Query 032678
Match_columns 136
No_of_seqs 272 out of 1203
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 04:32:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032678.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032678hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0003 Ubiquitin/60s ribosoma 100.0 8.3E-40 1.8E-44 221.7 -0.8 110 1-111 1-110 (128)
2 cd01793 Fubi Fubi ubiquitin-li 99.9 3.8E-23 8.3E-28 133.3 9.0 74 1-76 1-74 (74)
3 PTZ00044 ubiquitin; Provisiona 99.9 9.3E-23 2E-27 131.6 9.4 76 1-76 1-76 (76)
4 cd01807 GDX_N ubiquitin-like d 99.9 2.4E-22 5.2E-27 129.5 8.9 73 1-73 1-73 (74)
5 cd01802 AN1_N ubiquitin-like d 99.9 3.5E-22 7.6E-27 136.8 9.1 76 1-76 28-103 (103)
6 cd01803 Ubiquitin Ubiquitin. U 99.9 5.1E-22 1.1E-26 127.6 9.2 76 1-76 1-76 (76)
7 cd01806 Nedd8 Nebb8-like ubiq 99.9 6.7E-22 1.4E-26 127.0 9.8 76 1-76 1-76 (76)
8 cd01810 ISG15_repeat2 ISG15 ub 99.9 1.1E-21 2.4E-26 126.4 8.4 74 3-76 1-74 (74)
9 cd01797 NIRF_N amino-terminal 99.9 3E-21 6.5E-26 126.0 8.5 74 1-74 1-76 (78)
10 cd01804 midnolin_N Ubiquitin-l 99.9 3.5E-21 7.6E-26 125.5 8.6 76 1-77 2-77 (78)
11 cd01791 Ubl5 UBL5 ubiquitin-li 99.8 7.6E-21 1.6E-25 122.7 7.8 71 1-71 2-72 (73)
12 cd01805 RAD23_N Ubiquitin-like 99.8 3.4E-20 7.4E-25 119.7 9.5 73 1-73 1-75 (77)
13 cd01809 Scythe_N Ubiquitin-lik 99.8 4.5E-20 9.7E-25 117.3 8.8 72 1-72 1-72 (72)
14 cd01798 parkin_N amino-termina 99.8 3.6E-20 7.7E-25 118.1 7.6 70 3-72 1-70 (70)
15 cd01794 DC_UbP_C dendritic cel 99.8 6.1E-20 1.3E-24 117.5 7.5 69 3-71 1-69 (70)
16 cd01792 ISG15_repeat1 ISG15 ub 99.8 1.3E-19 2.8E-24 118.5 7.6 73 1-73 3-77 (80)
17 cd01808 hPLIC_N Ubiquitin-like 99.8 2.1E-19 4.5E-24 114.9 8.2 71 1-72 1-71 (71)
18 KOG0004 Ubiquitin/40S ribosoma 99.8 4.4E-20 9.4E-25 132.9 4.6 77 1-77 1-77 (156)
19 PF00240 ubiquitin: Ubiquitin 99.8 3.9E-19 8.5E-24 112.4 8.2 69 6-74 1-69 (69)
20 cd01800 SF3a120_C Ubiquitin-li 99.8 3.1E-19 6.6E-24 115.7 7.7 70 8-77 5-74 (76)
21 cd01763 Sumo Small ubiquitin-r 99.8 3.9E-18 8.5E-23 113.2 9.6 76 1-76 12-87 (87)
22 cd01796 DDI1_N DNA damage indu 99.8 1.9E-18 4.1E-23 110.7 7.3 68 3-70 1-70 (71)
23 KOG0005 Ubiquitin-like protein 99.8 1.1E-18 2.3E-23 107.1 4.5 70 1-70 1-70 (70)
24 cd01812 BAG1_N Ubiquitin-like 99.8 4.9E-18 1.1E-22 107.8 7.6 70 1-71 1-70 (71)
25 cd01790 Herp_N Homocysteine-re 99.7 4.2E-18 9E-23 111.3 7.3 71 1-71 2-78 (79)
26 cd01813 UBP_N UBP ubiquitin pr 99.7 1.2E-17 2.6E-22 107.9 7.4 69 1-70 1-72 (74)
27 smart00213 UBQ Ubiquitin homol 99.7 1.4E-16 3E-21 98.5 7.3 64 1-65 1-64 (64)
28 TIGR00601 rad23 UV excision re 99.7 4.4E-16 9.5E-21 127.6 8.8 73 1-73 1-76 (378)
29 cd01799 Hoil1_N Ubiquitin-like 99.6 1.1E-15 2.3E-20 99.1 6.8 65 6-71 8-74 (75)
30 cd01815 BMSC_UbP_N Ubiquitin-l 99.6 1.9E-15 4.1E-20 97.7 4.8 55 17-71 16-74 (75)
31 cd01814 NTGP5 Ubiquitin-like N 99.6 5.3E-15 1.2E-19 101.9 5.5 75 2-76 6-94 (113)
32 cd01769 UBL Ubiquitin-like dom 99.5 2.2E-14 4.8E-19 89.6 7.3 68 4-71 1-68 (69)
33 KOG0010 Ubiquitin-like protein 99.5 1E-14 2.2E-19 121.2 6.3 75 1-76 16-90 (493)
34 PF11976 Rad60-SLD: Ubiquitin- 99.5 8.4E-14 1.8E-18 88.7 7.6 71 1-71 1-72 (72)
35 PF01020 Ribosomal_L40e: Ribos 99.5 3.7E-15 8.1E-20 88.7 -0.2 33 78-111 2-34 (52)
36 KOG0011 Nucleotide excision re 99.4 2.5E-13 5.4E-18 108.3 7.4 74 1-74 1-76 (340)
37 cd01795 USP48_C USP ubiquitin- 99.4 2.9E-13 6.3E-18 91.3 6.5 61 12-72 16-77 (107)
38 cd01789 Alp11_N Ubiquitin-like 99.4 2.7E-12 5.9E-17 84.7 8.5 69 2-70 3-79 (84)
39 KOG0001 Ubiquitin and ubiquiti 99.3 3.7E-11 8.1E-16 74.5 9.2 73 3-75 2-74 (75)
40 PF14560 Ubiquitin_2: Ubiquiti 99.3 2.4E-11 5.3E-16 80.3 7.9 69 2-70 3-81 (87)
41 cd01788 ElonginB Ubiquitin-lik 99.3 2.9E-11 6.3E-16 83.4 7.8 79 1-79 1-87 (119)
42 PLN02560 enoyl-CoA reductase 99.2 2.3E-11 5E-16 97.5 7.9 75 1-77 1-86 (308)
43 KOG4248 Ubiquitin-like protein 99.1 9.3E-11 2E-15 104.4 6.9 75 2-77 4-78 (1143)
44 PF13881 Rad60-SLD_2: Ubiquiti 99.1 1.1E-09 2.4E-14 75.9 9.8 75 2-76 4-92 (111)
45 cd01801 Tsc13_N Ubiquitin-like 99.0 1.3E-09 2.9E-14 70.5 6.6 68 2-69 2-74 (77)
46 PRK04136 rpl40e 50S ribosomal 99.0 1.1E-10 2.4E-15 68.5 1.1 28 83-111 4-31 (48)
47 PF11543 UN_NPL4: Nuclear pore 98.9 4.2E-09 9E-14 69.0 5.8 69 1-70 5-78 (80)
48 cd00196 UBQ Ubiquitin-like pro 98.8 2.4E-08 5.3E-13 58.7 7.5 67 5-71 2-68 (69)
49 cd01811 OASL_repeat1 2'-5' oli 98.6 2E-07 4.4E-12 59.8 7.5 69 1-70 1-74 (80)
50 KOG1769 Ubiquitin-like protein 98.6 8.1E-07 1.8E-11 60.0 8.7 77 1-77 21-97 (99)
51 KOG3493 Ubiquitin-like protein 98.5 4.4E-08 9.5E-13 61.2 1.7 69 2-70 3-71 (73)
52 KOG1872 Ubiquitin-specific pro 98.5 5.1E-07 1.1E-11 75.3 7.0 73 3-76 6-79 (473)
53 PF13019 Telomere_Sde2: Telome 98.4 1.9E-06 4E-11 63.2 8.4 99 1-99 1-117 (162)
54 COG1552 RPL40A Ribosomal prote 98.4 5.1E-08 1.1E-12 57.4 -0.8 30 81-111 2-31 (50)
55 KOG0006 E3 ubiquitin-protein l 98.3 9.6E-07 2.1E-11 70.9 6.0 70 1-70 1-73 (446)
56 KOG4495 RNA polymerase II tran 98.2 2.6E-06 5.7E-11 57.3 4.1 61 1-61 1-64 (110)
57 PF11470 TUG-UBL1: GLUT4 regul 98.0 4.2E-05 9.1E-10 48.2 6.5 63 7-69 3-65 (65)
58 PF08817 YukD: WXG100 protein 97.9 5.6E-05 1.2E-09 48.9 6.4 68 2-69 4-78 (79)
59 PF00789 UBX: UBX domain; Int 97.9 0.00025 5.3E-09 45.8 9.1 69 2-70 8-81 (82)
60 COG5227 SMT3 Ubiquitin-like pr 97.7 5.9E-05 1.3E-09 50.3 3.6 76 2-77 26-101 (103)
61 smart00166 UBX Domain present 97.7 0.00045 9.7E-09 44.7 7.8 68 2-69 6-78 (80)
62 cd01772 SAKS1_UBX SAKS1-like U 97.5 0.0013 2.8E-08 42.6 8.2 67 2-69 6-77 (79)
63 PF10302 DUF2407: DUF2407 ubiq 97.4 0.00041 8.9E-09 46.9 5.6 58 2-59 2-64 (97)
64 cd01767 UBX UBX (ubiquitin reg 97.4 0.0016 3.4E-08 41.7 8.1 66 2-69 4-74 (77)
65 KOG0013 Uncharacterized conser 97.4 0.0004 8.8E-09 52.9 5.9 64 9-72 155-218 (231)
66 KOG1639 Steroid reductase requ 97.4 0.0004 8.8E-09 54.3 5.4 77 1-79 1-84 (297)
67 cd01770 p47_UBX p47-like ubiqu 97.3 0.0024 5.2E-08 41.5 7.7 65 2-66 6-74 (79)
68 cd01773 Faf1_like1_UBX Faf1 ik 97.2 0.0046 1E-07 40.6 8.2 68 2-70 7-79 (82)
69 COG5417 Uncharacterized small 97.2 0.0037 8.1E-08 40.3 7.4 64 6-69 12-80 (81)
70 cd01774 Faf1_like2_UBX Faf1 ik 97.0 0.0098 2.1E-07 39.1 8.2 67 2-69 6-82 (85)
71 cd01771 Faf1_UBX Faf1 UBX doma 96.9 0.0097 2.1E-07 38.7 8.0 68 2-70 6-78 (80)
72 KOG3206 Alpha-tubulin folding 96.9 0.0032 7E-08 48.0 5.9 70 2-71 3-80 (234)
73 PF14836 Ubiquitin_3: Ubiquiti 96.7 0.018 3.8E-07 38.3 7.8 67 11-78 14-86 (88)
74 PRK06437 hypothetical protein; 96.5 0.045 9.7E-07 34.3 8.3 59 9-76 9-67 (67)
75 KOG4583 Membrane-associated ER 96.4 0.0014 3E-08 53.2 1.2 70 2-71 11-86 (391)
76 PRK08364 sulfur carrier protei 96.2 0.074 1.6E-06 33.5 8.1 56 12-76 15-70 (70)
77 PF12754 Blt1: Cell-cycle cont 96.1 0.0015 3.2E-08 52.5 0.0 76 2-77 80-182 (309)
78 PF15044 CLU_N: Mitochondrial 96.1 0.012 2.6E-07 38.0 4.2 56 17-72 1-58 (76)
79 cd06409 PB1_MUG70 The MUG70 pr 96.0 0.031 6.8E-07 37.0 5.9 44 2-45 2-48 (86)
80 PRK06488 sulfur carrier protei 95.9 0.071 1.5E-06 32.9 7.2 65 1-76 1-65 (65)
81 PLN02799 Molybdopterin synthas 95.9 0.054 1.2E-06 34.8 6.8 71 1-76 2-82 (82)
82 PF09379 FERM_N: FERM N-termin 95.9 0.091 2E-06 33.3 7.7 67 5-71 1-76 (80)
83 cd00754 MoaD Ubiquitin domain 95.8 0.061 1.3E-06 34.0 6.6 60 12-76 17-80 (80)
84 cd06406 PB1_P67 A PB1 domain i 95.5 0.067 1.4E-06 35.0 6.0 38 12-49 12-49 (80)
85 PF11620 GABP-alpha: GA-bindin 95.4 0.07 1.5E-06 35.3 5.7 61 13-73 5-65 (88)
86 PF14453 ThiS-like: ThiS-like 95.3 0.074 1.6E-06 32.5 5.4 56 1-72 1-56 (57)
87 PF02597 ThiS: ThiS family; I 94.8 0.24 5.3E-06 30.9 7.0 63 12-76 13-77 (77)
88 TIGR01682 moaD molybdopterin c 94.6 0.33 7.1E-06 31.0 7.4 60 12-76 17-80 (80)
89 PRK05659 sulfur carrier protei 94.2 0.5 1.1E-05 28.9 7.3 66 1-76 1-66 (66)
90 cd00565 ThiS ThiaminS ubiquiti 94.2 0.34 7.4E-06 29.7 6.6 61 9-76 5-65 (65)
91 cd06407 PB1_NLP A PB1 domain i 94.1 0.26 5.5E-06 32.2 6.0 46 1-47 1-47 (82)
92 KOG0012 DNA damage inducible p 94.0 0.09 2E-06 43.2 4.4 70 1-70 1-74 (380)
93 TIGR01687 moaD_arch MoaD famil 94.0 0.7 1.5E-05 29.9 7.9 62 11-76 16-88 (88)
94 smart00666 PB1 PB1 domain. Pho 93.8 0.36 7.9E-06 30.6 6.3 45 2-47 3-47 (81)
95 PRK05863 sulfur carrier protei 93.8 0.55 1.2E-05 29.0 6.9 65 1-76 1-65 (65)
96 TIGR01683 thiS thiamine biosyn 93.5 0.59 1.3E-05 28.6 6.7 61 9-76 4-64 (64)
97 PF10790 DUF2604: Protein of U 93.4 0.47 1E-05 29.9 5.9 66 8-73 3-72 (76)
98 PRK08053 sulfur carrier protei 93.3 1.2 2.5E-05 27.5 7.9 66 1-76 1-66 (66)
99 smart00295 B41 Band 4.1 homolo 93.1 1.4 3E-05 32.2 9.3 72 2-73 5-84 (207)
100 PRK06944 sulfur carrier protei 92.7 1.4 3E-05 26.7 7.9 65 1-76 1-65 (65)
101 PRK07696 sulfur carrier protei 92.4 1.5 3.2E-05 27.3 7.3 66 1-76 1-67 (67)
102 cd06408 PB1_NoxR The PB1 domai 92.1 0.93 2E-05 30.0 6.4 53 3-58 3-56 (86)
103 smart00455 RBD Raf-like Ras-bi 91.7 0.81 1.8E-05 28.9 5.6 49 3-51 2-52 (70)
104 TIGR02958 sec_mycoba_snm4 secr 91.6 1 2.2E-05 38.2 7.8 70 2-72 4-80 (452)
105 PRK07440 hypothetical protein; 91.6 1.8 3.9E-05 27.2 7.1 62 8-76 9-70 (70)
106 PRK06083 sulfur carrier protei 91.6 1.7 3.7E-05 28.5 7.2 61 9-76 24-84 (84)
107 cd01760 RBD Ubiquitin-like dom 91.4 0.79 1.7E-05 29.2 5.3 45 3-47 2-46 (72)
108 cd05992 PB1 The PB1 domain is 90.7 1.2 2.6E-05 28.0 5.8 45 2-47 2-47 (81)
109 PF08825 E2_bind: E2 binding d 88.8 1.2 2.5E-05 29.3 4.6 55 15-70 1-69 (84)
110 PF00564 PB1: PB1 domain; Int 88.4 2.5 5.5E-05 26.6 6.0 39 9-47 9-48 (84)
111 PRK11840 bifunctional sulfur c 88.3 3.1 6.6E-05 34.0 7.6 68 1-78 1-68 (326)
112 PF02196 RBD: Raf-like Ras-bin 88.1 4.8 0.0001 25.3 8.4 55 3-57 3-59 (71)
113 PRK11130 moaD molybdopterin sy 87.9 4.6 9.9E-05 25.8 7.0 57 15-76 19-81 (81)
114 KOG2086 Protein tyrosine phosp 87.8 1.2 2.6E-05 37.0 5.1 65 2-66 307-375 (380)
115 COG5100 NPL4 Nuclear pore prot 85.8 4.6 0.0001 34.2 7.4 70 1-71 1-78 (571)
116 PF08337 Plexin_cytopl: Plexin 85.7 2.1 4.5E-05 37.2 5.7 64 11-74 202-291 (539)
117 cd01787 GRB7_RA RA (RAS-associ 85.3 3.9 8.4E-05 27.0 5.5 39 3-41 5-43 (85)
118 cd06396 PB1_NBR1 The PB1 domai 84.3 5.4 0.00012 26.0 5.9 30 8-37 7-38 (81)
119 KOG4250 TANK binding protein k 84.3 2.8 6E-05 37.6 5.8 41 9-49 323-363 (732)
120 cd06411 PB1_p51 The PB1 domain 84.2 2.7 5.8E-05 27.3 4.3 37 11-47 7-43 (78)
121 KOG2982 Uncharacterized conser 83.4 1.9 4.2E-05 35.4 4.2 54 17-70 354-415 (418)
122 PF10209 DUF2340: Uncharacteri 82.9 2.8 6.1E-05 29.5 4.3 56 16-71 21-107 (122)
123 cd01764 Urm1 Urm1-like ubuitin 82.3 3.2 6.9E-05 27.6 4.3 60 15-76 23-94 (94)
124 PF14732 UAE_UbL: Ubiquitin/SU 81.5 4 8.7E-05 26.7 4.5 51 20-70 8-67 (87)
125 cd06410 PB1_UP2 Uncharacterize 81.4 8 0.00017 26.0 6.0 39 6-45 18-56 (97)
126 KOG2689 Predicted ubiquitin re 81.3 5.8 0.00013 31.7 6.0 68 2-69 212-284 (290)
127 cd06398 PB1_Joka2 The PB1 doma 81.1 9.8 0.00021 25.2 6.3 44 3-47 3-52 (91)
128 PTZ00380 microtubule-associate 80.5 2 4.4E-05 30.1 3.0 58 15-72 45-105 (121)
129 PF11069 DUF2870: Protein of u 80.4 2.5 5.3E-05 28.6 3.2 34 42-76 3-38 (98)
130 COG2104 ThiS Sulfur transfer p 79.9 12 0.00027 23.4 7.4 67 2-76 2-68 (68)
131 cd01777 SNX27_RA Ubiquitin dom 78.8 5.6 0.00012 26.4 4.5 41 2-42 3-43 (87)
132 PF14533 USP7_C2: Ubiquitin-sp 78.1 12 0.00026 28.4 6.8 49 11-59 34-90 (213)
133 cd01768 RA RA (Ras-associating 77.7 13 0.00029 23.6 6.1 35 10-44 12-48 (87)
134 KOG0007 Splicing factor 3a, su 77.4 1.2 2.6E-05 36.3 1.2 50 7-56 289-339 (341)
135 cd06397 PB1_UP1 Uncharacterize 77.0 11 0.00024 24.6 5.4 45 2-47 2-46 (82)
136 PF00788 RA: Ras association ( 77.0 14 0.00031 23.3 6.1 41 3-43 5-51 (93)
