Query 040720
Match_columns 77
No_of_seqs 116 out of 1011
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 11:04:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040720.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040720hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01794 DC_UbP_C dendritic cel 99.4 3.6E-13 7.7E-18 71.1 4.5 48 1-48 9-57 (70)
2 cd01793 Fubi Fubi ubiquitin-li 99.4 4.1E-13 8.9E-18 71.3 4.3 48 1-48 9-57 (74)
3 cd01791 Ubl5 UBL5 ubiquitin-li 99.3 4.8E-12 1E-16 67.3 6.1 47 2-48 13-60 (73)
4 cd01807 GDX_N ubiquitin-like d 99.3 6.4E-12 1.4E-16 66.7 6.1 48 1-48 11-59 (74)
5 cd01810 ISG15_repeat2 ISG15 ub 99.3 1.3E-11 2.7E-16 65.6 6.1 48 1-48 9-57 (74)
6 KOG0005 Ubiquitin-like protein 99.3 2.8E-12 6E-17 65.2 3.0 48 2-49 12-60 (70)
7 cd01813 UBP_N UBP ubiquitin pr 99.3 1.2E-11 2.6E-16 65.9 5.6 47 2-48 11-61 (74)
8 cd01796 DDI1_N DNA damage indu 99.3 1.9E-11 4E-16 64.6 5.9 48 1-48 10-59 (71)
9 cd01798 parkin_N amino-termina 99.3 9.5E-12 2.1E-16 65.3 4.4 48 1-48 9-57 (70)
10 cd01802 AN1_N ubiquitin-like d 99.2 1.3E-11 2.9E-16 69.5 4.5 48 1-48 38-86 (103)
11 PTZ00044 ubiquitin; Provisiona 99.2 1.6E-11 3.5E-16 65.2 4.4 48 1-48 11-59 (76)
12 cd01790 Herp_N Homocysteine-re 99.2 1.7E-11 3.7E-16 66.0 4.3 51 2-52 15-68 (79)
13 cd01794 DC_UbP_C dendritic cel 99.2 2.3E-11 5.1E-16 64.1 4.7 42 35-76 11-52 (70)
14 cd01793 Fubi Fubi ubiquitin-li 99.2 2.9E-11 6.2E-16 64.2 5.1 42 35-76 11-52 (74)
15 cd01800 SF3a120_C Ubiquitin-li 99.2 2E-11 4.3E-16 65.2 4.5 48 1-48 8-56 (76)
16 cd01799 Hoil1_N Ubiquitin-like 99.2 8.5E-11 1.8E-15 62.8 6.1 47 1-48 13-61 (75)
17 cd01807 GDX_N ubiquitin-like d 99.2 4.7E-11 1E-15 63.3 5.0 42 35-76 13-54 (74)
18 KOG0005 Ubiquitin-like protein 99.2 1.1E-11 2.3E-16 63.0 1.9 41 36-76 14-54 (70)
19 cd01796 DDI1_N DNA damage indu 99.2 6.9E-11 1.5E-15 62.4 4.8 41 35-75 12-52 (71)
20 PF00240 ubiquitin: Ubiquitin 99.2 9.6E-11 2.1E-15 61.0 5.0 47 2-48 7-54 (69)
21 cd01797 NIRF_N amino-terminal 99.2 5.6E-11 1.2E-15 63.8 4.0 46 3-48 14-61 (78)
22 cd01812 BAG1_N Ubiquitin-like 99.1 2.6E-10 5.7E-15 59.6 5.8 47 2-48 11-58 (71)
23 cd01805 RAD23_N Ubiquitin-like 99.1 4.2E-10 9.1E-15 59.8 6.5 48 1-48 11-61 (77)
24 cd01798 parkin_N amino-termina 99.1 1.8E-10 4E-15 60.4 4.9 42 35-76 11-52 (70)
25 cd01804 midnolin_N Ubiquitin-l 99.1 2.6E-10 5.7E-15 61.2 5.5 47 1-48 12-59 (78)
26 cd01810 ISG15_repeat2 ISG15 ub 99.1 2.2E-10 4.8E-15 60.7 5.1 42 35-76 11-52 (74)
27 cd01803 Ubiquitin Ubiquitin. U 99.1 1.6E-10 3.6E-15 61.0 4.3 48 1-48 11-59 (76)
28 cd01790 Herp_N Homocysteine-re 99.1 3.3E-10 7.2E-15 61.0 5.3 48 29-76 10-59 (79)
29 cd01806 Nedd8 Nebb8-like ubiq 99.1 2.4E-10 5.2E-15 60.4 4.7 48 1-48 11-59 (76)
30 cd01797 NIRF_N amino-terminal 99.1 3.6E-10 7.7E-15 60.7 4.7 42 35-76 14-56 (78)
31 cd01791 Ubl5 UBL5 ubiquitin-li 99.1 3.3E-10 7.2E-15 60.2 4.5 41 36-76 15-55 (73)
32 KOG0003 Ubiquitin/60s ribosoma 99.0 4.2E-11 9.1E-16 67.4 0.5 48 1-48 11-59 (128)
33 PF00240 ubiquitin: Ubiquitin 99.0 1E-09 2.2E-14 57.1 5.6 43 34-76 7-49 (69)
34 cd01809 Scythe_N Ubiquitin-lik 99.0 5E-10 1.1E-14 58.6 4.3 48 1-48 11-59 (72)
35 PTZ00044 ubiquitin; Provisiona 99.0 7.6E-10 1.6E-14 58.7 5.0 42 35-76 13-54 (76)
36 cd01802 AN1_N ubiquitin-like d 99.0 7.4E-10 1.6E-14 62.4 5.1 41 36-76 41-81 (103)
37 cd01792 ISG15_repeat1 ISG15 ub 99.0 3.6E-10 7.8E-15 60.8 3.4 48 1-48 13-63 (80)
38 cd01795 USP48_C USP ubiquitin- 99.0 2.1E-09 4.5E-14 59.9 5.9 60 3-70 17-78 (107)
39 cd01800 SF3a120_C Ubiquitin-li 99.0 1.4E-09 3.1E-14 57.9 5.0 43 34-76 9-51 (76)
40 cd01808 hPLIC_N Ubiquitin-like 99.0 8.7E-10 1.9E-14 58.0 4.1 46 3-48 12-58 (71)
41 KOG0004 Ubiquitin/40S ribosoma 99.0 2.8E-10 6.1E-15 67.6 1.8 48 1-48 11-59 (156)
42 smart00213 UBQ Ubiquitin homol 99.0 1.5E-09 3.3E-14 55.2 4.4 47 2-48 11-58 (64)
43 cd01805 RAD23_N Ubiquitin-like 99.0 2.8E-09 6E-14 56.6 5.3 42 35-76 13-56 (77)
44 cd01804 midnolin_N Ubiquitin-l 98.9 1.6E-09 3.4E-14 58.1 4.3 41 35-75 14-54 (78)
45 cd01808 hPLIC_N Ubiquitin-like 98.9 2.9E-09 6.3E-14 56.0 4.5 41 36-76 13-53 (71)
46 cd01813 UBP_N UBP ubiquitin pr 98.9 4.2E-09 9.1E-14 56.0 4.6 42 35-76 12-56 (74)
47 cd01815 BMSC_UbP_N Ubiquitin-l 98.9 2.5E-09 5.3E-14 57.1 3.3 39 10-48 20-62 (75)
48 cd01803 Ubiquitin Ubiquitin. U 98.9 7.2E-09 1.6E-13 54.7 4.8 41 36-76 14-54 (76)
49 cd01815 BMSC_UbP_N Ubiquitin-l 98.9 6.4E-09 1.4E-13 55.5 4.5 37 40-76 18-57 (75)
50 cd01812 BAG1_N Ubiquitin-like 98.9 6.5E-09 1.4E-13 54.3 4.5 41 35-75 12-52 (71)
51 cd01806 Nedd8 Nebb8-like ubiq 98.9 1.1E-08 2.3E-13 54.0 5.4 41 36-76 14-54 (76)
52 cd01809 Scythe_N Ubiquitin-lik 98.8 1E-08 2.2E-13 53.6 5.1 42 35-76 13-54 (72)
53 cd01799 Hoil1_N Ubiquitin-like 98.8 6.1E-09 1.3E-13 55.6 4.1 38 36-74 16-53 (75)
54 cd01814 NTGP5 Ubiquitin-like N 98.8 2.2E-09 4.7E-14 61.0 2.3 48 5-52 20-75 (113)
55 cd01763 Sumo Small ubiquitin-r 98.8 1.4E-08 3E-13 55.4 4.9 47 2-48 23-70 (87)
56 smart00213 UBQ Ubiquitin homol 98.8 1.9E-08 4.1E-13 51.1 5.0 41 35-75 12-52 (64)
57 KOG0003 Ubiquitin/60s ribosoma 98.8 1E-09 2.2E-14 61.9 0.2 40 36-75 14-53 (128)
58 KOG0004 Ubiquitin/40S ribosoma 98.8 3.7E-09 8E-14 62.9 1.9 40 36-75 14-53 (156)
59 TIGR00601 rad23 UV excision re 98.8 2.8E-08 6.1E-13 66.7 6.1 48 1-48 11-62 (378)
60 cd01792 ISG15_repeat1 ISG15 ub 98.7 1.5E-08 3.1E-13 54.5 3.4 40 36-75 16-57 (80)
61 cd01769 UBL Ubiquitin-like dom 98.7 8.3E-08 1.8E-12 49.3 5.7 47 2-48 9-56 (69)
62 cd01814 NTGP5 Ubiquitin-like N 98.7 2E-08 4.2E-13 57.2 3.0 40 37-76 20-66 (113)
63 cd01795 USP48_C USP ubiquitin- 98.7 4.8E-08 1E-12 54.5 4.3 42 36-77 18-59 (107)
64 KOG0011 Nucleotide excision re 98.6 7.8E-08 1.7E-12 63.2 3.7 48 2-49 12-62 (340)
65 cd01769 UBL Ubiquitin-like dom 98.5 2.2E-07 4.8E-12 47.7 4.7 41 36-76 11-51 (69)
66 cd01763 Sumo Small ubiquitin-r 98.5 3.5E-07 7.6E-12 49.9 5.1 41 36-76 25-65 (87)
67 TIGR00601 rad23 UV excision re 98.5 2.8E-07 6.1E-12 62.0 5.1 42 35-76 13-57 (378)
68 KOG0010 Ubiquitin-like protein 98.3 4.9E-07 1.1E-11 62.1 3.3 42 35-76 27-68 (493)
69 PF14560 Ubiquitin_2: Ubiquiti 98.2 4.7E-06 1E-10 45.3 5.0 35 2-36 15-49 (87)
70 cd01789 Alp11_N Ubiquitin-like 98.1 9E-06 1.9E-10 44.1 4.3 32 4-35 16-47 (84)
71 PF11976 Rad60-SLD: Ubiquitin- 98.0 1.6E-05 3.4E-10 41.5 4.5 47 2-48 12-60 (72)
72 KOG0001 Ubiquitin and ubiquiti 98.0 3.2E-05 6.8E-10 39.4 5.3 48 1-48 10-58 (75)
73 KOG0011 Nucleotide excision re 98.0 1.1E-05 2.3E-10 53.3 4.0 42 35-76 13-56 (340)
74 cd01788 ElonginB Ubiquitin-lik 97.9 2.6E-05 5.6E-10 44.6 4.6 67 2-68 13-80 (119)
75 PF11976 Rad60-SLD: Ubiquitin- 97.8 8.2E-05 1.8E-09 38.7 4.8 42 35-76 13-55 (72)
76 KOG0010 Ubiquitin-like protein 97.8 2.3E-05 5E-10 54.1 3.0 46 3-48 27-73 (493)
77 PLN02560 enoyl-CoA reductase 97.8 5.4E-05 1.2E-09 49.9 4.5 45 4-48 17-70 (308)
78 KOG0006 E3 ubiquitin-protein l 97.7 6E-05 1.3E-09 50.0 4.3 45 2-46 15-60 (446)
79 cd01811 OASL_repeat1 2'-5' oli 97.7 8.9E-05 1.9E-09 39.4 3.9 45 3-48 13-63 (80)
80 KOG0001 Ubiquitin and ubiquiti 97.7 0.00021 4.6E-09 36.2 5.4 40 36-75 13-52 (75)
81 cd01789 Alp11_N Ubiquitin-like 97.7 0.00012 2.6E-09 39.6 4.3 35 36-70 16-51 (84)
82 KOG0006 E3 ubiquitin-protein l 97.5 0.00016 3.4E-09 48.1 3.9 41 35-75 16-56 (446)
83 PF11543 UN_NPL4: Nuclear pore 97.4 0.00022 4.7E-09 38.4 3.4 33 2-34 15-47 (80)
84 cd00196 UBQ Ubiquitin-like pro 97.4 0.00037 8.1E-09 33.5 4.0 35 3-37 10-44 (69)
85 cd01788 ElonginB Ubiquitin-lik 97.4 0.00033 7.1E-09 40.1 4.1 48 29-76 8-55 (119)
86 KOG4248 Ubiquitin-like protein 97.3 0.00028 6E-09 52.6 3.9 48 1-48 13-61 (1143)
87 cd00196 UBQ Ubiquitin-like pro 97.2 0.0009 1.9E-08 32.1 4.1 39 37-75 12-50 (69)
88 PF14560 Ubiquitin_2: Ubiquiti 97.1 0.0018 4E-08 35.0 4.7 34 35-68 16-49 (87)
89 KOG4248 Ubiquitin-like protein 96.9 0.001 2.2E-08 49.7 3.6 41 36-76 16-56 (1143)
90 PF13881 Rad60-SLD_2: Ubiquiti 96.9 0.0039 8.5E-08 35.5 5.1 46 3-48 16-69 (111)
91 PF13881 Rad60-SLD_2: Ubiquiti 96.7 0.0017 3.7E-08 37.0 2.4 41 36-76 17-64 (111)
92 PF10302 DUF2407: DUF2407 ubiq 96.7 0.0036 7.9E-08 34.9 3.7 34 41-74 22-57 (97)
93 cd06406 PB1_P67 A PB1 domain i 96.6 0.0068 1.5E-07 32.7 4.4 35 2-36 12-46 (80)
94 PLN02560 enoyl-CoA reductase 96.6 0.005 1.1E-07 40.7 4.5 33 35-67 16-49 (308)
95 cd01801 Tsc13_N Ubiquitin-like 96.3 0.0082 1.8E-07 31.8 3.5 41 8-48 20-64 (77)
96 cd01801 Tsc13_N Ubiquitin-like 96.0 0.0098 2.1E-07 31.4 2.8 36 40-75 20-58 (77)
97 KOG4495 RNA polymerase II tran 95.9 0.014 3.1E-07 32.5 3.2 47 2-48 13-62 (110)
98 cd06411 PB1_p51 The PB1 domain 95.8 0.028 6E-07 30.2 4.2 35 2-36 8-42 (78)
99 KOG3493 Ubiquitin-like protein 95.8 0.0065 1.4E-07 31.6 1.5 31 3-33 14-44 (73)
100 KOG1872 Ubiquitin-specific pro 95.5 0.021 4.6E-07 39.7 3.6 37 4-40 16-53 (473)
101 PF10302 DUF2407: DUF2407 ubiq 95.4 0.036 7.8E-07 30.9 3.8 44 3-46 14-62 (97)
102 PF11470 TUG-UBL1: GLUT4 regul 95.4 0.077 1.7E-06 27.5 4.8 37 37-73 11-47 (65)
103 KOG1872 Ubiquitin-specific pro 95.4 0.041 8.8E-07 38.3 4.7 44 33-76 13-57 (473)
104 PF11543 UN_NPL4: Nuclear pore 95.1 0.037 8.1E-07 29.7 3.1 31 36-66 17-47 (80)
105 PF11470 TUG-UBL1: GLUT4 regul 94.4 0.32 7E-06 25.1 5.5 48 1-48 7-55 (65)
106 KOG1769 Ubiquitin-like protein 94.0 0.19 4.1E-06 28.1 4.4 39 37-75 35-73 (99)
107 smart00455 RBD Raf-like Ras-bi 92.1 0.5 1.1E-05 24.6 4.1 35 2-36 11-45 (70)
108 KOG3439 Protein conjugation fa 92.0 0.43 9.4E-06 27.3 4.0 46 4-49 48-96 (116)
109 PF13019 Telomere_Sde2: Telome 91.8 0.38 8.2E-06 29.3 3.8 30 2-31 16-45 (162)
110 PF14533 USP7_C2: Ubiquitin-sp 90.9 0.39 8.5E-06 30.1 3.4 27 2-28 134-160 (213)
111 cd01760 RBD Ubiquitin-like dom 90.4 0.93 2E-05 23.9 4.1 35 3-37 12-46 (72)
112 KOG4583 Membrane-associated ER 90.3 0.14 3E-06 34.6 1.0 41 36-76 25-67 (391)
113 PF14533 USP7_C2: Ubiquitin-sp 90.1 1.9 4.1E-05 27.0 6.0 28 2-29 35-62 (213)
114 cd01811 OASL_repeat1 2'-5' oli 89.7 0.98 2.1E-05 24.2 3.8 32 36-68 14-45 (80)
115 KOG0013 Uncharacterized conser 89.5 0.54 1.2E-05 29.9 3.1 32 5-36 161-192 (231)
116 KOG1769 Ubiquitin-like protein 89.2 1.5 3.3E-05 24.6 4.5 46 3-48 33-79 (99)
117 cd06406 PB1_P67 A PB1 domain i 89.0 1.5 3.3E-05 23.7 4.2 36 36-71 14-49 (80)
118 smart00666 PB1 PB1 domain. Pho 88.5 1.9 4.1E-05 22.4 4.5 34 2-35 12-45 (81)
119 PF04110 APG12: Ubiquitin-like 88.2 2.7 5.9E-05 23.0 5.0 50 4-53 19-71 (87)
120 cd06409 PB1_MUG70 The MUG70 pr 86.9 2.7 5.8E-05 22.9 4.5 35 1-35 11-48 (86)
121 cd01776 Rin1_RA Ubiquitin doma 86.8 1.9 4.1E-05 23.5 3.8 53 3-55 16-74 (87)
122 KOG4495 RNA polymerase II tran 86.6 1.1 2.4E-05 25.1 2.9 34 34-67 13-46 (110)
123 KOG4250 TANK binding protein k 86.2 1.2 2.5E-05 33.0 3.5 35 3-37 327-361 (732)
124 cd06411 PB1_p51 The PB1 domain 85.5 3.6 7.9E-05 22.1 4.5 36 34-69 8-43 (78)
125 KOG3206 Alpha-tubulin folding 85.3 1.2 2.7E-05 28.3 2.9 30 6-35 18-47 (234)
126 PF02192 PI3K_p85B: PI3-kinase 85.3 1.8 4E-05 23.2 3.3 21 3-23 2-22 (78)
127 COG5227 SMT3 Ubiquitin-like pr 84.3 4.6 0.0001 22.4 4.6 40 37-76 39-78 (103)
128 KOG0013 Uncharacterized conser 84.2 1.3 2.8E-05 28.2 2.7 41 35-75 159-199 (231)
129 PF15044 CLU_N: Mitochondrial 82.5 2.2 4.7E-05 22.6 2.8 42 7-48 1-44 (76)
130 KOG4250 TANK binding protein k 80.9 3.1 6.7E-05 30.9 3.9 37 35-71 327-363 (732)
131 smart00143 PI3K_p85B PI3-kinas 80.8 2.5 5.4E-05 22.7 2.7 25 3-27 2-27 (78)
132 cd01612 APG12_C Ubiquitin-like 80.7 5.1 0.00011 21.8 3.9 47 5-51 20-69 (87)
133 PF02196 RBD: Raf-like Ras-bin 79.9 5.8 0.00013 20.6 3.9 33 3-35 13-45 (71)
134 PF12436 USP7_ICP0_bdg: ICP0-b 79.7 14 0.00029 23.8 6.3 31 5-35 89-119 (249)
135 PF14836 Ubiquitin_3: Ubiquiti 79.5 6.8 0.00015 21.5 4.2 33 2-35 15-47 (88)
136 PF00564 PB1: PB1 domain; Int 79.5 6.9 0.00015 20.3 4.2 31 5-35 16-46 (84)
137 cd06410 PB1_UP2 Uncharacterize 79.3 8.6 0.00019 21.3 6.5 63 1-64 23-91 (97)
138 PTZ00380 microtubule-associate 79.0 6.4 0.00014 22.9 4.2 51 6-57 46-98 (121)
139 cd06407 PB1_NLP A PB1 domain i 77.3 9.1 0.0002 20.5 4.5 34 2-35 11-45 (82)
140 PF12436 USP7_ICP0_bdg: ICP0-b 76.8 6.8 0.00015 25.1 4.3 33 2-34 191-223 (249)
141 cd01611 GABARAP Ubiquitin doma 75.5 12 0.00026 21.3 4.6 49 6-54 46-96 (112)
142 cd01817 RGS12_RBD Ubiquitin do 74.6 9.7 0.00021 20.2 3.8 33 4-36 13-45 (73)
143 PF09379 FERM_N: FERM N-termin 74.6 9.8 0.00021 19.5 6.2 34 2-35 8-42 (80)
144 cd05992 PB1 The PB1 domain is 72.8 11 0.00024 19.3 4.8 33 3-35 12-45 (81)
145 cd01768 RA RA (Ras-associating 71.3 13 0.00028 19.5 4.0 26 3-28 15-40 (87)
146 COG5227 SMT3 Ubiquitin-like pr 70.9 16 0.00035 20.3 4.8 46 3-48 37-83 (103)
147 cd01818 TIAM1_RBD Ubiquitin do 70.1 13 0.00028 19.9 3.6 34 2-35 11-44 (77)
148 cd06398 PB1_Joka2 The PB1 doma 68.8 16 0.00035 20.0 4.0 27 9-35 23-50 (91)
149 cd01777 SNX27_RA Ubiquitin dom 68.0 15 0.00033 20.1 3.7 40 2-41 13-52 (87)
150 PF12563 Hemolysin_N: Hemolyti 67.3 17 0.00037 22.7 4.2 44 29-72 75-122 (187)
151 smart00295 B41 Band 4.1 homolo 65.8 13 0.00028 22.3 3.6 26 2-27 15-40 (207)
152 PRK05738 rplW 50S ribosomal pr 65.1 17 0.00037 19.9 3.6 30 2-31 22-51 (92)
153 smart00314 RA Ras association 64.6 15 0.00033 19.4 3.4 27 3-29 18-44 (90)
154 TIGR00824 EIIA-man PTS system, 64.2 24 0.00052 19.9 4.5 33 3-35 31-64 (116)
155 PF13019 Telomere_Sde2: Telome 64.1 26 0.00055 21.4 4.5 38 35-72 17-56 (162)
156 PF08337 Plexin_cytopl: Plexin 64.0 9.4 0.0002 27.6 3.0 25 3-27 204-230 (539)
157 cd01787 GRB7_RA RA (RAS-associ 62.9 22 0.00048 19.4 3.7 30 2-31 14-43 (85)
158 KOG0007 Splicing factor 3a, su 62.8 2.6 5.7E-05 28.3 0.2 35 41-75 302-336 (341)
159 PF00276 Ribosomal_L23: Riboso 61.0 15 0.00033 19.9 3.0 27 3-29 23-49 (91)
160 PF00788 RA: Ras association ( 60.9 22 0.00049 18.5 4.3 50 2-51 18-76 (93)
161 COG0481 LepA Membrane GTPase L 59.6 24 0.00053 25.6 4.3 62 9-70 141-204 (603)
162 PF08299 Bac_DnaA_C: Bacterial 57.9 6.7 0.00015 20.2 1.2 20 12-31 1-20 (70)
163 PF10407 Cytokin_check_N: Cdc1 57.3 24 0.00051 18.7 3.2 23 2-24 4-26 (73)
164 PF13439 Glyco_transf_4: Glyco 56.2 13 0.00027 21.1 2.3 28 47-75 149-176 (177)
165 PF12754 Blt1: Cell-cycle cont 56.0 3.8 8.2E-05 27.5 0.0 39 10-48 103-157 (309)
166 PTZ00380 microtubule-associate 55.9 17 0.00037 21.1 2.7 32 38-69 46-77 (121)
167 KOG4038 cGMP-phosphodiesterase 55.7 5.1 0.00011 23.4 0.5 15 62-76 77-91 (150)
168 PF12754 Blt1: Cell-cycle cont 54.8 4.1 8.8E-05 27.3 0.0 31 42-72 103-148 (309)
169 smart00166 UBX Domain present 54.3 30 0.00066 17.9 4.2 33 3-35 17-49 (80)
170 TIGR03636 L23_arch archaeal ri 53.8 33 0.00072 18.2 3.6 30 2-31 16-45 (77)
171 TIGR01682 moaD molybdopterin c 52.0 28 0.0006 18.0 3.0 22 3-24 18-40 (80)
172 cd01816 Raf_RBD Ubiquitin doma 51.6 30 0.00066 18.4 3.0 28 4-31 13-40 (74)
173 PRK14548 50S ribosomal protein 50.3 41 0.00088 18.2 3.6 29 2-30 23-51 (84)
174 PF14044 NETI: NETI protein 50.1 27 0.00059 17.6 2.6 22 5-27 2-23 (57)
175 cd00754 MoaD Ubiquitin domain 49.0 35 0.00075 17.3 3.1 22 3-24 18-39 (80)
176 PF14178 YppF: YppF-like prote 48.9 25 0.00053 17.9 2.3 46 11-56 1-50 (60)
177 cd00006 PTS_IIA_man PTS_IIA, P 48.2 49 0.0011 18.5 4.4 33 3-35 30-63 (122)
178 KOG0012 DNA damage inducible p 47.9 16 0.00036 25.1 2.0 38 37-74 17-54 (380)
179 PF02017 CIDE-N: CIDE-N domain 47.0 45 0.00098 17.8 3.4 21 12-32 22-42 (78)
180 PF01282 Ribosomal_S24e: Ribos 47.0 39 0.00084 18.2 3.1 25 9-33 11-35 (84)
181 cd01770 p47_UBX p47-like ubiqu 46.9 44 0.00095 17.6 3.3 33 2-34 16-49 (79)
182 PLN02799 Molybdopterin synthas 46.3 39 0.00084 17.5 3.0 22 3-24 21-42 (82)
183 PF14420 Clr5: Clr5 domain 46.3 28 0.0006 17.0 2.3 22 8-29 18-39 (54)
184 PF09358 UBA_e1_C: Ubiquitin-a 46.2 46 0.001 19.2 3.5 24 38-61 38-61 (125)
185 PF00789 UBX: UBX domain; Int 44.8 45 0.00098 17.2 4.3 33 2-34 18-51 (82)
186 PF02991 Atg8: Autophagy prote 43.1 61 0.0013 18.2 5.3 50 7-57 39-91 (104)
187 TIGR01687 moaD_arch MoaD famil 43.0 48 0.001 17.3 3.1 21 3-24 18-38 (88)
188 COG0089 RplW Ribosomal protein 42.8 58 0.0012 18.1 3.4 29 2-30 23-51 (94)
189 PF11620 GABP-alpha: GA-bindin 42.7 59 0.0013 17.9 3.9 32 4-35 6-37 (88)
190 COG3933 Transcriptional antite 42.6 24 0.00053 25.1 2.2 52 3-61 142-193 (470)
191 PF12689 Acid_PPase: Acid Phos 42.2 79 0.0017 19.2 5.8 29 5-35 102-130 (169)
192 CHL00030 rpl23 ribosomal prote 41.3 63 0.0014 17.8 3.5 29 2-30 21-49 (93)
193 smart00760 Bac_DnaA_C Bacteria 41.3 22 0.00048 17.5 1.5 20 12-31 1-20 (60)
194 KOG3076 5'-phosphoribosylglyci 41.3 43 0.00093 21.2 3.0 23 3-25 160-182 (206)
195 smart00266 CAD Domains present 41.2 57 0.0012 17.3 3.2 21 11-31 19-39 (74)
196 KOG2561 Adaptor protein NUB1, 40.8 29 0.00062 24.9 2.4 51 24-74 33-91 (568)
197 COG0299 PurN Folate-dependent 40.8 37 0.00081 21.5 2.7 22 4-25 153-174 (200)
198 PRK13011 formyltetrahydrofolat 40.4 36 0.00078 22.4 2.7 23 3-25 238-260 (286)
199 KOG4598 Putative ubiquitin-spe 39.7 38 0.00082 26.0 2.9 33 2-34 878-910 (1203)
200 PF11834 DUF3354: Domain of un 38.9 51 0.0011 17.1 2.6 33 41-74 24-56 (69)
201 PF02037 SAP: SAP domain; Int 38.8 40 0.00086 14.8 2.1 18 10-28 3-20 (35)
202 TIGR00655 PurU formyltetrahydr 38.8 40 0.00086 22.2 2.7 23 3-25 233-255 (280)
203 cd05885 Ig2_Necl-4 Second immu 38.5 45 0.00098 17.6 2.5 19 56-74 10-28 (80)
204 PF08783 DWNN: DWNN domain; I 38.2 31 0.00066 18.2 1.8 17 10-26 20-36 (74)
205 PF06543 Lac_bphage_repr: Lact 38.2 16 0.00035 17.7 0.7 12 64-75 23-34 (49)
206 PF14552 Tautomerase_2: Tautom 37.7 67 0.0015 17.1 4.3 50 26-75 23-79 (82)
207 PF11816 DUF3337: Domain of un 37.6 80 0.0017 21.2 4.1 53 12-68 259-327 (331)
208 PRK15492 triosephosphate isome 37.4 1.2E+02 0.0026 19.8 4.9 62 10-71 144-221 (260)
209 PF14451 Ub-Mut7C: Mut7-C ubiq 37.2 69 0.0015 17.1 3.3 32 36-71 26-58 (81)
210 PF07984 DUF1693: Domain of un 36.9 29 0.00062 23.5 1.8 30 4-34 27-56 (320)
211 PF03610 EIIA-man: PTS system 36.8 77 0.0017 17.5 3.9 20 36-55 31-50 (116)
212 PF08825 E2_bind: E2 binding d 36.0 73 0.0016 17.1 3.1 21 5-25 1-21 (84)
213 PRK13010 purU formyltetrahydro 35.1 49 0.0011 21.9 2.7 23 3-25 242-264 (289)
214 KOG0071 GTP-binding ADP-ribosy 34.1 1.1E+02 0.0025 18.7 4.0 44 28-71 83-128 (180)
215 PF13085 Fer2_3: 2Fe-2S iron-s 33.7 76 0.0016 18.0 3.0 23 2-24 20-42 (110)
216 cd05864 Ig2_VEGFR-2 Second imm 33.5 44 0.00095 16.8 1.9 19 56-74 8-26 (70)
217 cd04887 ACT_MalLac-Enz ACT_Mal 33.4 37 0.0008 16.8 1.6 25 3-27 44-68 (74)
218 cd01615 CIDE_N CIDE_N domain, 32.9 84 0.0018 16.8 3.2 21 11-31 21-41 (78)
219 PF08043 Xin: Xin repeat; Int 32.8 37 0.0008 12.6 1.2 13 61-73 4-16 (16)
220 smart00513 SAP Putative DNA-bi 32.7 51 0.0011 14.3 2.4 18 10-28 3-20 (35)
221 PRK14125 cell division suppres 32.4 47 0.001 18.6 2.0 18 3-20 37-54 (103)
222 PF06200 tify: tify domain; I 31.7 59 0.0013 14.7 2.0 13 60-72 5-17 (36)
223 cd05855 Ig_TrkB_d5 Fifth domai 31.6 55 0.0012 17.1 2.1 19 56-74 8-26 (79)
224 cd06397 PB1_UP1 Uncharacterize 31.4 93 0.002 16.9 3.9 30 6-35 15-44 (82)
225 PF01187 MIF: Macrophage migra 31.0 81 0.0018 17.5 2.9 23 13-35 76-98 (114)
226 PF12949 HeH: HeH/LEM domain; 30.9 44 0.00096 15.0 1.4 17 10-27 3-19 (35)
227 cd08010 yceG_like proteins sim 30.4 71 0.0015 20.6 2.9 26 3-28 29-54 (245)
228 PRK12280 rplW 50S ribosomal pr 29.8 1.3E+02 0.0027 18.4 3.7 31 2-32 24-54 (158)
229 KOG1654 Microtubule-associated 29.8 84 0.0018 18.1 2.7 33 37-69 49-81 (116)
230 KOG2982 Uncharacterized conser 29.6 50 0.0011 22.8 2.1 28 8-35 355-382 (418)
231 KOG3157 Proline synthetase co- 29.0 35 0.00076 22.0 1.2 23 12-34 187-209 (244)
232 cd02413 40S_S3_KH K homology R 28.4 1E+02 0.0022 16.3 3.1 23 9-31 48-70 (81)
233 PRK01777 hypothetical protein; 28.3 1.1E+02 0.0024 16.8 3.4 13 4-16 20-32 (95)
234 cd04888 ACT_PheB-BS C-terminal 28.2 64 0.0014 15.9 2.0 24 3-26 45-69 (76)
235 COG3900 Predicted periplasmic 28.1 53 0.0012 21.4 1.9 27 8-34 122-148 (262)
236 smart00144 PI3K_rbd PI3-kinase 28.1 98 0.0021 17.2 2.9 22 2-23 30-51 (108)
237 cd05859 Ig4_PDGFR-alpha Fourth 28.1 69 0.0015 17.4 2.2 19 57-75 29-47 (101)
238 KOG3084 NADH pyrophosphatase I 27.8 68 0.0015 22.0 2.4 28 7-34 222-250 (345)
239 cd06539 CIDE_N_A CIDE_N domain 27.6 1.1E+02 0.0024 16.4 3.2 20 12-31 22-41 (78)
240 cd07702 Ig2_VEGFR-1 Second imm 27.5 74 0.0016 16.2 2.2 19 56-74 8-26 (72)
241 cd01775 CYR1_RA Ubiquitin doma 27.4 1.2E+02 0.0027 16.9 4.3 33 3-35 15-48 (97)
242 COG4957 Predicted transcriptio 27.3 47 0.001 19.9 1.5 29 36-64 77-105 (148)
243 PF05402 PqqD: Coenzyme PQQ sy 27.0 60 0.0013 16.0 1.7 22 8-29 27-48 (68)
244 PF12085 DUF3562: Protein of u 26.9 68 0.0015 16.7 1.9 40 10-49 3-45 (66)
245 PF00403 HMA: Heavy-metal-asso 26.6 87 0.0019 14.9 2.7 47 7-54 7-58 (62)
246 KOG2432 Uncharacterized conser 26.4 21 0.00045 25.6 -0.1 50 6-65 512-562 (565)
247 PF08766 DEK_C: DEK C terminal 25.9 45 0.00097 16.1 1.1 20 11-30 21-40 (54)
248 cd05863 Ig2_VEGFR-3 Second imm 25.6 65 0.0014 16.2 1.7 18 56-73 8-25 (67)
249 PF03927 NapD: NapD protein; 25.5 1.1E+02 0.0025 16.0 4.1 55 3-58 8-66 (79)
250 PF07687 M20_dimer: Peptidase 25.5 82 0.0018 16.7 2.2 21 3-23 83-103 (111)
251 PRK08453 fliD flagellar cappin 25.4 74 0.0016 23.8 2.5 21 2-22 139-159 (673)
252 cd06536 CIDE_N_ICAD CIDE_N dom 25.1 1.2E+02 0.0027 16.3 3.1 18 11-28 21-38 (80)
253 KOG0070 GTP-binding ADP-ribosy 25.1 1.7E+02 0.0037 18.2 3.7 43 29-71 84-128 (181)
254 PTZ00397 macrophage migration 24.6 1.3E+02 0.0028 16.7 3.0 22 14-35 79-100 (116)
255 cd04976 Ig2_VEGFR Second immun 24.3 81 0.0018 15.6 1.9 19 56-74 8-26 (71)
256 cd04971 Ig_TrKABC_d5 Fifth dom 24.2 93 0.002 16.0 2.2 19 56-74 8-26 (81)
257 PRK15088 PTS system mannose-sp 24.1 2.3E+02 0.0051 19.1 4.5 33 3-35 32-65 (322)
258 PRK06027 purU formyltetrahydro 24.0 1E+02 0.0022 20.3 2.7 23 3-25 238-260 (286)
259 PLN02828 formyltetrahydrofolat 24.0 1E+02 0.0022 20.3 2.7 23 3-25 220-242 (268)
260 PTZ00191 60S ribosomal protein 23.9 1.7E+02 0.0038 17.5 3.6 29 2-30 84-112 (145)
261 KOG4572 Predicted DNA-binding 23.6 1.4E+02 0.003 23.6 3.6 39 10-48 15-55 (1424)
262 cd01774 Faf1_like2_UBX Faf1 ik 23.5 1.3E+02 0.0029 16.0 5.7 33 3-36 17-49 (85)
263 PLN02331 phosphoribosylglycina 23.3 1.1E+02 0.0024 19.2 2.7 21 4-24 157-177 (207)
264 PF13363 BetaGal_dom3: Beta-ga 22.9 59 0.0013 17.4 1.3 17 57-73 52-68 (79)
265 cd05868 Ig4_NrCAM Fourth immun 22.6 85 0.0018 15.7 1.8 18 56-73 11-28 (76)
266 KOG4572 Predicted DNA-binding 22.0 1.4E+02 0.0029 23.6 3.3 42 30-72 4-46 (1424)
