29.86 Aligned_cols=45 Identities=9% Similarity=0.096 Sum_probs=35.8
Q ss_pred eeeeeehh-hh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 99 TEEIVKLK-VK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 99 ~gk~~~l~-v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
.|+..+++ ++ +|+++.. +++.|..+.|+-.+..-.|++|.++.|+
T Consensus 11 ~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMm 73 (473)
T KOG1872|consen 11 GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMM 73 (473)
T ss_pred cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEee
Confidence 45555554 43 7777664 9999999999988888999999999885
No 188
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=42.87 E-value=89 Score=20.03 Aligned_cols=36 Identities=28% Similarity=0.443 Sum_probs=31.6
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD 39 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~ 39 (148)
-.+.+.|..||.+.=.++-++.|++++.-.++..|.
T Consensus 12 T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~ 47 (73)
T cd01817 12 TVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGG 47 (73)
T ss_pred EEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecC
Confidence 457899999999999999999999999888876664
No 189
>COG2164 Uncharacterized conserved protein [Function unknown]
Probab=42.81 E-value=5.5 Score=27.50 Aligned_cols=26 Identities=15% Similarity=0.310 Sum_probs=14.6
Q ss_pred cEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 32 QDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 32 Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..|+|+..+++|++ |++.|.+.++.|
T Consensus 79 lClFFGkTpmsddk-------------iqPaSaVNvIGr 104 (126)
T COG2164 79 LCLFFGKTPMSDDK-------------IQPASAVNVIGR 104 (126)
T ss_pred EEEEecCCcCcccc-------------cCccchHHHHHH
Confidence 34555555566665 566666655555
No 190
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=41.15 E-value=52 Score=21.04 Aligned_cols=25 Identities=20% Similarity=0.221 Sum_probs=21.2
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhC
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEG 26 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~g 26 (148)
|.|-.-..|++|+.+|+..|.+++.
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~ 27 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFK 27 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHH
Confidence 4566668899999999999999875
No 191
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=41.13 E-value=98 Score=26.58 Aligned_cols=62 Identities=13% Similarity=0.093 Sum_probs=46.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCC----CCcccEEE---EcCeecCCCcccccccccccCCCcccccceeEEEee
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGT----SEDIQDLF---FAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCA 71 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gi----p~~~Q~L~---~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~ 71 (148)
.+.+-++.+.++.++-..+-+..|- +.....+. -+|.+|+.+. +|++.++.+|+.+++..+.
T Consensus 13 ~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~-------sL~~~gV~DG~~L~L~p~~ 81 (452)
T TIGR02958 13 AVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDA-------SLAEAGVRDGELLVLVPAS 81 (452)
T ss_pred eeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCC-------CHHHcCCCCCCeEEEeeCC
Confidence 3556667888999998888887763 22223333 4577899999 9999999999999998763
No 192
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=40.55 E-value=93 Score=20.00 Aligned_cols=35 Identities=14% Similarity=0.222 Sum_probs=27.5
Q ss_pred CCcHHHHHHHHHhhhCCCCcccEEEE--cCeecCCCc
Q 041424 11 SETIKNLKGMVHEKEGTSEDIQDLFF--AGDRLMNGR 45 (148)
Q Consensus 11 ~~tV~~lK~~i~~~~gip~~~Q~L~~--~g~~L~d~~ 45 (148)
-.+..+|+.|..+++++|.+.-+|.. .|...+|+.