137 PF02017 CIDE-N: CIDE-N domain 74.5 13 0.00029 24.0 5.3 63 4-72 6-71 (78)
138 KOG2561 Adaptor protein NUB1, 74.3 2.8 6.1E-05 35.9 2.6 57 15-71 54-110 (568)
139 PF10407 Cytokin_check_N: Cdc1 74.1 16 0.00034 23.4 5.5 61 11-72 3-70 (73)
140 cd01766 Ufm1 Urm1-like ubiquit 73.3 22 0.00047 23.0 6.2 63 14-76 19-82 (82)
141 PF00276 Ribosomal_L23: Riboso 72.5 9.8 0.00021 25.1 4.5 41 11-51 21-62 (91)
142 PF12436 USP7_ICP0_bdg: ICP0-b 71.9 4.6 9.9E-05 31.5 3.2 71 3-73 71-153 (249)
143 cd01817 RGS12_RBD Ubiquitin do 69.9 26 0.00057 22.4 7.7 47 5-51 4-52 (73)
144 KOG3439 Protein conjugation fa 69.9 18 0.00039 25.1 5.3 39 12-50 46-84 (116)
145 cd01776 Rin1_RA Ubiquitin doma 69.8 14 0.00029 24.4 4.5 43 12-54 15-62 (87)
146 PRK05738 rplW 50S ribosomal pr 69.5 14 0.0003 24.5 4.7 40 10-49 20-60 (92)
147 PF02991 Atg8: Autophagy prote 69.2 12 0.00025 25.5 4.3 57 15-71 37-97 (104)
148 PF14847 Ras_bdg_2: Ras-bindin 68.1 22 0.00048 24.2 5.5 36 3-38 3-38 (105)
149 PF14533 USP7_C2: Ubiquitin-sp 68.1 5.2 0.00011 30.4 2.7 30 10-39 132-161 (213)
150 smart00144 PI3K_rbd PI3-kinase 67.9 35 0.00075 23.1 7.7 64 10-73 28-105 (108)
151 TIGR03636 L23_arch archaeal ri 67.5 16 0.00034 23.5 4.5 34 11-44 15-48 (77)
152 cd01818 TIAM1_RBD Ubiquitin do 67.5 18 0.0004 23.4 4.7 40 4-43 3-42 (77)
153 smart00314 RA Ras association 66.7 31 0.00066 22.0 6.4 35 10-44 15-51 (90)
154 PF11834 DUF3354: Domain of un 66.1 12 0.00025 23.7 3.6 43 21-69 26-68 (69)
155 KOG4572 Predicted DNA-binding 65.0 11 0.00023 34.9 4.3 62 9-70 3-68 (1424)
156 PRK01777 hypothetical protein; 64.7 39 0.00085 22.5 7.5 53 12-73 18-77 (95)
157 KOG2507 Ubiquitin regulatory p 64.1 15 0.00033 31.3 4.9 75 2-76 316-395 (506)
158 PF14451 Ub-Mut7C: Mut7-C ubiq 63.9 37 0.0008 21.9 6.0 54 10-72 22-76 (81)
159 PF12436 USP7_ICP0_bdg: ICP0-b 63.7 21 0.00047 27.7 5.4 35 10-44 189-223 (249)
160 PRK14548 50S ribosomal protein 63.4 21 0.00046 23.3 4.6 35 10-44 21-55 (84)
161 smart00266 CAD Domains present 63.1 25 0.00055 22.5 4.7 48 21-71 19-68 (74)
162 PF02192 PI3K_p85B: PI3-kinase 63.0 11 0.00024 24.3 3.1 23 13-35 2-24 (78)
163 cd01775 CYR1_RA Ubiquitin doma 61.1 48 0.001 22.4 6.2 42 3-44 5-47 (97)
164 cd01611 GABARAP Ubiquitin doma 59.2 23 0.0005 24.4 4.4 57 15-72 45-106 (112)
165 PF00794 PI3K_rbd: PI3-kinase 58.7 51 0.0011 21.9 7.2 71 2-72 18-102 (106)
166 COG0089 RplW Ribosomal protein 58.0 26 0.00056 23.5 4.3 34 10-43 21-54 (94)
167 cd01615 CIDE_N CIDE_N domain, 57.9 34 0.00073 22.2 4.7 38 21-58 21-60 (78)
168 PF09469 Cobl: Cordon-bleu ubi 56.3 8.6 0.00019 25.0 1.7 35 29-63 2-39 (79)
169 smart00143 PI3K_p85B PI3-kinas 56.1 15 0.00033 23.8 2.8 23 13-35 2-24 (78)
170 KOG1364 Predicted ubiquitin re 55.5 12 0.00027 30.8 2.9 64 3-66 280-349 (356)
171 PF02824 TGS: TGS domain; Int 55.0 44 0.00095 20.0 6.4 59 3-70 1-59 (60)
172 KOG3391 Transcriptional co-rep 54.0 13 0.00029 26.7 2.5 55 20-75 61-139 (151)
173 CHL00030 rpl23 ribosomal prote 53.6 34 0.00074 22.8 4.4 40 9-48 18-58 (93)
174 cd06539 CIDE_N_A CIDE_N domain 51.2 55 0.0012 21.2 4.9 38 21-58 21-60 (78)
175 PF06234 TmoB: Toluene-4-monoo 48.7 76 0.0017 20.9 6.8 59 13-71 17-83 (85)
176 PF03931 Skp1_POZ: Skp1 family 48.5 13 0.00029 22.4 1.6 32 1-32 1-32 (62)
177 cd01782 AF6_RA_repeat1 Ubiquit 48.4 61 0.0013 22.4 5.0 37 1-37 24-62 (112)
178 cd06538 CIDE_N_FSP27 CIDE_N do 47.9 66 0.0014 20.9 4.8 48 21-72 21-70 (79)
179 PF03671 Ufm1: Ubiquitin fold 47.0 76 0.0016 20.4 6.2 57 14-70 19-76 (76)
180 KOG4146 Ubiquitin-like protein 46.7 89 0.0019 21.1 7.8 57 19-76 34-101 (101)
181 PRK12280 rplW 50S ribosomal pr 45.0 49 0.0011 24.3 4.4 39 10-48 22-61 (158)
182 PF04126 Cyclophil_like: Cyclo 44.9 17 0.00038 25.1 1.9 29 1-30 1-29 (120)
183 cd06404 PB1_aPKC PB1 domain is 43.5 93 0.002 20.4 5.8 31 8-38 7-37 (83)
184 PF08783 DWNN: DWNN domain; I 41.4 79 0.0017 20.1 4.4 32 5-36 3-36 (74)
185 PF02505 MCR_D: Methyl-coenzym 38.1 85 0.0018 22.9 4.7 44 12-59 76-120 (153)
186 PTZ00191 60S ribosomal protein 36.6 81 0.0017 22.8 4.3 34 10-43 82-115 (145)
187 PF01529 zf-DHHC: DHHC palmito 35.7 22 0.00048 25.3 1.4 23 88-111 43-65 (174)
188 COG1756 Mra1 Uncharacterized c 35.5 2.1E+02 0.0046 22.2 7.8 112 1-124 83-204 (223)
189 cd01612 APG12_C Ubiquitin-like 34.7 1.2E+02 0.0027 19.7 4.7 58 14-71 19-80 (87)
190 PF14807 AP4E_app_platf: Adapt 34.6 1.5E+02 0.0032 20.1 5.4 56 18-74 28-87 (104)
191 cd06536 CIDE_N_ICAD CIDE_N dom 34.1 97 0.0021 20.1 4.0 49 21-72 21-73 (80)
192 COG1977 MoaD Molybdopterin con 33.4 1.1E+02 0.0024 19.6 4.3 55 18-76 25-84 (84)
193 PF01376 Enterotoxin_b: Heat-l 33.1 62 0.0013 21.3 3.0 31 3-33 38-68 (102)
194 TIGR03260 met_CoM_red_D methyl 32.9 1.1E+02 0.0024 22.3 4.5 43 13-59 76-118 (150)
195 KOG3784 Sorting nexin protein 31.7 1.7E+02 0.0036 24.8 6.0 31 7-37 114-144 (407)
196 KOG2660 Locus-specific chromos 30.9 41 0.00089 27.6 2.3 47 13-59 166-214 (331)
197 PF13180 PDZ_2: PDZ domain; PD 30.4 1E+02 0.0022 19.0 3.7 55 11-73 15-71 (82)
198 PF04110 APG12: Ubiquitin-like 29.9 1.4E+02 0.003 19.7 4.3 36 13-48 18-53 (87)
199 PRK05841 flgE flagellar hook p 29.2 69 0.0015 28.5 3.5 36 2-37 250-294 (603)
200 PF11816 DUF3337: Domain of un 29.0 2.2E+02 0.0047 23.1 6.2 60 14-73 251-328 (331)
201 KOG4598 Putative ubiquitin-spe 28.7 77 0.0017 29.2 3.7 57 12-70 878-940 (1203)
202 cd06537 CIDE_N_B CIDE_N domain 28.4 1.7E+02 0.0038 19.0 4.8 37 21-58 21-59 (81)
203 PF13699 DUF4157: Domain of un 27.9 1.7E+02 0.0036 18.6 4.8 46 24-69 4-49 (79)
204 PF08299 Bac_DnaA_C: Bacterial 26.8 27 0.00058 21.7 0.4 20 22-41 1-20 (70)
205 PF06487 SAP18: Sin3 associate 26.4 93 0.002 21.7 3.2 59 11-71 37-120 (120)
206 KOG3483 Uncharacterized conser 26.0 1.9E+02 0.0042 18.8 5.4 61 16-76 32-93 (94)
207 COG5273 Uncharacterized protei 25.9 34 0.00073 27.6 1.0 23 88-111 104-126 (309)
208 KOG3073 Protein required for 1 25.1 1.8E+02 0.0039 22.5 4.7 42 36-77 156-199 (236)
209 PLN02593 adrenodoxin-like ferr 24.5 1.7E+02 0.0037 19.9 4.2 26 1-26 1-26 (117)
210 PF11305 DUF3107: Protein of u 24.4 1.6E+02 0.0034 18.8 3.7 34 1-35 1-34 (74)
211 cd01816 Raf_RBD Ubiquitin doma 24.4 2E+02 0.0044 18.4 4.6 42 3-44 2-43 (74)
212 KOG2827 Uncharacterized conser 24.0 45 0.00097 27.0 1.3 70 23-98 23-96 (322)
213 PF09269 DUF1967: Domain of un 23.9 44 0.00096 20.8 1.1 16 54-69 47-62 (69)
214 PF13248 zf-ribbon_3: zinc-rib 23.5 39 0.00085 16.8 0.6 18 93-111 2-19 (26)
215 KOG3486 40S ribosomal protein 23.3 38 0.00082 22.1 0.7 14 95-115 13-26 (83)
216 TIGR02008 fdx_plant ferredoxin 23.2 1.7E+02 0.0036 19.0 3.9 26 2-27 4-29 (97)
217 PF13439 Glyco_transf_4: Glyco 23.0 93 0.002 20.9 2.7 27 24-51 148-174 (177)
218 COG3357 Predicted transcriptio 22.7 41 0.00088 22.6 0.7 29 92-120 57-94 (97)
219 smart00760 Bac_DnaA_C Bacteria 22.3 50 0.0011 19.6 1.0 20 22-41 1-20 (60)
220 KOG3938 RGS-GAIP interacting p 21.7 2.3E+02 0.005 23.0 4.9 27 17-43 69-95 (334)
221 PRK04171 ribosome biogenesis p 20.9 1.7E+02 0.0037 22.6 4.0 94 1-107 82-184 (222)
222 TIGR00824 EIIA-man PTS system, 20.8 2.8E+02 0.006 18.7 4.7 33 11-43 29-62 (116)
223 TIGR03595 Obg_CgtA_exten Obg f 20.4 61 0.0013 20.1 1.2 18 53-70 46-63 (69)
224 KOG2070 Guanine nucleotide exc 20.2 1.2E+02 0.0026 26.6 3.2 27 58-84 33-59 (661)
No 1
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.3e-40 Score=221.65 Aligned_cols=110 Identities=85% Similarity=1.113 Sum_probs=109.1
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCccCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIEP 80 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~~~~ 80 (136)
|+++++++.|++.+++++|++||..+|++|.+++|+||++|+|+|+|++|+|+.||++|||+..+|||++++++||.++|
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~i~~ 80 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIEP 80 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCCCCh
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHhhcCCCcceeeccccccCCcceeee
Q 032678 81 SLMALARKYNQDKMICRKYAHVSLFLFFSFI 111 (136)
Q Consensus 81 s~~~~a~k~n~~k~~cr~~~ya~~~~~a~~~ 111 (136)
|++++|+|||+|+.|||+| |||++|||.||
T Consensus 81 ~~aalAmK~~~D~lICRkC-YAR~g~~Ae~C 110 (128)
T KOG0003|consen 81 SLAALAMKYNCDKLICRKC-YARLGPRAENC 110 (128)
T ss_pred hHHHHHHHhccchHHHHHH-HHhcCcHHHHh
Confidence 9999999999999999999 99999999999
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=99.89 E-value=3.8e-23 Score=133.28 Aligned_cols=74 Identities=41% Similarity=0.621 Sum_probs=71.6
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+||+ +++++++|++++||++||++|++++|+|+++|+|+|+|+.|+|+.+|++|||+++++||++++++||
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG 74 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence 8999997 4789999999999999999999999999999999999999999999999999999999999999997
No 3
>PTZ00044 ubiquitin; Provisional
Probab=99.89 E-value=9.3e-23 Score=131.61 Aligned_cols=76 Identities=50% Similarity=0.822 Sum_probs=74.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+||+.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|++++|++||++++++||
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999887
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=99.88 E-value=2.4e-22 Score=129.49 Aligned_cols=73 Identities=36% Similarity=0.653 Sum_probs=71.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
|+|+||+.+|+++.++|++++||++||++|++++|+|+++|+|+|+|++|+|+.+|++|||+++++||+++++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999874
No 5
>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=99.88 E-value=3.5e-22 Score=136.78 Aligned_cols=76 Identities=51% Similarity=0.763 Sum_probs=74.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+||+++|+++.++|++++||.+||++|+++.|+|+++|+|+|+|+.|+|+.+|++|+|+++++||++++++||
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG 103 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG 103 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999987
No 6
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.87 E-value=5.1e-22 Score=127.60 Aligned_cols=76 Identities=96% Similarity=1.322 Sum_probs=74.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++||+++|++||++++++||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg 76 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999987
No 7
>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=99.87 E-value=6.7e-22 Score=127.04 Aligned_cols=76 Identities=55% Similarity=0.965 Sum_probs=74.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+|++.+|+++.+++++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|++++|++||++++++||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999887
No 8
>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=99.86 E-value=1.1e-21 Score=126.41 Aligned_cols=74 Identities=32% Similarity=0.618 Sum_probs=72.2
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+||++.|+++.+++++++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++.||
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg 74 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG 74 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999887
No 9
>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=99.85 E-value=3e-21 Score=125.99 Aligned_cols=74 Identities=36% Similarity=0.634 Sum_probs=70.6
Q ss_pred CEEEEEeCCCCE-EEEE-ecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEec
Q 032678 1 MQIFVKTLTGKT-ITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (136)
Q Consensus 1 MqI~Vk~~~g~~-~~i~-v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~ 74 (136)
|+|+||+.+|++ +.++ +++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|++++++.