267 TIGR03676 aRF1/eRF1 peptide ch 22.0 2.8E+02 0.0061 19.3 4.7 67 3-72 23-89 (403)
268 COG5226 CEG1 mRNA capping enzy 21.9 1.2E+02 0.0026 20.9 2.8 28 8-35 18-51 (404)
269 PF14535 AMP-binding_C_2: AMP- 21.9 1.5E+02 0.0032 15.9 3.5 15 14-28 58-72 (96)
270 PF00551 Formyl_trans_N: Formy 21.7 1.2E+02 0.0027 18.2 2.6 20 4-23 153-172 (181)
271 TIGR03031 cas_csx12 CRISPR-ass 21.7 49 0.0011 24.8 1.0 24 11-35 583-606 (802)
272 PF14453 ThiS-like: ThiS-like 21.6 1.3E+02 0.0028 15.1 3.7 30 38-73 11-40 (57)
273 cd06408 PB1_NoxR The PB1 domai 21.4 1.6E+02 0.0034 16.1 4.5 26 2-27 13-38 (86)
274 PRK04435 hypothetical protein; 21.3 1E+02 0.0022 18.2 2.2 24 3-26 114-138 (147)
275 cd04876 ACT_RelA-SpoT ACT dom 21.2 88 0.0019 14.1 1.7 21 6-26 46-66 (71)
276 cd01773 Faf1_like1_UBX Faf1 ik 21.1 1.5E+02 0.0033 15.9 4.4 32 3-35 18-49 (82)
277 PF00571 CBS: CBS domain CBS d 21.1 1.1E+02 0.0023 14.0 2.8 19 5-23 10-28 (57)
278 PF00794 PI3K_rbd: PI3-kinase 21.0 1.6E+02 0.0035 16.0 3.1 22 2-23 29-50 (106)
279 PRK11130 moaD molybdopterin sy 20.7 1.4E+02 0.0031 15.4 2.7 20 5-24 19-39 (81)
280 COG2747 FlgM Negative regulato 20.5 74 0.0016 17.6 1.4 12 11-22 61-72 (93)
281 PF13291 ACT_4: ACT domain; PD 20.5 54 0.0012 16.7 0.8 23 3-25 52-74 (80)
282 PF13579 Glyco_trans_4_4: Glyc 20.4 97 0.0021 16.9 1.9 21 48-69 140-160 (160)
283 KOG1639 Steroid reductase requ 20.4 1.2E+02 0.0026 20.2 2.4 34 5-38 17-51 (297)
284 PF14813 NADH_B2: NADH dehydro 20.3 53 0.0012 17.3 0.7 9 22-30 61-69 (71)
285 cd05749 Ig2_Tyro3_like Second 20.1 1.1E+02 0.0024 15.8 2.0 19 56-74 23-42 (81)
286 PRK02929 L-arabinose isomerase 20.0 3.5E+02 0.0076 19.6 5.3 43 3-54 448-490 (499)
287 cd04885 ACT_ThrD-I Tandem C-te 20.0 1.3E+02 0.0029 14.8 2.7 24 3-27 42-65 (68)
No 1
>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=99.42 E-value=3.6e-13 Score=71.10 Aligned_cols=48 Identities=17% Similarity=0.230 Sum_probs=43.2
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++++++|++++||++||++|++.+|+|+++|+|+|.+ .++++.++.++
T Consensus 9 ~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~ 57 (70)
T cd01794 9 KDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQET 57 (70)
T ss_pred CEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHc
Confidence 4689999999999999999999999999999999986 56888888876
No 2
>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=99.40 E-value=4.1e-13 Score=71.32 Aligned_cols=48 Identities=19% Similarity=0.255 Sum_probs=43.2
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++++++|++++||++||++|++.+|+|+++|+|+|.+ .++++.+++++
T Consensus 9 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~ 57 (74)
T cd01793 9 NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQC 57 (74)
T ss_pred CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHc
Confidence 4688999999999999999999999999999999986 66888898887
No 3
>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=99.34 E-value=4.8e-12 Score=67.29 Aligned_cols=47 Identities=13% Similarity=0.176 Sum_probs=41.5
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
.+.++++|++||++||++|++..|+|+++|+|+|.+ -++++.++.++
T Consensus 13 ~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~y 60 (73)
T cd01791 13 KVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDY 60 (73)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHc
Confidence 578899999999999999999999999999999987 44677788887
No 4
>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=99.33 E-value=6.4e-12 Score=66.68 Aligned_cols=48 Identities=17% Similarity=0.277 Sum_probs=42.1
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++++++|++++||++||++|++..|+|+++|+|+|.+ .+.++.+++++
T Consensus 11 ~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~ 59 (74)
T cd01807 11 RECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDY 59 (74)
T ss_pred CEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHC
Confidence 3578899999999999999999999999999999986 66888888887
No 5
>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=99.30 E-value=1.3e-11 Score=65.57 Aligned_cols=48 Identities=13% Similarity=0.188 Sum_probs=43.0
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++++++++++||++||++|++..|+|+++|+|+|.+ .+.++.++.++
T Consensus 9 ~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~ 57 (74)
T cd01810 9 RSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEY 57 (74)
T ss_pred CEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHc
Confidence 4688999999999999999999999999999999986 56888888876
No 6
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=2.8e-12 Score=65.18 Aligned_cols=48 Identities=27% Similarity=0.481 Sum_probs=40.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNVK 49 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~lK 49 (77)
.+.++++|.|+|+.+|+++++++||||.+|||+|++ .+.++.|..+++
T Consensus 12 eIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~ 60 (70)
T KOG0005|consen 12 EIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYN 60 (70)
T ss_pred eEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhh
Confidence 467888999999999999999999999999999986 666777777775
No 7
>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=99.29 E-value=1.2e-11 Score=65.87 Aligned_cols=47 Identities=15% Similarity=0.268 Sum_probs=42.1
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEE---EE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT---TL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~---~~-~v~~~~tv~~l 48 (77)
++.++|++++||++||++|++..|+|+++|+|+| .+ .+.++.++.++
T Consensus 11 ~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~ 61 (74)
T cd01813 11 EYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISAL 61 (74)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHc
Confidence 6889999999999999999999999999999997 44 45778888887
No 8
>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=99.28 E-value=1.9e-11 Score=64.56 Aligned_cols=48 Identities=27% Similarity=0.256 Sum_probs=38.6
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCC-ccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSS-DTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~-~tv~~l 48 (77)
+++++++++++||++||.+|++.+|+|+++|+|+|.+ .+.++ .+++++
T Consensus 10 ~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~ 59 (71)
T cd01796 10 TTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALY 59 (71)
T ss_pred CEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHc
Confidence 3578899999999999999999999999999999886 45554 466666
No 9
>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=99.26 E-value=9.5e-12 Score=65.33 Aligned_cols=48 Identities=25% Similarity=0.456 Sum_probs=41.9
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++++++++++||++||.+|++..|+|+++|+|+|.+ .++++.+++++
T Consensus 9 ~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~ 57 (70)
T cd01798 9 HTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQEC 57 (70)
T ss_pred CEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHc
Confidence 3678999999999999999999999999999999986 66888888876
No 10
>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=99.24 E-value=1.3e-11 Score=69.46 Aligned_cols=48 Identities=38% Similarity=0.388 Sum_probs=40.9
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++++++|++++||++||++|++.+|+|+++|+|+|.+ .+.++.+++++
T Consensus 38 ~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy 86 (103)
T cd01802 38 TCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDY 86 (103)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHc
Confidence 3578899999999999999999999999999999886 56788888877
No 11
>PTZ00044 ubiquitin; Provisional
Probab=99.24 E-value=1.6e-11 Score=65.19 Aligned_cols=48 Identities=23% Similarity=0.350 Sum_probs=42.7
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++++++++++||++||.+|++..|+|++.|+|+|.+ .++++.+++++
T Consensus 11 ~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~ 59 (76)
T PTZ00044 11 KKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDY 59 (76)
T ss_pred CEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHc
Confidence 3688999999999999999999999999999999986 56778888877
No 12
>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=99.23 E-value=1.7e-11 Score=66.01 Aligned_cols=51 Identities=14% Similarity=0.016 Sum_probs=41.0
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhC--CCcccceEEEEEEe-cCCccHHHHHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEG--IPPDQQRLITTLEV-KSSDTINNVKSKI 52 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~g--i~~~~q~L~~~~~v-~~~~tv~~lK~~i 52 (77)
.|.+++++++||++||++|++..+ .|+++|+|||.+.+ .++.++.++...+
T Consensus 15 ~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~ 68 (79)
T cd01790 15 DQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQ 68 (79)
T ss_pred EEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcc
Confidence 477778999999999999998764 55799999999854 7888888885443
No 13
>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=99.23 E-value=2.3e-11 Score=64.11 Aligned_cols=42 Identities=36% Similarity=0.502 Sum_probs=39.1
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.+++++++||.++|+.|++.+|+|+++|+|+|+|++|+|..
T Consensus 11 ~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~ 52 (70)
T cd01794 11 VKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKT 52 (70)
T ss_pred EEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCC
Confidence 467899999999999999999999999999999999999864
No 14
>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=99.23 E-value=2.9e-11 Score=64.18 Aligned_cols=42 Identities=33% Similarity=0.545 Sum_probs=39.2
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.+++++++||+++|+.|++.+|+|+++|+|+|+|++|+|.-
T Consensus 11 ~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~ 52 (74)
T cd01793 11 HTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDA 52 (74)
T ss_pred EEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCC
Confidence 467899999999999999999999999999999999999864
No 15
>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=99.23 E-value=2e-11 Score=65.18 Aligned_cols=48 Identities=23% Similarity=0.372 Sum_probs=43.4
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++++++++++||++||++|++..|+|++.|+|+|.+ .++++.+++++
T Consensus 8 ~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~ 56 (76)
T cd01800 8 QMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYY 56 (76)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHc
Confidence 4689999999999999999999999999999999986 56778888887
No 16
>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=99.20 E-value=8.5e-11 Score=62.77 Aligned_cols=47 Identities=19% Similarity=0.287 Sum_probs=41.1
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-Ee-cCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EV-KSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v-~~~~tv~~l 48 (77)
.+++++|++++||++||++|++.+|||++.|+| |.+ .+ +++.+++++
T Consensus 13 ~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~y 61 (75)
T cd01799 13 VTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSH 61 (75)
T ss_pred CeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHc
Confidence 368899999999999999999999999999999 775 55 466788877
No 17
>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=99.20 E-value=4.7e-11 Score=63.32 Aligned_cols=42 Identities=26% Similarity=0.493 Sum_probs=39.0
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.+++++++||.++|+.|+++.|+|+++|+|+|+|++|+|..
T Consensus 13 ~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~ 54 (74)
T cd01807 13 CSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDK 54 (74)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCC
Confidence 357889999999999999999999999999999999999864
No 18
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=1.1e-11 Score=63.04 Aligned_cols=41 Identities=37% Similarity=0.786 Sum_probs=38.2
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+++++++.|+.+|..++++.|+||.+|+|+|.|++|.|+.
T Consensus 14 eidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~ 54 (70)
T KOG0005|consen 14 EIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDK 54 (70)
T ss_pred EEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccc
Confidence 46789999999999999999999999999999999998865
No 19
>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=99.17 E-value=6.9e-11 Score=62.36 Aligned_cols=41 Identities=32% Similarity=0.473 Sum_probs=38.6
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
+.++++++.||.++|..|++.+|+|+++|+|+|+|++|+|.
T Consensus 12 ~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~ 52 (71)
T cd01796 12 FSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDN 52 (71)
T ss_pred EEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCC
Confidence 46889999999999999999999999999999999999875
No 20
>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=99.16 E-value=9.6e-11 Score=61.05 Aligned_cols=47 Identities=32% Similarity=0.528 Sum_probs=41.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++.++|++++||++||.+|++..|+|++.|+|+|.+ .++++.++.++
T Consensus 7 ~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~ 54 (69)
T PF00240_consen 7 TFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDY 54 (69)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGG
T ss_pred EEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHc
Confidence 578999999999999999999999999999999975 56888888887
No 21
>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=99.15 E-value=5.6e-11 Score=63.85 Aligned_cols=46 Identities=20% Similarity=0.224 Sum_probs=39.8
Q ss_pred EEEE-eeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 3 LLLM-WKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 3 ~~~~-v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++++ +++++||++||++|++..|+|+++|+|+|.+ .+.++.+++++
T Consensus 14 ~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y 61 (78)
T cd01797 14 RTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDY 61 (78)
T ss_pred EEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHc
Confidence 5674 7889999999999999999999999999986 66888888887
No 22
>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=99.13 E-value=2.6e-10 Score=59.63 Aligned_cols=47 Identities=19% Similarity=0.246 Sum_probs=40.1
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++.+++++++||++||++|++..|+|++.|+|+|.+ .+.++.++.++
T Consensus 11 ~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~ 58 (71)
T cd01812 11 SHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMS 58 (71)
T ss_pred EEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHc
Confidence 578899999999999999999999999999999885 45666677666
No 23
>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=99.12 E-value=4.2e-10 Score=59.80 Aligned_cols=48 Identities=25% Similarity=0.448 Sum_probs=41.6
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCC--CcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGI--PPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi--~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++.+++++++||++||++|++..|+ |+++|+|+|.+ .+.++.++.++
T Consensus 11 ~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~ 61 (77)
T cd01805 11 QTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEY 61 (77)
T ss_pred CEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHc
Confidence 35789999999999999999999999 99999999986 56777788876
No 24
>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=99.12 E-value=1.8e-10 Score=60.38 Aligned_cols=42 Identities=36% Similarity=0.672 Sum_probs=39.1
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.+++++++||.++|+.|+++.|+|+++|+|+|+|++|+|..
T Consensus 11 ~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~ 52 (70)
T cd01798 11 FPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTT 52 (70)
T ss_pred EEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCC
Confidence 467889999999999999999999999999999999998864
No 25
>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=99.11 E-value=2.6e-10 Score=61.16 Aligned_cols=47 Identities=15% Similarity=0.287 Sum_probs=39.7
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++++++++++||++||.+|++..|+|+++|+|+|.+ .++++ ++.++
T Consensus 12 ~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~ 59 (78)
T cd01804 12 TRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDL 59 (78)
T ss_pred CEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHc
Confidence 3578999999999999999999999999999999986 44555 77766
No 26
>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=99.11 E-value=2.2e-10 Score=60.73 Aligned_cols=42 Identities=24% Similarity=0.372 Sum_probs=39.0
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.++++++.||.++|+.|++..|+|+++|+|+|+|++|+|..
T Consensus 11 ~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~ 52 (74)
T cd01810 11 SIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEH 52 (74)
T ss_pred EEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCC
Confidence 367889999999999999999999999999999999999863
No 27
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.10 E-value=1.6e-10 Score=61.03 Aligned_cols=48 Identities=46% Similarity=0.659 Sum_probs=42.0
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++.+++++++||++||++|++..|+|++.|+|+|.+ .+.++.++.++
T Consensus 11 ~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~ 59 (76)
T cd01803 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59 (76)
T ss_pred CEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHc
Confidence 3678999999999999999999999999999999985 56777777776
No 28
>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=99.09 E-value=3.3e-10 Score=61.00 Aligned_cols=48 Identities=21% Similarity=0.156 Sum_probs=40.0
Q ss_pred ccceEEEEEEecCCccHHHHHHHHhhccC--CCccceEEEECCeEcCccc
Q 040720 29 DQQRLITTLEVKSSDTINNVKSKIQDKEG--IPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 29 ~~q~L~~~~~v~~~~tv~~lK~~i~~~~g--ip~~~q~l~~~g~~L~d~~ 76 (77)
.+...-|.+++++++||.++|..|++..+ .|+++|+|+|+|+.|+|..
T Consensus 10 ~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~ 59 (79)
T cd01790 10 NQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHL 59 (79)
T ss_pred CCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchh
Confidence 44555567778999999999999999874 4579999999999998863
No 29
>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=99.09 E-value=2.4e-10 Score=60.39 Aligned_cols=48 Identities=27% Similarity=0.507 Sum_probs=41.8
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++.+++++++||++||++|++..|+|++.|+|+|.+ .+.++.++.++
T Consensus 11 ~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~ 59 (76)
T cd01806 11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADY 59 (76)
T ss_pred CEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHc
Confidence 3578899999999999999999999999999999886 56777888887
No 30
>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=99.07 E-value=3.6e-10 Score=60.73 Aligned_cols=42 Identities=21% Similarity=0.401 Sum_probs=37.8
Q ss_pred EEEE-ecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLE-VKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~-v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.++ ++++.||.++|..|++..|+|+++|+|+|+|+.|+|..
T Consensus 14 ~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~ 56 (78)
T cd01797 14 RTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGH 56 (78)
T ss_pred EEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCC
Confidence 3553 68899999999999999999999999999999999864
No 31
>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=99.06 E-value=3.3e-10 Score=60.18 Aligned_cols=41 Identities=22% Similarity=0.238 Sum_probs=38.0
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+++++++||.++|..|++..|+|+++|+|+|+|+.|+|..
T Consensus 15 ~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~ 55 (73)
T cd01791 15 RVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHI 55 (73)
T ss_pred EEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCC
Confidence 45889999999999999999999999999999999998863
No 32
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.04 E-value=4.2e-11 Score=67.38 Aligned_cols=48 Identities=46% Similarity=0.643 Sum_probs=42.5
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+|.+++++|++||..||.+|+.++|||++.|+|+|+. .+.+..|++.+
T Consensus 11 KT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y 59 (128)
T KOG0003|consen 11 KTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59 (128)
T ss_pred ceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCccccc
Confidence 4789999999999999999999999999999999975 56777777665
No 33
>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=99.03 E-value=1e-09 Score=57.11 Aligned_cols=43 Identities=47% Similarity=0.721 Sum_probs=39.8
Q ss_pred EEEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 34 ITTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 34 ~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.|.+.+++++||.++|..|+...|+|++.|+|+|+|+.|+|..
T Consensus 7 ~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~ 49 (69)
T PF00240_consen 7 TFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDK 49 (69)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTS
T ss_pred EEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcC
Confidence 4678999999999999999999999999999999999998753
No 34
>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=99.03 E-value=5e-10 Score=58.59 Aligned_cols=48 Identities=27% Similarity=0.439 Sum_probs=40.6
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++++++++++||++||.+|++..|+|++.|+|+|.+ .++++.+++++
T Consensus 11 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~ 59 (72)
T cd01809 11 QTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEY 59 (72)
T ss_pred CEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHC
Confidence 3578899999999999999999999999999999886 45677777776
No 35
>PTZ00044 ubiquitin; Provisional
Probab=99.03 E-value=7.6e-10 Score=58.70 Aligned_cols=42 Identities=31% Similarity=0.532 Sum_probs=38.6
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.+.+++++||.++|+.|++..|+|+++|+|+|+|+.|+|..