T Consensus 18 A~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEe 54 (74)
T smart00266 18 ASSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEE 54 (74)
T ss_pred cCCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHH
Confidence 35789999999999999976666654 677886664
No 193
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=40.21 E-value=34 Score=23.25 Aligned_cols=17 Identities=35% Similarity=0.585 Sum_probs=15.9
Q ss_pred eeecCeeeCCCCchhhh
Q 041424 116 LFCTGMKLKDCKTLACY 132 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y 132 (148)
|-|.|++|..+++|++|
T Consensus 4 LW~aGK~l~~~k~l~dy 20 (98)
T PF11069_consen 4 LWWAGKELQRGKKLSDY 20 (98)
T ss_pred EEeccccccCCCcHHHh
Confidence 56999999999999999
No 194
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=40.09 E-value=38 Score=22.00 Aligned_cols=22 Identities=27% Similarity=0.404 Sum_probs=19.2
Q ss_pred EEEEEcCCCcHHHHHHHHHhhh
Q 041424 4 VTLNVEKSETIKNLKGMVHEKE 25 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~ 25 (148)
+.+.++.+.|+.++|+.+-+.-
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A 23 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQA 23 (78)
T ss_pred eeEEccccccHHHHHHHHHHHH
Confidence 5789999999999999887653
No 195
>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....
Probab=39.86 E-value=54 Score=22.35 Aligned_cols=39 Identities=15% Similarity=0.085 Sum_probs=26.3
Q ss_pred EEcCCCcHHHHHHHHHhhhCCCCcc-cEEEEcCeecCCCc
Q 041424 7 NVEKSETIKNLKGMVHEKEGTSEDI-QDLFFAGDRLMNGR 45 (148)
Q Consensus 7 ~v~~~~tV~~lK~~i~~~~gip~~~-Q~L~~~g~~L~d~~ 45 (148)
-|+.+.||++|...|.....+++++ .-|+.++.....+.
T Consensus 38 Lvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~ 77 (104)
T PF02991_consen 38 LVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSS 77 (104)
T ss_dssp EEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTS
T ss_pred EEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhh
Confidence 4788999999999999999998764 22334443444555
No 196
>CHL00030 rpl23 ribosomal protein L23
Probab=39.29 E-value=57 Score=21.82 Aligned_cols=33 Identities=15% Similarity=0.108 Sum_probs=28.7
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDL 34 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L 34 (148)
+.+++.|++..|=.++|+.++..+|+.+..-.-
T Consensus 20 n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt 52 (93)
T CHL00030 20 NQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNS 52 (93)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEE
Confidence 468999999999999999999999998766443
No 197
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=38.84 E-value=95 Score=19.50 Aligned_cols=26 Identities=31% Similarity=0.313 Sum_probs=24.0
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCC
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTS 28 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip 28 (148)
.-++.|++++|+.++-+.+.+++|++
T Consensus 18 ~k~i~v~~~tTa~evi~~~l~k~~l~ 43 (93)
T PF00788_consen 18 YKTIKVSSSTTAREVIEMALEKFGLA 43 (93)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHTTTS
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCC
Confidence 56889999999999999999999994
No 198
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=38.74 E-value=67 Score=21.28 Aligned_cols=59 Identities=24% Similarity=0.269 Sum_probs=34.5
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe-------ecCCCcccccccccc--cCCCcccccceeEEEe
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD-------RLMNGRLIDYEDMAL--ASPNVKRESTMQLLFC 70 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~-------~L~d~~~~~~~~~~L--~~~~i~~~s~i~l~~~ 70 (148)
+.++...||.++=+.+.+.. |+...+++..+. .|-|+. +-..+ .++-+++|+.|.++..
T Consensus 23 ~~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~----di~~l~g~~t~L~dgD~v~i~P~ 90 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDT----DWELLGEEDYILEDGDHVVFIST 90 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCc----cccccCCcccCCCCcCEEEEECC
Confidence 44446789999999988776 344444544322 222332 00122 3567888998887754
No 199
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=38.41 E-value=25 Score=23.67 Aligned_cols=28 Identities=11% Similarity=0.223 Sum_probs=25.1
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVACF 143 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l~ 143 (148)
+.|.|+.++-++|=.+++..+++.|..+
T Consensus 67 fL~dG~rI~~dqTP~dldmEdnd~iEav 94 (103)
T COG5227 67 FLFDGKRIDLDQTPGDLDMEDNDEIEAV 94 (103)
T ss_pred EEEcceecCCCCChhhcCCccchHHHHH
Confidence 8899999999999999999999877544
No 200
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=38.09 E-value=94 Score=18.90 Aligned_cols=58 Identities=14% Similarity=0.153 Sum_probs=40.3
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCC--CCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGT--SEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gi--p~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..+.+....||.+|.+.+....+- ....-.+..+|....+ . ..+.-+++++.|.++..