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 899999999997 6895 8999999999999999999999999999999999999999999999999999999853
No 10
>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=99.85 E-value=3.5e-21 Score=125.54 Aligned_cols=76 Identities=25% Similarity=0.496 Sum_probs=73.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCc
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~ 77 (136)
|+|+||+..|+.+.+++++++||++||++|+++.|+|+++|+|+|+|+.|+|+ +|++|||++|++|+++..++||.
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~~ 77 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAGL 77 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeeccccC
Confidence 89999999999999999999999999999999999999999999999999999 99999999999999999998884
No 11
>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=99.84 E-value=7.6e-21 Score=122.67 Aligned_cols=71 Identities=24% Similarity=0.378 Sum_probs=68.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
|+|+|+++.|+.+.+++++++||++||++|+++.|+|+++|||+|+|+.|+|+.+|++|||++|++||+..
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 78999999999999999999999999999999999999999999999999999999999999999999863
No 12
>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=99.83 E-value=3.4e-20 Score=119.74 Aligned_cols=73 Identities=38% Similarity=0.705 Sum_probs=70.8
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCC--CCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gi--p~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
|+|+|++.+|+++.+++++++||.+||++|++.+|+ |+++|+|+|+|+.|+|+.+|++|||++|++|+++++.
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~ 75 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSK 75 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEec
Confidence 899999999999999999999999999999999999 9999999999999999999999999999999998864
No 13
>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=99.83 E-value=4.5e-20 Score=117.34 Aligned_cols=72 Identities=44% Similarity=0.704 Sum_probs=69.8
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
|+|+||+.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++||+++|++||++.+
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence 899999999999999999999999999999999999999999999999999999999999999999999864
No 14
>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=99.82 E-value=3.6e-20 Score=118.05 Aligned_cols=70 Identities=39% Similarity=0.733 Sum_probs=67.6
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEE
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
|+||+.+|+++.+++++++||++||++|++++|+|+++|+|+|+|++|+|+.+|++|||++|++||++.|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 5899999999999999999999999999999999999999999999999999999999999999999864
No 15
>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=99.81 E-value=6.1e-20 Score=117.50 Aligned_cols=69 Identities=36% Similarity=0.587 Sum_probs=66.5
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
+.||..+|+++.+++++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|+|++|++||+++
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 368899999999999999999999999999999999999999999999999999999999999999986
No 16
>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=99.80 E-value=1.3e-19 Score=118.49 Aligned_cols=73 Identities=32% Similarity=0.431 Sum_probs=70.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEE--EeCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL--i~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
|+|+||+.+|+++.+++++++||++||++|++..|+|+++|+| +|+|+.|+|+.+|++|||++|++|+++++.
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~ 77 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN 77 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence 7899999999999999999999999999999999999999999 899999999999999999999999999873
No 17
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.80 E-value=2.1e-19 Score=114.86 Aligned_cols=71 Identities=34% Similarity=0.489 Sum_probs=67.6
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
|+|+||+.+|+ ..+++++++||++||++|+++.|+|+++|+|+|+|+.|+|+.+|++||+++|++||++++
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999997 489999999999999999999999999999999999999999999999999999999874
No 18
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.80 E-value=4.4e-20 Score=132.86 Aligned_cols=77 Identities=95% Similarity=1.308 Sum_probs=75.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCc
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~ 77 (136)
|+|+|+++.|++..+++++++||..+|++|++++|||+++|||+|.|++|+|.++|+||+|+..+++|++++++||.
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~ 77 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGA 77 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999995
No 19
>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=99.79 E-value=3.9e-19 Score=112.43 Aligned_cols=69 Identities=57% Similarity=0.970 Sum_probs=66.1
Q ss_pred EeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEec
Q 032678 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (136)
Q Consensus 6 k~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~ 74 (136)
|+.+|+++.+++++++||.+||++|+...|+|+++|+|+|+|+.|+|+.+|++|||++|++|+++++++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~ 69 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKPR 69 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence 678999999999999999999999999999999999999999999999999999999999999998753
No 20
>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=99.79 E-value=3.1e-19 Score=115.66 Aligned_cols=70 Identities=33% Similarity=0.656 Sum_probs=67.7
Q ss_pred CCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCc
Q 032678 8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (136)
Q Consensus 8 ~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~ 77 (136)
++|+++.+++++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|+|++|++|+++++++||.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~ 74 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGR 74 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence 5789999999999999999999999999999999999999999999999999999999999999999885
No 21
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.77 E-value=3.9e-18 Score=113.25 Aligned_cols=76 Identities=18% Similarity=0.467 Sum_probs=74.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+|++.+|+...++|.+++|+..||++++++.|+|+++|+|+|+|+.|+|+.|+++||+++|++|+++++++||
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG 87 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG 87 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999997
No 22
>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=99.76 E-value=1.9e-18 Score=110.70 Aligned_cols=68 Identities=35% Similarity=0.543 Sum_probs=64.4
Q ss_pred EEEEeC-CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCC-ccccccccCCCCEEEEE
Q 032678 3 IFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLADYNIQKESTLHLV 70 (136)
Q Consensus 3 I~Vk~~-~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~-~tL~~ygI~~gstI~l~ 70 (136)
|+||+. +|+++.+++++++||++||++|++++|+|+++|+|+|+|+.|+|+ .+|++|||++|++|++.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 578999 999999999999999999999999999999999999999999987 68999999999999874
No 23
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.75 E-value=1.1e-18 Score=107.08 Aligned_cols=70 Identities=54% Similarity=0.911 Sum_probs=68.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~ 70 (136)
|.|.|++++|+.+.++++|.++|+.+|+.++++.||||.+|||+|.|+++.|+.|-++|++..||++|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 7899999999999999999999999999999999999999999999999999999999999999999974
No 24
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.75 E-value=4.9e-18 Score=107.83 Aligned_cols=70 Identities=29% Similarity=0.469 Sum_probs=66.8
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
|+|+||+. |+.+.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999986 89999999999999999999999999999999999999999999999999999999999863
No 25
>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=99.75 E-value=4.2e-18 Score=111.26 Aligned_cols=71 Identities=25% Similarity=0.279 Sum_probs=63.6
Q ss_pred CEEEEEeCCCCEE--EEEecCCCcHHHHHHHHhhhhC--CCCCCeEEEeCCEEccCCccccccc--cCCCCEEEEEE
Q 032678 1 MQIFVKTLTGKTI--TLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYN--IQKESTLHLVL 71 (136)
Q Consensus 1 MqI~Vk~~~g~~~--~i~v~~~~TV~~LK~~I~~~~g--ip~~~qrLi~~Gk~L~D~~tL~~yg--I~~gstI~l~~ 71 (136)
|.|+||+++|+++ ++++++++||.+||++|++..+ .|+++|||+|+|+.|.|+.+|++|+ +.+|.+|||+.
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 5799999999984 4556899999999999999874 4579999999999999999999997 99999999984
No 26
>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=99.73 E-value=1.2e-17 Score=107.90 Aligned_cols=69 Identities=23% Similarity=0.440 Sum_probs=65.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEe---CCEEccCCccccccccCCCCEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~---~Gk~L~D~~tL~~ygI~~gstI~l~ 70 (136)
|.|.|| ++|+++.++|++++||++||++|++.+|+||++|+|+| .|+.+.|+.+|++|+|++|+.|+++
T Consensus 1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence 678998 67899999999999999999999999999999999996 8999999999999999999999986
No 27
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.68 E-value=1.4e-16 Score=98.45 Aligned_cols=64 Identities=61% Similarity=0.864 Sum_probs=61.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKES 65 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gs 65 (136)
|+|+||+.+ +++.+++++++||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++||+++|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 899999998 7899999999999999999999999999999999999999999999999999875
No 28
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.65 E-value=4.4e-16 Score=127.55 Aligned_cols=73 Identities=30% Similarity=0.601 Sum_probs=70.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhC---CCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~g---ip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
|+|+||+++|+++.++|++++||.+||++|+...| +|+++|+|+|+|+.|+|+++|++|+|+++++|++++..
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k 76 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSK 76 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEecc
Confidence 89999999999999999999999999999999998 99999999999999999999999999999999988764
No 29
>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=99.63 E-value=1.1e-15 Score=99.11 Aligned_cols=65 Identities=29% Similarity=0.364 Sum_probs=59.0
Q ss_pred EeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEcc-CCccccccccC-CCCEEEEEE
Q 032678 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQ-KESTLHLVL 71 (136)
Q Consensus 6 k~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~ygI~-~gstI~l~~ 71 (136)
|...|.+..+++++++||++||++|+.++|+||++|+| |+|+.|. |+.+|++||++ +|+++|+.+
T Consensus 8 ~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 8 AQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred cccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 34468899999999999999999999999999999999 9999885 67899999998 889999864
No 30
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.58 E-value=1.9e-15 Score=97.66 Aligned_cols=55 Identities=33% Similarity=0.549 Sum_probs=50.0
Q ss_pred ecC-CCcHHHHHHHHhhhh--CCC-CCCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 17 VES-SDTIDNVKAKIQDKE--GIP-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 17 v~~-~~TV~~LK~~I~~~~--gip-~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
|+| ++||.+||++|+++. |++ +++|||+|+|+.|+|++||++|||++|++||++.
T Consensus 16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred cCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 444 689999999999995 575 8999999999999999999999999999999975
No 31
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=99.56 E-value=5.3e-15 Score=101.87 Aligned_cols=75 Identities=28% Similarity=0.386 Sum_probs=64.1
Q ss_pred EEEEEeCCCCEE-EEEecCCCcHHHHHHHHh-----hhhCCC--CCCeEEEeCCEEccCCccccccc------cCCCCEE
Q 032678 2 QIFVKTLTGKTI-TLEVESSDTIDNVKAKIQ-----DKEGIP--PDQQRLIFAGKQLEDGRTLADYN------IQKESTL 67 (136)
Q Consensus 2 qI~Vk~~~g~~~-~i~v~~~~TV~~LK~~I~-----~~~gip--~~~qrLi~~Gk~L~D~~tL~~yg------I~~gstI 67 (136)
.|.++..+|..+ ...+++++||++||++|+ .++++| +++|+|||+|+.|+|++||++|+ +....|+
T Consensus 6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~Tm 85 (113)
T cd01814 6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITM 85 (113)
T ss_pred EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEE
Confidence 577787888655 568899999999999999 445566 99999999999999999999999 7778999
Q ss_pred EEEEEecCC
Q 032678 68 HLVLRLRGG 76 (136)
Q Consensus 68 ~l~~r~~gG 76 (136)
|++++....
T Consensus 86 Hvvlr~~~~ 94 (113)
T cd01814 86 HVVVQPPLA 94 (113)
T ss_pred EEEecCCCC
Confidence 999986544
No 32
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.55 E-value=2.2e-14 Score=89.57 Aligned_cols=68 Identities=66% Similarity=0.966 Sum_probs=64.1
Q ss_pred EEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 4 FVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 4 ~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
.|+..+|+.+.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|++.++++|++..
T Consensus 1 ~v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 1 TVKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred CeEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 36778899999999999999999999999999999999999999999999999999999999999864
No 33
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.54 E-value=1e-14 Score=121.18 Aligned_cols=75 Identities=36% Similarity=0.565 Sum_probs=70.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
++|+||+.++ ++.+.|..+.||.+||++|...+++++++++|||.||.|+|+.||..|||++|.||||+++..-.
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~ 90 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPR 90 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCC
Confidence 4689999987 89999999999999999999999999999999999999999999999999999999999986533
No 34
>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=99.51 E-value=8.4e-14 Score=88.67 Aligned_cols=71 Identities=34% Similarity=0.633 Sum_probs=66.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCC-CCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
|+|+|++.+|+.+.+.+.++++++.|++.++++.|+|+ +.++|+|+|+.|+++.|++++|+++|++|++++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 78999999999999999999999999999999999999 999999999999999999999999999999864
No 35
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 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 L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=99.48 E-value=3.7e-15 Score=88.69 Aligned_cols=33 Identities=58% Similarity=0.656 Sum_probs=25.9
Q ss_pred cCCchHHHHhhcCCCcceeeccccccCCcceeee
Q 032678 78 IEPSLMALARKYNQDKMICRKYAHVSLFLFFSFI 111 (136)
Q Consensus 78 ~~~s~~~~a~k~n~~k~~cr~~~ya~~~~~a~~~ 111 (136)
++|++.++|++||++++|||+| |||+||+|+||
T Consensus 2 iePsl~~la~K~n~~k~ICrkC-yarl~~~A~nC 34 (52)
T PF01020_consen 2 IEPSLRALAQKYNCDKMICRKC-YARLPPRATNC 34 (52)
T ss_dssp --HHHHHHHHHHHTS-EEETTT---EE-TTSSS-
T ss_pred cChHHHHHHHHHcccceecccc-cCcCCCCccce
Confidence 6899999999999999999999 99999999999
No 36
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.44 E-value=2.5e-13 Score=108.26 Aligned_cols=74 Identities=38% Similarity=0.657 Sum_probs=70.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhC--CCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEec
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~g--ip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~ 74 (136)
|+|+||++.|++|++++.|++||.++|.+|+...| .|.+.|+|||+|+.|.|+.++.+|+|.+++.|.+++...