T Consensus 13 ~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~ 54 (76)
T PTZ00044 13 QSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDL 54 (76)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCC
Confidence 356888999999999999999999999999999999998863
No 36
>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=99.02 E-value=7.4e-10 Score=62.36 Aligned_cols=41 Identities=41% Similarity=0.537 Sum_probs=38.3
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+.+++++||.++|++|++..|+|+++|+|+|+|+.|+|..
T Consensus 41 ~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~ 81 (103)
T cd01802 41 ELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEY 81 (103)
T ss_pred EEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCC
Confidence 56889999999999999999999999999999999998863
No 37
>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=99.01 E-value=3.6e-10 Score=60.80 Aligned_cols=48 Identities=21% Similarity=0.348 Sum_probs=41.1
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceE--EEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRL--ITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L--~~~~-~v~~~~tv~~l 48 (77)
+++.+++++++||++||++|++..|+|+++|+| +|.+ .+.++.++.++
T Consensus 13 ~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~ 63 (80)
T cd01792 13 NEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQ 63 (80)
T ss_pred CEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHc
Confidence 457889999999999999999999999999999 6665 55777788877
No 38
>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=98.99 E-value=2.1e-09 Score=59.92 Aligned_cols=60 Identities=22% Similarity=0.263 Sum_probs=48.8
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEE-e-cCCccHHHHHHHHhhccCCCccceEEEECCe
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLE-V-KSSDTINNVKSKIQDKEGIPPDQQRLIFAGI 70 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~-v-~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~ 70 (77)
.+++|++++||++||.+|....|+||++|+|+|.+. + +++.|+.++ |+.++.-.++.-..
T Consensus 17 ~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssy--------Gv~sgSvl~Llide 78 (107)
T cd01795 17 KALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTL--------GVIPESVILLKADE 78 (107)
T ss_pred ceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhc--------CCCCCCEEEEEecC
Confidence 578999999999999999999999999999999853 3 677888887 88776655444333
No 39
>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=98.98 E-value=1.4e-09 Score=57.94 Aligned_cols=43 Identities=28% Similarity=0.522 Sum_probs=39.4
Q ss_pred EEEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 34 ITTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 34 ~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+.+.+++++||.++|+.|+...|+|+++|+|+|+|+.|+|..
T Consensus 9 ~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~ 51 (76)
T cd01800 9 MLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSN 51 (76)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCC
Confidence 3568889999999999999999999999999999999998863
No 40
>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=98.98 E-value=8.7e-10 Score=57.98 Aligned_cols=46 Identities=17% Similarity=0.115 Sum_probs=37.0
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
.++++++++||++||++|++..|+|+++|+|+|.+ .+.++.++.++
T Consensus 12 ~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~ 58 (71)
T cd01808 12 EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQH 58 (71)
T ss_pred EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHc
Confidence 36788888888888888888888888888888875 55777777776
No 41
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=98.96 E-value=2.8e-10 Score=67.59 Aligned_cols=48 Identities=48% Similarity=0.657 Sum_probs=42.7
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++++++++++||..+|.+|++.+|||+++|+|+|+. .+.+..+++++
T Consensus 11 kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY 59 (156)
T KOG0004|consen 11 KTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59 (156)
T ss_pred cceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccc
Confidence 3688999999999999999999999999999999985 77777888877
No 42
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.96 E-value=1.5e-09 Score=55.23 Aligned_cols=47 Identities=30% Similarity=0.405 Sum_probs=34.3
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++.+++++++||++||.+|++..|+|++.|+|+|.+ .+.++.++.++
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~ 58 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADY 58 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHc
Confidence 456777788888888888888888887778887764 45556666665
No 43
>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=98.95 E-value=2.8e-09 Score=56.60 Aligned_cols=42 Identities=40% Similarity=0.690 Sum_probs=38.7
Q ss_pred EEEEecCCccHHHHHHHHhhccCC--CccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGI--PPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gi--p~~~q~l~~~g~~L~d~~ 76 (77)
|.+.+++++||.++|+.|++..|+ |+++|+|+|+|++|+|..
T Consensus 13 ~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~ 56 (77)
T cd01805 13 FPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDT 56 (77)
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCC
Confidence 467889999999999999999999 999999999999998863
No 44
>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=98.95 E-value=1.6e-09 Score=58.14 Aligned_cols=41 Identities=20% Similarity=0.349 Sum_probs=38.5
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
+.++++++.||.++|..|+++.++|+++|+|+|+|+.|+|.
T Consensus 14 ~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~ 54 (78)
T cd01804 14 FDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG 54 (78)
T ss_pred EEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC
Confidence 46789999999999999999999999999999999999885
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=98.91 E-value=2.9e-09 Score=55.97 Aligned_cols=41 Identities=27% Similarity=0.338 Sum_probs=38.1
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.++++++.||.++|+.|++..|+|+++|+|+|+|+.|+|.-
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~ 53 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTD 53 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCC
Confidence 57888999999999999999999999999999999998863
No 46
>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=98.89 E-value=4.2e-09 Score=56.03 Aligned_cols=42 Identities=26% Similarity=0.336 Sum_probs=38.6
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEE---CCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIF---AGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~---~g~~L~d~~ 76 (77)
|.+++++++|+.++|+.|++..|+|+++|+|+| +|+.+.|..
T Consensus 12 ~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~ 56 (74)
T cd01813 12 YSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDV 56 (74)
T ss_pred EEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCc
Confidence 578899999999999999999999999999996 999998753
No 47
>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=98.87 E-value=2.5e-09 Score=57.07 Aligned_cols=39 Identities=21% Similarity=0.332 Sum_probs=25.8
Q ss_pred CCcHHHHHHHhhhh--hCCC-cccceEEEEE-EecCCccHHHH
Q 040720 10 PTPLINVKAKIQDK--EGIP-PDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 10 ~~tv~~lK~~i~~~--~gi~-~~~q~L~~~~-~v~~~~tv~~l 48 (77)
++||++||++|++. +|++ +++|+|+|.+ .+.++.++.++
T Consensus 20 ~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dy 62 (75)
T cd01815 20 GYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFY 62 (75)
T ss_pred cCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHc
Confidence 46777777777777 3453 6777777765 44666677666
No 48
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=98.86 E-value=7.2e-09 Score=54.67 Aligned_cols=41 Identities=76% Similarity=0.986 Sum_probs=38.1
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+.++++.||.++|+.|+...|+|++.|+|+|+|+.|+|.-
T Consensus 14 ~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~ 54 (76)
T cd01803 14 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR 54 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCC
Confidence 56888999999999999999999999999999999998863
No 49
>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=98.86 E-value=6.4e-09 Score=55.48 Aligned_cols=37 Identities=24% Similarity=0.332 Sum_probs=32.7
Q ss_pred cCCccHHHHHHHHhhcc--CCC-ccceEEEECCeEcCccc
Q 040720 40 KSSDTINNVKSKIQDKE--GIP-PDQQRLIFAGINLKLVV 76 (77)
Q Consensus 40 ~~~~tv~~lK~~i~~~~--gip-~~~q~l~~~g~~L~d~~ 76 (77)
+.++||.++|++|+++. |++ +++|+|+|+|++|+|.-
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~ 57 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQ 57 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCC
Confidence 56889999999999995 575 99999999999999864
No 50
>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=98.85 E-value=6.5e-09 Score=54.28 Aligned_cols=41 Identities=27% Similarity=0.459 Sum_probs=38.0
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
+.+.++++.||.++|+.|+..+|+|++.|+|.|+|+.|+|.
T Consensus 12 ~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~ 52 (71)
T cd01812 12 HDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDA 52 (71)
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCcc
Confidence 46788999999999999999999999999999999999875
No 51
>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=98.85 E-value=1.1e-08 Score=53.97 Aligned_cols=41 Identities=34% Similarity=0.776 Sum_probs=37.8
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+.++++.||.++|+.|+...|+|++.|+|+|+|+.|+|..
T Consensus 14 ~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~ 54 (76)
T cd01806 14 EIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDK 54 (76)
T ss_pred EEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCC
Confidence 46788999999999999999999999999999999998763
No 52
>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=98.84 E-value=1e-08 Score=53.56 Aligned_cols=42 Identities=40% Similarity=0.541 Sum_probs=38.4
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+.+.++++.+|.++|..|++..|+|++.|+|+|+|+.|+|..
T Consensus 13 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~ 54 (72)
T cd01809 13 HTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDE 54 (72)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcC
Confidence 357888999999999999999999999999999999998863
No 53
>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=98.84 E-value=6.1e-09 Score=55.56 Aligned_cols=38 Identities=32% Similarity=0.412 Sum_probs=35.1
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d 74 (77)
.+.++++.||.++|.+|++.+|+|+++|+| |+|+.|.|
T Consensus 16 ~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~d 53 (75)
T cd01799 16 WLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLAR 53 (75)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCC
Confidence 568899999999999999999999999999 99999853
No 54
>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=98.83 E-value=2.2e-09 Score=61.01 Aligned_cols=48 Identities=25% Similarity=0.360 Sum_probs=39.2
Q ss_pred EEeeCCCcHHHHHHHhh-----hhhCCC--cccceEEEEEE-ecCCccHHHHHHHH
Q 040720 5 LMWKAPTPLINVKAKIQ-----DKEGIP--PDQQRLITTLE-VKSSDTINNVKSKI 52 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~-----~~~gi~--~~~q~L~~~~~-v~~~~tv~~lK~~i 52 (77)
..+.+++||++||++|+ .++|+| +++|+|||++. +.++.|+++++..+
T Consensus 20 ~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~ 75 (113)
T cd01814 20 KRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPV 75 (113)
T ss_pred cccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcc
Confidence 45678999999999999 555666 99999999984 58889999996443
No 55
>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=1.4e-08 Score=55.45 Aligned_cols=47 Identities=15% Similarity=0.333 Sum_probs=40.3
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
.+.++|.+++|+..||.++++..|+|+++|+|+|.+ .+.++.|+.++
T Consensus 23 ~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l 70 (87)
T cd01763 23 EVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDL 70 (87)
T ss_pred EEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHc
Confidence 567888889999999999999999998999998885 77888888887
No 56
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.79 E-value=1.9e-08 Score=51.12 Aligned_cols=41 Identities=51% Similarity=0.699 Sum_probs=38.1
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
+.+.++++.||.++|..|+...|+|++.|+|+|+|+.|+|.
T Consensus 12 ~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~ 52 (64)
T smart00213 12 ITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDD 52 (64)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCC
Confidence 46788999999999999999999999999999999999875
No 57
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=98.79 E-value=1e-09 Score=61.87 Aligned_cols=40 Identities=78% Similarity=1.038 Sum_probs=37.7
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
.+++.++++|.++|+.|+.+.|+|+++|+|+|+|++|+|.
T Consensus 14 ~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~ 53 (128)
T KOG0003|consen 14 TLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 53 (128)
T ss_pred EEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccC
Confidence 4678999999999999999999999999999999999985
No 58
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=98.76 E-value=3.7e-09 Score=62.86 Aligned_cols=40 Identities=75% Similarity=1.033 Sum_probs=37.4
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
..++..+++|..+|+.|++.+|||++||+|+|.|++|+|-
T Consensus 14 ~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedg 53 (156)
T KOG0004|consen 14 TLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 53 (156)
T ss_pred eeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccC
Confidence 4578899999999999999999999999999999999984
No 59
>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=98.75 E-value=2.8e-08 Score=66.74 Aligned_cols=48 Identities=21% Similarity=0.348 Sum_probs=42.9
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhC---CCcccceEEEEE-EecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEG---IPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+++.|+|++++||.+||.+|++..| +|+++|+|+|.+ -+.++.++.++
T Consensus 11 ~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy 62 (378)
T TIGR00601 11 QKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREY 62 (378)
T ss_pred CEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHc
Confidence 4688999999999999999999998 999999999997 45778888887
No 60
>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=98.73 E-value=1.5e-08 Score=54.51 Aligned_cols=40 Identities=30% Similarity=0.360 Sum_probs=37.1
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEE--EECCeEcCcc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRL--IFAGINLKLV 75 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l--~~~g~~L~d~ 75 (77)
.+.++++.||.++|..|++..|+|+++|+| +|+|+.|+|.
T Consensus 16 ~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~ 57 (80)
T cd01792 16 LVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDG 57 (80)
T ss_pred EEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCC
Confidence 467889999999999999999999999999 8999999875
No 61
>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=98.70 E-value=8.3e-08 Score=49.33 Aligned_cols=47 Identities=36% Similarity=0.512 Sum_probs=38.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
.+.+++.+++||++||.+|++..|+|++.|+|+|.+ .++++.++.++
T Consensus 9 ~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~ 56 (69)
T cd01769 9 TFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDY 56 (69)
T ss_pred EEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHC
Confidence 567888899999999999999999999999998875 45666666654
No 62
>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=98.67 E-value=2e-08 Score=57.15 Aligned_cols=40 Identities=28% Similarity=0.305 Sum_probs=34.2
Q ss_pred EEecCCccHHHHHHHHh-----hccCCC--ccceEEEECCeEcCccc
Q 040720 37 LEVKSSDTINNVKSKIQ-----DKEGIP--PDQQRLIFAGINLKLVV 76 (77)
Q Consensus 37 ~~v~~~~tv~~lK~~i~-----~~~gip--~~~q~l~~~g~~L~d~~ 76 (77)
..+.+++||.++|+.|+ .++++| +++|+|+|+|++|+|.-
T Consensus 20 ~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~ 66 (113)
T cd01814 20 KRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSK 66 (113)
T ss_pred cccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCC
Confidence 35678999999999999 455566 99999999999999864
No 63
>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=98.67 E-value=4.8e-08 Score=54.51 Aligned_cols=42 Identities=24% Similarity=0.248 Sum_probs=38.7
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcccC
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVVR 77 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~~ 77 (77)
++.+.+++||.++|.+|...+++||.+|+|+|+|+.|.|+-|
T Consensus 18 ~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsr 59 (107)
T cd01795 18 ALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCA 59 (107)
T ss_pred eEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCc
Confidence 567999999999999999999999999999999999988743
No 64
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=98.56 E-value=7.8e-08 Score=63.20 Aligned_cols=48 Identities=29% Similarity=0.452 Sum_probs=44.4
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhC--CCcccceEEEEE-EecCCccHHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEG--IPPDQQRLITTL-EVKSSDTINNVK 49 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~g--i~~~~q~L~~~~-~v~~~~tv~~lK 49 (77)
+|++++.|++||.++|.+|+...| +|++.|+|||.+ .+.++.++.++|
T Consensus 12 ~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eyk 62 (340)
T KOG0011|consen 12 TFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYK 62 (340)
T ss_pred eeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhc
Confidence 689999999999999999999999 999999999997 458899999885
No 65
>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=98.55 E-value=2.2e-07 Score=47.70 Aligned_cols=41 Identities=54% Similarity=0.780 Sum_probs=37.3
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+.++++.|+.++|..|+...|+|++.|+|+|+|+.|+|..
T Consensus 11 ~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~ 51 (69)
T cd01769 11 ELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDK 51 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcC
Confidence 45678899999999999999999999999999999998754
No 66
>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=98.52 E-value=3.5e-07 Score=49.88 Aligned_cols=41 Identities=15% Similarity=0.355 Sum_probs=38.1
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+.+..++++..++..++++.|+|+++|+|+|+|+.|++.-
T Consensus 25 ~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~ 65 (87)
T cd01763 25 FFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQ 65 (87)
T ss_pred EEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCC
Confidence 46789999999999999999999999999999999998764
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=98.49 E-value=2.8e-07 Score=62.01 Aligned_cols=42 Identities=29% Similarity=0.514 Sum_probs=39.0
Q ss_pred EEEEecCCccHHHHHHHHhhccC---CCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEG---IPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~g---ip~~~q~l~~~g~~L~d~~ 76 (77)
|.+.+++++||.++|.+|+...| +|+++|+|+|+|++|+|..
T Consensus 13 ~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~ 57 (378)
T TIGR00601 13 FKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDK 57 (378)
T ss_pred EEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCC
Confidence 56789999999999999999998 9999999999999999864
No 68
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.33 E-value=4.9e-07 Score=62.09 Aligned_cols=42 Identities=36% Similarity=0.437 Sum_probs=36.7
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
|.+.|.++.+|.++|..|...+++|+++++|+|+||+|+|..
T Consensus 27 ~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~d 68 (493)
T KOG0010|consen 27 YEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDD 68 (493)
T ss_pred eeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChh
Confidence 467788899999999999999999999999999999998754
No 69
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.21 E-value=4.7e-06 Score=45.29 Aligned_cols=35 Identities=23% Similarity=0.392 Sum_probs=30.7
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT 36 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 36 (77)
.....++++.||++||.+|+...|+|++.|+|.+.
T Consensus 15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 15 SVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 45678999999999999999999999999999874
No 70
>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=98.08 E-value=9e-06 Score=44.09 Aligned_cols=32 Identities=19% Similarity=0.223 Sum_probs=27.9
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
...++++.||.+||++++...|+||..|+|.+
T Consensus 16 ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l 47 (84)
T cd01789 16 EKKYSRGLTIAELKKKLELVVGTPASSMRLQL 47 (84)
T ss_pred eEecCCCCcHHHHHHHHHHHHCCCccceEEEE
Confidence 34488999999999999999999999999964
No 71
>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=98.02 E-value=1.6e-05 Score=41.52 Aligned_cols=47 Identities=28% Similarity=0.422 Sum_probs=37.0
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCc-ccceEEEEE-EecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPP-DQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~~-~v~~~~tv~~l 48 (77)
.+.+.|.+++++..|++++++..|+|+ +..+|+|.+ .++++.|+.++
T Consensus 12 ~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~ 60 (72)
T PF11976_consen 12 EIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDL 60 (72)
T ss_dssp EEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHH
T ss_pred EEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHC
Confidence 466778888888888888888888888 888888874 67888888877
No 72
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.00 E-value=3.2e-05 Score=39.35 Aligned_cols=48 Identities=40% Similarity=0.517 Sum_probs=40.1
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE-EEecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT-LEVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~-~~v~~~~tv~~l 48 (77)
+++.+++.++++|..+|.+|+...|+|+..|++.+. ..+.++.++.++
T Consensus 10 k~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~ 58 (75)
T KOG0001|consen 10 KTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADY 58 (75)
T ss_pred CEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHh
Confidence 357789999999999999999999999999998886 456667777776
No 73
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.97 E-value=1.1e-05 Score=53.31 Aligned_cols=42 Identities=45% Similarity=0.657 Sum_probs=39.4
Q ss_pred EEEEecCCccHHHHHHHHhhccC--CCccceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEG--IPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~g--ip~~~q~l~~~g~~L~d~~ 76 (77)
|.+.+.++++|.++|..|+...| .|..+|+|+|+|+.|.|..
T Consensus 13 F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~ 56 (340)
T KOG0011|consen 13 FTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDET 56 (340)
T ss_pred eEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCc
Confidence 57899999999999999999999 9999999999999999864
No 74
>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=97.94 E-value=2.6e-05 Score=44.57 Aligned_cols=67 Identities=19% Similarity=0.255 Sum_probs=49.3
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEE-ecCCccHHHHHHHHhhccCCCccceEEEEC
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLE-VKSSDTINNVKSKIQDKEGIPPDQQRLIFA 68 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~-v~~~~tv~~lK~~i~~~~gip~~~q~l~~~ 68 (77)
|+-+++.++.||-+||.+|+.....||++|+|+-.-. ++++.|+.+++.-.+....-.+...-|.|.
T Consensus 13 TiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 13 TIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred EEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 4668899999999999999999999999999984334 688999999854332222223444445555
No 75
>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=97.80 E-value=8.2e-05 Score=38.74 Aligned_cols=42 Identities=36% Similarity=0.585 Sum_probs=37.3
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCc-cceEEEECCeEcCccc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPP-DQQRLIFAGINLKLVV 76 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~-~~q~l~~~g~~L~d~~ 76 (77)
+.+.+..++++..+...++.+.|+|+ +..+|.|+|+.|+++-
T Consensus 13 ~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~ 55 (72)
T PF11976_consen 13 IKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPND 55 (72)
T ss_dssp EEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTS
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCC
Confidence 45688899999999999999999999 9999999999998764
No 76
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.77 E-value=2.3e-05 Score=54.08 Aligned_cols=46 Identities=26% Similarity=0.385 Sum_probs=41.1
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEe-cCCccHHHH
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEV-KSSDTINNV 48 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v-~~~~tv~~l 48 (77)
..+.|....||.++|+.|+...++|+++++|||++.+ ++.+|+..+
T Consensus 27 ~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~ 73 (493)
T KOG0010|consen 27 YEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQY 73 (493)
T ss_pred eeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHc
Confidence 4678899999999999999999999999999999854 788888776
No 77
>PLN02560 enoyl-CoA reductase
Probab=97.76 E-value=5.4e-05 Score=49.90 Aligned_cols=45 Identities=20% Similarity=0.290 Sum_probs=36.7
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCC-CcccceEEEEE--------EecCCccHHHH
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGI-PPDQQRLITTL--------EVKSSDTINNV 48 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi-~~~~q~L~~~~--------~v~~~~tv~~l 48 (77)
++++++++||++||.+|++..|+ ++++|+|.+.. .++++.++.++
T Consensus 17 ~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~ 70 (308)
T PLN02560 17 GLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDY 70 (308)
T ss_pred eEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhc
Confidence 68999999999999999999987 89999999841 33555566655
No 78
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=6e-05 Score=50.03 Aligned_cols=45 Identities=24% Similarity=0.434 Sum_probs=36.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTIN 46 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~ 46 (77)
.++++|+.+..|.+||+-++...|+|+++.+.+|++ +++++++|.
T Consensus 15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~ 60 (446)
T KOG0006|consen 15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQ 60 (446)
T ss_pred ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceee
Confidence 467888888888888888888888888888888875 777777777
No 79
>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=97.70 E-value=8.9e-05 Score=39.43 Aligned_cols=45 Identities=20% Similarity=0.259 Sum_probs=36.5
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE------EecCCccHHHH
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL------EVKSSDTINNV 48 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~------~v~~~~tv~~l 48 (77)
.++.|+|..+|.++|++|+...|++ ..|||.|.- -++...+++++
T Consensus 13 l~l~vnPy~pI~k~K~kI~~~~~~~-g~qrLsfQepgg~rqlL~s~~sLA~y 63 (80)
T cd01811 13 WILRVNPYSPIRKIKEKIRRSRNCS-GLQRLSFQEPGGERQLLSSRKSLADY 63 (80)
T ss_pred eEEEeCCcchHHHHHHHHHHhhCcc-cceEEEeecCCcccccccccccHhhh
Confidence 6789999999999999999999999 599999831 23455566655
No 80
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.69 E-value=0.00021 Score=36.19 Aligned_cols=40 Identities=68% Similarity=0.851 Sum_probs=36.9
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
...+....++..+|.+|+...|+|+++|++.++|+.|+|.
T Consensus 13 ~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~ 52 (75)
T KOG0001|consen 13 TLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDG 52 (75)
T ss_pred EEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCC
Confidence 4677889999999999999999999999999999999875
No 81
>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=97.66 E-value=0.00012 Score=39.63 Aligned_cols=35 Identities=29% Similarity=0.348 Sum_probs=31.9
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEE-ECCe
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLI-FAGI 70 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~-~~g~ 70 (77)
...++++.||.++|.+++..+|+|+..|+|. |.|+
T Consensus 16 ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 16 EKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred eEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 3568999999999999999999999999994 8888
No 82
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=0.00016 Score=48.09 Aligned_cols=41 Identities=37% Similarity=0.587 Sum_probs=38.1
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
++++++.+.+|.++|..++...|+|+++.+++|.||.|++.
T Consensus 16 l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ 56 (446)
T KOG0006|consen 16 LPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSND 56 (446)
T ss_pred eeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccC
Confidence 46788899999999999999999999999999999999875
No 83
>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=97.45 E-value=0.00022 Score=38.43 Aligned_cols=33 Identities=24% Similarity=0.300 Sum_probs=23.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLI 34 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~ 34 (77)
++-+++++++|+++|+++|++..++|...|.|+
T Consensus 15 ~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~ 47 (80)
T PF11543_consen 15 MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLS 47 (80)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHS---TTT---B
T ss_pred CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEE
Confidence 356899999999999999999999999888775
No 84
>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=97.43 E-value=0.00037 Score=33.54 Aligned_cols=35 Identities=34% Similarity=0.571 Sum_probs=27.9
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL 37 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~ 37 (77)
..+.+.++.|+++++.+|+++.|++++.+.|++..
T Consensus 10 ~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~ 44 (69)
T cd00196 10 VELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNG 44 (69)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECC
Confidence 45677778888888888888888888888887764
No 85
>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=97.43 E-value=0.00033 Score=40.10 Aligned_cols=48 Identities=21% Similarity=0.199 Sum_probs=41.8
Q ss_pred ccceEEEEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 29 DQQRLITTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 29 ~~q~L~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+++..|...+.++.+|.++|..|+.-...|+..|+|+-.+..|+|.-
T Consensus 8 rR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~k 55 (119)
T cd01788 8 RRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGK 55 (119)
T ss_pred EecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccc
Confidence 356666778999999999999999999999999999997778888863
No 86
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=0.00028 Score=52.56 Aligned_cols=48 Identities=23% Similarity=0.342 Sum_probs=40.3
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEe-cCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEV-KSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v-~~~~tv~~l 48 (77)
|++++.+...+||.++|++|+++.+|+.+.|||||.+.| .++.+|..+
T Consensus 13 r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~ 61 (1143)
T KOG4248|consen 13 RTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEY 61 (1143)
T ss_pred ceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhc
Confidence 467778888899999999999999999999999998754 667777666
No 87
>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=97.24 E-value=0.0009 Score=32.12 Aligned_cols=39 Identities=41% Similarity=0.600 Sum_probs=34.9
Q ss_pred EEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 37 LEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 37 ~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
+.++...++.+++..+..+.|++++.+.|.++|..+++.
T Consensus 12 ~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~ 50 (69)
T cd00196 12 LLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDS 50 (69)
T ss_pred EEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCC
Confidence 456689999999999999999999999999999988654
No 88
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=97.09 E-value=0.0018 Score=34.99 Aligned_cols=34 Identities=29% Similarity=0.485 Sum_probs=29.9
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEEC
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFA 68 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~ 68 (77)
....++.+.||.+||.+++..+|+|++.|+|.+.
T Consensus 16 ~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 16 VEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 3568899999999999999999999999999865
No 89
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=96.94 E-value=0.001 Score=49.70 Aligned_cols=41 Identities=32% Similarity=0.439 Sum_probs=37.2
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
.+.+....||.++|.+|.++.+|+.+.|||+|+|+.|.|+.
T Consensus 16 t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k 56 (1143)
T KOG4248|consen 16 TFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDK 56 (1143)
T ss_pred EEEechHHHHHHHHHHHHHhcccccccceeeecceeeccch
Confidence 45677889999999999999999999999999999998863
No 90
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=96.91 E-value=0.0039 Score=35.55 Aligned_cols=46 Identities=20% Similarity=0.309 Sum_probs=23.7
Q ss_pred EEEEeeCCCcHHHHHHHhhhh-----h--CCCcccceEEEEEE-ecCCccHHHH
Q 040720 3 LLLMWKAPTPLINVKAKIQDK-----E--GIPPDQQRLITTLE-VKSSDTINNV 48 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~-----~--gi~~~~q~L~~~~~-v~~~~tv~~l 48 (77)
.++.+++++||++||++|... . -..+...||+|.+. +.++.++.++
T Consensus 16 ~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~ 69 (111)
T PF13881_consen 16 GPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDC 69 (111)
T ss_dssp EEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGG
T ss_pred cccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHh
Confidence 456677777777777777642 1 01234455555542 2455555554
No 91
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=96.67 E-value=0.0017 Score=37.04 Aligned_cols=41 Identities=27% Similarity=0.343 Sum_probs=31.2
Q ss_pred EEEecCCccHHHHHHHHhhcc-------CCCccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKE-------GIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~-------gip~~~q~l~~~g~~L~d~~ 76 (77)
.+..++++||.++|+.|...- ...++..+|+|.|+.|+|.-
T Consensus 17 ~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~ 64 (111)
T PF13881_consen 17 PFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNK 64 (111)
T ss_dssp EEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSS
T ss_pred ccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcC
Confidence 456678999999999998763 12467899999999999863
No 92
>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=96.66 E-value=0.0036 Score=34.88 Aligned_cols=34 Identities=26% Similarity=0.319 Sum_probs=15.2
Q ss_pred CCccHHHHHHHHhhccC--CCccceEEEECCeEcCc
Q 040720 41 SSDTINNVKSKIQDKEG--IPPDQQRLIFAGINLKL 74 (77)
Q Consensus 41 ~~~tv~~lK~~i~~~~g--ip~~~q~l~~~g~~L~d 74 (77)
.+.|+..||..|.+.-+ .....++|+|+|+.|.|
T Consensus 22 ~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d 57 (97)
T PF10302_consen 22 NTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLND 57 (97)
T ss_pred CcccHHHHHHHHHhhcCCCCccccEEeeecCcccCc
Confidence 34444445544444441 22234445555555444
No 93
>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=96.62 E-value=0.0068 Score=32.70 Aligned_cols=35 Identities=14% Similarity=0.152 Sum_probs=32.7
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT 36 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 36 (77)
++.|.|.++-+-.+|.++|+++.++|++..+|.|.