T Consensus 14 ~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~-~--------~~~~~l~~gD~V~i~pp 73 (77)
T PF02597_consen 14 EEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD-D--------GLDTPLKDGDEVAILPP 73 (77)
T ss_dssp EEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG-G--------TTTSBEETTEEEEEEES
T ss_pred eEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC-c--------cCCcCcCCCCEEEEECC
Confidence 467788999999999999887631 2244556677877666 1 11345678998888754
No 201
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=37.19 E-value=1e+02 Score=18.95 Aligned_cols=52 Identities=15% Similarity=0.112 Sum_probs=35.6
Q ss_pred EEcCC-CcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 7 NVEKS-ETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 7 ~v~~~-~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
+++.. .||.+|=+ ..|++++.--+-.++..+..+ ..+++-+++|+.+.++.-
T Consensus 11 ~~~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~r~--------~w~~~~L~~gD~iEIv~~ 63 (67)
T PRK07696 11 EVPESVKTVAELLT----HLELDNKIVVVERNKDILQKD--------DHTDTSVFDGDQIEIVTF 63 (67)
T ss_pred EcCCCcccHHHHHH----HcCCCCCeEEEEECCEEeCHH--------HcCceecCCCCEEEEEEE
Confidence 44444 46776554 367887777777888887655 355667889999987753
No 202
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=36.26 E-value=1e+02 Score=18.72 Aligned_cols=54 Identities=11% Similarity=0.065 Sum_probs=35.6
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
..+++...|+.+|-+. .+.++..-.+-.++..+..+ ..++.-+++|+.|.++.-
T Consensus 9 ~~~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r~--------~w~~~~L~~gD~Ieii~~ 62 (66)
T PRK08053 9 PMQCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPRE--------QWAQHIVQDGDQILLFQV 62 (66)
T ss_pred EEEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeChH--------HcCccccCCCCEEEEEEE
Confidence 4566777888888765 35555555566777776533 234556888998887754
No 203
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=34.57 E-value=53 Score=21.50 Aligned_cols=55 Identities=16% Similarity=0.219 Sum_probs=36.6
Q ss_pred EEEcCCCcHHHHHHHHHhhhC-------CCCcccEEEEcCe-ecC------CCcccccccccccCCCcccccceeEE
Q 041424 6 LNVEKSETIKNLKGMVHEKEG-------TSEDIQDLFFAGD-RLM------NGRLIDYEDMALASPNVKRESTMQLL 68 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~g-------ip~~~Q~L~~~g~-~L~------d~~~~~~~~~~L~~~~i~~~s~i~l~ 68 (148)
+++++++|+.+|-..+.+.-. +......|++.+- .|+ =++ +|.++ +.+|..+.+.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k-------~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSK-------KLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSS-------BTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhh-------hHHHH-hcCCCEEEEE
Confidence 579999999999999998732 2344455555432 121 134 67787 7788777664
No 204
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=34.17 E-value=94 Score=19.79 Aligned_cols=28 Identities=25% Similarity=0.239 Sum_probs=25.0
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCc
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSED 30 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~ 30 (148)
..++.|++++|..++=..+.++.+++.+
T Consensus 17 ~kti~v~~~tTa~~Vi~~~l~k~~l~~~ 44 (90)
T smart00314 17 YKTLRVSSRTTARDVIQQLLEKFHLTDD 44 (90)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCC
Confidence 4689999999999999999999999753
No 205
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=34.08 E-value=82 Score=20.83 Aligned_cols=42 Identities=21% Similarity=0.194 Sum_probs=32.0
Q ss_pred EEEEEcCCCcHHHHHHHHHhhhCCC-CcccEEEE--cC--eecCCCc
Q 041424 4 VTLNVEKSETIKNLKGMVHEKEGTS-EDIQDLFF--AG--DRLMNGR 45 (148)
Q Consensus 4 ~~l~v~~~~tV~~lK~~i~~~~gip-~~~Q~L~~--~g--~~L~d~~ 45 (148)
-||-|.|..|..++=+..++++.+. |+.-.|++ .| .+|.|+.