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD 76 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence 89999999999999999999999999999999999 999999999999999999999999999999888887754
No 37
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.44 E-value=2.9e-13 Score=91.28 Aligned_cols=61 Identities=28% Similarity=0.335 Sum_probs=56.8
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccC-CccccccccCCCCEEEEEEE
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED-GRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D-~~tL~~ygI~~gstI~l~~r 72 (136)
...++|++++||.+||.+|.+++++||++|+|+++|+.|.| .+||++|||..|++|++.+.
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid 77 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD 77 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence 46788999999999999999999999999999999998875 67999999999999999876
No 38
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.39 E-value=2.7e-12 Score=84.67 Aligned_cols=69 Identities=22% Similarity=0.404 Sum_probs=58.0
Q ss_pred EEEEEeCC-CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE-eCCE-----Ec-cCCccccccccCCCCEEEEE
Q 032678 2 QIFVKTLT-GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK-----QL-EDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 2 qI~Vk~~~-g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi-~~Gk-----~L-~D~~tL~~ygI~~gstI~l~ 70 (136)
.|.|++.. ....+.++++++||.+||++++..+|+||+.|+|. |.|+ .| +|+++|++||+++|.+||++
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 46666543 34456679999999999999999999999999995 7777 45 57889999999999999986
No 39
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.29 E-value=3.7e-11 Score=74.54 Aligned_cols=73 Identities=84% Similarity=1.145 Sum_probs=69.0
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecC
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 75 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~g 75 (136)
+++++..|++..+++.+..++..+|.+|+...|+|+++|++.+.|+.|.|+.+|.+|+|..++++++..++++
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~ 74 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG 74 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence 5778889999999999999999999999999999999999999999999999999999999999999988653
No 40
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=99.27 E-value=2.4e-11 Score=80.32 Aligned_cols=69 Identities=28% Similarity=0.565 Sum_probs=56.9
Q ss_pred EEEEEeCCC--CEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeC----CE---Ec-cCCccccccccCCCCEEEEE
Q 032678 2 QIFVKTLTG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA----GK---QL-EDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 2 qI~Vk~~~g--~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~----Gk---~L-~D~~tL~~ygI~~gstI~l~ 70 (136)
+|+|.+... +..+.++++++||++||.+|+..+|+|++.|+|.+. +. .+ +|+++|.+||+++|.+||+.
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVV 81 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEE
Confidence 567776654 488899999999999999999999999999999875 21 23 46889999999999999986
No 41
>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=99.26 E-value=2.9e-11 Score=83.36 Aligned_cols=79 Identities=30% Similarity=0.440 Sum_probs=66.9
Q ss_pred CEEEEEeCCCC-EEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCcccccccc-------CCCCEEEEEEE
Q 032678 1 MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI-------QKESTLHLVLR 72 (136)
Q Consensus 1 MqI~Vk~~~g~-~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI-------~~gstI~l~~r 72 (136)
|.+++.-...+ ++.+++.++.||.+||+.|+.....||++|+|+..+..|+|++||+|||+ +..++|-+.+|
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 45555544444 56779999999999999999999999999999977789999999999999 77899999998
Q ss_pred ecCCccC
Q 032678 73 LRGGIIE 79 (136)
Q Consensus 73 ~~gG~~~ 79 (136)
...|.++
T Consensus 81 ~~d~~fE 87 (119)
T cd01788 81 SSDDTFE 87 (119)
T ss_pred cCCCCcc
Confidence 7667544
No 42
>PLN02560 enoyl-CoA reductase
Probab=99.25 E-value=2.3e-11 Score=97.55 Aligned_cols=75 Identities=31% Similarity=0.514 Sum_probs=64.7
Q ss_pred CEEEEEeCCCCEE---EEEecCCCcHHHHHHHHhhhhCC-CCCCeEEEeC---C----EEccCCccccccccCCCCEEEE
Q 032678 1 MQIFVKTLTGKTI---TLEVESSDTIDNVKAKIQDKEGI-PPDQQRLIFA---G----KQLEDGRTLADYNIQKESTLHL 69 (136)
Q Consensus 1 MqI~Vk~~~g~~~---~i~v~~~~TV~~LK~~I~~~~gi-p~~~qrLi~~---G----k~L~D~~tL~~ygI~~gstI~l 69 (136)
|+|+|+..+|+.+ ++++++++||++||++|+++.++ ++++|||.+. | +.|+|+++|+++|+++|++|+
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy- 79 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVV- 79 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEE-
Confidence 8999999889887 79999999999999999999986 8999999973 3 378999999999999999875
Q ss_pred EEEecCCc
Q 032678 70 VLRLRGGI 77 (136)
Q Consensus 70 ~~r~~gG~ 77 (136)
++-.|-.
T Consensus 80 -~kDLGpQ 86 (308)
T PLN02560 80 -FKDLGPQ 86 (308)
T ss_pred -EEeCCCc
Confidence 4544443
No 43
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=9.3e-11 Score=104.37 Aligned_cols=75 Identities=33% Similarity=0.569 Sum_probs=70.6
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCc
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~ 77 (136)
.|.||++|.++.++.+...+||.+||++|..+.+|+.+.|||||.|+.|.|++++.+||| +|-+|||+-|..-+.
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverppp~~ 78 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPPPQT 78 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCCCCc
Confidence 478999999999999999999999999999999999999999999999999999999999 999999998855443
No 44
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=99.10 E-value=1.1e-09 Score=75.91 Aligned_cols=75 Identities=29% Similarity=0.481 Sum_probs=56.4
Q ss_pred EEEEEeCCCC-EEEEEecCCCcHHHHHHHHhhhhC-------CCCCCeEEEeCCEEccCCccccccccCCCC------EE
Q 032678 2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEG-------IPPDQQRLIFAGKQLEDGRTLADYNIQKES------TL 67 (136)
Q Consensus 2 qI~Vk~~~g~-~~~i~v~~~~TV~~LK~~I~~~~g-------ip~~~qrLi~~Gk~L~D~~tL~~ygI~~gs------tI 67 (136)
.|.++..+|+ ...+.+++++||++||+.|....- ..++++||+|.|+.|+|+.||+++++..|+ ++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm 83 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM 83 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence 4667777999 788999999999999999987541 244688999999999999999999987665 68
Q ss_pred EEEEEecCC
Q 032678 68 HLVLRLRGG 76 (136)
Q Consensus 68 ~l~~r~~gG 76 (136)
||+++....
T Consensus 84 Hlvvrp~~~ 92 (111)
T PF13881_consen 84 HLVVRPNAP 92 (111)
T ss_dssp EEEE-SSSS
T ss_pred EEEecCCCC
Confidence 888875544
No 45
>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=99.01 E-value=1.3e-09 Score=70.49 Aligned_cols=68 Identities=26% Similarity=0.318 Sum_probs=54.3
Q ss_pred EEEEEeCC-CCEEEEEe-cCCCcHHHHHHHHhhhhC-CCCCCeEEE--eCCEEccCCccccccccCCCCEEEE
Q 032678 2 QIFVKTLT-GKTITLEV-ESSDTIDNVKAKIQDKEG-IPPDQQRLI--FAGKQLEDGRTLADYNIQKESTLHL 69 (136)
Q Consensus 2 qI~Vk~~~-g~~~~i~v-~~~~TV~~LK~~I~~~~g-ip~~~qrLi--~~Gk~L~D~~tL~~ygI~~gstI~l 69 (136)
+|.++..+ .....+++ +++.||++||..|+...+ +++++|||. +.|+.|.|+.+|.++|+++|++|++
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 56666555 33222444 488999999999999876 589999995 7899999999999999999999875
No 46
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=99.00 E-value=1.1e-10 Score=68.49 Aligned_cols=28 Identities=18% Similarity=0.043 Sum_probs=26.5
Q ss_pred HHHHhhcCCCcceeeccccccCCcceeee
Q 032678 83 MALARKYNQDKMICRKYAHVSLFLFFSFI 111 (136)
Q Consensus 83 ~~~a~k~n~~k~~cr~~~ya~~~~~a~~~ 111 (136)
-.+|++++.+++|||+| |||+|++|+||
T Consensus 4 ~~~A~k~~~~k~ICrkC-~ARnp~~A~~C 31 (48)
T PRK04136 4 FEEAEKRVFNKKICMRC-NARNPWRATKC 31 (48)
T ss_pred hHHHHHHhhcccchhcc-cCCCCcccccc
Confidence 46889999999999999 99999999999
No 47
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.90 E-value=4.2e-09 Score=68.98 Aligned_cols=69 Identities=29% Similarity=0.434 Sum_probs=44.0
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC---EEc--cCCccccccccCCCCEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG---KQL--EDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G---k~L--~D~~tL~~ygI~~gstI~l~ 70 (136)
|-|.|++.+| .+.+++++++|+.+|+++|++..++|.+.|.|..+. ..+ .++++|+++||++|+.|++.
T Consensus 5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 5688998887 678899999999999999999999999999885332 244 46789999999999999874
No 48
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=98.85 E-value=2.4e-08 Score=58.66 Aligned_cols=67 Identities=46% Similarity=0.666 Sum_probs=60.6
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 5 Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
|+..+|....+.+.+++|+.++|+.+..+.|++++.|.|.++|..+.+...+.++++.++++|++..
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 3444788889999999999999999999999999999999999999998888899999999998864
No 49
>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=98.65 E-value=2e-07 Score=59.82 Aligned_cols=69 Identities=29% Similarity=0.425 Sum_probs=59.9
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeC---CE--EccCCccccccccCCCCEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA---GK--QLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~---Gk--~L~D~~tL~~ygI~~gstI~l~ 70 (136)
+||+|+-..+....+.|+|..+|..+|++|....+++- .|||.|. |+ .|.+..+|++|||-.+-.|-++
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~ll 74 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLL 74 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEE
Confidence 58999999889999999999999999999999999875 9999983 33 6789999999999877666554
No 50
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=8.1e-07 Score=59.97 Aligned_cols=77 Identities=17% Similarity=0.446 Sum_probs=71.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCc
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~ 77 (136)
+++.|+.-++.+..+.+..++++..|+....++.|++.+..|++|+|+.+.+..|-++++.++|+.|.++....||.
T Consensus 21 i~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~ 97 (99)
T KOG1769|consen 21 INLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF 97 (99)
T ss_pred EEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence 35677877788889999999999999999999999999999999999999999999999999999999999888874
No 51
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=4.4e-08 Score=61.22 Aligned_cols=69 Identities=26% Similarity=0.398 Sum_probs=62.3
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~ 70 (136)
++.+...-|+...+.+.+++||+++|..|+.++|..++...|--.+..++|.-+|++|.|.+|..+.+.
T Consensus 3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely 71 (73)
T KOG3493|consen 3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY 71 (73)
T ss_pred eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence 566666779999999999999999999999999999999988878889999999999999999887764
No 52
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=5.1e-07 Score=75.34 Aligned_cols=73 Identities=25% Similarity=0.448 Sum_probs=65.7
Q ss_pred EEEEeCCCCEEEEE-ecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 3 IFVKTLTGKTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 3 I~Vk~~~g~~~~i~-v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|.|| ..|+.+.++ ++.++|...||+++...+|++|++|++...|+.+.|+-.+...+|++|.+++|+-....+
T Consensus 6 v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e~~ 79 (473)
T KOG1872|consen 6 VIVK-WGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAEAG 79 (473)
T ss_pred Eeee-ecCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccccc
Confidence 6666 678899887 999999999999999999999999999999999999989999999999999998654433
No 53
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=98.42 E-value=1.9e-06 Score=63.24 Aligned_cols=99 Identities=28% Similarity=0.449 Sum_probs=73.0
Q ss_pred CEEEEEeCCC----CEEEEEecCCCcHHHHHHHHhhhhCCCCCCe-EEEe-CCEEc--cCCccccccccCCC----CEEE
Q 032678 1 MQIFVKTLTG----KTITLEVESSDTIDNVKAKIQDKEGIPPDQQ-RLIF-AGKQL--EDGRTLADYNIQKE----STLH 68 (136)
Q Consensus 1 MqI~Vk~~~g----~~~~i~v~~~~TV~~LK~~I~~~~gip~~~q-rLi~-~Gk~L--~D~~tL~~ygI~~g----stI~ 68 (136)
|+|+|++.+| .++.+.++++.||.+|+..|....++++..| .|.+ .++.| .++..++++.-.+. -+++
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~ 80 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR 80 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence 7899999999 5888999999999999999999999998885 3444 34444 35556666544333 4788
Q ss_pred EEEEecCCc--cCCchHHHHh----hcCCCcceeecc
Q 032678 69 LVLRLRGGI--IEPSLMALAR----KYNQDKMICRKY 99 (136)
Q Consensus 69 l~~r~~gG~--~~~s~~~~a~----k~n~~k~~cr~~ 99 (136)
+.++++||+ +..-+++.+. +...+...||.=
T Consensus 81 l~~rl~GGKGGFGs~Lr~~g~~~s~~k~~n~dscRdL 117 (162)
T PF13019_consen 81 LSLRLRGGKGGFGSQLRAAGGRMSSKKTTNFDSCRDL 117 (162)
T ss_pred EEEeccCCCccHHHHHHHHHHHhhcccCCCcccccCC
Confidence 999999996 4555666543 445567778764
No 54
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=98.36 E-value=5.1e-08 Score=57.38 Aligned_cols=30 Identities=23% Similarity=0.061 Sum_probs=27.1
Q ss_pred chHHHHhhcCCCcceeeccccccCCcceeee
Q 032678 81 SLMALARKYNQDKMICRKYAHVSLFLFFSFI 111 (136)
Q Consensus 81 s~~~~a~k~n~~k~~cr~~~ya~~~~~a~~~ 111 (136)
+.-+.|+++..++.|||+| |||+|++|+.|
T Consensus 2 ~~~~~a~~r~~~kkIC~rC-~Arnp~~A~kC 31 (50)
T COG1552 2 ARFAEAEKRLFNKKICRRC-YARNPPRATKC 31 (50)
T ss_pred chHHHHHHHHhhHHHHHHh-cCCCCcchhHH
Confidence 3456788999999999999 99999999999
No 55
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=9.6e-07 Score=70.93 Aligned_cols=70 Identities=30% Similarity=0.599 Sum_probs=60.6
Q ss_pred CEEEEEeC---CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEE
Q 032678 1 MQIFVKTL---TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 1 MqI~Vk~~---~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~ 70 (136)
|-+.|... ....+.++|+.+.+|.+||+.++...|+|+++.+++|.||.|.|+.+++.+.+..-+.+|++
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~ 73 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIM 73 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhh
Confidence 56666644 23457889999999999999999999999999999999999999999998888777888876
No 56
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=98.17 E-value=2.6e-06 Score=57.26 Aligned_cols=61 Identities=30% Similarity=0.444 Sum_probs=49.5
Q ss_pred CEEEEEeCC-CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEe-CC-EEccCCcccccccc
Q 032678 1 MQIFVKTLT-GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AG-KQLEDGRTLADYNI 61 (136)
Q Consensus 1 MqI~Vk~~~-g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~-~G-k~L~D~~tL~~ygI 61 (136)
|.++++-.. ..++.++.+++.||-+||.+++....-|++.|+|+. .. +.|+|.++|+++|.