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYk 46 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYK 46 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEec
Confidence 68899999999999999999999999999999984
No 94
>PLN02560 enoyl-CoA reductase
Probab=96.58 E-value=0.005 Score=40.73 Aligned_cols=33 Identities=33% Similarity=0.491 Sum_probs=29.9
Q ss_pred EEEEecCCccHHHHHHHHhhccCC-CccceEEEE
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGI-PPDQQRLIF 67 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gi-p~~~q~l~~ 67 (77)
..+++++++||+++|..|+++.++ ++++|+|.+
T Consensus 16 ~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~ 49 (308)
T PLN02560 16 GGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTL 49 (308)
T ss_pred eeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEE
Confidence 357889999999999999999986 899999998
No 95
>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=96.28 E-value=0.0082 Score=31.75 Aligned_cols=41 Identities=17% Similarity=0.257 Sum_probs=28.4
Q ss_pred eCCCcHHHHHHHhhhhhC-CCcccceEEEE--E-EecCCccHHHH
Q 040720 8 KAPTPLINVKAKIQDKEG-IPPDQQRLITT--L-EVKSSDTINNV 48 (77)
Q Consensus 8 ~~~~tv~~lK~~i~~~~g-i~~~~q~L~~~--~-~v~~~~tv~~l 48 (77)
+++.||++||..|++..+ +++++|+|.+. + .+.++.++.++
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~ 64 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDL 64 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhc
Confidence 477899999999988765 57888888642 2 34555555554
No 96
>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=95.97 E-value=0.0098 Score=31.43 Aligned_cols=36 Identities=25% Similarity=0.238 Sum_probs=30.8
Q ss_pred cCCccHHHHHHHHhhccC-CCccceEEE--ECCeEcCcc
Q 040720 40 KSSDTINNVKSKIQDKEG-IPPDQQRLI--FAGINLKLV 75 (77)
Q Consensus 40 ~~~~tv~~lK~~i~~~~g-ip~~~q~l~--~~g~~L~d~ 75 (77)
+++.||.++|..|+...+ .++++|+|. +.|+.|.|.
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~ 58 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDD 58 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCc
Confidence 678899999999999876 589999985 889988765
No 97
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=95.87 E-value=0.014 Score=32.54 Aligned_cols=47 Identities=17% Similarity=0.261 Sum_probs=37.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE---EEecCCccHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT---LEVKSSDTINNV 48 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~---~~v~~~~tv~~l 48 (77)
++-++.+++.||-+||.+++....=|++.|+|+-- --+.++.++++.
T Consensus 13 tif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~ 62 (110)
T KOG4495|consen 13 TIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDC 62 (110)
T ss_pred eEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhc
Confidence 46688999999999999999999999999999751 123556666655
No 98
>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=95.85 E-value=0.028 Score=30.21 Aligned_cols=35 Identities=9% Similarity=0.023 Sum_probs=33.0
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT 36 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 36 (77)
|+.|.+.++.+..+|..+|+++.+.+++.-+|.|.
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~ 42 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYR 42 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEec
Confidence 68899999999999999999999999999999984
No 99
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=95.75 E-value=0.0065 Score=31.56 Aligned_cols=31 Identities=16% Similarity=0.267 Sum_probs=27.0
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRL 33 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L 33 (77)
.-+...+.|||+++|.-|+...|..++..+|
T Consensus 14 VRvKCn~dDtiGD~KKliaaQtGT~~~kivl 44 (73)
T KOG3493|consen 14 VRVKCNTDDTIGDLKKLIAAQTGTRPEKIVL 44 (73)
T ss_pred EEEEeCCcccccCHHHHHHHhhCCChhHhHH
Confidence 4578889999999999999999998887765
No 100
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.50 E-value=0.021 Score=39.70 Aligned_cols=37 Identities=16% Similarity=0.292 Sum_probs=28.2
Q ss_pred EEE-eeCCCcHHHHHHHhhhhhCCCcccceEEEEEEec
Q 040720 4 LLM-WKAPTPLINVKAKIQDKEGIPPDQQRLITTLEVK 40 (77)
Q Consensus 4 ~~~-v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v~ 40 (77)
+++ +++++|+..+|+++...+|+||++|++.+.+...
T Consensus 16 ~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a 53 (473)
T KOG1872|consen 16 PVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLA 53 (473)
T ss_pred cceeccCCCchHHHHHHHHHhcCCCccceeEEEecccc
Confidence 344 7778888888888888888888888877766443
No 101
>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=95.41 E-value=0.036 Score=30.89 Aligned_cols=44 Identities=18% Similarity=0.152 Sum_probs=32.8
Q ss_pred EEEEee--CCCcHHHHHHHhhhhhC--CCcccceEEEEEEe-cCCccHH
Q 040720 3 LLLMWK--APTPLINVKAKIQDKEG--IPPDQQRLITTLEV-KSSDTIN 46 (77)
Q Consensus 3 ~~~~v~--~~~tv~~lK~~i~~~~g--i~~~~q~L~~~~~v-~~~~tv~ 46 (77)
+.+++. .+.||..||..|.+..+ .+...+||+|++.+ .++..+.
T Consensus 14 l~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~ 62 (97)
T PF10302_consen 14 LPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLS 62 (97)
T ss_pred ceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhh
Confidence 456666 88999999999999873 34567889998754 5555544
No 102
>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=95.39 E-value=0.077 Score=27.48 Aligned_cols=37 Identities=24% Similarity=0.319 Sum_probs=15.4
Q ss_pred EEecCCccHHHHHHHHhhccCCCccceEEEECCeEcC
Q 040720 37 LEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLK 73 (77)
Q Consensus 37 ~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~ 73 (77)
+.+.+++++.++-.....++|+.+++..|.|+++.|+
T Consensus 11 vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ld 47 (65)
T PF11470_consen 11 VKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLD 47 (65)
T ss_dssp E---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEES
T ss_pred EEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEec
Confidence 3444444555444444444555555555555555544
No 103
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.38 E-value=0.041 Score=38.34 Aligned_cols=44 Identities=23% Similarity=0.350 Sum_probs=39.1
Q ss_pred EEEEEE-ecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 33 LITTLE-VKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 33 L~~~~~-v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
=.|... ++.+++...+|+++-...|+||+.|++.+.|..+.|++
T Consensus 13 k~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~ 57 (473)
T KOG1872|consen 13 KKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDV 57 (473)
T ss_pred ccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccc
Confidence 346654 88999999999999999999999999999999998874
No 104
>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=95.10 E-value=0.037 Score=29.71 Aligned_cols=31 Identities=35% Similarity=0.559 Sum_probs=21.8
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEE
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLI 66 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~ 66 (77)
-+++++++|+.++++.|++..++|...|.|.
T Consensus 17 Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~ 47 (80)
T PF11543_consen 17 RIEVSPSSTLSDLKEKISEQLSIPDSSQSLS 47 (80)
T ss_dssp EEEE-TTSBHHHHHHHHHHHS---TTT---B
T ss_pred EEEcCCcccHHHHHHHHHHHcCCCCcceEEE
Confidence 4688999999999999999999999988764
No 105
>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=94.37 E-value=0.32 Score=25.15 Aligned_cols=48 Identities=21% Similarity=0.144 Sum_probs=33.0
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE-EEecCCccHHHH
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT-LEVKSSDTINNV 48 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~-~~v~~~~tv~~l 48 (77)
|.+.+.+.|+.|+.+|=+....+.|++++.-.|.|. -.++.+..+.-.
T Consensus 7 rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~s 55 (65)
T PF11470_consen 7 RRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLS 55 (65)
T ss_dssp -EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH
T ss_pred cEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeec
Confidence 568899999999999999999999999998888886 456666665543
No 106
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=94.01 E-value=0.19 Score=28.15 Aligned_cols=39 Identities=13% Similarity=0.427 Sum_probs=31.0
Q ss_pred EEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 37 LEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 37 ~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
+.+..++.+.-|...-..+.|++-.+.|++|+|+.++..
T Consensus 35 Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~ 73 (99)
T KOG1769|consen 35 FKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRET 73 (99)
T ss_pred EEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCC
Confidence 456677788888888888888888888888888887654
No 107
>smart00455 RBD Raf-like Ras-binding domain.
Probab=92.10 E-value=0.5 Score=24.63 Aligned_cols=35 Identities=17% Similarity=0.206 Sum_probs=30.0
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT 36 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 36 (77)
...+.+.|+.|+.++=.++.++.|+.++.-.++..
T Consensus 11 ~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~ 45 (70)
T smart00455 11 RTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLR 45 (70)
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEc
Confidence 45788999999999999999999999888777663
No 108
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=92.01 E-value=0.43 Score=27.30 Aligned_cols=46 Identities=4% Similarity=0.072 Sum_probs=39.0
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCCCcccceEEE---EEEecCCccHHHHH
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT---TLEVKSSDTINNVK 49 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~---~~~v~~~~tv~~lK 49 (77)
...|++++|++.+-..|....++++.+|-+.| ++.-+++++|..|=
T Consensus 48 k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly 96 (116)
T KOG3439|consen 48 KFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLY 96 (116)
T ss_pred eEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHH
Confidence 46789999999999999999999999998877 35567888888773
No 109
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=91.82 E-value=0.38 Score=29.26 Aligned_cols=30 Identities=23% Similarity=0.399 Sum_probs=27.3
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q 31 (77)
++.+.++++.||.+|+.+|.+..++|+..|
T Consensus 16 tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~ 45 (162)
T PF13019_consen 16 TLSLSLPSTTTVSDLKDRLSERLPIPSSSQ 45 (162)
T ss_pred eEEeeCCCCCcHHHHHHHHHhhcCCCccce
Confidence 678889999999999999999999998886
No 110
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=90.87 E-value=0.39 Score=30.12 Aligned_cols=27 Identities=19% Similarity=0.391 Sum_probs=19.8
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPP 28 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~ 28 (77)
.|.+-|.+++|.+++|.+|+++.|++.
T Consensus 134 PF~f~v~~gE~f~~tK~Rl~~rlgv~~ 160 (213)
T PF14533_consen 134 PFLFVVKPGETFSDTKERLQKRLGVSD 160 (213)
T ss_dssp EEEEEEETT--HHHHHHHHHHHH---H
T ss_pred CEEEEeeCCCcHHHHHHHHHHHhCCCh
Confidence 477889999999999999999999985
No 111
>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=90.38 E-value=0.93 Score=23.85 Aligned_cols=35 Identities=17% Similarity=0.168 Sum_probs=30.5
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL 37 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~ 37 (77)
-.+.+.|+.||.++=.++.++.|+.++.--+++..
T Consensus 12 t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~ 46 (72)
T cd01760 12 TVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG 46 (72)
T ss_pred EEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence 46889999999999999999999998888776654
No 112
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=90.34 E-value=0.14 Score=34.63 Aligned_cols=41 Identities=22% Similarity=0.246 Sum_probs=30.8
Q ss_pred EEEecCCccHHHHHHHHhhccCC-C-ccceEEEECCeEcCccc
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGI-P-PDQQRLIFAGINLKLVV 76 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gi-p-~~~q~l~~~g~~L~d~~ 76 (77)
.+..+..++|.++|..++..+.- | +..|||+|.|+.|.|.+
T Consensus 25 ~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~q 67 (391)
T KOG4583|consen 25 SISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQ 67 (391)
T ss_pred eeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccch
Confidence 45667888999999888877642 3 35688999999887764
No 113
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=90.07 E-value=1.9 Score=27.04 Aligned_cols=28 Identities=14% Similarity=0.246 Sum_probs=16.9
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPD 29 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~ 29 (77)
.+.+-|+.+.||++|-+.++.+.+++.+
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~ 62 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVGFSEE 62 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT----TT
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcC
Confidence 4677888889999999998888887654
No 114
>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=89.72 E-value=0.98 Score=24.17 Aligned_cols=32 Identities=31% Similarity=0.423 Sum_probs=28.5
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEEC
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFA 68 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~ 68 (77)
.+.+.+...|..+|.+|....|++- +|+|.|.
T Consensus 14 ~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQ 45 (80)
T cd01811 14 ILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQ 45 (80)
T ss_pred EEEeCCcchHHHHHHHHHHhhCccc-ceEEEee
Confidence 4678899999999999999999887 8999885
No 115
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.49 E-value=0.54 Score=29.88 Aligned_cols=32 Identities=22% Similarity=0.308 Sum_probs=15.5
Q ss_pred EEeeCCCcHHHHHHHhhhhhCCCcccceEEEE
Q 040720 5 LMWKAPTPLINVKAKIQDKEGIPPDQQRLITT 36 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 36 (77)
+.+...||+.++|.++++.+|+.+-.|+.+|+
T Consensus 161 lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~S 192 (231)
T KOG0013|consen 161 LTAPHYDTVGEIKRALRAAEGVDPLSQRIFFS 192 (231)
T ss_pred ecccCcCcHHHHHHHHHHhhccchhhheeecc
Confidence 33444455555555555555555444444444
No 116
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=89.21 E-value=1.5 Score=24.57 Aligned_cols=46 Identities=15% Similarity=0.315 Sum_probs=41.2
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
..+.|..+.+...|+..-++..|++....|+.|.+ .+....|.++|
T Consensus 33 ~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L 79 (99)
T KOG1769|consen 33 VVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADL 79 (99)
T ss_pred EEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhh
Confidence 45678889999999999999999999999999986 78888888887
No 117
>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=89.01 E-value=1.5 Score=23.65 Aligned_cols=36 Identities=17% Similarity=0.275 Sum_probs=32.2
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEEECCeE
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGIN 71 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~ 71 (77)
++.+++..+..++..+|.++.++|++...|.|....
T Consensus 14 aIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~ 49 (80)
T cd06406 14 AIQVARGLSYATLLQKISSKLELPAEHITLSYKSEA 49 (80)
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCC
Confidence 567899999999999999999999999999997654
No 118
>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=88.49 E-value=1.9 Score=22.44 Aligned_cols=34 Identities=12% Similarity=0.119 Sum_probs=28.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
++.+.++++.|-.+|+.+|+++.+.+.....|-|
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y 45 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKY 45 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEE
Confidence 4567788899999999999999998876777766
No 119
>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=88.23 E-value=2.7 Score=22.97 Aligned_cols=50 Identities=12% Similarity=0.177 Sum_probs=33.2
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE---EEecCCccHHHHHHHHh
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT---LEVKSSDTINNVKSKIQ 53 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~---~~v~~~~tv~~lK~~i~ 53 (77)
...+++++|++.|-.-++...++.+.+....|- +.-.+++++++|=....
T Consensus 19 k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~ 71 (87)
T PF04110_consen 19 KFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG 71 (87)
T ss_dssp EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH-
T ss_pred EEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC
Confidence 467899999999999999999998766655552 45578999999865543
No 120
>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=86.95 E-value=2.7 Score=22.95 Aligned_cols=35 Identities=14% Similarity=0.054 Sum_probs=28.8
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcc---cceEEE
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPD---QQRLIT 35 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~---~q~L~~ 35 (77)
|++-+.+.|+..+.+|++.|+++.|+... .-.|.|
T Consensus 11 rvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 11 RVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred CEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 46778888999999999999999999863 556656
No 121
>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=86.76 E-value=1.9 Score=23.50 Aligned_cols=53 Identities=11% Similarity=0.164 Sum_probs=39.3
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCC-cccceEEEE-----EEecCCccHHHHHHHHhhc
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIP-PDQQRLITT-----LEVKSSDTINNVKSKIQDK 55 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~-~~~q~L~~~-----~~v~~~~tv~~lK~~i~~~ 55 (77)
-++-|.|+.|+.+|-..++.+.++. |+.-.|++- ..+.++.-...+|..+..+
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~~Pq~ika~L~~~ 74 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDTYPQRIKAELHSR 74 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCcccccceechhhccC
Confidence 3677899999999999999999994 888888763 2455666555666554433
No 122
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=86.61 E-value=1.1 Score=25.12 Aligned_cols=34 Identities=26% Similarity=0.285 Sum_probs=29.6
Q ss_pred EEEEEecCCccHHHHHHHHhhccCCCccceEEEE
Q 040720 34 ITTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIF 67 (77)
Q Consensus 34 ~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~ 67 (77)
.+....+++.+|.++|..+..-..-|++.|+|+.
T Consensus 13 tif~da~es~tV~elK~~l~gi~~~Pvn~qrL~k 46 (110)
T KOG4495|consen 13 TIFTDAKESSTVFELKRKLEGILKRPVNEQRLYK 46 (110)
T ss_pred eEEeecCccccHHHHHHHHHHHHhCCCcchheee
Confidence 3456788999999999999999999999999875
No 123
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=86.21 E-value=1.2 Score=32.97 Aligned_cols=35 Identities=23% Similarity=0.279 Sum_probs=30.7
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL 37 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~ 37 (77)
+.+-++++.|+..+.+.|...+|||.+.|.|+|..
T Consensus 327 ~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~ 361 (732)
T KOG4250|consen 327 HEYYVHADNTLHSLIERISKQTGIPEGKQELLFEG 361 (732)
T ss_pred EEEecChhhhHHHHHHHHHHhhCCCCccceeeeec
Confidence 56778888999999999999999999999999863
No 124
>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=85.54 E-value=3.6 Score=22.08 Aligned_cols=36 Identities=6% Similarity=0.183 Sum_probs=31.6
Q ss_pred EEEEEecCCccHHHHHHHHhhccCCCccceEEEECC
Q 040720 34 ITTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAG 69 (77)
Q Consensus 34 ~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g 69 (77)
.+++.++......++...|.++...+++.-.|.|.-
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 345678999999999999999999999999998864
No 125
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=85.28 E-value=1.2 Score=28.28 Aligned_cols=30 Identities=17% Similarity=0.148 Sum_probs=26.9
Q ss_pred EeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 6 MWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 6 ~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
+.+++.|++++|.+++-..|.+++.+.|..
T Consensus 18 r~~~~ltl~q~K~KLe~~~G~~~~~M~l~l 47 (234)
T KOG3206|consen 18 RLSNSLTLAQFKDKLELLTGTEAESMELEL 47 (234)
T ss_pred hcCCcCcHHHHHhhhhhhhCCCccceEEEE
Confidence 457889999999999999999999998864
No 126
>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=85.26 E-value=1.8 Score=23.15 Aligned_cols=21 Identities=14% Similarity=0.229 Sum_probs=17.7
Q ss_pred EEEEeeCCCcHHHHHHHhhhh
Q 040720 3 LLLMWKAPTPLINVKAKIQDK 23 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~ 23 (77)
++++++.++|+.++|+.+.+.
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~ 22 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEE 22 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHH
T ss_pred eEEEccCcCcHHHHHHHHHHH
Confidence 578999999999999998765
No 127
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=84.28 E-value=4.6 Score=22.42 Aligned_cols=40 Identities=18% Similarity=0.386 Sum_probs=28.8
Q ss_pred EEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCccc
Q 040720 37 LEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLVV 76 (77)
Q Consensus 37 ~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~~ 76 (77)
+++..+++...+-.....+.|=.-+..|++|+|+.++..+
T Consensus 39 FkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dq 78 (103)
T COG5227 39 FKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQ 78 (103)
T ss_pred EEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCC
Confidence 4556677777777777777777777788888888766543
No 128
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.25 E-value=1.3 Score=28.23 Aligned_cols=41 Identities=29% Similarity=0.397 Sum_probs=36.3
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
|...++..+++.++|..+.++.|+.+..|+++|+|..+-|.
T Consensus 159 ~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dk 199 (231)
T KOG0013|consen 159 FWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDK 199 (231)
T ss_pred eeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceecc
Confidence 45667889999999999999999999999999999998665
No 129
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=82.47 E-value=2.2 Score=22.59 Aligned_cols=42 Identities=5% Similarity=0.022 Sum_probs=22.0
Q ss_pred eeCCCcHHHHHHHhhhhhCC-CcccceEEEEE-EecCCccHHHH
Q 040720 7 WKAPTPLINVKAKIQDKEGI-PPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 7 v~~~~tv~~lK~~i~~~~gi-~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
|.++++|.+|++-+...... .-....|.+.+ .+++...+.++
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i 44 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEI 44 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhh
Confidence 46778888888887765332 22333333332 34444444444
No 130
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=80.92 E-value=3.1 Score=30.85 Aligned_cols=37 Identities=27% Similarity=0.506 Sum_probs=32.8
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccceEEEECCeE
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGIN 71 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~ 71 (77)
+.+.++.+.++..++..|....|+|...|-|+|.|..
T Consensus 327 ~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~ 363 (732)
T KOG4250|consen 327 HEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGL 363 (732)
T ss_pred EEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCc
Confidence 3567889999999999999999999999999998653
No 131
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=80.76 E-value=2.5 Score=22.68 Aligned_cols=25 Identities=16% Similarity=0.251 Sum_probs=20.4
Q ss_pred EEEEeeCCCcHHHHHHHhhhh-hCCC
Q 040720 3 LLLMWKAPTPLINVKAKIQDK-EGIP 27 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~-~gi~ 27 (77)
+++.|+.++|+.++|+.+.+. ...|
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A~~~P 27 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQARKMP 27 (78)
T ss_pred eeEEccccccHHHHHHHHHHHHHhCC
Confidence 578999999999999999765 4444
No 132
>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=80.65 E-value=5.1 Score=21.78 Aligned_cols=47 Identities=6% Similarity=0.089 Sum_probs=32.6
Q ss_pred EEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEe---cCCccHHHHHHH
Q 040720 5 LMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEV---KSSDTINNVKSK 51 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v---~~~~tv~~lK~~ 51 (77)
.-|+.+.|++++..-|+...++++++-...|-.+. .++++++++=..
T Consensus 20 flv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~ 69 (87)
T cd01612 20 FKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRC 69 (87)
T ss_pred EEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHh
Confidence 34788999999999999999998665443343332 345677776444
No 133
>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=79.93 E-value=5.8 Score=20.59 Aligned_cols=33 Identities=12% Similarity=0.176 Sum_probs=25.7
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
-.+.+.|+.||.+.=.++-++.|+.++.-.++.
T Consensus 13 t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~ 45 (71)
T PF02196_consen 13 TVVQVRPGMTIRDALSKACKKRGLNPECCDVRL 45 (71)
T ss_dssp EEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEE
T ss_pred EEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEE
Confidence 468899999999999999999999988766654
No 134
>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=79.71 E-value=14 Score=23.79 Aligned_cols=31 Identities=19% Similarity=0.405 Sum_probs=17.0
Q ss_pred EEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 5 LMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
+-|..+++|+++-..|.+.-|+|++..-++|
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g~p~~t~l~ly 119 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAGLPPDTPLLLY 119 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT--TT--EEEE
T ss_pred EEECCCCCHHHHHHHHHHHcCCCCCCceEEE
Confidence 4456666777777777777777666665555
No 135
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=79.51 E-value=6.8 Score=21.50 Aligned_cols=33 Identities=15% Similarity=0.166 Sum_probs=25.6
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
.++..+...|||+.|...+.+...| ...-||.-
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~ 47 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWN 47 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEE
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-Cccceehh
Confidence 3567789999999999999999999 56788864
No 136
>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=79.51 E-value=6.9 Score=20.29 Aligned_cols=31 Identities=16% Similarity=0.287 Sum_probs=27.0
Q ss_pred EEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 5 LMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
+.+..+.|..+|..+|++..|.+.....|.|
T Consensus 16 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y 46 (84)
T PF00564_consen 16 ISLPSDVSFDDLRSKIREKFGLLDEDFQLKY 46 (84)
T ss_dssp EEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence 7788888999999999999999977777766
No 137
>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=79.34 E-value=8.6 Score=21.33 Aligned_cols=63 Identities=11% Similarity=0.168 Sum_probs=40.9
Q ss_pred CeEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEecCCc---cH---HHHHHHHhhccCCCccceE
Q 040720 1 RRLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEVKSSD---TI---NNVKSKIQDKEGIPPDQQR 64 (77)
Q Consensus 1 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v~~~~---tv---~~lK~~i~~~~gip~~~q~ 64 (77)
++..+.|+.+.+-.+++.++++..+++.. ..|-|.+.-.+-+ +| ++++..+.+-..++....+
T Consensus 23 ~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky~Lp~edld~Lisv~~DeDl~~M~~e~~~~~~~~~r 91 (97)
T cd06410 23 ETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKYQLPDEDLDALISVSNDEDLKNMMEEYDRLSGGSAR 91 (97)
T ss_pred ceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEEEcCCCCcceeEEecCcHHHHHHHHhhccccCCCce
Confidence 35678899999999999999999999866 6666643211111 11 2566666665544444333
No 138
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=78.95 E-value=6.4 Score=22.86 Aligned_cols=51 Identities=8% Similarity=0.217 Sum_probs=32.6
Q ss_pred EeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-Ee-cCCccHHHHHHHHhhccC
Q 040720 6 MWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EV-KSSDTINNVKSKIQDKEG 57 (77)
Q Consensus 6 ~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v-~~~~tv~~lK~~i~~~~g 57 (77)
=|+...||+++..-|+...+++++. ..+|.. .+ +.+.+++++=..-.+..|
T Consensus 46 lVP~d~tV~qF~~iIRkrl~l~~~k-~flfVnn~lp~~s~~mg~lYe~~KDeDG 98 (121)
T PTZ00380 46 ALPRDATVAELEAAVRQALGTSAKK-VTLAIEGSTPAVTATVGDIADACKRDDG 98 (121)
T ss_pred EcCCCCcHHHHHHHHHHHcCCChhH-EEEEECCccCCccchHHHHHHHhcCCCC
Confidence 3677888888888888888888776 333332 23 334566666555444444
No 139
>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=77.31 E-value=9.1 Score=20.50 Aligned_cols=34 Identities=9% Similarity=0.071 Sum_probs=25.7
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCc-ccceEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPP-DQQRLIT 35 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~ 35 (77)
.+.+.+.++.+..+|+++|++..++.. ....|-|
T Consensus 11 ~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY 45 (82)
T cd06407 11 KIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY 45 (82)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence 356788899999999999999999864 3344433
No 140
>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=76.77 E-value=6.8 Score=25.15 Aligned_cols=33 Identities=12% Similarity=0.277 Sum_probs=26.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLI 34 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~ 34 (77)
.|.++++...|-.+|-++|++..|+.|+..+|+
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 478999999999999999999999999888875
No 141
>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=75.51 E-value=12 Score=21.28 Aligned_cols=49 Identities=10% Similarity=0.165 Sum_probs=32.0
Q ss_pred EeeCCCcHHHHHHHhhhhhCCCcccceEEEEEE-e-cCCccHHHHHHHHhh
Q 040720 6 MWKAPTPLINVKAKIQDKEGIPPDQQRLITTLE-V-KSSDTINNVKSKIQD 54 (77)
Q Consensus 6 ~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~-v-~~~~tv~~lK~~i~~ 54 (77)
-|+.+.||+++..-|+...++++++--.+|..+ + +.+.+++++=..-..