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~ 62 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDT 62 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCccc
Confidence 4788999999999999999999975 66666663 23 2566653
No 206
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=33.64 E-value=44 Score=26.14 Aligned_cols=57 Identities=12% Similarity=0.292 Sum_probs=38.5
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC------eecCCCcccccccccccCCCcccccceeEEE
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG------DRLMNGRLIDYEDMALASPNVKRESTMQLLF 69 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g------~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~ 69 (148)
+-|+.+.+|+++=..|.+..|+|++...++|.- ..++... +++...+.+|+.|-.-.
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~-------t~~~~el~~GdIi~fQ~ 151 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQ-------TFEKAELQDGDIICFQR 151 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSS-------BHHHTT--TTEEEEEEE
T ss_pred EEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCC-------chhhcccCCCCEEEEEe
Confidence 467889999999999999999999988887752 2466667 99999999999665443
No 207
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=32.73 E-value=1.1e+02 Score=19.24 Aligned_cols=26 Identities=27% Similarity=0.254 Sum_probs=24.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCC
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTS 28 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip 28 (148)
..++.|++++|..++-+.+.++.|+.
T Consensus 14 ~kti~V~~~~t~~~Vi~~~l~k~~l~ 39 (87)
T cd01768 14 YKTLRVSKDTTAQDVIQQLLKKFGLD 39 (87)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCc
Confidence 36899999999999999999999987
No 208
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=32.68 E-value=85 Score=22.81 Aligned_cols=27 Identities=33% Similarity=0.396 Sum_probs=24.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCC
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSE 29 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~ 29 (148)
+.++.+++++|+.++-..+..+.|++.
T Consensus 15 ~~~~~~~~~~t~~ev~~~v~~~~~l~~ 41 (207)
T smart00295 15 TLEFEVDSSTTAEELLETVCRKLGIRE 41 (207)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCc
Confidence 568899999999999999999999953
No 209
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=32.03 E-value=82 Score=23.26 Aligned_cols=38 Identities=13% Similarity=0.086 Sum_probs=31.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE-EcCe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF-FAGD 39 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~g~ 39 (148)
+.+++.|++..|=.++|..|+..+|+.+....-+ ..|+
T Consensus 23 N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~~~~K 61 (158)
T PRK12280 23 NVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVDKK 61 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEecCCc
Confidence 4689999999999999999999999988765543 4443
No 210
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=31.73 E-value=66 Score=30.23 Aligned_cols=49 Identities=18% Similarity=0.350 Sum_probs=38.9
Q ss_pred EEEEEEc-CCCcHHHHHHHHHhhhCCCCcccEEEEcC-eecCCCcccccccccccCCC
Q 041424 3 TVTLNVE-KSETIKNLKGMVHEKEGTSEDIQDLFFAG-DRLMNGRLIDYEDMALASPN 58 (148)
Q Consensus 3 ~~~l~v~-~~~tV~~lK~~i~~~~gip~~~Q~L~~~g-~~L~d~~~~~~~~~~L~~~~ 58 (148)
+++++.+ ...|+++||..|+...|+..+.|.+.-.| ..+.-++ .|+.|.