T Consensus 1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gf 64 (110)
T KOG4495|consen 1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGF 64 (110)
T ss_pred CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhccc
Confidence 344444333 346778999999999999999999999999999987 33 58899999999975
No 57
>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=97.97 E-value=4.2e-05 Score=48.15 Aligned_cols=63 Identities=19% Similarity=0.252 Sum_probs=47.2
Q ss_pred eCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEE
Q 032678 7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (136)
Q Consensus 7 ~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l 69 (136)
..+++...+.+.|++++.++-++..+++|+++++-.|.|+++.|+-+.+++-.|+.+|+.+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 468899999999999999999999999999999999999999999999999999999999865
No 58
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=97.89 E-value=5.6e-05 Score=48.92 Aligned_cols=68 Identities=22% Similarity=0.396 Sum_probs=48.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCC------eEEE-eCCEEccCCccccccccCCCCEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ------QRLI-FAGKQLEDGRTLADYNIQKESTLHL 69 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~------qrLi-~~Gk~L~D~~tL~~ygI~~gstI~l 69 (136)
.|+|...+|+.+.+.++.+.++.+|...+.+..+.+..+ -+|. -+|..|+++.+|+++||.+|+.+++
T Consensus 4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 466666556899999999999999999999987763322 3444 5788999999999999999999976
No 59
>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=97.87 E-value=0.00025 Score=45.84 Aligned_cols=69 Identities=23% Similarity=0.347 Sum_probs=58.3
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCC-eEEE--eCCEEccCC--ccccccccCCCCEEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLI--FAGKQLEDG--RTLADYNIQKESTLHLV 70 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~-qrLi--~~Gk~L~D~--~tL~~ygI~~gstI~l~ 70 (136)
.|.||.++|+.+.-.+.+++|+.+|.+-|......+... ..|+ |-.+.+.++ +||++.|+.+.++|++.
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence 588999999999999999999999999999887776664 6775 566777653 69999999999998763
No 60
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=5.9e-05 Score=50.26 Aligned_cols=76 Identities=17% Similarity=0.371 Sum_probs=67.9
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCc
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~ 77 (136)
.+.|...+|.++.+.+..+++...|....+.+.|-..+..|++|+|+.++-++|-.+++.++++.|.++....||.
T Consensus 26 nLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG~ 101 (103)
T COG5227 26 NLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGGA 101 (103)
T ss_pred ceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcCc
Confidence 3556666888999999999999999999999999999999999999999999999999999999998877776763
No 61
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.66 E-value=0.00045 Score=44.67 Aligned_cols=68 Identities=22% Similarity=0.260 Sum_probs=55.6
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--eCCEEccC---CccccccccCCCCEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL 69 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~D---~~tL~~ygI~~gstI~l 69 (136)
+|.||.++|+.+...+.+++||++|.+-+....+.+.....|+ |-.+.+.+ +.||.+.|+...+++.+
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 5889999999999999999999999999966666665667775 55667753 47999999988888765
No 62
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=97.48 E-value=0.0013 Score=42.59 Aligned_cols=67 Identities=16% Similarity=0.324 Sum_probs=54.7
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--eCCEEccC---CccccccccCCCCEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL 69 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~D---~~tL~~ygI~~gstI~l 69 (136)
+|.||.++|+...-.++.++|+.+|.+-|+...+.+ ....|+ |-.+.+.+ +.||.+.|+.+.++|.|
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 578999999999999999999999999998765433 445665 66777753 57999999998888876
No 63
>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=97.44 E-value=0.00041 Score=46.94 Aligned_cols=58 Identities=21% Similarity=0.352 Sum_probs=44.3
Q ss_pred EEEEEeCCC-CEEEEEec--CCCcHHHHHHHHhhhhC--CCCCCeEEEeCCEEccCCcccccc
Q 032678 2 QIFVKTLTG-KTITLEVE--SSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADY 59 (136)
Q Consensus 2 qI~Vk~~~g-~~~~i~v~--~~~TV~~LK~~I~~~~g--ip~~~qrLi~~Gk~L~D~~tL~~y 59 (136)
.|+|+..++ ....+++. .+.||..||+.|.+..+ ..-.++||+|+|+.|.|...|+.-
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~ 64 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhh
Confidence 356666652 34667777 78999999999999873 333578999999999998877654
No 64
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=97.44 E-value=0.0016 Score=41.73 Aligned_cols=66 Identities=17% Similarity=0.303 Sum_probs=51.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--eCCEEccC---CccccccccCCCCEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL 69 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~D---~~tL~~ygI~~gstI~l 69 (136)
+|.||.++|+.+.-.+..++||++|.+-|.....- .....|+ |-.+.+.| +.||.+.|+.+ +.+.+
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~ 74 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ 74 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence 58899999999999999999999999999876543 4556665 55666654 78999999984 44433
No 65
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.42 E-value=0.0004 Score=52.92 Aligned_cols=64 Identities=28% Similarity=0.428 Sum_probs=57.5
Q ss_pred CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEE
Q 032678 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 9 ~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
.++.+.+.+..-+|+.++|.++....|+++-.|+++|+|+.|.|...|.+++|+.|+...+-+.
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqvi 218 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVI 218 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEE
Confidence 4567788888899999999999999999999999999999999999999999999977665544
No 66
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=97.36 E-value=0.0004 Score=54.28 Aligned_cols=77 Identities=29% Similarity=0.363 Sum_probs=55.9
Q ss_pred CEEEEEeCCCC-EE-EEEecCCCcHHHHHHHHhhh-hCCCCCCeEEE----eCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 1 MQIFVKTLTGK-TI-TLEVESSDTIDNVKAKIQDK-EGIPPDQQRLI----FAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 1 MqI~Vk~~~g~-~~-~i~v~~~~TV~~LK~~I~~~-~gip~~~qrLi----~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
|.|++.+.++. .. ..+.+.+.|+.|++..+..+ ..+.+..+|+. -+|+.|.|+.+|++||..+|+++. ++-
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~--vKD 78 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIY--VKD 78 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEE--Eec
Confidence 78999887662 33 36788889999999776554 55666555443 479999999999999998886664 555
Q ss_pred cCCccC
Q 032678 74 RGGIIE 79 (136)
Q Consensus 74 ~gG~~~ 79 (136)
.|-.+.
T Consensus 79 LGpQI~ 84 (297)
T KOG1639|consen 79 LGPQIS 84 (297)
T ss_pred cCCccc
Confidence 555433
No 67
>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=97.29 E-value=0.0024 Score=41.46 Aligned_cols=65 Identities=23% Similarity=0.297 Sum_probs=51.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCC-CCCeEEE--eCCEEccC-CccccccccCCCCE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIP-PDQQRLI--FAGKQLED-GRTLADYNIQKEST 66 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip-~~~qrLi--~~Gk~L~D-~~tL~~ygI~~gst 66 (136)
+|.||..+|+.+...+..++||++|.+-|....+-+ .....|. |-.+.|.| +.||.|.|+.+...
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v 74 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVI 74 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEE
Confidence 578999999999999999999999999999875432 2455665 66777765 77999999986443
No 68
>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=97.19 E-value=0.0046 Score=40.59 Aligned_cols=68 Identities=16% Similarity=0.334 Sum_probs=57.7
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--eCCEEcc---CCccccccccCCCCEEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~---D~~tL~~ygI~~gstI~l~ 70 (136)
+|.||.++|+...-.+..++++.+|-.-++. .|.+++...|+ |--+.+. .+.||.+.|+.+..+|.|-
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 6889999999999999999999999999988 47788888887 5556553 3579999999999998764
No 69
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.18 E-value=0.0037 Score=40.26 Aligned_cols=64 Identities=19% Similarity=0.254 Sum_probs=54.3
Q ss_pred EeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCC-----CCeEEEeCCEEccCCccccccccCCCCEEEE
Q 032678 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-----DQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (136)
Q Consensus 6 k~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~-----~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l 69 (136)
+..+|.++.++++...++..|-..+.+...+.. ...+..-+++.|.++..|.+|+|.+|+.+.+
T Consensus 12 t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 12 TNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 556799999999999999999998887766422 3458888999999999999999999998865
No 70
>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=96.96 E-value=0.0098 Score=39.15 Aligned_cols=67 Identities=12% Similarity=0.190 Sum_probs=54.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeC--CEEcc--------CCccccccccCCCCEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GKQLE--------DGRTLADYNIQKESTLHL 69 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~--Gk~L~--------D~~tL~~ygI~~gstI~l 69 (136)
+|.||.++|+...-.+..++||++|.+-|... +-.++...|+.+ -+.+. .+.||++.|+.+..++.|
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V 82 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFV 82 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEE
Confidence 68899999999999999999999999999654 456678888753 36664 367999999998887765
No 71
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.94 E-value=0.0097 Score=38.73 Aligned_cols=68 Identities=21% Similarity=0.329 Sum_probs=56.8
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--eCCEEcc---CCccccccccCCCCEEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~---D~~tL~~ygI~~gstI~l~ 70 (136)
+|.||.++|+...-.+..++++++|-+-+... |.++...+|+ |--+.+. .+.||.+.|+....+|.|-
T Consensus 6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 68899999999999999999999999999875 7777788886 5566664 3569999999988888764
No 72
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.87 E-value=0.0032 Score=48.03 Aligned_cols=70 Identities=16% Similarity=0.302 Sum_probs=53.8
Q ss_pred EEEEEeCCCC-EEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE-eCC-----EEcc-CCccccccccCCCCEEEEEE
Q 032678 2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAG-----KQLE-DGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 2 qI~Vk~~~g~-~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi-~~G-----k~L~-D~~tL~~ygI~~gstI~l~~ 71 (136)
.|+|.+...+ ...-++++++||.+||.+++..+|.+++.++|. |.| ..|+ ++..|..|+..+|-.||++=
T Consensus 3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD 80 (234)
T KOG3206|consen 3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVID 80 (234)
T ss_pred EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEe
Confidence 3555433222 244578899999999999999999999999995 554 1455 46799999999999999863
No 73
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=96.69 E-value=0.018 Score=38.33 Aligned_cols=67 Identities=19% Similarity=0.239 Sum_probs=46.8
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEe----CC-EEccC-CccccccccCCCCEEEEEEEecCCcc
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF----AG-KQLED-GRTLADYNIQKESTLHLVLRLRGGII 78 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~----~G-k~L~D-~~tL~~ygI~~gstI~l~~r~~gG~~ 78 (136)
...+..++..+||+.+...+.+.+.| .++-||.- ++ ..|.+ +.|+.+.||.+|.+|.+-.|...|..
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DGtW 86 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDGTW 86 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS--
T ss_pred cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCCCC
Confidence 36677899999999999999999999 67788863 22 25655 56999999999999999888877743
No 74
>PRK06437 hypothetical protein; Provisional
Probab=96.48 E-value=0.045 Score=34.31 Aligned_cols=59 Identities=20% Similarity=0.404 Sum_probs=45.9
Q ss_pred CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 9 ~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
+++...++++...|+.+|-+++ |++++...+..+|+.+. .+.-+++|++|.++.-..||
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~L----gi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKDL----GLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence 4566778888889999887654 78888888889999997 44456679999987655554
No 75
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0014 Score=53.24 Aligned_cols=70 Identities=26% Similarity=0.388 Sum_probs=51.5
Q ss_pred EEEEEeCCCC--EEEEEecCCCcHHHHHHHHhhhhCCC--CCCeEEEeCCEEccCCccccccccC--CCCEEEEEE
Q 032678 2 QIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLADYNIQ--KESTLHLVL 71 (136)
Q Consensus 2 qI~Vk~~~g~--~~~i~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~ygI~--~gstI~l~~ 71 (136)
.+.||+.+.+ ...|..+..+||++||..++..+--. +.+|||+|.||.|.|...|.|.-++ ...++|++.
T Consensus 11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlvc 86 (391)
T KOG4583|consen 11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLVC 86 (391)
T ss_pred EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHhc
Confidence 4677877754 45667778899999999999886422 2689999999999999888887543 234455543
No 76
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=96.17 E-value=0.074 Score=33.48 Aligned_cols=56 Identities=13% Similarity=0.238 Sum_probs=43.0
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
...+++++..|+.+|-+++ +++++...+..+|+.... +.-+++|+.|.++.-..||
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~~V~GG 70 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIPVVSGG 70 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEccccCC
Confidence 5677888889999998776 667777777889998864 3446679999987666665
No 77
>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=96.11 E-value=0.0015 Score=52.51 Aligned_cols=76 Identities=18% Similarity=0.428 Sum_probs=0.0
Q ss_pred EEEEEeCCCCEEEEEec---C--CCcHHHHHHHHhh----------hhCCCCCCeE-----EEeCCEEccCCcccccccc
Q 032678 2 QIFVKTLTGKTITLEVE---S--SDTIDNVKAKIQD----------KEGIPPDQQR-----LIFAGKQLEDGRTLADYNI 61 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~---~--~~TV~~LK~~I~~----------~~gip~~~qr-----Li~~Gk~L~D~~tL~~ygI 61 (136)
.|++|++.+-.+.+.+. + +.||.++|..++. ++++|.+..+ |+|+.+.+.|.+||.+..-
T Consensus 80 tV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~l~ 159 (309)
T PF12754_consen 80 TVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEVLA 159 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHHHh
Confidence 45666666555544332 3 5899999999999 8999999888 9999999999999888754
Q ss_pred C-------CCCEEEEEEEecCCc
Q 032678 62 Q-------KESTLHLVLRLRGGI 77 (136)
Q Consensus 62 ~-------~gstI~l~~r~~gG~ 77 (136)
. .+.++.+.+...||.
T Consensus 160 ~~~~~l~~~~~~vE~gvMVlGGa 182 (309)
T PF12754_consen 160 DSESRLLSGGKEVEFGVMVLGGA 182 (309)
T ss_dssp -----------------------
T ss_pred cccchhccCCceEEEEEEEECCc
Confidence 3 467888888878884
No 78
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=96.08 E-value=0.012 Score=37.96 Aligned_cols=56 Identities=23% Similarity=0.331 Sum_probs=46.3
Q ss_pred ecCCCcHHHHHHHHhhhhC-CCCCCeEEEeCCEEccCCcccccc-ccCCCCEEEEEEE
Q 032678 17 VESSDTIDNVKAKIQDKEG-IPPDQQRLIFAGKQLEDGRTLADY-NIQKESTLHLVLR 72 (136)
Q Consensus 17 v~~~~TV~~LK~~I~~~~g-ip~~~qrLi~~Gk~L~D~~tL~~y-gI~~gstI~l~~r 72 (136)
|+++++|.++++.+..... ..-....|.++|+.|+|...|+++ |+++|+++.++.+
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~ 58 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEE 58 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEec
Confidence 5688999999999988754 234567888999999998888888 5888999999865
No 79
>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=95.99 E-value=0.031 Score=37.00 Aligned_cols=44 Identities=14% Similarity=0.241 Sum_probs=38.0
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCC---CeEEEe
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD---QQRLIF 45 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~---~qrLi~ 45 (136)
...++++.|++..+.+.|++++.+|++.|.++.|+... ...|.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 35778899999999999999999999999999998863 556665
No 80
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=95.94 E-value=0.071 Score=32.87 Aligned_cols=65 Identities=18% Similarity=0.389 Sum_probs=45.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|.+ +|+.+.+ + ..|+.+|.+.+ +++++...+-.+++.+. .....+.-+++|+.|.++.-..||
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEEeccCC
Confidence 56665 4666665 3 46899988765 56666666778998876 333445667889999988766665
No 81
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=95.91 E-value=0.054 Score=34.82 Aligned_cols=71 Identities=18% Similarity=0.275 Sum_probs=47.9
Q ss_pred CEEEEEeCC------C-CEEEEEecCCCcHHHHHHHHhhhhC-CCC--CCeEEEeCCEEccCCccccccccCCCCEEEEE
Q 032678 1 MQIFVKTLT------G-KTITLEVESSDTIDNVKAKIQDKEG-IPP--DQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 1 MqI~Vk~~~------g-~~~~i~v~~~~TV~~LK~~I~~~~g-ip~--~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~ 70 (136)
|+|+|+... | ....++++...|+.+|++.+..... +.. ....+..+|+...++. -+++|++|.+.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~~-----~l~dgDeVai~ 76 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTESA-----ALKDGDELAII 76 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCCc-----CcCCCCEEEEe
Confidence 677777552 4 4567888889999999999976641 111 1124567888765433 46679999988
Q ss_pred EEecCC
Q 032678 71 LRLRGG 76 (136)
Q Consensus 71 ~r~~gG 76 (136)
.-..||
T Consensus 77 PpvsGG 82 (82)
T PLN02799 77 PPISGG 82 (82)
T ss_pred CCCCCC
Confidence 776665
No 82
>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=95.87 E-value=0.091 Score=33.26 Aligned_cols=67 Identities=25% Similarity=0.312 Sum_probs=50.2
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCC-CCeEEEe----CC--EEccCCccccccccC--CCCEEEEEE
Q 032678 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIF----AG--KQLEDGRTLADYNIQ--KESTLHLVL 71 (136)
Q Consensus 5 Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~----~G--k~L~D~~tL~~ygI~--~gstI~l~~ 71 (136)
|+.++|...++++++++|+.+|-+.|.++.|+.. +..-|.+ +| .-|+.+++|.+.... ...++++.+
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~frv 76 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYFRV 76 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEEEE
Confidence 5678999999999999999999999999999853 4557777 22 246778889888776 333444433
No 83
>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=95.81 E-value=0.061 Score=34.03 Aligned_cols=60 Identities=13% Similarity=0.228 Sum_probs=45.0
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCC----CCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGI----PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gi----p~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
...++++...|+.+|.+.+....+- ......+..+|+.... +.-+++|+.|.++....||
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~-----~~~l~~gD~v~i~ppv~GG 80 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRL-----DTPLKDGDEVAIIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCC-----CcccCCCCEEEEeCCCCCC
Confidence 4667887789999999999887532 2345567788888763 3457789999998877776
No 84
>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=95.52 E-value=0.067 Score=34.96 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=35.2
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEE
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ 49 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~ 49 (136)
++.|++.+..+..+|.++|.++.++|++...|.|....