T Consensus 46 lVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd 96 (112)
T cd01611 46 LVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKD 96 (112)
T ss_pred EecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCC
Confidence 377889999999999888888866554444322 2 455666666544333
No 142
>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=74.59 E-value=9.7 Score=20.18 Aligned_cols=33 Identities=12% Similarity=0.168 Sum_probs=27.9
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT 36 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 36 (77)
.+.+.|+.||.++=.+.-++.|++++.--++..
T Consensus 13 ~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~ 45 (73)
T cd01817 13 VVPTRPGESIRDLLSGLCEKRGINYAAVDLFLV 45 (73)
T ss_pred EEEecCCCCHHHHHHHHHHHcCCChhHEEEEEe
Confidence 578899999999999999999999877666554
No 143
>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=74.56 E-value=9.8 Score=19.52 Aligned_cols=34 Identities=15% Similarity=0.054 Sum_probs=26.9
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCC-cccceEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIP-PDQQRLIT 35 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~-~~~q~L~~ 35 (77)
...++++++.|+.++=++|++..|+. .+---|.|
T Consensus 8 ~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 8 TKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred cEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 36789999999999999999999996 33344444
No 144
>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=72.84 E-value=11 Score=19.33 Aligned_cols=33 Identities=15% Similarity=0.174 Sum_probs=25.4
Q ss_pred EEEEee-CCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 3 LLLMWK-APTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 3 ~~~~v~-~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
+.+.+. .+.|..+|+.+|++..+.+.....+.|
T Consensus 12 ~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y 45 (81)
T cd05992 12 RRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKY 45 (81)
T ss_pred EEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEe
Confidence 456667 889999999999999998764444444
No 145
>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=71.25 E-value=13 Score=19.48 Aligned_cols=26 Identities=19% Similarity=0.112 Sum_probs=23.6
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCc
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPP 28 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~ 28 (77)
-++.|+.++|..+|=..+.++.|+..
T Consensus 15 kti~V~~~~t~~~Vi~~~l~k~~l~~ 40 (87)
T cd01768 15 KTLRVSKDTTAQDVIQQLLKKFGLDD 40 (87)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCCcC
Confidence 57899999999999999999999983
No 146
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=70.85 E-value=16 Score=20.33 Aligned_cols=46 Identities=13% Similarity=0.196 Sum_probs=39.5
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHH
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNV 48 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~l 48 (77)
+-..+..+.|-..|....+...|=..+..|+.|.+ .++++.|.+++
T Consensus 37 lfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dl 83 (103)
T COG5227 37 LFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDL 83 (103)
T ss_pred EEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhc
Confidence 45677888999999999999999999999999975 78888887776
No 147
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=70.12 E-value=13 Score=19.92 Aligned_cols=34 Identities=9% Similarity=0.116 Sum_probs=28.4
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
..++-+.|++|+.++-+-.....|..|..-=|-.
T Consensus 11 ~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lrl 44 (77)
T cd01818 11 PVLTYLRPGMSVEDFLESACKRKQLDPMEHYLRL 44 (77)
T ss_pred eEEEEECCCCCHHHHHHHHHHhcCCChhHheeEE
Confidence 4678899999999999999999999887765543
No 148
>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=68.80 E-value=16 Score=19.99 Aligned_cols=27 Identities=11% Similarity=0.199 Sum_probs=21.1
Q ss_pred CCCcHHHHHHHhhhhhCCCc-ccceEEE
Q 040720 9 APTPLINVKAKIQDKEGIPP-DQQRLIT 35 (77)
Q Consensus 9 ~~~tv~~lK~~i~~~~gi~~-~~q~L~~ 35 (77)
++-+..+|+++|++..++++ ..-.|.|
T Consensus 23 ~d~~~~~L~~kI~~~f~l~~~~~~~l~Y 50 (91)
T cd06398 23 LDLNMDGLREKVEELFSLSPDADLSLTY 50 (91)
T ss_pred CCCCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 56789999999999999987 4445545
No 149
>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=68.02 E-value=15 Score=20.09 Aligned_cols=40 Identities=15% Similarity=0.148 Sum_probs=32.4
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEecC
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEVKS 41 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v~~ 41 (77)
++.+++..+++..+|=+.+..+.|+|.+...-+.=+.+..
T Consensus 13 ~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFev~~ 52 (87)
T cd01777 13 TVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFEVIN 52 (87)
T ss_pred EEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeEEec
Confidence 5789999999999999999999999987776543345543
No 150
>PF12563 Hemolysin_N: Hemolytic toxin N terminal; InterPro: IPR022220 This domain family is found in bacteria, and is approximately 190 amino acids in length. The family is found in association with PF07968 from PFAM, PF00652 from PFAM. This family is a bacterial virulence factor - hemolysin - which forms pores in erythrocytes and causes them to lyse. ; PDB: 1XEZ_A 3O44_I.
Probab=67.26 E-value=17 Score=22.69 Aligned_cols=44 Identities=16% Similarity=0.363 Sum_probs=26.3
Q ss_pred ccceEEEEE-EecCCccHHHHHHHHhhccCCCccceEEE---ECCeEc
Q 040720 29 DQQRLITTL-EVKSSDTINNVKSKIQDKEGIPPDQQRLI---FAGINL 72 (77)
Q Consensus 29 ~~q~L~~~~-~v~~~~tv~~lK~~i~~~~gip~~~q~l~---~~g~~L 72 (77)
..+|.++.+ .+.+++--..+|.+++...|+......++ |+|..|
T Consensus 75 q~krylvDFS~iede~~k~~aq~~~r~~~G~sF~~dfiiITehKGeLL 122 (187)
T PF12563_consen 75 QNKRYLVDFSQIEDEEEKAQAQAKFRKQYGLSFDSDFIIITEHKGELL 122 (187)
T ss_dssp S--EEEEE-TT--SHHHHHHHHHHHHHHHS-B--SSEEEEEEETTEEE
T ss_pred cCCeEEEEccccCChHHHHHHHHHHHHHhCcCccCCEEEEEcccCcEe
Confidence 445555555 45566667889999999999987655544 888875
No 151
>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=65.77 E-value=13 Score=22.29 Aligned_cols=26 Identities=19% Similarity=0.134 Sum_probs=23.6
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCC
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIP 27 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~ 27 (77)
+..+.++++.|+.+|-+.++...|++
T Consensus 15 ~~~~~~~~~~t~~ev~~~v~~~~~l~ 40 (207)
T smart00295 15 TLEFEVDSSTTAEELLETVCRKLGIR 40 (207)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCC
Confidence 35788999999999999999999995
No 152
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=65.13 E-value=17 Score=19.88 Aligned_cols=30 Identities=10% Similarity=0.161 Sum_probs=20.6
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q 31 (77)
.+++.|++.+|=.++|..|+...|+++..-
T Consensus 22 ~~~F~V~~~a~K~eIK~aie~lf~VkV~~V 51 (92)
T PRK05738 22 KYVFEVAPDATKPEIKAAVEKLFGVKVESV 51 (92)
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCceeEE
Confidence 456677777777777777777777765543
No 153
>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=64.57 E-value=15 Score=19.37 Aligned_cols=27 Identities=19% Similarity=0.115 Sum_probs=24.1
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcc
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPD 29 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~ 29 (77)
.++.|++++|+.+|=..+.++.|++.+
T Consensus 18 kti~v~~~tTa~~Vi~~~l~k~~l~~~ 44 (90)
T smart00314 18 KTLRVSSRTTARDVIQQLLEKFHLTDD 44 (90)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCCCCC
Confidence 578899999999999999999999754
No 154
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=64.17 E-value=24 Score=19.87 Aligned_cols=33 Identities=6% Similarity=0.062 Sum_probs=21.9
Q ss_pred EEEEeeCCCcHHHHHHHhhhh-hCCCcccceEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDK-EGIPPDQQRLIT 35 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~-~gi~~~~q~L~~ 35 (77)
.++.+.+++++.++++++++. ..++.++..+++
T Consensus 31 ~~i~~~~~~~~~~~~~~l~~~i~~~~~~~~vivl 64 (116)
T TIGR00824 31 GAVPFVPGENAETLQEKYNAALADLDTEEEVLFL 64 (116)
T ss_pred EEEEcCCCcCHHHHHHHHHHHHHhcCCCCCEEEE
Confidence 456777788888888887655 455555555554
No 155
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=64.07 E-value=26 Score=21.44 Aligned_cols=38 Identities=21% Similarity=0.373 Sum_probs=29.3
Q ss_pred EEEEecCCccHHHHHHHHhhccCCCccc-eEEEE-CCeEc
Q 040720 35 TTLEVKSSDTINNVKSKIQDKEGIPPDQ-QRLIF-AGINL 72 (77)
Q Consensus 35 ~~~~v~~~~tv~~lK~~i~~~~gip~~~-q~l~~-~g~~L 72 (77)
+.+.++.+.+|.+++..|....++|... +.|.+ .|+.+
T Consensus 17 l~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l 56 (162)
T PF13019_consen 17 LSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQL 56 (162)
T ss_pred EEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCee
Confidence 4567788999999999999999999876 44554 34444
No 156
>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=64.03 E-value=9.4 Score=27.55 Aligned_cols=25 Identities=24% Similarity=0.280 Sum_probs=20.0
Q ss_pred EEEEeeCCCcHHHHHHHhhhh--hCCC
Q 040720 3 LLLMWKAPTPLINVKAKIQDK--EGIP 27 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~--~gi~ 27 (77)
+.+.|-.+|||.++|+||=+. .|.|
T Consensus 204 i~VkVLdCDTItQVKeKiLDavyk~~p 230 (539)
T PF08337_consen 204 IPVKVLDCDTITQVKEKILDAVYKNTP 230 (539)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTTTS-
T ss_pred EEEEEEecCcccHHHHHHHHHHHcCCC
Confidence 678899999999999999654 4544
No 157
>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=62.87 E-value=22 Score=19.36 Aligned_cols=30 Identities=17% Similarity=0.034 Sum_probs=25.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q 31 (77)
+-+++|+.+.|++++-+.+..+.++.++.-
T Consensus 14 sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~ 43 (85)
T cd01787 14 SKSLEVDERMTARDVCQLLVDKNHCQDDSS 43 (85)
T ss_pred eeEEEEcCCCcHHHHHHHHHHHhCCCCCCC
Confidence 457999999999999999999988865443
No 158
>KOG0007 consensus Splicing factor 3a, subunit 1 [RNA processing and modification]
Probab=62.84 E-value=2.6 Score=28.30 Aligned_cols=35 Identities=34% Similarity=0.433 Sum_probs=32.3
Q ss_pred CCccHHHHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 41 SSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 41 ~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
.+..+..+|.++....++++..|.+.+.|.-+.|+
T Consensus 302 ~~~~~~~~k~k~~~~~~i~~~~q~~~~~~~~l~d~ 336 (341)
T KOG0007|consen 302 LSENVASLKEKIADESQIPANKQKLRGEGAFLKDN 336 (341)
T ss_pred ccccccccccccccccccchhheeeccCCcccCcc
Confidence 77888899999999999999999999999999886
No 159
>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=61.02 E-value=15 Score=19.95 Aligned_cols=27 Identities=11% Similarity=0.126 Sum_probs=14.7
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcc
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPD 29 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~ 29 (77)
.+.+|++..|=.++|..|+...|+++.
T Consensus 23 ~tF~V~~~atK~~Ik~aie~iy~V~V~ 49 (91)
T PF00276_consen 23 YTFEVDPRATKTEIKEAIEKIYGVKVK 49 (91)
T ss_dssp EEEEETTTSTHHHHHHHHHHHHTSEEE
T ss_pred EEEEEeCCCCHHHHHHHHHhhcCCCee
Confidence 445555555555555555555555543
No 160
>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=60.88 E-value=22 Score=18.46 Aligned_cols=50 Identities=12% Similarity=0.117 Sum_probs=35.5
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCC--CcccceEE-E------EEEecCCccHHHHHHH
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGI--PPDQQRLI-T------TLEVKSSDTINNVKSK 51 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi--~~~~q~L~-~------~~~v~~~~tv~~lK~~ 51 (77)
.-++.|++++|+.+|=..+.++.|+ .+..-.|+ + .-.+.++..+-.+...
T Consensus 18 ~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~ 76 (93)
T PF00788_consen 18 YKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQ 76 (93)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHT
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHh
Confidence 3578899999999999999999999 34555553 2 2245666666665433
No 161
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=59.56 E-value=24 Score=25.61 Aligned_cols=62 Identities=23% Similarity=0.303 Sum_probs=38.4
Q ss_pred CCCcHHHHHHHhhhhhCCCcccceEEEEE-EecCCccHHHHHHHHhhccCC-CccceEEEECCe
Q 040720 9 APTPLINVKAKIQDKEGIPPDQQRLITTL-EVKSSDTINNVKSKIQDKEGI-PPDQQRLIFAGI 70 (77)
Q Consensus 9 ~~~tv~~lK~~i~~~~gi~~~~q~L~~~~-~v~~~~tv~~lK~~i~~~~gi-p~~~q~l~~~g~ 70 (77)
|.+.+..+|+.|++..|++++.-.+..+. .+--.+-+..+-..|-...|= ....+.|+|+-|
T Consensus 141 P~Adpervk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP~P~g~~~~pLkALifDS~ 204 (603)
T COG0481 141 PAADPERVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIPPPKGDPDAPLKALIFDSW 204 (603)
T ss_pred CCCCHHHHHHHHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCCCCCCCCCCcceEEEEecc
Confidence 67788999999999999999988776542 222222333444444444442 234556776544
No 162
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=57.94 E-value=6.7 Score=20.21 Aligned_cols=20 Identities=5% Similarity=0.212 Sum_probs=14.2
Q ss_pred cHHHHHHHhhhhhCCCcccc
Q 040720 12 PLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 12 tv~~lK~~i~~~~gi~~~~q 31 (77)
|+.+|.+.+++..|+++++.
T Consensus 1 t~~~Ii~~Va~~~~v~~~~i 20 (70)
T PF08299_consen 1 TIEDIIEAVAEYFGVSVEDI 20 (70)
T ss_dssp -HHHHHHHHHHHTT--HHHH
T ss_pred CHHHHHHHHHHHHCCCHHHH
Confidence 68888999999999887654
No 163
>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=57.25 E-value=24 Score=18.66 Aligned_cols=23 Identities=17% Similarity=0.333 Sum_probs=18.6
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhh
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKE 24 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~ 24 (77)
-|..-+.|+.|+++|+..|.++.
T Consensus 4 KFLhlt~~~~tl~~L~~eI~~~f 26 (73)
T PF10407_consen 4 KFLHLTDPNNTLSQLKEEIEERF 26 (73)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHH
Confidence 35566789999999999998873
No 164
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=56.22 E-value=13 Score=21.06 Aligned_cols=28 Identities=29% Similarity=0.625 Sum_probs=15.2
Q ss_pred HHHHHHhhccCCCccceEEEECCeEcCcc
Q 040720 47 NVKSKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 47 ~lK~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
..+..+.. .|+++++..++++|-.++.|
T Consensus 149 ~~~~~l~~-~~~~~~ki~vI~ngid~~~F 176 (177)
T PF13439_consen 149 STKDELIK-FGIPPEKIHVIYNGIDTDRF 176 (177)
T ss_dssp HHHHHHHH-HT--SS-EEE----B-CCCH
T ss_pred HHHHHHHH-hCCcccCCEEEECCccHHHc
Confidence 46677777 89999999999999887654
No 165
>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=55.97 E-value=3.8 Score=27.47 Aligned_cols=39 Identities=26% Similarity=0.418 Sum_probs=0.0
Q ss_pred CCcHHHHHHHhhh----------hhCCCcccce-----EEEEE-EecCCccHHHH
Q 040720 10 PTPLINVKAKIQD----------KEGIPPDQQR-----LITTL-EVKSSDTINNV 48 (77)
Q Consensus 10 ~~tv~~lK~~i~~----------~~gi~~~~q~-----L~~~~-~v~~~~tv~~l 48 (77)
+.+|.++|..+++ ..++|.+..+ |.|.. .+.++.++.++
T Consensus 103 ttSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~ 157 (309)
T PF12754_consen 103 TTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEV 157 (309)
T ss_dssp -------------------------------------------------------
T ss_pred cCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHH
Confidence 5889999999999 8999999988 88874 55555665554
No 166
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=55.93 E-value=17 Score=21.11 Aligned_cols=32 Identities=13% Similarity=0.327 Sum_probs=26.6
Q ss_pred EecCCccHHHHHHHHhhccCCCccceEEEECC
Q 040720 38 EVKSSDTINNVKSKIQDKEGIPPDQQRLIFAG 69 (77)
Q Consensus 38 ~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g 69 (77)
-++.+.||+++...|..+.++++++.-|..+|
T Consensus 46 lVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn 77 (121)
T PTZ00380 46 ALPRDATVAELEAAVRQALGTSAKKVTLAIEG 77 (121)
T ss_pred EcCCCCcHHHHHHHHHHHcCCChhHEEEEECC
Confidence 58899999999999999999999884344555
No 167
>KOG4038 consensus cGMP-phosphodiesterase, delta subunit [Signal transduction mechanisms]
Probab=55.72 E-value=5.1 Score=23.41 Aligned_cols=15 Identities=20% Similarity=0.332 Sum_probs=12.8
Q ss_pred ceEEEECCeEcCccc
Q 040720 62 QQRLIFAGINLKLVV 76 (77)
Q Consensus 62 ~q~l~~~g~~L~d~~ 76 (77)
.|+++|.|+.|+.|+
T Consensus 77 eqkvyfkg~i~eewf 91 (150)
T KOG4038|consen 77 EQKVYFKGRIMEEWF 91 (150)
T ss_pred hheeeecceeHHHhh
Confidence 478899999998875
No 168
>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=54.77 E-value=4.1 Score=27.33 Aligned_cols=31 Identities=16% Similarity=0.490 Sum_probs=0.0
Q ss_pred CccHHHHHHHHhh----------ccCCCccceE-----EEECCeEc
Q 040720 42 SDTINNVKSKIQD----------KEGIPPDQQR-----LIFAGINL 72 (77)
Q Consensus 42 ~~tv~~lK~~i~~----------~~gip~~~q~-----l~~~g~~L 72 (77)
+.+|.++|..++. ..++|.+..+ |+|+.+++
T Consensus 103 ttSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv 148 (309)
T PF12754_consen 103 TTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPV 148 (309)
T ss_dssp ----------------------------------------------
T ss_pred cCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccC
Confidence 6899999999999 8899999888 99999887
No 169
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=54.34 E-value=30 Score=17.94 Aligned_cols=33 Identities=15% Similarity=0.037 Sum_probs=25.3
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
+...+.+++|+.+|.+-+....+.+.....|+.
T Consensus 17 i~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t 49 (80)
T smart00166 17 LVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNS 49 (80)
T ss_pred EEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEe
Confidence 556788999999999999776676656666654
No 170
>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=53.82 E-value=33 Score=18.21 Aligned_cols=30 Identities=7% Similarity=0.124 Sum_probs=21.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q 31 (77)
.++..|++.+|=.++|..|+...|+.+..-
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~V 45 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKV 45 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEE
Confidence 456777777777777777777777765443
No 171
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=51.95 E-value=28 Score=18.04 Aligned_cols=22 Identities=14% Similarity=0.089 Sum_probs=16.8
Q ss_pred EEEEeeCC-CcHHHHHHHhhhhh
Q 040720 3 LLLMWKAP-TPLINVKAKIQDKE 24 (77)
Q Consensus 3 ~~~~v~~~-~tv~~lK~~i~~~~ 24 (77)
..++++++ .|+.+|.+.+.+..
T Consensus 18 ~~~~~~~~~~tv~~L~~~L~~~~ 40 (80)
T TIGR01682 18 ETLELPDESTTVGELKEHLAKEG 40 (80)
T ss_pred EEEECCCCCcCHHHHHHHHHHhC
Confidence 35677766 88999999988765
No 172
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=51.56 E-value=30 Score=18.38 Aligned_cols=28 Identities=18% Similarity=0.223 Sum_probs=23.6
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCCCcccc
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q 31 (77)
.++|.|+.|+.+.=.|.-...|+.++-=
T Consensus 13 ~V~vrpG~tl~daL~KaLk~R~l~pe~C 40 (74)
T cd01816 13 VVNVRPGMTLRDALAKALKVRGLQPECC 40 (74)
T ss_pred EEEecCCcCHHHHHHHHHHHcCCChhHe
Confidence 5899999999998888888899886543
No 173
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=50.34 E-value=41 Score=18.21 Aligned_cols=29 Identities=7% Similarity=0.189 Sum_probs=18.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQ 30 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~ 30 (77)
..++.|++..+=.++|..|+...|+.+..
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~ 51 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEK 51 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEE
Confidence 35566666666666666666666665544
No 174
>PF14044 NETI: NETI protein
Probab=50.10 E-value=27 Score=17.59 Aligned_cols=22 Identities=14% Similarity=0.237 Sum_probs=18.2
Q ss_pred EEeeCCCcHHHHHHHhhhhhCCC
Q 040720 5 LMWKAPTPLINVKAKIQDKEGIP 27 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~~gi~ 27 (77)
.+|.++.||++--+++.+ +|+-
T Consensus 2 FeV~enETI~~CL~RM~~-eGY~ 23 (57)
T PF14044_consen 2 FEVEENETISDCLARMKK-EGYM 23 (57)
T ss_pred eeccCCCcHHHHHHHHHH-cCCC
Confidence 578899999999999887 6763
No 175
>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=49.02 E-value=35 Score=17.34 Aligned_cols=22 Identities=5% Similarity=-0.064 Sum_probs=15.6
Q ss_pred EEEEeeCCCcHHHHHHHhhhhh
Q 040720 3 LLLMWKAPTPLINVKAKIQDKE 24 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~ 24 (77)
..++++++.|+.+|.+.+....
T Consensus 18 ~~~~~~~~~tv~~ll~~l~~~~ 39 (80)
T cd00754 18 EELELPEGATVGELLDALEARY 39 (80)
T ss_pred EEEECCCCCcHHHHHHHHHHHC
Confidence 4556666788888888877654
No 176
>PF14178 YppF: YppF-like protein
Probab=48.86 E-value=25 Score=17.95 Aligned_cols=46 Identities=22% Similarity=0.316 Sum_probs=32.7
Q ss_pred CcHHHHHHHhhhhhCCCcccce--EEEE--EEecCCccHHHHHHHHhhcc
Q 040720 11 TPLINVKAKIQDKEGIPPDQQR--LITT--LEVKSSDTINNVKSKIQDKE 56 (77)
Q Consensus 11 ~tv~~lK~~i~~~~gi~~~~q~--L~~~--~~v~~~~tv~~lK~~i~~~~ 56 (77)
+.|.+||+++.+..+..|.... |-|+ .-+...-++.+++..+.+-+
T Consensus 1 M~l~eLk~~F~~~k~y~p~~~NeLLDFar~~Yi~gei~i~eYR~lvreLE 50 (60)
T PF14178_consen 1 MNLHELKQKFMQKKKYEPEDMNELLDFARKLYIQGEISINEYRNLVRELE 50 (60)
T ss_pred CCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence 3689999999999999775532 2233 23567778888888777654
No 177
>cd00006 PTS_IIA_man PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. IIA subunits receive phosphoryl groups from HPr and transfer them to IIB subunits, which in turn phosphorylate the substrate.
Probab=48.17 E-value=49 Score=18.55 Aligned_cols=33 Identities=12% Similarity=0.091 Sum_probs=20.3
Q ss_pred EEEEeeCCCcHHHHHHHhhhh-hCCCcccceEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDK-EGIPPDQQRLIT 35 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~-~gi~~~~q~L~~ 35 (77)
..+.+.++++++++++++.+. ..++..+..+++
T Consensus 30 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~viil 63 (122)
T cd00006 30 EAIDFPPGESPDDLLEKIKAALAELDSGEGVLIL 63 (122)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHhCCCCcEEEE
Confidence 356677777777777777663 455544454443
No 178
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=47.87 E-value=16 Score=25.14 Aligned_cols=38 Identities=24% Similarity=0.299 Sum_probs=21.6
Q ss_pred EEecCCccHHHHHHHHhhccCCCccceEEEECCeEcCc
Q 040720 37 LEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 37 ~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d 74 (77)
+.+...-.+..++...+...|+..++--++|+++++.+
T Consensus 17 i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s 54 (380)
T KOG0012|consen 17 IPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVS 54 (380)
T ss_pred cccccccchhhHHHHHHHHhCcccchhhcccCCCcccc
Confidence 34444555555666666666666665556666665544
No 179
>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=47.02 E-value=45 Score=17.82 Aligned_cols=21 Identities=29% Similarity=0.351 Sum_probs=10.6
Q ss_pred cHHHHHHHhhhhhCCCcccce
Q 040720 12 PLINVKAKIQDKEGIPPDQQR 32 (77)
Q Consensus 12 tv~~lK~~i~~~~gi~~~~q~ 32 (77)
+..+|+.|..+..+++.+.-+
T Consensus 22 sL~eL~~K~~~~l~~~~~~~~ 42 (78)
T PF02017_consen 22 SLEELLEKACDKLQLPEEPVR 42 (78)
T ss_dssp SHHHHHHHHHHHHT-SSSTCE
T ss_pred CHHHHHHHHHHHhCCCCcCcE
Confidence 455555555555555544333
No 180
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 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 family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=47.01 E-value=39 Score=18.15 Aligned_cols=25 Identities=12% Similarity=0.215 Sum_probs=18.0
Q ss_pred CCCcHHHHHHHhhhhhCCCcccceE
Q 040720 9 APTPLINVKAKIQDKEGIPPDQQRL 33 (77)
Q Consensus 9 ~~~tv~~lK~~i~~~~gi~~~~q~L 33 (77)
++-+-.+|+++|++..|++++.-.+
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv 35 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVV 35 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEE
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEE
Confidence 5566679999999999997555444
No 181
>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=46.90 E-value=44 Score=17.59 Aligned_cols=33 Identities=15% Similarity=0.174 Sum_probs=23.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCC-cccceEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIP-PDQQRLI 34 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~-~~~q~L~ 34 (77)
.+...++.++||++|.+-|....+-+ .....|.
T Consensus 16 r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~ 49 (79)
T cd01770 16 RLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLM 49 (79)
T ss_pred EEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEe
Confidence 35667889999999999999765422 2334454
No 182
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=46.27 E-value=39 Score=17.52 Aligned_cols=22 Identities=18% Similarity=0.101 Sum_probs=16.9
Q ss_pred EEEEeeCCCcHHHHHHHhhhhh
Q 040720 3 LLLMWKAPTPLINVKAKIQDKE 24 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~ 24 (77)
..++++.+.|+++|.+.+....
T Consensus 21 ~~~~~~~~~tv~~L~~~l~~~~ 42 (82)
T PLN02799 21 MTLELPAGSTTADCLAELVAKF 42 (82)
T ss_pred EEEECCCCCcHHHHHHHHHHHC
Confidence 4567778889999988886654
No 183
>PF14420 Clr5: Clr5 domain
Probab=46.26 E-value=28 Score=16.96 Aligned_cols=22 Identities=14% Similarity=0.267 Sum_probs=17.1
Q ss_pred eCCCcHHHHHHHhhhhhCCCcc
Q 040720 8 KAPTPLINVKAKIQDKEGIPPD 29 (77)
Q Consensus 8 ~~~~tv~~lK~~i~~~~gi~~~ 29 (77)
..+-|..+|.+.+++..|+.+.
T Consensus 18 ~e~~tl~~v~~~M~~~~~F~at 39 (54)
T PF14420_consen 18 DENKTLEEVMEIMKEEHGFKAT 39 (54)
T ss_pred hCCCcHHHHHHHHHHHhCCCcC
Confidence 4567888888888888887654
No 184
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=46.20 E-value=46 Score=19.16 Aligned_cols=24 Identities=21% Similarity=0.328 Sum_probs=12.8
Q ss_pred EecCCccHHHHHHHHhhccCCCcc
Q 040720 38 EVKSSDTINNVKSKIQDKEGIPPD 61 (77)
Q Consensus 38 ~v~~~~tv~~lK~~i~~~~gip~~ 61 (77)
.++.+.|+.++-..+++++|+.+.