T Consensus 6 altFDleaetqT~adLk~aiqke~~~aIq~~tfl~egGecmaadk-------rl~e~S 56 (1424)
T KOG4572|consen 6 ALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADK-------RLAEIS 56 (1424)
T ss_pred eeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCCcCccccc-------chhhhc
Confidence 4556655 57899999999999999999999887654 4566677 788776
No 211
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=31.51 E-value=33 Score=21.44 Aligned_cols=17 Identities=29% Similarity=0.241 Sum_probs=11.3
Q ss_pred CCchhhhCCCCCCEEEE
Q 041424 126 CKTLACYGVKDDRGVAC 142 (148)
Q Consensus 126 ~~tL~~y~I~~gstI~l 142 (148)
.+.|...|+++||+|.+
T Consensus 46 ~~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 46 EKALRKAGAKEGDTVRI 62 (69)
T ss_dssp HHHHHTTT--TT-EEEE
T ss_pred HHHHHHcCCCCCCEEEE
Confidence 35788899999999976
No 212
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=28.60 E-value=46 Score=20.82 Aligned_cols=18 Identities=28% Similarity=0.119 Sum_probs=15.3
Q ss_pred CCchhhhCCCCCCEEEEE
Q 041424 126 CKTLACYGVKDDRGVACF 143 (148)
Q Consensus 126 ~~tL~~y~I~~gstI~l~ 143 (148)
...|..-|+++||+|.+-
T Consensus 46 ~~~L~~~G~~~GD~V~Ig 63 (69)
T TIGR03595 46 EDALRKAGAKDGDTVRIG 63 (69)
T ss_pred HHHHHHcCCCCCCEEEEc
Confidence 467899999999999864
No 213
>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e.g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....
Probab=28.49 E-value=36 Score=30.00 Aligned_cols=19 Identities=42% Similarity=0.403 Sum_probs=15.0
Q ss_pred CchhhhCCCCCCEEEEEee
Q 041424 127 KTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 127 ~tL~~y~I~~gstI~l~l~ 145 (148)
+||+.|+|.+|+++-|+.+
T Consensus 271 NTL~HY~V~dga~vaLv~k 289 (539)
T PF08337_consen 271 NTLAHYKVPDGATVALVPK 289 (539)
T ss_dssp -BHHHHT--TTEEEEEEES
T ss_pred ccHhhcCCCCCceEEEeec
Confidence 8999999999999999876
No 214
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=28.16 E-value=1.3e+02 Score=19.49 Aligned_cols=34 Identities=9% Similarity=0.081 Sum_probs=26.0
Q ss_pred CcHHHHHHHHHhhhCCCCcccEEE--EcCeecCCCc
Q 041424 12 ETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMNGR 45 (148)
Q Consensus 12 ~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d~~ 45 (148)
.+..+|+.|..+..+++.+.-+|. -.|...+++.
T Consensus 21 ~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~Ee 56 (78)
T cd06539 21 SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEE 56 (78)
T ss_pred cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHH
Confidence 578999999999999986655554 4577776654
No 215
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=27.23 E-value=1.3e+02 Score=20.75 Aligned_cols=40 Identities=10% Similarity=0.130 Sum_probs=28.8
Q ss_pred EEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeec-CCCc
Q 041424 6 LNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRL-MNGR 45 (148)
Q Consensus 6 l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L-~d~~ 45 (148)
.-|+.+.||+++...|.....+++++-..+|-++.+ ..+.
T Consensus 45 flVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~ 85 (112)
T cd01611 45 YLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSA 85 (112)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchh
Confidence 348999999999999999999887764434444433 4444
No 216
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=26.98 E-value=80 Score=26.52 Aligned_cols=28 Identities=25% Similarity=0.240 Sum_probs=24.5
Q ss_pred eeecCeeeCCC--CchhhhCCCCCCEEEEE
Q 041424 116 LFCTGMKLKDC--KTLACYGVKDDRGVACF 143 (148)
Q Consensus 116 L~f~g~~L~d~--~tL~~y~I~~gstI~l~ 143 (148)
++|+++.+.++ .++.+||+..|+++.+.