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~ 49 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEA 49 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCC
Confidence 88999999999999999999999999999999997653
No 85
>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=95.40 E-value=0.07 Score=35.25 Aligned_cols=61 Identities=20% Similarity=0.343 Sum_probs=44.0
Q ss_pred EEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 13 ~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
+...++=..+++.||..++.+.+++-+.-.+...+..|+++++|-+-+++-...|.+.+..
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi 65 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQI 65 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEE
Confidence 3445667789999999999999999999999999988999999999999988888887764
No 86
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=95.33 E-value=0.074 Score=32.54 Aligned_cols=56 Identities=20% Similarity=0.320 Sum_probs=41.0
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
|+|+|. |+ .+++..+.|+.+||.++... .=.++++|-+..++..|. +|+.|.++-|
T Consensus 1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~~------~DI~I~NGF~~~~d~~L~-----e~D~v~~Ikk 56 (57)
T PF14453_consen 1 MKIKVN---EK--EIETEENTTLFELRKESKPD------ADIVILNGFPTKEDIELK-----EGDEVFLIKK 56 (57)
T ss_pred CEEEEC---CE--EEEcCCCcCHHHHHHhhCCC------CCEEEEcCcccCCccccC-----CCCEEEEEeC
Confidence 667663 43 46778888999999987543 336799999988876655 5888887643
No 87
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=94.81 E-value=0.24 Score=30.88 Aligned_cols=63 Identities=14% Similarity=0.249 Sum_probs=49.3
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCC--CCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gi--p~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
...+.+....||.+|.+.+..+..- ......+..+|+..++ .-.+.-+++|++|.++.-..||
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ppvsGG 77 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILPPVSGG 77 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEESTSTS
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEECCCCCC
Confidence 5677889999999999999887521 2266788899999888 3455567889999998777776
No 88
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=94.62 E-value=0.33 Score=30.98 Aligned_cols=60 Identities=15% Similarity=0.269 Sum_probs=44.0
Q ss_pred EEEEEecCC-CcHHHHHHHHhhhhC-C--CCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 12 TITLEVESS-DTIDNVKAKIQDKEG-I--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 12 ~~~i~v~~~-~TV~~LK~~I~~~~g-i--p~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
...++++++ .|+.+|++.+.++.. + ......+..+++...++ .-+++|++|.+.....||
T Consensus 17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~~-----~~l~dgDevai~PpvsGG 80 (80)
T TIGR01682 17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTDD-----ALLNEGDEVAFIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCCC-----cCcCCCCEEEEeCCCCCC
Confidence 457888877 899999999988863 1 11334666788877653 456779999998877776
No 89
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=94.25 E-value=0.5 Score=28.92 Aligned_cols=66 Identities=20% Similarity=0.378 Sum_probs=45.6
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+| +|+.. +++...|+.+|-+. .+++++...+..+|+.+.-+ .-.+.-+++|+.|.++.-..||
T Consensus 1 m~i~v---NG~~~--~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~-~~~~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 1 MNIQL---NGEPR--ELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRS-QHASTALREGDVVEIVHALGGG 66 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHH-HcCcccCCCCCEEEEEEEecCC
Confidence 56655 46644 56677898887764 47788888888999877632 2233346789999987766665
No 90
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=94.23 E-value=0.34 Score=29.74 Aligned_cols=61 Identities=21% Similarity=0.416 Sum_probs=43.9
Q ss_pred CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 9 ~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
+|+. ++++...|+.+|.+++ +++++...+..+|+.+..+ .-++.-+++|++|.++.-..||
T Consensus 5 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 5 NGEP--REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred CCeE--EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEEeccCC
Confidence 4554 4566778999998876 4677788888999987543 2233457789999998777666
No 91
>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=94.09 E-value=0.26 Score=32.21 Aligned_cols=46 Identities=11% Similarity=0.154 Sum_probs=36.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCC-CCeEEEeCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAG 47 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~-~~qrLi~~G 47 (136)
|+|.+. .+|....+.++++.+..+|+++|.++.++.. ....|-|.+
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~D 47 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLD 47 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEEC
Confidence 455553 4677889999999999999999999999865 556666644
No 92
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=94.01 E-value=0.09 Score=43.22 Aligned_cols=70 Identities=21% Similarity=0.323 Sum_probs=59.2
Q ss_pred CEEEEEeC--CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCC--ccccccccCCCCEEEEE
Q 032678 1 MQIFVKTL--TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG--RTLADYNIQKESTLHLV 70 (136)
Q Consensus 1 MqI~Vk~~--~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~--~tL~~ygI~~gstI~l~ 70 (136)
|.++|-+. ..+++.+++..+..+.+|+..++..+|++.+..-|+|+++.+.++ ..|.++|+..++++.+-
T Consensus 1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr 74 (380)
T KOG0012|consen 1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEecc
Confidence 55555444 567788999999999999999999999999999999999998754 58999999999888654
No 93
>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=93.95 E-value=0.7 Score=29.86 Aligned_cols=62 Identities=13% Similarity=0.286 Sum_probs=44.0
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCC------C-----CCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGI------P-----PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gi------p-----~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
....++++ ..|+.+|.+.+.++..- . -....+..+|+..+++.. ..+++|++|.+.....||
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~PpvsGG 88 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFPPVSGG 88 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeCCCcCC
Confidence 35677776 89999999999877531 0 123566678887765431 457889999998877776
No 94
>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=93.85 E-value=0.36 Score=30.58 Aligned_cols=45 Identities=16% Similarity=0.334 Sum_probs=37.1
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G 47 (136)
.|.++. +|....+.++++.|..+|+.+|.++++.+.....|-|.+
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D 47 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD 47 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence 345543 567888999999999999999999999887778887764
No 95
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=93.80 E-value=0.55 Score=28.99 Aligned_cols=65 Identities=18% Similarity=0.310 Sum_probs=45.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+| +|+.+. +++..|+.+|-+. .++++...-+..++..+..+. .+.+ +++|++|.++--..||
T Consensus 1 m~i~v---NG~~~~--~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~-~~~~-L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 1 MIVVV---NEEQVE--VDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSD-WATK-LRDGARLEVVTAVQGG 65 (65)
T ss_pred CEEEE---CCEEEE--cCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhH-hhhh-cCCCCEEEEEeeccCC
Confidence 56665 466544 5567888877665 477888889999999775432 2234 8899999987666655
No 96
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=93.55 E-value=0.59 Score=28.61 Aligned_cols=61 Identities=20% Similarity=0.398 Sum_probs=43.0
Q ss_pred CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 9 ~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
+|+.+ +++...|+.+|.+.+ +++++...+..+|+.+..+ ...++-+++|+.|.++.-..||
T Consensus 4 Ng~~~--~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 4 NGEPV--EVEDGLTLAALLESL----GLDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred CCeEE--EcCCCCcHHHHHHHc----CCCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEEeccCC
Confidence 55554 456678999998865 4667777778899987422 2334567889999988776665
No 97
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=93.41 E-value=0.47 Score=29.86 Aligned_cols=66 Identities=23% Similarity=0.475 Sum_probs=51.8
Q ss_pred CCCCEEEEEecCCCcHHHHHHHHhhhhC---CCCCCeEEE-eCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 8 LTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 8 ~~g~~~~i~v~~~~TV~~LK~~I~~~~g---ip~~~qrLi-~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
.+|+...++..+...+....++--+..| -|++.=.|- -+|..|+-++.++|||+.++-++.+.++.
T Consensus 3 VNGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLKA 72 (76)
T PF10790_consen 3 VNGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLKA 72 (76)
T ss_pred eCCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEeec
Confidence 3688888888888888877776655544 577766664 46888988999999999999999888763
No 98
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=93.30 E-value=1.2 Score=27.50 Aligned_cols=66 Identities=15% Similarity=0.262 Sum_probs=44.6
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+| +|+.+ +++...|+.+|.+.+ +.+.....+-.+++.+.. ...++.-+++|+.|.++.-..||
T Consensus 1 m~i~v---Ng~~~--~~~~~~tl~~ll~~l----~~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 1 MQILF---NDQPM--QCAAGQTVHELLEQL----NQLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHHc----CCCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEEEccCC
Confidence 56665 46554 456778999888764 445556777789998752 22334457789999988766665
No 99
>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=93.06 E-value=1.4 Score=32.18 Aligned_cols=72 Identities=28% Similarity=0.373 Sum_probs=51.0
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCC-CeEEEeC---C---EEccCCccccccccC-CCCEEEEEEEe
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIFA---G---KQLEDGRTLADYNIQ-KESTLHLVLRL 73 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~-~qrLi~~---G---k~L~D~~tL~~ygI~-~gstI~l~~r~ 73 (136)
.+.|..++|.+..+.+++++|+.++.+.+..+.|++.. .-.|.+. + .-++...+|.+.... ....+++..+.
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~fr~r~ 84 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLYFRVKF 84 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEEEEEEE
Confidence 57788899999999999999999999999999999542 2244331 1 235556677666544 34456665553
No 100
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=92.67 E-value=1.4 Score=26.74 Aligned_cols=65 Identities=20% Similarity=0.252 Sum_probs=42.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+| +|+. +++++..|+.+|.+.+. ++ ....+..+|.....+. -.+.-+++|++|.++.-..||
T Consensus 1 m~i~v---Ng~~--~~~~~~~tl~~ll~~l~----~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 1 MDIQL---NQQT--LSLPDGATVADALAAYG----AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred CEEEE---CCEE--EECCCCCcHHHHHHhhC----CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence 55555 4554 45667789999988763 33 3456678888775321 223336779999998777665
No 101
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=92.41 E-value=1.5 Score=27.29 Aligned_cols=66 Identities=18% Similarity=0.253 Sum_probs=44.9
Q ss_pred CEEEEEeCCCCEEEEEecCC-CcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 1 MQIFVKTLTGKTITLEVESS-DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~-~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
|+|+| +|+.. +++.. .||.+|-+. .++++...-+-.+|+.+.- ...++.-+++|+.|.++--..||
T Consensus 1 m~I~v---NG~~~--~~~~~~~tv~~lL~~----l~~~~~~vav~vN~~iv~r-~~w~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 1 MNLKI---NGNQI--EVPESVKTVAELLTH----LELDNKIVVVERNKDILQK-DDHTDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred CEEEE---CCEEE--EcCCCcccHHHHHHH----cCCCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEEEecCC
Confidence 55655 46654 45554 578877654 4677777788899998853 23445567889999987666665
No 102
>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=92.14 E-value=0.93 Score=29.97 Aligned_cols=53 Identities=23% Similarity=0.279 Sum_probs=39.1
Q ss_pred EEEEeC-CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccc
Q 032678 3 IFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 58 (136)
Q Consensus 3 I~Vk~~-~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ 58 (136)
|.||.. .|....+.++++.+..+|.++|.+++++. ....+-|.+. .|..|+++
T Consensus 3 ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDE--GD~iti~s 56 (86)
T cd06408 3 IRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDD--GDMITMGD 56 (86)
T ss_pred EEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcC--CCCccccC
Confidence 344433 67889999999999999999999999985 4556666655 44445443
No 103
>smart00455 RBD Raf-like Ras-binding domain.
Probab=91.67 E-value=0.81 Score=28.86 Aligned_cols=49 Identities=22% Similarity=0.322 Sum_probs=41.8
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC--EEcc
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLE 51 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G--k~L~ 51 (136)
+.|-.++|+...+.+.|..|+.|+-+.+-++.|+.++.-.+...| +.|+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ld 52 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLD 52 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccee
Confidence 345678999999999999999999999999999999988888754 3444
No 104
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=91.62 E-value=1 Score=38.17 Aligned_cols=70 Identities=14% Similarity=0.176 Sum_probs=53.6
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCC----CCCCe--EEE-eCCEEccCCccccccccCCCCEEEEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI----PPDQQ--RLI-FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gi----p~~~q--rLi-~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
+|+|...+ +...+-++.+..+.||--.|-+..+- +.... .|. -+|.+|+.+.||.+.||.||+.+++..+
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 46676544 45788899999999999999887763 12222 232 4788999999999999999999999864
No 105
>PRK07440 hypothetical protein; Provisional
Probab=91.59 E-value=1.8 Score=27.18 Aligned_cols=62 Identities=19% Similarity=0.352 Sum_probs=43.6
Q ss_pred CCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 8 ~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
.+|+. .++....||.+|-+. .++++...-+-.+|+.+.- ....+.-+++|+.|.++--..||
T Consensus 9 vNG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv~~v~GG 70 (70)
T PRK07440 9 VNGET--RTCSSGTSLPDLLQQ----LGFNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred ECCEE--EEcCCCCCHHHHHHH----cCCCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEEEecCC
Confidence 35665 556677899887754 4667777888899998852 23344557789999987666665
No 106
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=91.59 E-value=1.7 Score=28.48 Aligned_cols=61 Identities=11% Similarity=0.272 Sum_probs=43.5
Q ss_pred CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 9 ~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
+|+. .++++..||.+|-+.+ ++++...-+-.+|..+. ....++.-+++|+.|.++--..||
T Consensus 24 NG~~--~~~~~~~tl~~LL~~l----~~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 24 NDQS--IQVDISSSLAQIIAQL----SLPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred CCeE--EEcCCCCcHHHHHHHc----CCCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEEEecCC
Confidence 4554 3456678888877653 67777778889999884 334556668889999987666665
No 107
>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=91.45 E-value=0.79 Score=29.21 Aligned_cols=45 Identities=22% Similarity=0.315 Sum_probs=39.5
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G 47 (136)
+.|-.++|+...+.+.|.+|+.++-+.+-++-|+.++.-.+...|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~ 46 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG 46 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence 456778999999999999999999999999999999888776553
No 108
>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=90.73 E-value=1.2 Score=27.99 Aligned_cols=45 Identities=22% Similarity=0.335 Sum_probs=34.6
Q ss_pred EEEEEeCCCCEEEEEec-CCCcHHHHHHHHhhhhCCCCCCeEEEeCC
Q 032678 2 QIFVKTLTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~G 47 (136)
+|.++. +|....+.+. .+.|..+|+++|.++++.+.....+.|.+
T Consensus 2 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD 47 (81)
T ss_pred cEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC
Confidence 455553 4677888888 89999999999999999876556666654
No 109
>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=88.84 E-value=1.2 Score=29.27 Aligned_cols=55 Identities=20% Similarity=0.291 Sum_probs=38.2
Q ss_pred EEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEc--------c------CCccccccccCCCCEEEEE
Q 032678 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL--------E------DGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 15 i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L--------~------D~~tL~~ygI~~gstI~l~ 70 (136)
+++++++|+.+|-+.+.++..+....=.|..+++.| + =+++|.++ +.+|..|.|.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 579999999999999998854433333444444432 1 25789999 8999988874
No 110
>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=88.35 E-value=2.5 Score=26.63 Aligned_cols=39 Identities=21% Similarity=0.413 Sum_probs=32.8
Q ss_pred CCCEEE-EEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC
Q 032678 9 TGKTIT-LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (136)
Q Consensus 9 ~g~~~~-i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G 47 (136)
+|.... +.+.++.|..+|+++|+.+++.+.....|.|.+
T Consensus 9 ~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D 48 (84)
T PF00564_consen 9 GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD 48 (84)
T ss_dssp TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence 445555 899999999999999999999987888888853
No 111
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=88.25 E-value=3.1 Score=34.02 Aligned_cols=68 Identities=19% Similarity=0.247 Sum_probs=50.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCcc
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGII 78 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~~ 78 (136)
|+|+| +|+. ++++...||.+|-+. .+++++..-+..+|+.+. .....++-+++|+.|.++--..||..