T Consensus 38 ~v~~~~Tl~~li~~~~~~~~lev~ 61 (125)
T PF09358_consen 38 EVNGDMTLQELIDYFKEKYGLEVT 61 (125)
T ss_dssp EEES--BHHHHHHHHHHTTS-EEE
T ss_pred EEcCCCCHHHHHHHHHHHhCceEE
Confidence 444456666666666666665443
No 185
>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=44.81 E-value=45 Score=17.16 Aligned_cols=33 Identities=18% Similarity=0.199 Sum_probs=25.1
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCccc-ceEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQ-QRLI 34 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~ 34 (77)
.+...+.+++|+.+|.+-|....+.+... -.|+
T Consensus 18 ~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~ 51 (82)
T PF00789_consen 18 RLQRRFPKSDTLQDLYDFVESQLFSPEESDFELI 51 (82)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEE
T ss_pred EEEEEECCcchHHHHHHHHHHhcCCCCCccEEEE
Confidence 35677889999999999998877666544 5564
No 186
>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=43.09 E-value=61 Score=18.18 Aligned_cols=50 Identities=18% Similarity=0.256 Sum_probs=26.3
Q ss_pred eeCCCcHHHHHHHhhhhhCCCcccceEEEEE--E-ecCCccHHHHHHHHhhccC
Q 040720 7 WKAPTPLINVKAKIQDKEGIPPDQQRLITTL--E-VKSSDTINNVKSKIQDKEG 57 (77)
Q Consensus 7 v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~--~-v~~~~tv~~lK~~i~~~~g 57 (77)
|+.+.||+++...|.....++++ +-|++.+ . .+.+.+++++=+.-.+..|
T Consensus 39 vp~~~tv~qf~~~ir~rl~l~~~-~alfl~Vn~~lp~~s~tm~elY~~~kdeDG 91 (104)
T PF02991_consen 39 VPKDLTVGQFVYIIRKRLQLSPE-QALFLFVNNTLPSTSSTMGELYEKYKDEDG 91 (104)
T ss_dssp EETTSBHHHHHHHHHHHTT--TT-S-EEEEBTTBESSTTSBHHHHHHHHB-TTS
T ss_pred EcCCCchhhHHHHhhhhhcCCCC-ceEEEEEcCcccchhhHHHHHHHHhCCCCC
Confidence 56667777777777777777654 4443332 1 2445566666554444444
No 187
>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=42.97 E-value=48 Score=17.33 Aligned_cols=21 Identities=0% Similarity=-0.080 Sum_probs=15.9
Q ss_pred EEEEeeCCCcHHHHHHHhhhhh
Q 040720 3 LLLMWKAPTPLINVKAKIQDKE 24 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~ 24 (77)
..++++ +.|+.++.+.+.+..
T Consensus 18 ~~v~~~-~~tv~~l~~~l~~~~ 38 (88)
T TIGR01687 18 EEIEIE-GKTVGDLLNELMARY 38 (88)
T ss_pred EEEEeC-CCCHHHHHHHHHHHC
Confidence 456665 789999999887765
No 188
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=42.78 E-value=58 Score=18.09 Aligned_cols=29 Identities=10% Similarity=0.285 Sum_probs=20.0
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQ 30 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~ 30 (77)
.+++.|++.+|=.++|..+++..|+-+..
T Consensus 23 k~vF~V~~~AtK~~IK~AvE~lF~VkV~k 51 (94)
T COG0089 23 KYVFIVDPDATKPEIKAAVEELFGVKVEK 51 (94)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCeEEE
Confidence 35667777777777777777777765544
No 189
>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=42.70 E-value=59 Score=17.86 Aligned_cols=32 Identities=16% Similarity=0.233 Sum_probs=18.5
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
...++=..+++.||..++...|++-+...++.
T Consensus 6 ~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~L 37 (88)
T PF11620_consen 6 MQHMDIREPLSTLKKLLERRLGISLSDYEFWL 37 (88)
T ss_dssp EEEEESSSBGGGHHHHSHHHH-S--SS-EEEE
T ss_pred EEEEecCCcHHHHHHHHHHhhCCCcCCCeEEe
Confidence 34455557777888888888887766655443
No 190
>COG3933 Transcriptional antiterminator [Transcription]
Probab=42.60 E-value=24 Score=25.08 Aligned_cols=52 Identities=15% Similarity=0.195 Sum_probs=34.9
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEecCCccHHHHHHHHhhccCCCcc
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEVKSSDTINNVKSKIQDKEGIPPD 61 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v~~~~tv~~lK~~i~~~~gip~~ 61 (77)
++++|.|++..+.|++++++..- -.+-. -+-+--++.++-..+.+++|+|..
T Consensus 142 MPLdvsp~~vle~l~e~~k~~~~-~~Gll------lLVDMGSL~~f~~~i~~~~~ipv~ 193 (470)
T COG3933 142 MPLDVSPSDVLEKLKEYLKERDY-RSGLL------LLVDMGSLTSFGSIISEEFGIPVK 193 (470)
T ss_pred CCCcCCHHHHHHHHHHHHHhcCc-cCceE------EEEecchHHHHHHHHHHHhCCceE
Confidence 47888999999999999876321 10111 123445667777888888888864
No 191
>PF12689 Acid_PPase: Acid Phosphatase; InterPro: IPR010036 This entry represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterised as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues [, ].; GO: 0016791 phosphatase activity; PDB: 1U7P_A 1U7O_A 2WM8_A.
Probab=42.23 E-value=79 Score=19.24 Aligned_cols=29 Identities=24% Similarity=0.321 Sum_probs=15.2
Q ss_pred EEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 5 LMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
+++.++..+.-+ .+|++..||+.++ .|+|
T Consensus 102 ~eI~~gsK~~Hf-~~i~~~tgI~y~e-MlFF 130 (169)
T PF12689_consen 102 LEIYPGSKTTHF-RRIHRKTGIPYEE-MLFF 130 (169)
T ss_dssp EEESSS-HHHHH-HHHHHHH---GGG-EEEE
T ss_pred hheecCchHHHH-HHHHHhcCCChhH-EEEe
Confidence 566677666666 4566678887666 3444
No 192
>CHL00030 rpl23 ribosomal protein L23
Probab=41.35 E-value=63 Score=17.80 Aligned_cols=29 Identities=10% Similarity=-0.041 Sum_probs=19.3
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQ 30 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~ 30 (77)
..++.|++.+|=.++|..|+...|+.+..
T Consensus 21 ~y~F~V~~~anK~eIK~avE~lf~VkV~~ 49 (93)
T CHL00030 21 QYTFDVDSGSTKTEIKHWIELFFGVKVIA 49 (93)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCeEEE
Confidence 35666777777777777777777765443
No 193
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=41.34 E-value=22 Score=17.48 Aligned_cols=20 Identities=10% Similarity=0.335 Sum_probs=15.6
Q ss_pred cHHHHHHHhhhhhCCCcccc
Q 040720 12 PLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 12 tv~~lK~~i~~~~gi~~~~q 31 (77)
|+.+|.+.+++..||++++.
T Consensus 1 ~~~~I~~~Va~~~~i~~~~i 20 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPEDL 20 (60)
T ss_pred CHHHHHHHHHHHhCCCHHHH
Confidence 56788888888888887664
No 194
>KOG3076 consensus 5'-phosphoribosylglycinamide formyltransferase [Carbohydrate transport and metabolism]
Probab=41.27 E-value=43 Score=21.21 Aligned_cols=23 Identities=13% Similarity=0.199 Sum_probs=18.5
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~g 25 (77)
..+.|.++||++++-++++..+.
T Consensus 160 ~~v~V~~~Dt~esl~qrv~~aEH 182 (206)
T KOG3076|consen 160 MAVPVIPGDTLESLEQRVHDAEH 182 (206)
T ss_pred EeeeecCCCCHHHHHHHHHHHHH
Confidence 35778899999999999986644
No 195
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=41.18 E-value=57 Score=17.30 Aligned_cols=21 Identities=24% Similarity=0.365 Sum_probs=11.8
Q ss_pred CcHHHHHHHhhhhhCCCcccc
Q 040720 11 TPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 11 ~tv~~lK~~i~~~~gi~~~~q 31 (77)
.+..+|+.|..++.+++...-
T Consensus 19 ~sL~eL~~K~~~~l~l~~~~~ 39 (74)
T smart00266 19 SSLEELLSKVCDKLALPDSPV 39 (74)
T ss_pred CCHHHHHHHHHHHhCCCCCCc
Confidence 345566666666666654433
No 196
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=40.77 E-value=29 Score=24.94 Aligned_cols=51 Identities=22% Similarity=0.266 Sum_probs=40.2
Q ss_pred hCCCcccceEEEEEE--------ecCCccHHHHHHHHhhccCCCccceEEEECCeEcCc
Q 040720 24 EGIPPDQQRLITTLE--------VKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 24 ~gi~~~~q~L~~~~~--------v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d 74 (77)
+|+.+..-++++... .+.+-+-.++...|..+.|++..-.+.+-+||+|.-
T Consensus 33 TGlat~~Vrlv~~~k~~~m~l~k~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~ 91 (568)
T KOG2561|consen 33 TGLATESVRLVFAGKGDRMNLKKCSLHITGSELQALIAKKLGIKENHVKCIINGKILSC 91 (568)
T ss_pred cCccceeeEeccccccchhhhhhcccccccHHHHHHHHHHcCCchhhhheeeccceeec
Confidence 789999999988532 233445567899999999999888888999998753
No 197
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=40.76 E-value=37 Score=21.46 Aligned_cols=22 Identities=9% Similarity=0.076 Sum_probs=18.2
Q ss_pred EEEeeCCCcHHHHHHHhhhhhC
Q 040720 4 LLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~g 25 (77)
.+.+.++||.++|.++|.+.+.
T Consensus 153 ~Vpv~~~Dt~etl~~RV~~~Eh 174 (200)
T COG0299 153 AVPVLPGDTAETLEARVLEQEH 174 (200)
T ss_pred eeeecCCCCHHHHHHHHHHHHH
Confidence 4678899999999999987643
No 198
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=40.40 E-value=36 Score=22.44 Aligned_cols=23 Identities=17% Similarity=-0.088 Sum_probs=19.0
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~g 25 (77)
-.+.|.++||.++|.+++.+.+.
T Consensus 238 ~~v~I~~~dt~~~L~~r~~~~E~ 260 (286)
T PRK13011 238 DVERVDHAYSPEDLVAKGRDVEC 260 (286)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 35788999999999999987654
No 199
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=39.73 E-value=38 Score=25.95 Aligned_cols=33 Identities=9% Similarity=0.177 Sum_probs=28.9
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccceEE
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQRLI 34 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~ 34 (77)
-+-+.|+.-.+++.+|.+|++..+++.+..++.
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~V~~~HFKi~ 910 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLEVDKDHFKIV 910 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhCcChhHeEEE
Confidence 356888999999999999999999998887775
No 200
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=38.91 E-value=51 Score=17.15 Aligned_cols=33 Identities=15% Similarity=0.188 Sum_probs=22.4
Q ss_pred CCccHHHHHHHHhhccCCCccceEEEECCeEcCc
Q 040720 41 SSDTINNVKSKIQDKEGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 41 ~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~d 74 (77)
.-.|+.+|...-.+++|++ ....+.-+|-.++|
T Consensus 24 lP~SleeLl~ia~~kfg~~-~~~v~~~dgaeIdD 56 (69)
T PF11834_consen 24 LPDSLEELLKIASEKFGFS-ATKVLNEDGAEIDD 56 (69)
T ss_pred cCccHHHHHHHHHHHhCCC-ceEEEcCCCCEEeE
Confidence 3468888888888888886 33445566666544
No 201
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=38.80 E-value=40 Score=14.82 Aligned_cols=18 Identities=11% Similarity=0.438 Sum_probs=11.0
Q ss_pred CCcHHHHHHHhhhhhCCCc
Q 040720 10 PTPLINVKAKIQDKEGIPP 28 (77)
Q Consensus 10 ~~tv~~lK~~i~~~~gi~~ 28 (77)
..|+.+||+.+.+ .|+|.
T Consensus 3 ~l~v~eLk~~l~~-~gL~~ 20 (35)
T PF02037_consen 3 KLTVAELKEELKE-RGLST 20 (35)
T ss_dssp TSHHHHHHHHHHH-TTS-S
T ss_pred cCcHHHHHHHHHH-CCCCC
Confidence 4677788776554 66654
No 202
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=38.79 E-value=40 Score=22.20 Aligned_cols=23 Identities=9% Similarity=-0.051 Sum_probs=19.0
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~g 25 (77)
-.+.+.++||.++|.+++.+.+.
T Consensus 233 ~~v~I~~~dt~~~L~~ri~~~E~ 255 (280)
T TIGR00655 233 DVVRVDHTDNVEDLIRAGRDIEK 255 (280)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 35778899999999999987654
No 203
>cd05885 Ig2_Necl-4 Second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Ig2_Necl-4: second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Nectin-like molecules have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1-Necl-5). These have an extracellular region containing three Ig-like domains, one transmembrane region, and one cytoplasmic region. Ig domains are likely to participate in ligand binding and recognition. Necl-4 is expressed on Schwann cells, and plays a key part in initiating peripheral nervous system (PNS) myelination. In injured peripheral nerve cells, the mRNA signal for both Necl-4 and Necl-5 was observed to be elevated. Necl-4 participates in cell-cell adhesion and is proposed to play a role in tumor suppression.
Probab=38.52 E-value=45 Score=17.65 Aligned_cols=19 Identities=21% Similarity=0.092 Sum_probs=16.2
Q ss_pred cCCCccceEEEECCeEcCc
Q 040720 56 EGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~d 74 (77)
.|-|+...+|+-+|++|..
T Consensus 10 ~skP~a~i~W~k~~~~l~~ 28 (80)
T cd05885 10 RSKPAATLRWYRDRKELKG 28 (80)
T ss_pred CccCCCeEEEEECCEECCC
Confidence 4679999999999999854
No 204
>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=38.24 E-value=31 Score=18.25 Aligned_cols=17 Identities=18% Similarity=0.427 Sum_probs=13.8
Q ss_pred CCcHHHHHHHhhhhhCC
Q 040720 10 PTPLINVKAKIQDKEGI 26 (77)
Q Consensus 10 ~~tv~~lK~~i~~~~gi 26 (77)
+-+|++||..|.+..++
T Consensus 20 ~Isv~dLKr~I~~~~~l 36 (74)
T PF08783_consen 20 SISVFDLKREIIEKKKL 36 (74)
T ss_dssp EEEHHHHHHHHHHHHT-
T ss_pred eeEHHHHHHHHHHHhCC
Confidence 47899999999877666
No 205
>PF06543 Lac_bphage_repr: Lactococcus bacteriophage repressor; InterPro: IPR009498 This entry represents the C terminus of various Lactococcus bacteriophage repressor proteins.
Probab=38.24 E-value=16 Score=17.74 Aligned_cols=12 Identities=25% Similarity=0.185 Sum_probs=9.3
Q ss_pred EEEECCeEcCcc
Q 040720 64 RLIFAGINLKLV 75 (77)
Q Consensus 64 ~l~~~g~~L~d~ 75 (77)
.+.|+|++|.|.
T Consensus 23 wvSf~GrPltde 34 (49)
T PF06543_consen 23 WVSFDGRPLTDE 34 (49)
T ss_pred heeeCCeeCCHH
Confidence 467999999764
No 206
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=37.74 E-value=67 Score=17.11 Aligned_cols=50 Identities=14% Similarity=0.233 Sum_probs=20.9
Q ss_pred CCcccceEEEEEEecCCccHHHHH-------HHHhhccCCCccceEEEECCeEcCcc
Q 040720 26 IPPDQQRLITTLEVKSSDTINNVK-------SKIQDKEGIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 26 i~~~~q~L~~~~~v~~~~tv~~lK-------~~i~~~~gip~~~q~l~~~g~~L~d~ 75 (77)
++-...-++..+.+....+.+.-+ ..+++..|++++...+...-...+||
T Consensus 23 ~~Rs~~~v~I~It~~~gRs~e~K~~ly~~l~~~L~~~~gi~p~Dv~I~l~e~~~edW 79 (82)
T PF14552_consen 23 IDRSDDFVIIQITSGAGRSTEQKKALYRALAERLAEKLGIRPEDVMIVLVENPREDW 79 (82)
T ss_dssp -TS-TT-EEEEEEECS---HHHHHHHHHHHHHHHHHHH---GGGEEEEEEEE-GGGE
T ss_pred CCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHcCCCHHHEEEEEEECCcccC
Confidence 333344444455555555555433 44555567877776665544444443
No 207
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=37.57 E-value=80 Score=21.18 Aligned_cols=53 Identities=15% Similarity=0.182 Sum_probs=35.9
Q ss_pred cHHHHHHHhhhhh--------------C-CCcccceEEEEE-EecCCccHHHHHHHHhhccCCCccceEEEEC
Q 040720 12 PLINVKAKIQDKE--------------G-IPPDQQRLITTL-EVKSSDTINNVKSKIQDKEGIPPDQQRLIFA 68 (77)
Q Consensus 12 tv~~lK~~i~~~~--------------g-i~~~~q~L~~~~-~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~ 68 (77)
-|..|+..|.++. . -|.+...|+|.. .++++.|++.+|..+....| ...|.|+
T Consensus 259 rvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~----di~L~YR 327 (331)
T PF11816_consen 259 RVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSG----DIVLHYR 327 (331)
T ss_pred hhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCC----eEEEEEE
Confidence 4556666666665 2 344556677765 67999999999999888755 3445554
No 208
>PRK15492 triosephosphate isomerase; Provisional
Probab=37.41 E-value=1.2e+02 Score=19.85 Aligned_cols=62 Identities=19% Similarity=0.231 Sum_probs=36.4
Q ss_pred CCcHHHHHHHhhhh-hCCCccc-ceEEEEEE-ec--CC-----------ccHHHHHHHHhhccCCCccceEEEECCeE
Q 040720 10 PTPLINVKAKIQDK-EGIPPDQ-QRLITTLE-VK--SS-----------DTINNVKSKIQDKEGIPPDQQRLIFAGIN 71 (77)
Q Consensus 10 ~~tv~~lK~~i~~~-~gi~~~~-q~L~~~~~-v~--~~-----------~tv~~lK~~i~~~~gip~~~q~l~~~g~~ 71 (77)
+.|..-++.+++.. .+++++. ++++.+++ +. .+ .....++..+.+.++-..+..+++|+|..
T Consensus 144 g~~~~v~~~Ql~~~l~~~~~~~~~~iiIAYEPvWAIGtgg~~as~e~~~~~~~~Ir~~l~~~~~~~~~~irILYGGSV 221 (260)
T PRK15492 144 GISDEILRTQLKIGLHGINPDQLAKLRIAYEPVWAIGEAGIPASADYADEKHAVIKQCLIELFGDAGDDIPVFYGGSV 221 (260)
T ss_pred CCHHHHHHHHHHHHHhcCCHhhcCceEEEECChHHhCCCCCCCCHHHHHHHHHHHHHHHHHHhccccCceeEEEcCcc
Confidence 46677778888765 5777654 67766442 11 11 12223555555555533556799999976
No 209
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=37.22 E-value=69 Score=17.08 Aligned_cols=32 Identities=25% Similarity=0.393 Sum_probs=14.7
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceEEE-ECCeE
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQRLI-FAGIN 71 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~-~~g~~ 71 (77)
....+...||.++- +..|+|..+.-++ -+|+.
T Consensus 26 ~~~~~~~~tvkd~I----EsLGVP~tEV~~i~vNG~~ 58 (81)
T PF14451_consen 26 THPFDGGATVKDVI----ESLGVPHTEVGLILVNGRP 58 (81)
T ss_pred EEecCCCCcHHHHH----HHcCCChHHeEEEEECCEE
Confidence 33445555555443 2245555544433 34443
No 210
>PF07984 DUF1693: Domain of unknown function (DUF1693) ; InterPro: IPR012937 This domain occurs in many hypothetical proteins. It also occurs in some prion-like proteins.
Probab=36.91 E-value=29 Score=23.55 Aligned_cols=30 Identities=23% Similarity=0.401 Sum_probs=25.3
Q ss_pred EEEeeCCCcHHHHHHHhhhhhCCCcccceEE
Q 040720 4 LLMWKAPTPLINVKAKIQDKEGIPPDQQRLI 34 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~ 34 (77)
+++|.+.+=|..|+.++++. ||+..+-+|.
T Consensus 27 Tl~v~l~~LI~~Vr~~L~~~-GI~VkdVRLN 56 (320)
T PF07984_consen 27 TLEVRLKDLIQVVRDRLEER-GIPVKDVRLN 56 (320)
T ss_pred eEEeeHHHHHHHHHHHHHHc-CCCccceEEe
Confidence 68889999999999999885 8888777774
No 211
>PF03610 EIIA-man: PTS system fructose IIA component; InterPro: IPR004701 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for IIA and IIB components.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane; PDB: 3GDW_B 2JZN_A 1VSQ_A 2JZO_B 1VRC_A 1PDO_A 3GX1_A 3B48_B 3BED_B 3IPR_C ....
Probab=36.77 E-value=77 Score=17.50 Aligned_cols=20 Identities=10% Similarity=0.476 Sum_probs=9.2
Q ss_pred EEEecCCccHHHHHHHHhhc
Q 040720 36 TLEVKSSDTINNVKSKIQDK 55 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~ 55 (77)
++...++.++.++...+.+.
T Consensus 31 ~~~~~~~~~~~~~~~~l~~~ 50 (116)
T PF03610_consen 31 AVDLYPDESIEDFEEKLEEA 50 (116)
T ss_dssp EEEETTTSCHHHHHHHHHHH
T ss_pred EEECcCCCCHHHHHHHHHHH
Confidence 34444444554444444444
No 212
>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=35.99 E-value=73 Score=17.13 Aligned_cols=21 Identities=10% Similarity=0.072 Sum_probs=14.3
Q ss_pred EEeeCCCcHHHHHHHhhhhhC
Q 040720 5 LMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~~g 25 (77)
|+++++.|..++-+.+++...
T Consensus 1 i~v~~~~TL~~lid~L~~~~~ 21 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPE 21 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTT
T ss_pred CCcCccchHHHHHHHHHhChh
Confidence 467777777777777766533
No 213
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=35.12 E-value=49 Score=21.88 Aligned_cols=23 Identities=17% Similarity=-0.087 Sum_probs=19.1
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~g 25 (77)
..+.|.++||.++|.+++...+.
T Consensus 242 ~~v~V~~~dt~e~L~~r~~~~E~ 264 (289)
T PRK13010 242 DVERVDHSYSPEDLVAKGRDVEC 264 (289)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 46788999999999999987654
No 214
>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.14 E-value=1.1e+02 Score=18.68 Aligned_cols=44 Identities=20% Similarity=0.244 Sum_probs=27.6
Q ss_pred cccceEEEEEEecCCccHHHHHHHHhhccCCCc--cceEEEECCeE
Q 040720 28 PDQQRLITTLEVKSSDTINNVKSKIQDKEGIPP--DQQRLIFAGIN 71 (77)
Q Consensus 28 ~~~q~L~~~~~v~~~~tv~~lK~~i~~~~gip~--~~q~l~~~g~~ 71 (77)
+..|-|+|-++..+.+.+++.++.+....+-+. +--.|++++++
T Consensus 83 ~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQ 128 (180)
T KOG0071|consen 83 TGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQ 128 (180)
T ss_pred cCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCc
Confidence 367778887777677788877777776655332 22335555554
No 215
>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B ....
Probab=33.74 E-value=76 Score=17.99 Aligned_cols=23 Identities=4% Similarity=0.108 Sum_probs=20.1
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhh
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKE 24 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~ 24 (77)
++.+++.++.||.++=.+|.+..
T Consensus 20 ~y~v~~~~~~tVLd~L~~Ik~~~ 42 (110)
T PF13085_consen 20 EYEVPVEPGMTVLDALNYIKEEQ 42 (110)
T ss_dssp EEEEEGGSTSBHHHHHHHHHHHT
T ss_pred EEEecCCCCCcHHHHHHHHHhcc
Confidence 47889999999999999998865
No 216
>cd05864 Ig2_VEGFR-2 Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 2 (VEGFR-2). Ig2_VEGF-2: Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 2 (VEGFR-2). The VEGFRs have an extracellular component with seven Ig-like domains, a transmembrane segment, and an intracellular tyrosine kinase domain interrupted by a kinase-insert domain. VEGFRs bind VEGFs with high affinity at the Ig-like domains. VEGFR-2 (KDR/Flk-1) is a major mediator of the mitogenic, angiogenic and microvascular permeability-enhancing effects of VEGF-A; VEGF-A is important to the growth and maintenance of vascular endothelial cells and to the development of new blood- and lymphatic-vessels in physiological and pathological states. VEGF-A also interacts with VEGFR-1, which it binds more strongly than VEGFR-2. VEGFR-2 and -1 may mediate a chemotactic and a survival signal in hematopoietic stem cells or leukemia cells.
Probab=33.46 E-value=44 Score=16.85 Aligned_cols=19 Identities=26% Similarity=0.394 Sum_probs=15.4
Q ss_pred cCCCccceEEEECCeEcCc
Q 040720 56 EGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~d 74 (77)
.|.|.....|..+|++|..
T Consensus 8 ~G~P~P~v~W~k~g~~l~~ 26 (70)
T cd05864 8 YGYPPPEVKWYKNGQLIVL 26 (70)
T ss_pred EEeCCCEEEEEECCEECCC
Confidence 4788888889999998864
No 217
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.37 E-value=37 Score=16.82 Aligned_cols=25 Identities=4% Similarity=-0.012 Sum_probs=18.2
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIP 27 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~ 27 (77)
+.+++...+....+..+++...|+-
T Consensus 44 ~~vev~~~~~l~~i~~~L~~i~gV~ 68 (74)
T cd04887 44 ITVDAPSEEHAETIVAAVRALPEVK 68 (74)
T ss_pred EEEEcCCHHHHHHHHHHHhcCCCeE
Confidence 5677777777778888877777753
No 218
>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=32.91 E-value=84 Score=16.81 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=12.5
Q ss_pred CcHHHHHHHhhhhhCCCcccc
Q 040720 11 TPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 11 ~tv~~lK~~i~~~~gi~~~~q 31 (77)
.+..+|+.|..++.+++...-
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~ 41 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPV 41 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCe
Confidence 355666666666666664333
No 219
>PF08043 Xin: Xin repeat; InterPro: IPR012510 The repeat has the consensus sequence GDV(K/Q/R)(T/S/G)X(R/K/T) WLFETXPLD. This repeat motif is typically found in the N terminus of the proteins, with a copy number between 2 and 28 repeats. Direct evidence for binding to and stabilising F-actin has been found in the human protein (Q702N9 from SWISSPROT) []. The homologues in mouse and chicken localise in the adherens junction complex of the intercalated disc in cardiac muscle and in the myotendon junction of skeletal muscle. mXin may co-localise with Vinculin which is known to attach the actin to the cytoplasmic membrane []. It has been shown that the amino-terminus of human xin (CMYA1) binds the EVH1 domain of Mena/VASP/EVL, and the carboxy-terminus binds the, for the filamin family unique, domain 20 of filamin C []. This confirms the proposed role of xin repeat containing proteins as F-actin-binding adapter proteins.; GO: 0003779 actin binding, 0030036 actin cytoskeleton organization, 0030054 cell junction
Probab=32.81 E-value=37 Score=12.65 Aligned_cols=13 Identities=23% Similarity=0.383 Sum_probs=9.0
Q ss_pred cceEEEECCeEcC
Q 040720 61 DQQRLIFAGINLK 73 (77)
Q Consensus 61 ~~q~l~~~g~~L~ 73 (77)
...+++|..++|+
T Consensus 4 ~~~~wlFEtqplD 16 (16)
T PF08043_consen 4 KTTRWLFETQPLD 16 (16)
T ss_pred ceeEEEeecccCC
Confidence 3467888887764
No 220
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=32.75 E-value=51 Score=14.30 Aligned_cols=18 Identities=11% Similarity=0.361 Sum_probs=11.5
Q ss_pred CCcHHHHHHHhhhhhCCCc
Q 040720 10 PTPLINVKAKIQDKEGIPP 28 (77)
Q Consensus 10 ~~tv~~lK~~i~~~~gi~~ 28 (77)
+.|+.+||+.+.+ .|+|.