T Consensus 45 li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr 74 (380)
T KOG0012|consen 45 LIYNPRPLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred cccCCCccccchhhhhhhcccccceeEecc
Confidence 99999999766 67999999999998764
No 217
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=26.98 E-value=1.4e+02 Score=19.33 Aligned_cols=34 Identities=15% Similarity=0.174 Sum_probs=26.4
Q ss_pred CcHHHHHHHHHhhhCCCCcccEEEE--cCeecCCCc
Q 041424 12 ETIKNLKGMVHEKEGTSEDIQDLFF--AGDRLMNGR 45 (148)
Q Consensus 12 ~tV~~lK~~i~~~~gip~~~Q~L~~--~g~~L~d~~ 45 (148)
.+..+|+.|..+++++|...-+|.. .|...+|+.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEe 56 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEE 56 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHH
Confidence 5889999999999999765555554 577776664
No 218
>PRK01777 hypothetical protein; Validated
Probab=25.87 E-value=2.1e+02 Score=19.09 Aligned_cols=52 Identities=8% Similarity=-0.009 Sum_probs=34.8
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCc--c-----cEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSED--I-----QDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~--~-----Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
...++++++.||.++=.. .|++.. . -.+.-+|+.-.-+ .-+++|++|.+.-.
T Consensus 18 ~~~l~vp~GtTv~dal~~----sgi~~~~pei~~~~~~vgI~Gk~v~~d------------~~L~dGDRVeIyrP 76 (95)
T PRK01777 18 LQRLTLQEGATVEEAIRA----SGLLELRTDIDLAKNKVGIYSRPAKLT------------DVLRDGDRVEIYRP 76 (95)
T ss_pred EEEEEcCCCCcHHHHHHH----cCCCccCcccccccceEEEeCeECCCC------------CcCCCCCEEEEecC
Confidence 367889999999987666 466655 2 2444556655433 34778999997754
No 219
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=25.36 E-value=2e+02 Score=18.77 Aligned_cols=35 Identities=0% Similarity=0.183 Sum_probs=26.8
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD 39 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~ 39 (148)
..-|+.+.|++++...|+.+.++++++-..+|-++
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn 53 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINN 53 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECC
Confidence 34589999999999999999999876533334444
No 220
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=25.30 E-value=1.9e+02 Score=23.92 Aligned_cols=54 Identities=9% Similarity=0.032 Sum_probs=40.3
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+++....||.+|-.. .+++++..-+..+|..+..+ ...++-+++|+.|.++.-
T Consensus 9 ~~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr~--------~w~~t~LkeGD~IEII~~ 62 (326)
T PRK11840 9 PRQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPRS--------EYGQVALEEGDELEIVHF 62 (326)
T ss_pred EEecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCHH--------HcCccccCCCCEEEEEEE
Confidence 3556677788876654 58888888888999888544 456677899999998765
No 221
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=24.80 E-value=1.3e+02 Score=19.83 Aligned_cols=38 Identities=11% Similarity=0.191 Sum_probs=25.2
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD 39 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~ 39 (148)
+.-...|++++|++.+-.-|..+.++.+++....|-+.
T Consensus 16 k~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~ 53 (87)
T PF04110_consen 16 KQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINN 53 (87)
T ss_dssp S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEE
T ss_pred cCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcC
Confidence 44567899999999999999999999776655555444
No 222
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=24.74 E-value=1e+02 Score=28.56 Aligned_cols=33 Identities=18% Similarity=0.201 Sum_probs=29.9
Q ss_pred EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE
Q 041424 3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF 35 (148)
Q Consensus 3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~ 35 (148)
-+-+.|....+++.+|+.|++..++|.+.-+++
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~V~~~HFKi~ 910 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLEVDKDHFKIV 910 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhCcChhHeEEE
Confidence 467889999999999999999999999887776
No 223
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=24.39 E-value=70 Score=23.18 Aligned_cols=30 Identities=17% Similarity=0.004 Sum_probs=24.2
Q ss_pred eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424 116 LFCTGMKLKDCKTLACYGVKDDRGVACFIS 145 (148)
Q Consensus 116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l~ 145 (148)
-+-+-+..+|++||.+.+++-||-|-+.+.