T Consensus 1 M~I~V---NGk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVp-r~~w~~t~LkeGD~IEII~~VgGGs~ 68 (326)
T PRK11840 1 MRIRL---NGEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVP-RSEYGQVALEEGDELEIVHFVGGGSD 68 (326)
T ss_pred CEEEE---CCEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECC-HHHcCccccCCCCEEEEEEEecCCCC
Confidence 56665 4664 456677888888765 477888888899999885 23344556888999999888888865
No 112
>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=88.12 E-value=4.8 Score=25.33 Aligned_cols=55 Identities=20% Similarity=0.243 Sum_probs=40.0
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeC--CEEccCCcccc
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GKQLEDGRTLA 57 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~--Gk~L~D~~tL~ 57 (136)
+.|--++|+...+.+.|..|+.+.-..+-++.|+.++.-.+... .+.|+-+....
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~ 59 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSS 59 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCcee
Confidence 45667899999999999999999999999999999987766543 34565444433
No 113
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=87.90 E-value=4.6 Score=25.76 Aligned_cols=57 Identities=12% Similarity=0.220 Sum_probs=35.9
Q ss_pred EEecC-CCcHHHHHHHHhhhhC-----CCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 15 LEVES-SDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 15 i~v~~-~~TV~~LK~~I~~~~g-----ip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
+++++ ..||.+|++.+.++.. ......+...+++...+ +.-+++|+.|-+.....||
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~PPVsGG 81 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFPPVTGG 81 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEeCCCCCC
Confidence 44443 4799999999988752 11122344445544333 2347789999998777776
No 114
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=87.84 E-value=1.2 Score=36.95 Aligned_cols=65 Identities=20% Similarity=0.311 Sum_probs=50.4
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCC-CCCCeEEE--eCCEEccC-CccccccccCCCCE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI-PPDQQRLI--FAGKQLED-GRTLADYNIQKEST 66 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gi-p~~~qrLi--~~Gk~L~D-~~tL~~ygI~~gst 66 (136)
.|.|+..+|+-....++.+.||.+++..|...-.- +...+.|+ |--|.|.| +.||++.|+.+-..
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvl 375 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVL 375 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhh
Confidence 37788889999999999999999999999876543 33456665 55677765 66999999876543
No 115
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=85.78 E-value=4.6 Score=34.18 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=53.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhh--CCCCCCeEEEeC----CEE--ccCCccccccccCCCCEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE--GIPPDQQRLIFA----GKQ--LEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~--gip~~~qrLi~~----Gk~--L~D~~tL~~ygI~~gstI~l~~ 71 (136)
|-+.+++..|. ..+++.++++.+.|-.++-.-. +..|++..+.-+ |.. +..++|+.+.|+.+|..+.+..
T Consensus 1 Mi~rfRsk~G~-~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 1 MIFRFRSKEGQ-RRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEecCCCc-eeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 67888888774 6789999999999988886554 356666666532 221 4567899999999999999876
No 116
>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=85.74 E-value=2.1 Score=37.25 Aligned_cols=64 Identities=34% Similarity=0.456 Sum_probs=41.7
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhh--CC------CCCCeEEE--eC--CE-EccCC-------------ccccccccCCC
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKE--GI------PPDQQRLI--FA--GK-QLEDG-------------RTLADYNIQKE 64 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~--gi------p~~~qrLi--~~--Gk-~L~D~-------------~tL~~ygI~~g 64 (136)
..+.+.|-..|||.++|++|-+.. +. .+++.-|. .+ |+ .|.|. .||++|+|.+|
T Consensus 202 ~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg 281 (539)
T PF08337_consen 202 EEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPDG 281 (539)
T ss_dssp TCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--TT
T ss_pred ceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCCC
Confidence 457888989999999999996642 22 23444443 22 23 45543 35999999999
Q ss_pred CEEEEEEEec
Q 032678 65 STLHLVLRLR 74 (136)
Q Consensus 65 stI~l~~r~~ 74 (136)
++|.++.+..
T Consensus 282 a~vaLv~k~~ 291 (539)
T PF08337_consen 282 ATVALVPKQH 291 (539)
T ss_dssp EEEEEEES--
T ss_pred ceEEEeeccc
Confidence 9999998754
No 117
>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=85.27 E-value=3.9 Score=27.00 Aligned_cols=39 Identities=26% Similarity=0.269 Sum_probs=33.7
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCe
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~q 41 (136)
|.|-..+|.+..+.|+..+|++++-+.+..+.+...+.-
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~ 43 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSS 43 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCC
Confidence 556678999999999999999999999999998766544
No 118
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=84.34 E-value=5.4 Score=26.05 Aligned_cols=30 Identities=20% Similarity=0.300 Sum_probs=27.3
Q ss_pred CCCCEEEEEecC--CCcHHHHHHHHhhhhCCC
Q 032678 8 LTGKTITLEVES--SDTIDNVKAKIQDKEGIP 37 (136)
Q Consensus 8 ~~g~~~~i~v~~--~~TV~~LK~~I~~~~gip 37 (136)
.+|.+..+.+++ +.|..+|++.|+..++++
T Consensus 7 y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~ 38 (81)
T cd06396 7 YNGESQSFLVSDSENTTWASVEAMVKVSFGLN 38 (81)
T ss_pred ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC
Confidence 568888999999 779999999999999998
No 119
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=84.26 E-value=2.8 Score=37.57 Aligned_cols=41 Identities=24% Similarity=0.488 Sum_probs=36.9
Q ss_pred CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEE
Q 032678 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ 49 (136)
Q Consensus 9 ~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~ 49 (136)
++..+.+-++++.|+..+++.|...+|+|.+.|.|+|.|..
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~ 363 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGL 363 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCc
Confidence 45667888999999999999999999999999999998764
No 120
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=84.21 E-value=2.7 Score=27.31 Aligned_cols=37 Identities=11% Similarity=0.214 Sum_probs=33.1
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G 47 (136)
-++.+++.+..+..+|.++|+++...+++..+|.|..
T Consensus 7 fTVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~ 43 (78)
T cd06411 7 FTVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA 43 (78)
T ss_pred EEEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence 3567799999999999999999999999999998854
No 121
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.37 E-value=1.9 Score=35.39 Aligned_cols=54 Identities=13% Similarity=0.245 Sum_probs=42.7
Q ss_pred ecCCCcHHHHHHHHhhhhCCCCCCeEEEe---CCEE-----ccCCccccccccCCCCEEEEE
Q 032678 17 VESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQ-----LEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 17 v~~~~TV~~LK~~I~~~~gip~~~qrLi~---~Gk~-----L~D~~tL~~ygI~~gstI~l~ 70 (136)
+.-.-||-++|..+..+.|+.+.+++|.+ .|+. .+-++.|-.|.|++|+.+-+-
T Consensus 354 I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 354 ICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred EEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 33456999999999999999999999987 3332 233578999999999987653
No 122
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=82.86 E-value=2.8 Score=29.49 Aligned_cols=56 Identities=20% Similarity=0.453 Sum_probs=38.9
Q ss_pred EecC-CCcHHHHHHHHhhh----hCCCCC------CeEEEe----------------CC-EEc---cCCccccccccCCC
Q 032678 16 EVES-SDTIDNVKAKIQDK----EGIPPD------QQRLIF----------------AG-KQL---EDGRTLADYNIQKE 64 (136)
Q Consensus 16 ~v~~-~~TV~~LK~~I~~~----~gip~~------~qrLi~----------------~G-k~L---~D~~tL~~ygI~~g 64 (136)
.|+. +.|+.+|++.+.+. .|++|- ..++.+ .. ..| +++++|.++||.++
T Consensus 21 ~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nE 100 (122)
T PF10209_consen 21 NVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENE 100 (122)
T ss_pred cCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCcc
Confidence 4776 89999999888665 445542 234432 11 356 67889999999999
Q ss_pred CEEEEEE
Q 032678 65 STLHLVL 71 (136)
Q Consensus 65 stI~l~~ 71 (136)
..|.+..
T Consensus 101 TEiSfF~ 107 (122)
T PF10209_consen 101 TEISFFN 107 (122)
T ss_pred ceeeeeC
Confidence 9887753
No 123
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=82.27 E-value=3.2 Score=27.62 Aligned_cols=60 Identities=20% Similarity=0.356 Sum_probs=37.5
Q ss_pred EEecCCCcHHHHHHHHhhhhCCCCCCeEEEeC-CE------EccCCc---cc--cccccCCCCEEEEEEEecCC
Q 032678 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA-GK------QLEDGR---TL--ADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 15 i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~-Gk------~L~D~~---tL--~~ygI~~gstI~l~~r~~gG 76 (136)
++++...||.+|-+.+.... +....+++.. |+ .|-++. .+ .++-+++|++|.+.....||
T Consensus 23 ~~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P~v~GG 94 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFISTLHGG 94 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEECCCCCC
Confidence 34445679999999998876 3444444432 21 122222 23 34568999999998877665
No 124
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=81.48 E-value=4 Score=26.74 Aligned_cols=51 Identities=18% Similarity=0.280 Sum_probs=28.3
Q ss_pred CCcHHHHHHHHhh-hhCCCC-C---CeEEEeCCEE----ccCCccccccccCCCCEEEEE
Q 032678 20 SDTIDNVKAKIQD-KEGIPP-D---QQRLIFAGKQ----LEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 20 ~~TV~~LK~~I~~-~~gip~-~---~qrLi~~Gk~----L~D~~tL~~ygI~~gstI~l~ 70 (136)
.+|+.+|-++|-+ +.|... + ..+++|.... -..+++|+++||.+|+.+.+.
T Consensus 8 ~~TL~~lv~~Vlk~~Lg~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 8 KMTLGDLVEKVLKKKLGMNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp T-BHHHHHHHCCCCCS--SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hCcHHHHHHHHHHhccCCCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 5899999998744 566432 1 2344554332 123578999999999988763
No 125
>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=81.44 E-value=8 Score=25.97 Aligned_cols=39 Identities=18% Similarity=0.240 Sum_probs=32.1
Q ss_pred EeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEe
Q 032678 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF 45 (136)
Q Consensus 6 k~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~ 45 (136)
+-.+|++..+.|+.+.|..+|+.++.+..+++.. +.|-|
T Consensus 18 ~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 18 RYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred EEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 3446888899999999999999999999998765 55543
No 126
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=81.29 E-value=5.8 Score=31.72 Aligned_cols=68 Identities=18% Similarity=0.283 Sum_probs=51.6
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--eCCEEcc--C-CccccccccCCCCEEEE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE--D-GRTLADYNIQKESTLHL 69 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~--D-~~tL~~ygI~~gstI~l 69 (136)
.|.|+..+|+++..++.+..|+..++.-|.-..+..+.--.|. |--+.+. | .++|..+++.+.+++.+
T Consensus 212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil 284 (290)
T KOG2689|consen 212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 4678888999999999999999999999999988755433332 3333332 2 57899999988877754
No 127
>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=81.06 E-value=9.8 Score=25.21 Aligned_cols=44 Identities=16% Similarity=0.317 Sum_probs=33.0
Q ss_pred EEEEeCCCCEEEEEecC-----CCcHHHHHHHHhhhhCCCC-CCeEEEeCC
Q 032678 3 IFVKTLTGKTITLEVES-----SDTIDNVKAKIQDKEGIPP-DQQRLIFAG 47 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~-----~~TV~~LK~~I~~~~gip~-~~qrLi~~G 47 (136)
|.|+ .+|....+.++. +.+..+|+++|++.+++++ ....|.|.+
T Consensus 3 vKv~-y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~D 52 (91)
T cd06398 3 VKVK-YGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTD 52 (91)
T ss_pred EEEE-eCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEEC
Confidence 4444 456667777774 7999999999999999988 555666754
No 128
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=80.51 E-value=2 Score=30.14 Aligned_cols=58 Identities=17% Similarity=0.279 Sum_probs=41.3
Q ss_pred EEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccc---cCCCCEEEEEEE
Q 032678 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN---IQKESTLHLVLR 72 (136)
Q Consensus 15 i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~yg---I~~gstI~l~~r 72 (136)
+-|+.+.||+++...|..+.++++++.-|..++..+..+.++++.= -.++.-+++...
T Consensus 45 llVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALGTSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 3689999999999999999999998854555665665666766541 123556666543
No 129
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=80.41 E-value=2.5 Score=28.63 Aligned_cols=34 Identities=41% Similarity=0.739 Sum_probs=23.9
Q ss_pred EEEeCCEEccCCccccccccCCCC--EEEEEEEecCC
Q 032678 42 RLIFAGKQLEDGRTLADYNIQKES--TLHLVLRLRGG 76 (136)
Q Consensus 42 rLi~~Gk~L~D~~tL~~ygI~~gs--tI~l~~r~~gG 76 (136)
.|.|.|+.|..+++|++| +..+. .|.+-+..+|+
T Consensus 3 ~LW~aGK~l~~~k~l~dy-~GkNEKtKiivKl~~~g~ 38 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDY-IGKNEKTKIIVKLQKRGQ 38 (98)
T ss_pred eEEeccccccCCCcHHHh-cCCCcceeEEEEeccCCC
Confidence 578999999999999999 44444 44444444444
No 130
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=79.87 E-value=12 Score=23.41 Aligned_cols=67 Identities=21% Similarity=0.424 Sum_probs=44.8
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
.+++. .+|+. ++++...|+.+|-+. .|++++.--...+|..+..+ .-.+.-+++|+.|.++--..||
T Consensus 2 ~m~i~-~ng~~--~e~~~~~tv~dLL~~----l~~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 2 PMTIQ-LNGKE--VEIAEGTTVADLLAQ----LGLNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred cEEEE-ECCEE--EEcCCCCcHHHHHHH----hCCCCceEEEEECCEEccch-hhhhccccCCCEEEEEEeecCC
Confidence 34443 33554 556666899988765 46777788888999988632 2234456778999887655555
No 131
>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=78.78 E-value=5.6 Score=26.35 Aligned_cols=41 Identities=22% Similarity=0.285 Sum_probs=36.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeE
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQR 42 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qr 42 (136)
++.|--++|.+..+++..+++.+++-+.+..+.|+|.+.+.
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~ 43 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQN 43 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHh
Confidence 56677789999999999999999999999999999987654
No 132
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=78.06 E-value=12 Score=28.37 Aligned_cols=49 Identities=20% Similarity=0.332 Sum_probs=30.1
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCCCCC---CeEEE--eCCE---EccCCcccccc
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGIPPD---QQRLI--FAGK---QLEDGRTLADY 59 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~---~qrLi--~~Gk---~L~D~~tL~~y 59 (136)
+.+.+.|+.+.||.+|.+.++.+.+++.+ ..||+ ++++ .+..+.++.+.