T Consensus 3 ~l~~~~Lk~~l~~-~gl~~ 20 (35)
T smart00513 3 KLKVSELKDELKK-RGLST 20 (35)
T ss_pred cCcHHHHHHHHHH-cCCCC
Confidence 4677788766554 66664
No 221
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=32.36 E-value=47 Score=18.55 Aligned_cols=18 Identities=6% Similarity=0.047 Sum_probs=14.7
Q ss_pred EEEEeeCCCcHHHHHHHh
Q 040720 3 LLLMWKAPTPLINVKAKI 20 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i 20 (77)
..+.|.++||.+++-++.
T Consensus 37 ~~~tV~~GDTLW~IA~~y 54 (103)
T PRK14125 37 VEITVQEGDTLWALADQY 54 (103)
T ss_pred EEEEECCCCCHHHHHHHh
Confidence 467899999999987764
No 222
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=31.72 E-value=59 Score=14.71 Aligned_cols=13 Identities=15% Similarity=0.286 Sum_probs=9.3
Q ss_pred ccceEEEECCeEc
Q 040720 60 PDQQRLIFAGINL 72 (77)
Q Consensus 60 ~~~q~l~~~g~~L 72 (77)
..|..+.|+|+..
T Consensus 5 ~~qLTIfY~G~V~ 17 (36)
T PF06200_consen 5 TAQLTIFYGGQVC 17 (36)
T ss_pred CCcEEEEECCEEE
Confidence 3456688999875
No 223
>cd05855 Ig_TrkB_d5 Fifth domain (immunoglobulin-like) of Trk receptor TrkB. TrkB_d5: the fifth domain of Trk receptor TrkB, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors, which mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. The Trks are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkB shares significant sequence homology and domain organization with TrkA, and TrkC. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. In some cell systems NT-3 can activate TrkA and TrkB receptors. TrKB transcripts are found throughout multiple structures of the central and peripheral nervous systems.
Probab=31.59 E-value=55 Score=17.12 Aligned_cols=19 Identities=21% Similarity=0.289 Sum_probs=15.5
Q ss_pred cCCCccceEEEECCeEcCc
Q 040720 56 EGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~d 74 (77)
.|-|.....|.++|++|.+
T Consensus 8 ~G~P~Pti~W~kng~~l~~ 26 (79)
T cd05855 8 KGNPKPTLQWFHEGAILNE 26 (79)
T ss_pred eEeCCCceEEEECCEECCC
Confidence 4778888889999999854
No 224
>cd06397 PB1_UP1 Uncharacterized protein 1. 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 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.
Probab=31.44 E-value=93 Score=16.87 Aligned_cols=30 Identities=7% Similarity=0.120 Sum_probs=23.5
Q ss_pred EeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 6 MWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 6 ~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
.++..-|-+.|++||....++|+..--+.|
T Consensus 15 ~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtY 44 (82)
T cd06397 15 VFPDIPTWEALASKLENLYNLPEIKVGVTY 44 (82)
T ss_pred ecCCCccHHHHHHHHHHHhCCChhHeEEEE
Confidence 345567788999999999999988755544
No 225
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=30.97 E-value=81 Score=17.52 Aligned_cols=23 Identities=22% Similarity=0.413 Sum_probs=15.2
Q ss_pred HHHHHHHhhhhhCCCcccceEEE
Q 040720 13 LINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 13 v~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
.+.|-+-+++..|||+++.-+.|
T Consensus 76 s~~i~~~l~~~LgIp~~Riyi~f 98 (114)
T PF01187_consen 76 SAAITEFLEEELGIPPDRIYINF 98 (114)
T ss_dssp HHHHHHHHHHHHT--GGGEEEEE
T ss_pred HHHHHHHHHHHhCCCcCceEEEE
Confidence 34677778888999988776554
No 226
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=30.89 E-value=44 Score=15.01 Aligned_cols=17 Identities=18% Similarity=0.395 Sum_probs=8.7
Q ss_pred CCcHHHHHHHhhhhhCCC
Q 040720 10 PTPLINVKAKIQDKEGIP 27 (77)
Q Consensus 10 ~~tv~~lK~~i~~~~gi~ 27 (77)
+.||.+||..+.+ .||+
T Consensus 3 sltV~~Lk~iL~~-~~I~ 19 (35)
T PF12949_consen 3 SLTVAQLKRILDE-HGIE 19 (35)
T ss_dssp T--SHHHHHHHHH-HT--
T ss_pred cCcHHHHHHHHHH-cCCC
Confidence 4677778776655 5553
No 227
>cd08010 yceG_like proteins similar to Escherichia coli yceG. The gene product of Escherichia coli yceG has been erroneously annotated as an aminodeoxychorismate lyase. Its overexpression has been reported to cause abnormal biofilm architecture, and it has been reported to be part of a putative five-gene operon. It might function as a periplasmic solute-binding protein. The family also includes Streptomyces caeruleus NovB, an uncharacterized member of the novobiocin biosynthetic gene cluster.
Probab=30.41 E-value=71 Score=20.58 Aligned_cols=26 Identities=8% Similarity=0.143 Sum_probs=18.7
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCc
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPP 28 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~ 28 (77)
+.+.+.++.|+.++-.+|++..+++.
T Consensus 29 ~~vti~eG~t~~~i~~~l~~~~~~~~ 54 (245)
T cd08010 29 VKVTIPEGYTLKQIAKALSKAGGLSD 54 (245)
T ss_pred EEEEEcCCccHHHHHHHHHhccCCCH
Confidence 46777778888888777777666553
No 228
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=29.78 E-value=1.3e+02 Score=18.38 Aligned_cols=31 Identities=6% Similarity=-0.084 Sum_probs=22.8
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCcccce
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQQR 32 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~ 32 (77)
.+++.|++..|=.+||..|+...|+.+..-.
T Consensus 24 ~ytF~V~~~anK~eIK~AVE~iF~VkV~~VN 54 (158)
T PRK12280 24 VYTFKVDRRANKIEIKKAVEFIFKVKVLKVN 54 (158)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEE
Confidence 4667788888888888888888887665443
No 229
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=29.77 E-value=84 Score=18.13 Aligned_cols=33 Identities=15% Similarity=0.290 Sum_probs=27.4
Q ss_pred EEecCCccHHHHHHHHhhccCCCccceEEEECC
Q 040720 37 LEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAG 69 (77)
Q Consensus 37 ~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g 69 (77)
+-|+++-||+++-..|..+..+++++--++|=+
T Consensus 49 yLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn 81 (116)
T KOG1654|consen 49 YLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVN 81 (116)
T ss_pred eeccccccHHHHHHHHHHHhccChhHeEEEEEc
Confidence 457888999999999999999998877766543
No 230
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.61 E-value=50 Score=22.80 Aligned_cols=28 Identities=11% Similarity=0.192 Sum_probs=25.2
Q ss_pred eCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 8 KAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 8 ~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
.-.-||-++|.++..+.|+.+..++|+|
T Consensus 355 ~~~~TV~D~~~~Ld~~VGvk~trMkLf~ 382 (418)
T KOG2982|consen 355 CMTRTVLDFMKILDPKVGVKFTRMKLFL 382 (418)
T ss_pred EeehHHHHHHHHhccccccccceeEEEE
Confidence 3347999999999999999999999987
No 231
>KOG3157 consensus Proline synthetase co-transcribed protein [General function prediction only]
Probab=28.97 E-value=35 Score=22.01 Aligned_cols=23 Identities=39% Similarity=0.583 Sum_probs=19.3
Q ss_pred cHHHHHHHhhhhhCCCcccceEE
Q 040720 12 PLINVKAKIQDKEGIPPDQQRLI 34 (77)
Q Consensus 12 tv~~lK~~i~~~~gi~~~~q~L~ 34 (77)
+..++++.|+++.|+|+++-.|.
T Consensus 187 ~L~~~r~~ic~~lg~~~dq~eLS 209 (244)
T KOG3157|consen 187 VLVKLRESICKKLGIPADQVELS 209 (244)
T ss_pred HHHHHHHHHHHHhCCChHHhhhh
Confidence 46689999999999998887764
No 232
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3. S3 is part of the head region of the 40S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=28.40 E-value=1e+02 Score=16.34 Aligned_cols=23 Identities=9% Similarity=0.169 Sum_probs=15.7
Q ss_pred CCCcHHHHHHHhhhhhCCCcccc
Q 040720 9 APTPLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 9 ~~~tv~~lK~~i~~~~gi~~~~q 31 (77)
.+.++.+|++.++...|++..+.
T Consensus 48 ~G~~i~~L~~~L~k~~~~~~~~i 70 (81)
T cd02413 48 KGRRIRELTSLVQKRFNFPEGSV 70 (81)
T ss_pred CchhHHHHHHHHHHHhCCCCCeE
Confidence 34677778888888777764443
No 233
>PRK01777 hypothetical protein; Validated
Probab=28.30 E-value=1.1e+02 Score=16.79 Aligned_cols=13 Identities=8% Similarity=0.033 Sum_probs=6.6
Q ss_pred EEEeeCCCcHHHH
Q 040720 4 LLMWKAPTPLINV 16 (77)
Q Consensus 4 ~~~v~~~~tv~~l 16 (77)
.+++.++.||.++
T Consensus 20 ~l~vp~GtTv~da 32 (95)
T PRK01777 20 RLTLQEGATVEEA 32 (95)
T ss_pred EEEcCCCCcHHHH
Confidence 4455555555544
No 234
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.20 E-value=64 Score=15.91 Aligned_cols=24 Identities=4% Similarity=0.185 Sum_probs=12.0
Q ss_pred EEEEeeCCC-cHHHHHHHhhhhhCC
Q 040720 3 LLLMWKAPT-PLINVKAKIQDKEGI 26 (77)
Q Consensus 3 ~~~~v~~~~-tv~~lK~~i~~~~gi 26 (77)
+++++...+ -+..+..++.+..|+
T Consensus 45 ~~v~v~~~~~~l~~l~~~L~~i~~V 69 (76)
T cd04888 45 ISIDTSTMNGDIDELLEELREIDGV 69 (76)
T ss_pred EEEEcCchHHHHHHHHHHHhcCCCe
Confidence 344444444 445555555555554
No 235
>COG3900 Predicted periplasmic protein [Function unknown]
Probab=28.10 E-value=53 Score=21.39 Aligned_cols=27 Identities=30% Similarity=0.423 Sum_probs=20.5
Q ss_pred eCCCcHHHHHHHhhhhhCCCcccceEE
Q 040720 8 KAPTPLINVKAKIQDKEGIPPDQQRLI 34 (77)
Q Consensus 8 ~~~~tv~~lK~~i~~~~gi~~~~q~L~ 34 (77)
+.-.||..+-+.|..+.|++.----|.
T Consensus 122 eapgTiD~lvdei~~kyG~~lp~adll 148 (262)
T COG3900 122 EAPGTIDELVDEIDDKYGITLPGADLL 148 (262)
T ss_pred cCCCcHHHHHHHHHhhcCCCccchhhh
Confidence 334599999999999999985444443
No 236
>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=28.06 E-value=98 Score=17.22 Aligned_cols=22 Identities=18% Similarity=-0.058 Sum_probs=17.5
Q ss_pred eEEEEeeCCCcHHHHHHHhhhh
Q 040720 2 RLLLMWKAPTPLINVKAKIQDK 23 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~ 23 (77)
++++.+.+++|+.+|.+.+-.+
T Consensus 30 ~~t~~v~~~~~p~~li~~~l~k 51 (108)
T smart00144 30 TKTLKVNPNCTPDSVLAQAFTK 51 (108)
T ss_pred eEEEEECCCCCHHHHHHHHHHH
Confidence 4788899999999888776554
No 237
>cd05859 Ig4_PDGFR-alpha Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. IG4_PDGFR-alpha: The fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. PDGF is a potent mitogen for connective tissue cells. PDGF-stimulated processes are mediated by three different PDGFs (PDGF-A,-B, and C). PDGFR alpha binds to all three PDGFs, whereas the PDGFR beta (not included in this group) binds only to PDGF-B. PDGF alpha is organized as an extracellular component having five Ig-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. In mice, PDGFR alpha and PDGFR beta are essential for normal development.
Probab=28.05 E-value=69 Score=17.35 Aligned_cols=19 Identities=26% Similarity=0.242 Sum_probs=15.1
Q ss_pred CCCccceEEEECCeEcCcc
Q 040720 57 GIPPDQQRLIFAGINLKLV 75 (77)
Q Consensus 57 gip~~~q~l~~~g~~L~d~ 75 (77)
|.|+....|..+|++|.+.
T Consensus 29 g~P~P~v~W~kdg~~l~~~ 47 (101)
T cd05859 29 AYPPPQIRWLKDNRTLIEN 47 (101)
T ss_pred EeCCCceEEEECCEECcCC
Confidence 6777788899999998643
No 238
>KOG3084 consensus NADH pyrophosphatase I of the Nudix family of hydrolases [Replication, recombination and repair]
Probab=27.84 E-value=68 Score=21.95 Aligned_cols=28 Identities=11% Similarity=0.204 Sum_probs=23.4
Q ss_pred eeCCCcHH-HHHHHhhhhhCCCcccceEE
Q 040720 7 WKAPTPLI-NVKAKIQDKEGIPPDQQRLI 34 (77)
Q Consensus 7 v~~~~tv~-~lK~~i~~~~gi~~~~q~L~ 34 (77)
++|++|++ .+...++++.||.++....+
T Consensus 222 lEpGES~eeav~REtwEEtGi~V~~I~~~ 250 (345)
T KOG3084|consen 222 LEPGESIEEAVRRETWEETGIEVEVISYV 250 (345)
T ss_pred CCccccHHHHHHHHHHHHhCceeeeEeee
Confidence 47889998 68888999999999888743
No 239
>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=27.62 E-value=1.1e+02 Score=16.43 Aligned_cols=20 Identities=20% Similarity=0.084 Sum_probs=12.3
Q ss_pred cHHHHHHHhhhhhCCCcccc
Q 040720 12 PLINVKAKIQDKEGIPPDQQ 31 (77)
Q Consensus 12 tv~~lK~~i~~~~gi~~~~q 31 (77)
+..+|+.|..+..+++...-
T Consensus 22 sL~EL~~K~~~~l~~~~~~~ 41 (78)
T cd06539 22 SLQELISKTLDALVITSGLV 41 (78)
T ss_pred CHHHHHHHHHHHhCCCCCCc
Confidence 55666666666666665433
No 240
>cd07702 Ig2_VEGFR-1 Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 1 (VEGFR-1). Ig2_VEGFR-1: Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 1 (VEGFR-1). VEGFRs have an extracellular component with seven Ig-like domains, a transmembrane segment, and an intracellular tyrosine kinase domain interrupted by a kinase-insert domain. VEGFRs bind VEGFs with high affinity at the Ig-like domains. VEGFR-1 binds VEGF-A strongly; VEGF-A is important to the growth and maintenance of vascular endothelial cells and to the development of new blood- and lymphatic-vessels in physiological and pathological states. VEGFR-1 may play an inhibitory rolet in the function of VEGFR-2 by binding VEGF-A and interfering with its interaction with VEGFR-2. VEGFR-1 has a signaling role in mediating monocyte chemotaxis and may mediate a chemotactic and a survival signal in hematopoietic stem cells or leukemia cells.
Probab=27.52 E-value=74 Score=16.22 Aligned_cols=19 Identities=11% Similarity=0.183 Sum_probs=14.4
Q ss_pred cCCCccceEEEECCeEcCc
Q 040720 56 EGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~d 74 (77)
.|.|+....|..+|.++.+
T Consensus 8 ~g~P~P~v~W~kdg~~l~~ 26 (72)
T cd07702 8 KAFPAPEVIWLKDGLPAAE 26 (72)
T ss_pred EEcCCCeEEEEECCEECCC
Confidence 4777777888888888754
No 241
>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=27.37 E-value=1.2e+02 Score=16.94 Aligned_cols=33 Identities=15% Similarity=0.123 Sum_probs=24.8
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCc-ccceEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPP-DQQRLIT 35 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~ 35 (77)
.++.++.+.||++|-..++.+..++. ...+|+.
T Consensus 15 ~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l 48 (97)
T cd01775 15 TTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSL 48 (97)
T ss_pred EEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEE
Confidence 46778888999999888888888876 4444443
No 242
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=27.33 E-value=47 Score=19.85 Aligned_cols=29 Identities=17% Similarity=0.449 Sum_probs=24.3
Q ss_pred EEEecCCccHHHHHHHHhhccCCCccceE
Q 040720 36 TLEVKSSDTINNVKSKIQDKEGIPPDQQR 64 (77)
Q Consensus 36 ~~~v~~~~tv~~lK~~i~~~~gip~~~q~ 64 (77)
-+.+.+.....+||.++.-.+|+.|+++|
T Consensus 77 IicLEDGkkfKSLKRHL~t~~gmTPd~YR 105 (148)
T COG4957 77 IICLEDGKKFKSLKRHLTTHYGLTPDEYR 105 (148)
T ss_pred EEEeccCcchHHHHHHHhcccCCCHHHHH
Confidence 35678888999999999999999888765
No 243
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=27.01 E-value=60 Score=15.96 Aligned_cols=22 Identities=9% Similarity=0.392 Sum_probs=12.7
Q ss_pred eCCCcHHHHHHHhhhhhCCCcc
Q 040720 8 KAPTPLINVKAKIQDKEGIPPD 29 (77)
Q Consensus 8 ~~~~tv~~lK~~i~~~~gi~~~ 29 (77)
+...|+.++-..+++..+++++
T Consensus 27 ~g~~t~~ei~~~l~~~y~~~~~ 48 (68)
T PF05402_consen 27 DGPRTVEEIVDALAEEYDVDPE 48 (68)
T ss_dssp -SSS-HHHHHHHHHHHTT--HH
T ss_pred cCCCCHHHHHHHHHHHcCCCHH
Confidence 3456777777777777776654
No 244
>PF12085 DUF3562: Protein of unknown function (DUF3562); InterPro: IPR021945 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 62 to 84 amino acids in length. This protein has two completely conserved residues (A and Y) that may be functionally important.
Probab=26.91 E-value=68 Score=16.65 Aligned_cols=40 Identities=18% Similarity=0.319 Sum_probs=24.5
Q ss_pred CCcHHHHHHHhhhhhCCCcccceEEEE--E-EecCCccHHHHH
Q 040720 10 PTPLINVKAKIQDKEGIPPDQQRLITT--L-EVKSSDTINNVK 49 (77)
Q Consensus 10 ~~tv~~lK~~i~~~~gi~~~~q~L~~~--~-~v~~~~tv~~lK 49 (77)
.+++.++=..|++..|+|.+.-+=.|. . ....+..|.++-
T Consensus 3 ~~~~~e~i~~iA~~t~~P~e~V~~my~dt~~~l~~~ARV~DYl 45 (66)
T PF12085_consen 3 QDNVDEVIRSIAEETGTPAETVRRMYDDTMRELSSGARVHDYL 45 (66)
T ss_pred cccHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHcCCchhhhH
Confidence 366778888899999999776443332 1 234444444443
No 245
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=26.56 E-value=87 Score=14.94 Aligned_cols=47 Identities=11% Similarity=0.195 Sum_probs=28.6
Q ss_pred eeCCCcHHHHHHHhhhhhCCC-----cccceEEEEEEecCCccHHHHHHHHhh
Q 040720 7 WKAPTPLINVKAKIQDKEGIP-----PDQQRLITTLEVKSSDTINNVKSKIQD 54 (77)
Q Consensus 7 v~~~~tv~~lK~~i~~~~gi~-----~~~q~L~~~~~v~~~~tv~~lK~~i~~ 54 (77)
+....-...++..+....|+. ....++.+.+..+. .++..++..|+.
T Consensus 7 m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~-~~~~~i~~~i~~ 58 (62)
T PF00403_consen 7 MTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDK-TSIEKIIEAIEK 58 (62)
T ss_dssp TTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTT-SCHHHHHHHHHH
T ss_pred cccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCC-CCHHHHHHHHHH
Confidence 445556778888888888863 23344433343222 566777777765
No 246
>KOG2432 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.41 E-value=21 Score=25.61 Aligned_cols=50 Identities=22% Similarity=0.404 Sum_probs=32.4
Q ss_pred EeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEecCCccHHHHHHHHhhccC-CCccceEE
Q 040720 6 MWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEVKSSDTINNVKSKIQDKEG-IPPDQQRL 65 (77)
Q Consensus 6 ~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v~~~~tv~~lK~~i~~~~g-ip~~~q~l 65 (77)
||+.-|.|-.+|.+|. +|=. ..| .....|...+|..|++..| +|++.|-+
T Consensus 512 eve~vd~~lklk~kll--~~d~-~~~-------~~~~~t~qklr~~i~a~~~~lp~dlq~~ 562 (565)
T KOG2432|consen 512 EVEIVDMILKLKQKLL--YGDK-ATQ-------LNNGSTQQKLRAQIEAMKGLLPPDLQNV 562 (565)
T ss_pred hHHHHHHHHHHHHHHH--hhhh-hhc-------CCCcchHHHHHHHHHHHHhhCCHhHHhh
Confidence 3444466777787773 2211 111 1567788999999999998 48776654
No 247
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=25.89 E-value=45 Score=16.09 Aligned_cols=20 Identities=10% Similarity=0.295 Sum_probs=11.8
Q ss_pred CcHHHHHHHhhhhhCCCccc
Q 040720 11 TPLINVKAKIQDKEGIPPDQ 30 (77)
Q Consensus 11 ~tv~~lK~~i~~~~gi~~~~ 30 (77)
-|..+|+.++++..|++-..
T Consensus 21 vT~k~vr~~Le~~~~~dL~~ 40 (54)
T PF08766_consen 21 VTKKQVREQLEERFGVDLSS 40 (54)
T ss_dssp --HHHHHHHHHHH-SS--SH
T ss_pred hhHHHHHHHHHHHHCCCcHH
Confidence 57778888888888877543
No 248
>cd05863 Ig2_VEGFR-3 Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 3 (VEGFR-3). Ig2_VEGFR-3: Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 3 (VEGFR-3). The VEGFRs have an extracellular component with seven Ig-like domains, a transmembrane segment, and an intracellular tyrosine kinase domain interrupted by a kinase-insert domain. VEGFRs bind VEGFs with high affinity at the Ig-like domains. VEGFR-3 (Flt-4) binds two members of the VEGF family (VEGF-C and -D) and is involved in tumor angiogenesis and growth.
Probab=25.59 E-value=65 Score=16.17 Aligned_cols=18 Identities=17% Similarity=0.266 Sum_probs=14.5
Q ss_pred cCCCccceEEEECCeEcC
Q 040720 56 EGIPPDQQRLIFAGINLK 73 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~ 73 (77)
.|.|+....|..+|++|.
T Consensus 8 ~g~P~P~v~W~kdg~~l~ 25 (67)
T cd05863 8 AAYPPPEFQWYKDGKLIS 25 (67)
T ss_pred EEeCCCEEEEEECCEECc
Confidence 467777788899999885
No 249
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=25.55 E-value=1.1e+02 Score=16.00 Aligned_cols=55 Identities=18% Similarity=0.326 Sum_probs=39.4
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCc----ccceEEEEEEecCCccHHHHHHHHhhccCC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPP----DQQRLITTLEVKSSDTINNVKSKIQDKEGI 58 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~----~~q~L~~~~~v~~~~tv~~lK~~i~~~~gi 58 (77)
+.+.+.| +-..++++.|....|+.. +.-+|+..++-.....+...-..|+.-.|+
T Consensus 8 ~vV~~~p-~~~~~v~~~l~~~~gvEVh~~~~~GKiVVtiE~~~~~~~~~~~~~i~~l~GV 66 (79)
T PF03927_consen 8 LVVHARP-ERLEEVAEALAAIPGVEVHAVDEDGKIVVTIEAESSEEEVDLIDAINALPGV 66 (79)
T ss_dssp EEEEE-C-CCHHHHHHHHCCSTTEEEEEEETTTEEEEEEEESSHHHHHHHHHHHCCSTTE
T ss_pred EEEEECc-hhHHHHHHHHHcCCCcEEEeeCCCCeEEEEEEeCChHHHHHHHHHHHcCCCc
Confidence 5677777 588999999999988753 337888888877766666665666666653
No 250
>PF07687 M20_dimer: Peptidase dimerisation domain This family only corresponds to M20 family; InterPro: IPR011650 This domain consists of 4 beta strands and two alpha helices which make up the dimerisation surface of members of the MEROPS peptidase family M20 []. This family includes a range of zinc exopeptidases: carboxypeptidases, dipeptidases and specialised aminopeptidases [].; GO: 0016787 hydrolase activity; PDB: 3GB0_A 2F7V_A 1R3N_C 2VL1_D 2V8V_C 1R43_B 2V8G_B 2V8H_D 2V8D_A 3PFE_A ....
Probab=25.51 E-value=82 Score=16.68 Aligned_cols=21 Identities=19% Similarity=0.278 Sum_probs=15.9
Q ss_pred EEEEeeCCCcHHHHHHHhhhh
Q 040720 3 LLLMWKAPTPLINVKAKIQDK 23 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~ 23 (77)
+.+.+.|.++.+++++.|++.
T Consensus 83 ~~~R~~p~~~~~~i~~~i~~~ 103 (111)
T PF07687_consen 83 VDIRYPPGEDLEEIKAEIEAA 103 (111)
T ss_dssp EEEEESTCHHHHHHHHHHHHH
T ss_pred EEEECCCcchHHHHHHHHHHH
Confidence 566677888888888888754
No 251
>PRK08453 fliD flagellar capping protein; Validated
Probab=25.42 E-value=74 Score=23.85 Aligned_cols=21 Identities=29% Similarity=0.213 Sum_probs=19.3
Q ss_pred eEEEEeeCCCcHHHHHHHhhh
Q 040720 2 RLLLMWKAPTPLINVKAKIQD 22 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~ 22 (77)
+++|+|..+.|+.+|.++|-.
T Consensus 139 ~~sIdi~~gtTL~~L~~~INd 159 (673)
T PRK08453 139 DYAIDIKAGMTLGDVAQSITD 159 (673)
T ss_pred EEEEEeCCCCcHHHHHHHhcC
Confidence 588999999999999999984
No 252
>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=25.12 E-value=1.2e+02 Score=16.26 Aligned_cols=18 Identities=17% Similarity=0.281 Sum_probs=11.0
Q ss_pred CcHHHHHHHhhhhhCCCc
Q 040720 11 TPLINVKAKIQDKEGIPP 28 (77)
Q Consensus 11 ~tv~~lK~~i~~~~gi~~ 28 (77)
.+..+|+.|..++.+++.