T Consensus 107 t~~g~Kg~ddnktL~~~kf~iGD~lDVaI~ 136 (151)
T KOG3391|consen 107 TCLGRKGIDDNKTLQQTKFEIGDYLDVAIT 136 (151)
T ss_pred cccCcccCCccchhhhCCccccceEEEEec
Confidence 334666778999999999999999887653
No 224
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=23.85 E-value=1.7e+02 Score=19.10 Aligned_cols=34 Identities=15% Similarity=0.139 Sum_probs=25.2
Q ss_pred CcHHHHHHHHHhhhCCCCcc--cEEE--EcCeecCCCc
Q 041424 12 ETIKNLKGMVHEKEGTSEDI--QDLF--FAGDRLMNGR 45 (148)
Q Consensus 12 ~tV~~lK~~i~~~~gip~~~--Q~L~--~~g~~L~d~~ 45 (148)
.+..+|+.|..+.+++|.+. -+|. -.|...+|+.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEe 58 (80)
T cd06536 21 SSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDED 58 (80)
T ss_pred CCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHH
Confidence 57899999999999998433 4443 4577776664
No 225
>PRK08453 fliD flagellar capping protein; Validated
Probab=22.94 E-value=2.2e+02 Score=25.97 Aligned_cols=23 Identities=9% Similarity=0.299 Sum_probs=20.8
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhh
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEK 24 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~ 24 (148)
++++++|.+..|+.+|+.+|-..
T Consensus 138 ~~~sIdi~~gtTL~~L~~~INd~ 160 (673)
T PRK08453 138 KDYAIDIKAGMTLGDVAQSITDA 160 (673)
T ss_pred EEEEEEeCCCCcHHHHHHHhcCC
Confidence 67999999999999999999853
No 226
>PRK11347 antitoxin ChpS; Provisional
Probab=22.08 E-value=93 Score=20.25 Aligned_cols=18 Identities=11% Similarity=0.246 Sum_probs=14.8
Q ss_pred hhhhCCCCCCEEEEEeec
Q 041424 129 LACYGVKDDRGVACFISD 146 (148)
Q Consensus 129 L~~y~I~~gstI~l~l~~ 146 (148)
+.+.+++.|+++.+...+
T Consensus 21 l~~l~l~~G~~v~i~v~~ 38 (83)
T PRK11347 21 MKELNLQPGQSVEAQVSN 38 (83)
T ss_pred HHHcCCCCCCEEEEEEEC
Confidence 668899999999888764
No 227
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=22.05 E-value=2.1e+02 Score=18.86 Aligned_cols=30 Identities=17% Similarity=0.322 Sum_probs=25.8
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcc
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDI 31 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~ 31 (148)
.+-++.|++.+|+.++=+.+..+.+...+.
T Consensus 13 ~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~ 42 (85)
T cd01787 13 ASKSLEVDERMTARDVCQLLVDKNHCQDDS 42 (85)
T ss_pred CeeEEEEcCCCcHHHHHHHHHHHhCCCCCC
Confidence 356899999999999999999999876554
No 228
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=21.26 E-value=81 Score=27.09 Aligned_cols=25 Identities=24% Similarity=0.154 Sum_probs=22.3
Q ss_pred eCCCCchhhhCCCCCCEEEEEeecc
Q 041424 123 LKDCKTLACYGVKDDRGVACFISDI 147 (148)
Q Consensus 123 L~d~~tL~~y~I~~gstI~l~l~~~ 147 (148)
+..++|+.+.|++.|+.++|..+||
T Consensus 57 ~l~dqt~~dlGL~hGqmLyl~ysd~ 81 (571)
T COG5100 57 LLKDQTPDDLGLRHGQMLYLEYSDI 81 (571)
T ss_pred cccccChhhhccccCcEEEEEeccc
Confidence 3457899999999999999999997
No 229
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=20.97 E-value=1.7e+02 Score=21.27 Aligned_cols=32 Identities=13% Similarity=0.099 Sum_probs=28.4
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQD 33 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~ 33 (148)
+++++.|++..+=.++|+.++..+++.+....