T Consensus 21 ~sL~eL~~K~~~~l~l~~ 38 (80)
T cd06536 21 SSLEELRIKACESLGFDS 38 (80)
T ss_pred CCHHHHHHHHHHHhCCCC
Confidence 355666666666666663
No 253
>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.09 E-value=1.7e+02 Score=18.22 Aligned_cols=43 Identities=21% Similarity=0.359 Sum_probs=29.8
Q ss_pred ccceEEEEEEecCCccHHHHHHHHhhccCCCc--cceEEEECCeE
Q 040720 29 DQQRLITTLEVKSSDTINNVKSKIQDKEGIPP--DQQRLIFAGIN 71 (77)
Q Consensus 29 ~~q~L~~~~~v~~~~tv~~lK~~i~~~~gip~--~~q~l~~~g~~ 71 (77)
.-|-|+|-++-.+...+.+.|..+......+. ..-.|+|++|+
T Consensus 84 ~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKq 128 (181)
T KOG0070|consen 84 NTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQ 128 (181)
T ss_pred CCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechh
Confidence 56777777777777788888877777665443 44456677776
No 254
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=24.59 E-value=1.3e+02 Score=16.65 Aligned_cols=22 Identities=0% Similarity=0.019 Sum_probs=15.8
Q ss_pred HHHHHHhhhhhCCCcccceEEE
Q 040720 14 INVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 14 ~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
+.|-+.+++..|+|+++--..|
T Consensus 79 ~~i~~~l~~~lgi~~~rv~I~f 100 (116)
T PTZ00397 79 AAITKILASHLKVKSERVYIEF 100 (116)
T ss_pred HHHHHHHHHHhCcCcccEEEEE
Confidence 3555666777999998876655
No 255
>cd04976 Ig2_VEGFR Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor (VEGFR). Ig2_VEGFR: Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor (VEGFR). The VEGFRs have an extracellular component with seven Ig-like domains, a transmembrane segment, and an intracellular tyrosine kinase domain interrupted by a kinase-insert domain. The VEGFR family consists of three members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and VEGFR-3 (Flt-4). VEGFRs bind VEGFs with high affinity at the Ig-like domains. VEGF-A is important to the growth and maintenance of vascular endothelial cells and to the development of new blood- and lymphatic-vessels in physiological and pathological states. VEGFR-2 is a major mediator of the mitogenic, angiogenic and microvascular permeability-enhancing effects of VEGF-A. VEGFR-1 may play an inhibitory part in these processes by binding VEGF and interfering with its interaction with VEGFR-2. VEGFR-1 has a signa
Probab=24.27 E-value=81 Score=15.61 Aligned_cols=19 Identities=16% Similarity=0.237 Sum_probs=14.0
Q ss_pred cCCCccceEEEECCeEcCc
Q 040720 56 EGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~d 74 (77)
.|.|+....|..+|+.+.+
T Consensus 8 ~g~P~p~v~W~k~g~~l~~ 26 (71)
T cd04976 8 KAYPPPEIQWYKNGKLISE 26 (71)
T ss_pred EEeCCCEEEEEECCEECCC
Confidence 4667667788888888754
No 256
>cd04971 Ig_TrKABC_d5 Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB and TrkC. TrkABC_d5: the fifth domain of Trk receptors TrkA, TrkB and TrkC, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors. They are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkA, TrkB, and TrkC share significant sequence homology and domain organization. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrkA, Band C mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. TrkA is recognized by NGF. TrkB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. TrkC is recognized by NT-3. NT-3 is promiscuous as in some cell systems it activates TrkA and TrkB receptors. TrkA is a receptor foun
Probab=24.15 E-value=93 Score=16.04 Aligned_cols=19 Identities=21% Similarity=0.221 Sum_probs=14.9
Q ss_pred cCCCccceEEEECCeEcCc
Q 040720 56 EGIPPDQQRLIFAGINLKL 74 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~d 74 (77)
.|-|.....|..+|+.|..
T Consensus 8 ~G~P~P~v~W~k~g~~i~~ 26 (81)
T cd04971 8 RGNPKPTLTWYHNGAVLNE 26 (81)
T ss_pred EeeCCCcEEEEECCEECcC
Confidence 4778888889999988853
No 257
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=24.14 E-value=2.3e+02 Score=19.07 Aligned_cols=33 Identities=6% Similarity=0.023 Sum_probs=24.8
Q ss_pred EEEEeeCCCcHHHHHHHhhhh-hCCCcccceEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDK-EGIPPDQQRLIT 35 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~-~gi~~~~q~L~~ 35 (77)
.++.+.++++..+++.++++. ..++.++..|++
T Consensus 32 ~~v~~~~~~~~~~~~~~l~~~i~~~~~~d~vlIL 65 (322)
T PRK15088 32 AWIDFVPGENAETLIEKYNAQLAKLDTSKGVLFL 65 (322)
T ss_pred EEEEccCCCCHHHHHHHHHHHHHhcCCCCCEEEE
Confidence 567888999999999988766 556555666665
No 258
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=24.04 E-value=1e+02 Score=20.35 Aligned_cols=23 Identities=9% Similarity=-0.068 Sum_probs=18.6
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~g 25 (77)
..+.+.++||.++|.+++...+.
T Consensus 238 ~~v~i~~~dt~~~L~~ri~~~E~ 260 (286)
T PRK06027 238 DVIRVDHRDTAEDLVRAGRDVEK 260 (286)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 45778899999999999987643
No 259
>PLN02828 formyltetrahydrofolate deformylase
Probab=23.96 E-value=1e+02 Score=20.30 Aligned_cols=23 Identities=13% Similarity=0.023 Sum_probs=17.8
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~g 25 (77)
-.+.|.++||+++|..++...+.
T Consensus 220 ~~v~V~~~dt~~~L~~r~~~~E~ 242 (268)
T PLN02828 220 MVERVSHRDNLRSFVQKSENLEK 242 (268)
T ss_pred EEEecCCCCCHHHHHHHHHHHHH
Confidence 35678889999999888877544
No 260
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=23.93 E-value=1.7e+02 Score=17.54 Aligned_cols=29 Identities=7% Similarity=0.117 Sum_probs=21.2
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCCccc
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIPPDQ 30 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~ 30 (77)
++++.|+...+=.++|..|+...|+.+..
T Consensus 84 ~yvF~Vd~kAnK~qIK~AVEklf~VkV~k 112 (145)
T PTZ00191 84 TLVFIVDQRANKTQIKKAVEKLYDVKVVK 112 (145)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHhCCeeEE
Confidence 46677777788888888888877776543
No 261
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=23.57 E-value=1.4e+02 Score=23.56 Aligned_cols=39 Identities=10% Similarity=0.202 Sum_probs=29.4
Q ss_pred CCcHHHHHHHhhhhhCCCcccceEEEE-E-EecCCccHHHH
Q 040720 10 PTPLINVKAKIQDKEGIPPDQQRLITT-L-EVKSSDTINNV 48 (77)
Q Consensus 10 ~~tv~~lK~~i~~~~gi~~~~q~L~~~-~-~v~~~~tv~~l 48 (77)
..|+++||..|+.+.|+....|.+.-. + .+..+..+..+
T Consensus 15 tqT~adLk~aiqke~~~aIq~~tfl~egGecmaadkrl~e~ 55 (1424)
T KOG4572|consen 15 TQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADKRLAEI 55 (1424)
T ss_pred eehHHHHHHHHHHHhchhhceeeeeecCCcCcccccchhhh
Confidence 478999999999999999888877654 3 34555566555
No 262
>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=23.52 E-value=1.3e+02 Score=16.00 Aligned_cols=33 Identities=9% Similarity=0.084 Sum_probs=24.7
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITT 36 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 36 (77)
+.-.+..++|+++|..-|.. .+..++...|+..
T Consensus 17 l~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~ 49 (85)
T cd01774 17 VERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTN 49 (85)
T ss_pred EEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecC
Confidence 44567889999999999964 4556677777753
No 263
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=23.32 E-value=1.1e+02 Score=19.23 Aligned_cols=21 Identities=14% Similarity=0.132 Sum_probs=17.1
Q ss_pred EEEeeCCCcHHHHHHHhhhhh
Q 040720 4 LLMWKAPTPLINVKAKIQDKE 24 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~~ 24 (77)
.+.+.++||..+|.+++...+
T Consensus 157 ~~~I~~~dt~~~L~~r~~~~e 177 (207)
T PLN02331 157 VVPVLATDTPEELAARVLHEE 177 (207)
T ss_pred EEecCCCCCHHHHHHHHHHHH
Confidence 567889999999999887653
No 264
>PF13363 BetaGal_dom3: Beta-galactosidase, domain 3; PDB: 3OGS_A 3OGV_A 3OGR_A 3OG2_A 1TG7_A 1XC6_A.
Probab=22.88 E-value=59 Score=17.39 Aligned_cols=17 Identities=24% Similarity=0.436 Sum_probs=10.3
Q ss_pred CCCccceEEEECCeEcC
Q 040720 57 GIPPDQQRLIFAGINLK 73 (77)
Q Consensus 57 gip~~~q~l~~~g~~L~ 73 (77)
+.|..-..+.++|+.++
T Consensus 52 ~~p~~v~~l~wNG~~v~ 68 (79)
T PF13363_consen 52 GPPKSVSSLTWNGKPVS 68 (79)
T ss_dssp S--TT--EEEETTEEE-
T ss_pred eCCCCccEEEECCEEcc
Confidence 56667788999999875
No 265
>cd05868 Ig4_NrCAM Fourth immunoglobulin (Ig)-like domain of NrCAM (NgCAM-related cell adhesion molecule). Ig4_ NrCAM: fourth immunoglobulin (Ig)-like domain of NrCAM (NgCAM-related cell adhesion molecule). NrCAM belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six IG-like domains and five fibronectin type III domains, a transmembrane region and an intracellular domain. NrCAM is primarily expressed in the nervous system.
Probab=22.58 E-value=85 Score=15.73 Aligned_cols=18 Identities=17% Similarity=0.399 Sum_probs=12.8
Q ss_pred cCCCccceEEEECCeEcC
Q 040720 56 EGIPPDQQRLIFAGINLK 73 (77)
Q Consensus 56 ~gip~~~q~l~~~g~~L~ 73 (77)
.|.|.....|..+|+++.
T Consensus 11 ~G~P~P~i~W~k~g~~i~ 28 (76)
T cd05868 11 NGNPKPSISWLTNGVPIE 28 (76)
T ss_pred eEeCCCeEEEEECCEEcc
Confidence 366766777788887764
No 266
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=22.02 E-value=1.4e+02 Score=23.61 Aligned_cols=42 Identities=24% Similarity=0.303 Sum_probs=31.3
Q ss_pred cceEEEEEEecCCccHHHHHHHHhhccCCCccceEEE-ECCeEc
Q 040720 30 QQRLITTLEVKSSDTINNVKSKIQDKEGIPPDQQRLI-FAGINL 72 (77)
Q Consensus 30 ~q~L~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~-~~g~~L 72 (77)
.|-|.|..+. ..+|+..+|..|+.+.|+....+.++ -+|..|
T Consensus 4 GqaltFDlea-etqT~adLk~aiqke~~~aIq~~tfl~egGecm 46 (1424)
T KOG4572|consen 4 GQALTFDLEA-ETQTFADLKDAIQKEVGHAIQDLTFLDEGGECM 46 (1424)
T ss_pred CceeEEeecc-eeehHHHHHHHHHHHhchhhceeeeeecCCcCc
Confidence 3667666553 36789999999999999998888766 455544
No 267
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=21.97 E-value=2.8e+02 Score=19.32 Aligned_cols=67 Identities=13% Similarity=0.208 Sum_probs=36.6
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEecCCccHHHHHHHHhhccCCCccceEEEECCeEc
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINL 72 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L 72 (77)
+++=++|++.|.++-.++.+..|... ..+.--. ...-.+.+.+..+.+..-...|+.-.. +|+|..+
T Consensus 23 isl~ipp~~~i~~v~~~l~~e~~~a~-niks~~~-r~~v~~ai~~~~~rlk~~~~~p~nGlv-~f~g~~~ 89 (403)
T TIGR03676 23 ISLYIPPDKQISDVVNQLRDEYSQAA-NIKSKQT-RKNVQSAIESIMQRLKLYKKPPENGLV-LFAGMVP 89 (403)
T ss_pred EEEEeCCCCcHHHHHHHHHHHHhhhh-hhhhhhh-HHHHHHHHHHHHHHHhccCCCCCCeEE-EEEeeec
Confidence 67788999999999999998888542 1110000 000112233333444333445666555 5666554
No 268
>COG5226 CEG1 mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=21.94 E-value=1.2e+02 Score=20.92 Aligned_cols=28 Identities=25% Similarity=0.189 Sum_probs=21.9
Q ss_pred eCCCcHHHHHHHhhhhhCCC-c-----ccceEEE
Q 040720 8 KAPTPLINVKAKIQDKEGIP-P-----DQQRLIT 35 (77)
Q Consensus 8 ~~~~tv~~lK~~i~~~~gi~-~-----~~q~L~~ 35 (77)
-|.|-+.+||-+|.+..|++ | ..|-..|
T Consensus 18 ~P~di~~~Lkt~i~klL~~~~P~~tFpGsqPVsf 51 (404)
T COG5226 18 VPPDIAEALKTKIYKLLCITEPRETFPGSQPVSF 51 (404)
T ss_pred CCchHHHHHHHHHHHHhCCCCCcccCCCCcceee
Confidence 36788899999999999998 3 4555544
No 269
>PF14535 AMP-binding_C_2: AMP-binding enzyme C-terminal domain; PDB: 2Y27_A 2Y4N_A 3QOV_B 3S89_D 3LAX_A 2Y4O_B.
Probab=21.89 E-value=1.5e+02 Score=15.88 Aligned_cols=15 Identities=13% Similarity=0.585 Sum_probs=9.7
Q ss_pred HHHHHHhhhhhCCCc
Q 040720 14 INVKAKIQDKEGIPP 28 (77)
Q Consensus 14 ~~lK~~i~~~~gi~~ 28 (77)
..+..+|.+..|+.+
T Consensus 58 ~~i~~~lk~~lgv~~ 72 (96)
T PF14535_consen 58 ERIAERLKERLGVRP 72 (96)
T ss_dssp HHHHHHHHHHHSS-E
T ss_pred HHHHHHHHhhcCceE
Confidence 466666667788875
No 270
>PF00551 Formyl_trans_N: Formyl transferase; InterPro: IPR002376 A number of formyl transferases belong to this group. Methionyl-tRNA formyltransferase transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. Formyltetrahydrofolate dehydrogenase produces formate from formyl- tetrahydrofolate. This is the N-terminal domain of these enzymes and is found upstream of the C-terminal domain (IPR005793 from INTERPRO). The trifunctional glycinamide ribonucleotide synthetase-aminoimidazole ribonucleotide synthetase-glycinamide ribonucleotide transformylase catalyses the second, third and fifth steps in de novo purine biosynthesis. The glycinamide ribonucleotide transformylase belongs to this group.; GO: 0016742 hydroxymethyl-, formyl- and related transferase activity, 0009058 biosynthetic process; PDB: 3P9X_B 3OBI_A 3R8X_A 3KCQ_C 3RFO_D 3AV3_A 3N0V_D 3LOU_A 3O1L_A 4DS3_A ....
Probab=21.67 E-value=1.2e+02 Score=18.19 Aligned_cols=20 Identities=0% Similarity=0.017 Sum_probs=13.0
Q ss_pred EEEeeCCCcHHHHHHHhhhh
Q 040720 4 LLMWKAPTPLINVKAKIQDK 23 (77)
Q Consensus 4 ~~~v~~~~tv~~lK~~i~~~ 23 (77)
.+.+.+.+|..+|.+++.+.
T Consensus 153 ~~~i~~~dt~~~l~~r~~~~ 172 (181)
T PF00551_consen 153 KFPIEPDDTAESLYERLAEA 172 (181)
T ss_dssp EEE--TT--HHHHHHHHHHH
T ss_pred EEEcCCCCCHHHHHHHHHHH
Confidence 46778899999999998764
No 271
>TIGR03031 cas_csx12 CRISPR-associated protein, Csx12 family. Members of this family of CRISPR-associated (cas) protein are found, so far, in CRISPR/cas loci in Wolinella succinogenes DSM 1740, Legionella pneumophila str. Paris, and Francisella tularensis, where the last probably is an example of a degenerate CRISPR locus, having neither repeats nor a functional Cas1. The characteristic repeat length is 37 base pairs and period is about 72. One region of this large protein shows sequence similarity to PFAM model pfam01844, HNH endonuclease.
Probab=21.66 E-value=49 Score=24.76 Aligned_cols=24 Identities=33% Similarity=0.436 Sum_probs=19.3
Q ss_pred CcHHHHHHHhhhhhCCCcccceEEE
Q 040720 11 TPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 11 ~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
++|.++-++|++..|+. +.|.+.|
T Consensus 583 ~~i~~~sqkI~~~l~~n-dkq~~~F 606 (802)
T TIGR03031 583 QTIPDISQKIQSHLGHN-DKQALIF 606 (802)
T ss_pred HhhHHHHHHHHHHcCCC-HHHHHHh
Confidence 57889999999999998 4555555
No 272
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=21.59 E-value=1.3e+02 Score=15.10 Aligned_cols=30 Identities=17% Similarity=0.320 Sum_probs=15.2
Q ss_pred EecCCccHHHHHHHHhhccCCCccceEEEECCeEcC
Q 040720 38 EVKSSDTINNVKSKIQDKEGIPPDQQRLIFAGINLK 73 (77)
Q Consensus 38 ~v~~~~tv~~lK~~i~~~~gip~~~q~l~~~g~~L~ 73 (77)
.+..+.|+..+|..+... .-.++++|=+..
T Consensus 11 ~~~~~~tl~~lr~~~k~~------~DI~I~NGF~~~ 40 (57)
T PF14453_consen 11 ETEENTTLFELRKESKPD------ADIVILNGFPTK 40 (57)
T ss_pred EcCCCcCHHHHHHhhCCC------CCEEEEcCcccC
Confidence 344555666666554332 124556665543
No 273
>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=21.36 E-value=1.6e+02 Score=16.06 Aligned_cols=26 Identities=27% Similarity=0.340 Sum_probs=22.4
Q ss_pred eEEEEeeCCCcHHHHHHHhhhhhCCC
Q 040720 2 RLLLMWKAPTPLINVKAKIQDKEGIP 27 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~~gi~ 27 (77)
++.+.++++-+-.+|.++|.++.|+.
T Consensus 13 v~~i~v~~~i~f~dL~~kIrdkf~~~ 38 (86)
T cd06408 13 TRYIMIGPDTGFADFEDKIRDKFGFK 38 (86)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence 46778889999999999999999985
No 274
>PRK04435 hypothetical protein; Provisional
Probab=21.29 E-value=1e+02 Score=18.16 Aligned_cols=24 Identities=8% Similarity=0.205 Sum_probs=13.3
Q ss_pred EEEEeeCCC-cHHHHHHHhhhhhCC
Q 040720 3 LLLMWKAPT-PLINVKAKIQDKEGI 26 (77)
Q Consensus 3 ~~~~v~~~~-tv~~lK~~i~~~~gi 26 (77)
+++++.+.+ .+.+|-.+|++..|+
T Consensus 114 ~tVevs~~~~~L~~Li~~L~~i~gV 138 (147)
T PRK04435 114 ISIDTSSMEGDIDELLEKLRNLDGV 138 (147)
T ss_pred EEEEeCChHHHHHHHHHHHHcCCCc
Confidence 445554443 556666666665554
No 275
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=21.22 E-value=88 Score=14.13 Aligned_cols=21 Identities=14% Similarity=0.230 Sum_probs=11.4
Q ss_pred EeeCCCcHHHHHHHhhhhhCC
Q 040720 6 MWKAPTPLINVKAKIQDKEGI 26 (77)
Q Consensus 6 ~v~~~~tv~~lK~~i~~~~gi 26 (77)
++.....+..+...++...|+
T Consensus 46 ~~~~~~~~~~~~~~l~~~~~v 66 (71)
T cd04876 46 EVRDLEHLARIMRKLRQIPGV 66 (71)
T ss_pred EECCHHHHHHHHHHHhCCCCc
Confidence 333344566666666665554
No 276
>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=21.09 E-value=1.5e+02 Score=15.86 Aligned_cols=32 Identities=19% Similarity=0.358 Sum_probs=25.8
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEE
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLIT 35 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 35 (77)
..-.+..++++.+|-.-+.+ .|.+++...|+-
T Consensus 18 ~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t 49 (82)
T cd01773 18 EQIALPEQAKLLALVRHVQS-KGYPNERFELLT 49 (82)
T ss_pred EEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEec
Confidence 34456778999999999988 788888888874
No 277
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=21.09 E-value=1.1e+02 Score=14.03 Aligned_cols=19 Identities=5% Similarity=0.057 Sum_probs=15.6
Q ss_pred EEeeCCCcHHHHHHHhhhh
Q 040720 5 LMWKAPTPLINVKAKIQDK 23 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~~~ 23 (77)
+-+++++++.++.+.+.+.
T Consensus 10 ~~v~~~~~l~~~~~~~~~~ 28 (57)
T PF00571_consen 10 ITVSPDDSLEEALEIMRKN 28 (57)
T ss_dssp EEEETTSBHHHHHHHHHHH
T ss_pred EEEcCcCcHHHHHHHHHHc
Confidence 4578899999999988864
No 278
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=21.01 E-value=1.6e+02 Score=16.03 Aligned_cols=22 Identities=9% Similarity=0.021 Sum_probs=16.6
Q ss_pred eEEEEeeCCCcHHHHHHHhhhh
Q 040720 2 RLLLMWKAPTPLINVKAKIQDK 23 (77)
Q Consensus 2 ~~~~~v~~~~tv~~lK~~i~~~ 23 (77)
++++.++.+.|+.+|-..+-.+
T Consensus 29 ~~t~~~~~~~t~~~li~~~l~k 50 (106)
T PF00794_consen 29 SFTFQVDPNSTPEELIAQALKK 50 (106)
T ss_dssp EEEEEEETTS-HHHHHHHHHHH
T ss_pred EEEEEECCCCCHHHHHHHHHHH
Confidence 4788899999999887777554
No 279
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=20.66 E-value=1.4e+02 Score=15.38 Aligned_cols=20 Identities=15% Similarity=0.157 Sum_probs=14.4
Q ss_pred EEeeC-CCcHHHHHHHhhhhh
Q 040720 5 LMWKA-PTPLINVKAKIQDKE 24 (77)
Q Consensus 5 ~~v~~-~~tv~~lK~~i~~~~ 24 (77)
+++++ +.||.+|++.+.+..
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~ 39 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKG 39 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhC
Confidence 34443 479999999998764
No 280
>COG2747 FlgM Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]
Probab=20.51 E-value=74 Score=17.62 Aligned_cols=12 Identities=17% Similarity=0.324 Sum_probs=9.4
Q ss_pred CcHHHHHHHhhh
Q 040720 11 TPLINVKAKIQD 22 (77)
Q Consensus 11 ~tv~~lK~~i~~ 22 (77)
.-|++||+.|+.
T Consensus 61 ~kVeeiK~aI~~ 72 (93)
T COG2747 61 EKVEELKQAIEN 72 (93)
T ss_pred HHHHHHHHHHHc
Confidence 357889998886
No 281
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=20.47 E-value=54 Score=16.66 Aligned_cols=23 Identities=22% Similarity=0.205 Sum_probs=12.0
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEG 25 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~g 25 (77)
+.++|...+-...+..+|++..|
T Consensus 52 l~v~V~d~~~L~~ii~~L~~i~~ 74 (80)
T PF13291_consen 52 LTVEVKDLEHLNQIIRKLRQIPG 74 (80)
T ss_dssp EEEEESSHHHHHHHHHHHCTSTT
T ss_pred EEEEECCHHHHHHHHHHHHCCCC
Confidence 55666555445555555554444
No 282
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=20.43 E-value=97 Score=16.90 Aligned_cols=21 Identities=29% Similarity=0.657 Sum_probs=8.6
Q ss_pred HHHHHhhccCCCccceEEEECC
Q 040720 48 VKSKIQDKEGIPPDQQRLIFAG 69 (77)
Q Consensus 48 lK~~i~~~~gip~~~q~l~~~g 69 (77)
.+..+.+ .|+++++..++++|
T Consensus 140 ~~~~l~~-~g~~~~ri~vipnG 160 (160)
T PF13579_consen 140 MRRYLRR-YGVPPDRIHVIPNG 160 (160)
T ss_dssp HHHHHHH-H---GGGEEE----
T ss_pred HHHHHHH-hCCCCCcEEEeCcC
Confidence 3444555 67777777777766
No 283
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=20.38 E-value=1.2e+02 Score=20.22 Aligned_cols=34 Identities=18% Similarity=0.173 Sum_probs=24.6
Q ss_pred EEeeCCCcHHHHHHHhh-hhhCCCcccceEEEEEE
Q 040720 5 LMWKAPTPLINVKAKIQ-DKEGIPPDQQRLITTLE 38 (77)
Q Consensus 5 ~~v~~~~tv~~lK~~i~-~~~gi~~~~q~L~~~~~ 38 (77)
...+.++|+.|++.+|. ....+.+..+|+.+..+
T Consensus 17 ~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e 51 (297)
T KOG1639|consen 17 KDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVE 51 (297)
T ss_pred ecCCCCCcHHHHHHHHHHhhhccCccchhheeecc
Confidence 45567799999996665 55778887777766443
No 284
>PF14813 NADH_B2: NADH dehydrogenase 1 beta subcomplex subunit 2
Probab=20.32 E-value=53 Score=17.27 Aligned_cols=9 Identities=56% Similarity=1.202 Sum_probs=5.5
Q ss_pred hhhCCCccc
Q 040720 22 DKEGIPPDQ 30 (77)
Q Consensus 22 ~~~gi~~~~ 30 (77)
++.|||+++
T Consensus 61 eELGIppdd 69 (71)
T PF14813_consen 61 EELGIPPDD 69 (71)
T ss_pred hhcCCCCCC
Confidence 346777665
No 285
>cd05749 Ig2_Tyro3_like Second immunoglobulin (Ig)-like domain of Axl/Tyro3 receptor tyrosine kinases (RTKs). Ig2_Tyro3_like: the second immunoglobulin (Ig)-like domain in the Axl/Tyro3 family of receptor tyrosine kinases (RTKs). This family includes Axl (also known as Ark, Ufo, and Tyro7), Tyro3 (also known as Sky, Rse, Brt, Dtk, and Tif), and Mer (also known as Nyk, c-Eyk, and Tyro12). Axl/Tyro3 family receptors have an extracellular portion with two Ig-like domains followed by two fibronectin-types III (FNIII) domains, a membrane-spanning single helix, and a cytoplasmic tyrosine kinase domain. Axl, Tyro3 and Mer are widely expressed in adult tissues, though they show higher expression in the brain, in the lymphatic and vascular systems, and in the testis. Axl, Tyro3, and Mer bind the vitamin K dependent protein Gas6 with high affinity, and in doing so activate their tyrosine kinase activity. Axl/Gas6 signaling may play a part in cell adhesion processes, prevention of apoptosis, and c
Probab=20.13 E-value=1.1e+02 Score=15.80 Aligned_cols=19 Identities=21% Similarity=0.078 Sum_probs=15.0
Q ss_pred cCCCcc-ceEEEECCeEcCc
Q 040720 56 EGIPPD-QQRLIFAGINLKL 74 (77)
Q Consensus 56 ~gip~~-~q~l~~~g~~L~d 74 (77)
.|.|.. ...|..+|+++.+
T Consensus 23 ~G~P~P~~I~W~k~g~~l~~ 42 (81)
T cd05749 23 VGPPEPVEILWWQGGSPLGD 42 (81)
T ss_pred eeecCCeEEEEEECCEECCC
Confidence 478877 6889999998853
No 286
>PRK02929 L-arabinose isomerase; Provisional
Probab=20.04 E-value=3.5e+02 Score=19.56 Aligned_cols=43 Identities=12% Similarity=0.200 Sum_probs=30.9
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCCcccceEEEEEEecCCccHHHHHHHHhh
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIPPDQQRLITTLEVKSSDTINNVKSKIQD 54 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~~~v~~~~tv~~lK~~i~~ 54 (77)
|..-+..++++..|+.- ++..||+ ...++.++++.++|+.+.-
T Consensus 448 HH~a~~~g~~~~~L~~~-a~~lgIe--------~v~i~~~~~~~~~~~~~~~ 490 (499)
T PRK02929 448 HHTVFSQALTLEQLRDF-AEMAGIE--------LVVIDEDTTLRAFKDELRW 490 (499)
T ss_pred CeEEEECcCCHHHHHHH-HHHcCCE--------EEEECCCCCHHHHHHHHHH
Confidence 33445667777777665 6777776 4567899999999988753
No 287
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.04 E-value=1.3e+02 Score=14.76 Aligned_cols=24 Identities=17% Similarity=0.289 Sum_probs=15.1
Q ss_pred EEEEeeCCCcHHHHHHHhhhhhCCC
Q 040720 3 LLLMWKAPTPLINVKAKIQDKEGIP 27 (77)
Q Consensus 3 ~~~~v~~~~tv~~lK~~i~~~~gi~ 27 (77)
+.+|+...+-+.++++.+.+ .|+.
T Consensus 42 v~ie~~~~~~~~~i~~~L~~-~G~~ 65 (68)
T cd04885 42 VGIQVPDREDLAELKERLEA-LGYP 65 (68)
T ss_pred EEEEeCCHHHHHHHHHHHHH-cCCC
Confidence 44566666677777777765 5554
Done!