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVN 114 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVKVN 114 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEE
Confidence 47899999999999999999999999876544
No 230
>PF05678 VQ: VQ motif; InterPro: IPR008889 This short motif is found in a variety of plant proteins. These proteins vary greatly in length and are mostly composed of low complexity regions. They all conserve a short motif FXhVQChTG, where X is any amino acid and h is a hydrophobic amino acid. The function of this motif is uncertain, however one protein in this family has been found to bind the SigA sigma factor Q9LDH1 from SWISSPROT. It would seem plausible that this motif is needed for this activity and that this whole family might be involved in modulating plastid sigma factors.
Probab=20.91 E-value=1.1e+02 Score=16.21 Aligned_cols=18 Identities=17% Similarity=0.364 Sum_probs=14.8
Q ss_pred cHHHHHHHHHhhhCCCCc
Q 041424 13 TIKNLKGMVHEKEGTSED 30 (148)
Q Consensus 13 tV~~lK~~i~~~~gip~~ 30 (148)
...+||..+++.+|.+..
T Consensus 11 d~~~Fr~lVQ~LTG~~~~ 28 (31)
T PF05678_consen 11 DPSNFRALVQRLTGAPSA 28 (31)
T ss_pred CHHHHHHHHHHhHCcCCC
Confidence 346899999999998754
No 231
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=20.76 E-value=1.2e+02 Score=20.09 Aligned_cols=33 Identities=27% Similarity=0.308 Sum_probs=29.3
Q ss_pred eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEE
Q 041424 2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDL 34 (148)
Q Consensus 2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L 34 (148)
.++++++..+++..++=+.+..+.|+|.+.+.-
T Consensus 12 ~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~Y 44 (87)
T cd01777 12 ATVTVRVRKNATTDQVYQALVAKAGMDSYTQNY 44 (87)
T ss_pred CEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhh
Confidence 468999999999999999999999999886653
No 232
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=20.74 E-value=2.5e+02 Score=18.16 Aligned_cols=59 Identities=14% Similarity=0.129 Sum_probs=42.4
Q ss_pred EEEEcCCCcHHHHHHHHHhhhCCCCcccEEE-EcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424 5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLF-FAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC 70 (148)
Q Consensus 5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~ 70 (148)
.+.|........+-.-.++.+++|+..--++ -.|--+...+ +-.+.-++.|+.+.++.|
T Consensus 19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~q-------tAGnvflkhgselrliPR 78 (82)
T cd01766 19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQ-------TAGNVFLKHGSELRLIPR 78 (82)
T ss_pred EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhh-------cccceeeecCCEeeeccc
Confidence 3566677777777777888999998765555 3444455556 667777888888888876
No 233
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=20.59 E-value=2.1e+02 Score=18.68 Aligned_cols=33 Identities=15% Similarity=0.028 Sum_probs=23.9
Q ss_pred CcHHHHHHHHHhhhCCCCcccEEE--EcCeecCCCc
Q 041424 12 ETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMNGR 45 (148)
Q Consensus 12 ~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d~~ 45 (148)
.+..+|+.|..+..++|.. -+|. -.|...+++.
T Consensus 21 ~sL~EL~~K~~~~L~~~~~-~~lvLeeDGT~Vd~Ee 55 (81)
T cd06537 21 ASLQELLAKALETLLLSGV-LTLVLEEDGTAVDSED 55 (81)
T ss_pred cCHHHHHHHHHHHhCCCCc-eEEEEecCCCEEccHH
Confidence 5789999999999999733 4443 4577776654
Done!