T Consensus 34 ~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 34 QEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp -EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred eEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 35778899999999999999999998765 44543 5666 46677777776
No 133
>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=77.72 E-value=13 Score=23.56 Aligned_cols=35 Identities=29% Similarity=0.448 Sum_probs=29.1
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCC--CCCeEEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIP--PDQQRLI 44 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip--~~~qrLi 44 (136)
+...++.|+.++|..++-+.+.++++++ +++-.|+
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ 48 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALV 48 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEE
Confidence 6678899999999999999999999987 4444554
No 134
>KOG0007 consensus Splicing factor 3a, subunit 1 [RNA processing and modification]
Probab=77.40 E-value=1.2 Score=36.31 Aligned_cols=50 Identities=34% Similarity=0.564 Sum_probs=43.2
Q ss_pred eCCCCEEEEEec-CCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccc
Q 032678 7 TLTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 56 (136)
Q Consensus 7 ~~~g~~~~i~v~-~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL 56 (136)
..+|.+..+.+. .+..+..+|.++....+++++-|++.+.|..|.|+.++
T Consensus 289 ~~dg~~~~~~~~~~~~~~~~~k~k~~~~~~i~~~~q~~~~~~~~l~d~~~~ 339 (341)
T KOG0007|consen 289 PADGQVIKITVQSLSENVASLKEKIADESQIPANKQKLRGEGAFLKDNRSL 339 (341)
T ss_pred CCCCceeeeccccccccccccccccccccccchhheeeccCCcccCccccc
Confidence 346788877776 67889999999999999999999999999999988544
No 135
>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=77.04 E-value=11 Score=24.65 Aligned_cols=45 Identities=13% Similarity=0.206 Sum_probs=36.3
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G 47 (136)
+..|+ .+|.+..+.++..-|...|+++|+..+.+|+...-+.|-+
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtYiD 46 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTYID 46 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEEEc
Confidence 45564 5677778888888899999999999999998877777743
No 136
>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=77.01 E-value=14 Score=23.28 Aligned_cols=41 Identities=29% Similarity=0.272 Sum_probs=32.5
Q ss_pred EEEEeCCCC----EEEEEecCCCcHHHHHHHHhhhhCC--CCCCeEE
Q 032678 3 IFVKTLTGK----TITLEVESSDTIDNVKAKIQDKEGI--PPDQQRL 43 (136)
Q Consensus 3 I~Vk~~~g~----~~~i~v~~~~TV~~LK~~I~~~~gi--p~~~qrL 43 (136)
|.|-..++. ...+.|++++|+.++-+.+.+++++ ++++-.|
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L 51 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCL 51 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEE
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEE
Confidence 445555666 7889999999999999999999998 3445566
No 137
>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=74.48 E-value=13 Score=24.01 Aligned_cols=63 Identities=17% Similarity=0.348 Sum_probs=40.6
Q ss_pred EEEeCCC-CEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEe--CCEEccCCccccccccCCCCEEEEEEE
Q 032678 4 FVKTLTG-KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 4 ~Vk~~~g-~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~--~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
.|+..+. ..+-+-. .|+.+|+.+..++.+++.+..+|+. +|..++|+.-+..+ ++.|+.|++.
T Consensus 6 kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tL---p~nT~lm~L~ 71 (78)
T PF02017_consen 6 KVRNHDRSVKKGVAA---SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTL---PDNTVLMLLE 71 (78)
T ss_dssp EEEETTSSCEEEEEE---SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCS---SSSEEEEEEE
T ss_pred EEecCCCCceEeEEc---CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhC---CCCCEEEEEC
Confidence 3444432 3344444 5899999999999999987777765 68888876544332 2455555554
No 138
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=74.30 E-value=2.8 Score=35.85 Aligned_cols=57 Identities=25% Similarity=0.286 Sum_probs=48.3
Q ss_pred EEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEE
Q 032678 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 15 i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
++.+-..|-++|...|+++.||+-+..+.+.+||+|.-.+||.+-|++....+.+++
T Consensus 54 ~k~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~ 110 (568)
T KOG2561|consen 54 KKCSLHITGSELQALIAKKLGIKENHVKCIINGKILSCRKTLAEQGLKINQELMVAV 110 (568)
T ss_pred hhcccccccHHHHHHHHHHcCCchhhhheeeccceeecccchhhhhhhhhhHHHHHh
Confidence 445556778899999999999999989999999999999999999998776655443
No 139
>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=74.09 E-value=16 Score=23.39 Aligned_cols=61 Identities=16% Similarity=0.339 Sum_probs=38.6
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhC-CCCCCeEEE------eCCEEccCCccccccccCCCCEEEEEEE
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEG-IPPDQQRLI------FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~g-ip~~~qrLi------~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
+.|-.=.+|+.|+++|+..|.+++. .-|....+. -.|-.|+.+-+.++. ...+++|.++++
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~kLYP~~~~~~I~~LQD~~~cDLD~d~~V~DV-f~~~~~vrvi~~ 70 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFKKLYPNEPELEILSLQDSDGCDLDPDFLVKDV-FNSNNVVRVILK 70 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHHHHCCCCCCceEEEeecCCCCCCCcccEeeee-eccCCEEEEEec
Confidence 4555668899999999999999876 333333322 133345555555553 246777777765
No 140
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=73.29 E-value=22 Score=22.95 Aligned_cols=63 Identities=22% Similarity=0.282 Sum_probs=48.7
Q ss_pred EEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeC-CEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA-GKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 14 ~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~-Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
.+.|..+.....+-.-.++++++|+..--++-+ |--+...++-...=++.|+.+.++.|-+-|
T Consensus 19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPRDrvG 82 (82)
T cd01766 19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPRDRVG 82 (82)
T ss_pred EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeecccccCC
Confidence 357888887877777788899999887776654 556777788888888999999988775533
No 141
>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=72.45 E-value=9.8 Score=25.07 Aligned_cols=41 Identities=22% Similarity=0.341 Sum_probs=34.6
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEE-EeCCEEcc
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL-IFAGKQLE 51 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL-i~~Gk~L~ 51 (136)
..+++.|+++.|=.++|+.|+..+|+++...+- .+.|+.-.
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~kR 62 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKKR 62 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCceE
Confidence 678999999999999999999999999977644 46777543
No 142
>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=71.88 E-value=4.6 Score=31.45 Aligned_cols=71 Identities=18% Similarity=0.440 Sum_probs=45.9
Q ss_pred EEEEeCC--CCEE----EEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeC----C--EEccCCccccccccCCCCEEEEE
Q 032678 3 IFVKTLT--GKTI----TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA----G--KQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 3 I~Vk~~~--g~~~----~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~----G--k~L~D~~tL~~ygI~~gstI~l~ 70 (136)
|++|-.+ .+++ .+-|+.+++|++|-..|.+..|+|++..-++|. + ..++.+.++....+++|+.|.+-
T Consensus 71 lFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~fQ 150 (249)
T PF12436_consen 71 LFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICFQ 150 (249)
T ss_dssp EEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEEE
T ss_pred EEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEEE
Confidence 5666443 2333 246889999999999999999999987766663 3 35777889999999999999876
Q ss_pred EEe
Q 032678 71 LRL 73 (136)
Q Consensus 71 ~r~ 73 (136)
...
T Consensus 151 ~~~ 153 (249)
T PF12436_consen 151 RAP 153 (249)
T ss_dssp E--
T ss_pred ecc
Confidence 644
No 143
>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=69.92 E-value=26 Score=22.42 Aligned_cols=47 Identities=23% Similarity=0.345 Sum_probs=39.2
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC--EEcc
Q 032678 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLE 51 (136)
Q Consensus 5 Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G--k~L~ 51 (136)
|--+||+...+.+.|..||.++-.++-++-|+.++.-.++.-| +.++
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccc
Confidence 4457899999999999999999999999999999888776555 3454
No 144
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=69.92 E-value=18 Score=25.12 Aligned_cols=39 Identities=5% Similarity=0.194 Sum_probs=33.1
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEc
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL 50 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L 50 (136)
.....+++++|++.+-..|.+..+++.++|-.+|-..-.
T Consensus 46 ~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sF 84 (116)
T KOG3439|consen 46 KSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSF 84 (116)
T ss_pred cceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCcc
Confidence 446789999999999999999999999999888855533
No 145
>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=69.84 E-value=14 Score=24.42 Aligned_cols=43 Identities=23% Similarity=0.226 Sum_probs=33.5
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCC-CCCCeEEEe--CCE--EccCCc
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGI-PPDQQRLIF--AGK--QLEDGR 54 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gi-p~~~qrLi~--~Gk--~L~D~~ 54 (136)
..++-|.|..|+.+|-..++.++++ .|++-.|++ +|. +|.|+.
T Consensus 15 ~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~ 62 (87)
T cd01776 15 GKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDT 62 (87)
T ss_pred eeeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCccc
Confidence 3578899999999999999999997 667777753 443 676653
No 146
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=69.46 E-value=14 Score=24.48 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=33.5
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEE-EeCCEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL-IFAGKQ 49 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL-i~~Gk~ 49 (136)
...+.+.|++..|=.++|+.++..+|+++...+- ...|+.
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk~ 60 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGKT 60 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCce
Confidence 4689999999999999999999999999977644 455553
No 147
>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=69.18 E-value=12 Score=25.54 Aligned_cols=57 Identities=14% Similarity=0.177 Sum_probs=37.0
Q ss_pred EEecCCCcHHHHHHHHhhhhCCCCCC-eEEEeCCEEccCCccccccc---cCCCCEEEEEE
Q 032678 15 LEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADYN---IQKESTLHLVL 71 (136)
Q Consensus 15 i~v~~~~TV~~LK~~I~~~~gip~~~-qrLi~~Gk~L~D~~tL~~yg---I~~gstI~l~~ 71 (136)
+=|+.+.||+++...|..+..+++++ .-|+.++.....+.++++.= -.++.-+++..
T Consensus 37 fLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Y 97 (104)
T PF02991_consen 37 FLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTY 97 (104)
T ss_dssp EEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEE
T ss_pred EEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEe
Confidence 34788999999999999999987764 45556676666677776541 12344555543
No 148
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=68.13 E-value=22 Score=24.22 Aligned_cols=36 Identities=25% Similarity=0.319 Sum_probs=28.5
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCC
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP 38 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~ 38 (136)
|+|-..+|++..++|..-.+-.++|.++-+++|.+.
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 567778999999999999999999999999999876
No 149
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=68.07 E-value=5.2 Score=30.38 Aligned_cols=30 Identities=20% Similarity=0.450 Sum_probs=22.1
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCC
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPD 39 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~ 39 (136)
|-.|.+.|.+..|..++|++|+++.|++-.
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlgv~~k 161 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLGVSDK 161 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH---HH
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhCCChh
Confidence 556788999999999999999999998753
No 150
>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=67.87 E-value=35 Score=23.06 Aligned_cols=64 Identities=28% Similarity=0.314 Sum_probs=43.3
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhh----C--CCCC-CeEEEeCCE--EccCCccccccc-----cCCCCEEEEEEEe
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKE----G--IPPD-QQRLIFAGK--QLEDGRTLADYN-----IQKESTLHLVLRL 73 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~----g--ip~~-~qrLi~~Gk--~L~D~~tL~~yg-----I~~gstI~l~~r~ 73 (136)
...+++.+++++|+.+|.+.+-.+. + -+++ +-.|--.|+ -|..+..|.+|. ++.|..+++++..
T Consensus 28 ~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~~L~L~~ 105 (108)
T smart00144 28 QQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREPHLVLMT 105 (108)
T ss_pred ceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCceEEEEe
Confidence 3568899999999999999887651 1 1222 445555565 355666777763 4678888887754
No 151
>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=67.52 E-value=16 Score=23.54 Aligned_cols=34 Identities=12% Similarity=0.235 Sum_probs=30.3
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi 44 (136)
+.+.+.|++..|=.++|+.++..+++.+...+-+
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~ 48 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTL 48 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 6899999999999999999999999988776543
No 152
>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=67.47 E-value=18 Score=23.35 Aligned_cols=40 Identities=8% Similarity=0.169 Sum_probs=34.5
Q ss_pred EEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEE
Q 032678 4 FVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL 43 (136)
Q Consensus 4 ~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL 43 (136)
.|-.++|+...+.+.|++|+.++-+...++-+..|++--|
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~L 42 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYL 42 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHhee
Confidence 3556789999999999999999999999999998876544
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=66.73 E-value=31 Score=22.00 Aligned_cols=35 Identities=26% Similarity=0.318 Sum_probs=29.1
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCC--CCeEEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPP--DQQRLI 44 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~--~~qrLi 44 (136)
+...++.|++++|..++-..+.++.+++. ++-.|+
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~ 51 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLV 51 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEE
Confidence 66788999999999999999999999864 344453
No 154
>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=66.09 E-value=12 Score=23.68 Aligned_cols=43 Identities=21% Similarity=0.311 Sum_probs=29.4
Q ss_pred CcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEE
Q 032678 21 DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (136)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l 69 (136)
.|+++|.+..++++|++ ....+.-+|-..+|=.. |.+|+.+++
T Consensus 26 ~SleeLl~ia~~kfg~~-~~~v~~~dgaeIdDI~~-----IRDgD~L~~ 68 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS-ATKVLNEDGAEIDDIDV-----IRDGDHLYL 68 (69)
T ss_pred ccHHHHHHHHHHHhCCC-ceEEEcCCCCEEeEEEE-----EEcCCEEEE
Confidence 69999999999999996 33334445555554333 455777765
No 155
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=64.96 E-value=11 Score=34.91 Aligned_cols=62 Identities=18% Similarity=0.385 Sum_probs=47.1
Q ss_pred CCCEEEEEecC-CCcHHHHHHHHhhhhCCCCCCeEEEeC-CEEccCCcccccccc--CCCCEEEEE
Q 032678 9 TGKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFA-GKQLEDGRTLADYNI--QKESTLHLV 70 (136)
Q Consensus 9 ~g~~~~i~v~~-~~TV~~LK~~I~~~~gip~~~qrLi~~-Gk~L~D~~tL~~ygI--~~gstI~l~ 70 (136)
.|++.+++.+. ..|+.+||..|+.+.|+...+|.++-. |...+.++.|..|.- .+.+-|++.
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffF 68 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFF 68 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCCcCcccccchhhhccccCCCCceEEe
Confidence 47777887665 579999999999999999999988754 557777888888762 334456554
No 156
>PRK01777 hypothetical protein; Validated
Probab=64.65 E-value=39 Score=22.51 Aligned_cols=53 Identities=8% Similarity=0.107 Sum_probs=36.1
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCCCCC-------CeEEEeCCEEccCCccccccccCCCCEEEEEEEe
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGIPPD-------QQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gip~~-------~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~ 73 (136)
...+++++..||.++-.+. |++.+ .-.+.-+|+...-+. -+++|++|.+...+
T Consensus 18 ~~~l~vp~GtTv~dal~~s----gi~~~~pei~~~~~~vgI~Gk~v~~d~-----~L~dGDRVeIyrPL 77 (95)
T PRK01777 18 LQRLTLQEGATVEEAIRAS----GLLELRTDIDLAKNKVGIYSRPAKLTD-----VLRDGDRVEIYRPL 77 (95)
T ss_pred EEEEEcCCCCcHHHHHHHc----CCCccCcccccccceEEEeCeECCCCC-----cCCCCCEEEEecCC
Confidence 3567899999999887665 55443 235556777665544 45669999987544
No 157
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=64.05 E-value=15 Score=31.25 Aligned_cols=75 Identities=15% Similarity=0.290 Sum_probs=59.1
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--eCCEEccC---CccccccccCCCCEEEEEEEecCC
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~D---~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
.|.|+.++|.+++=+++.++-+..+++-+....++......|- |--+...| +++|.++.+.+...|.|+.+.++.
T Consensus 316 rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlpk~r~t 395 (506)
T KOG2507|consen 316 RLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLPKKRAT 395 (506)
T ss_pred EEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeeccccccccccchhhhhhHHHhccCCcceEEEEecCCcc
Confidence 5778889999999899888888999999998888777666663 55565543 579999999988888887665543
No 158
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=63.89 E-value=37 Score=21.94 Aligned_cols=54 Identities=19% Similarity=0.366 Sum_probs=40.7
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE-eCCEEccCCccccccccCCCCEEEEEEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi-~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
+..+...+++..||.++-+. .|+|..+..++ -+|+..+=+ |-+++|+.|.+...
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P~ 76 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYPV 76 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEec
Confidence 45677889999999887654 69999888665 588876543 55678999988653
No 159
>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=63.65 E-value=21 Score=27.68 Aligned_cols=35 Identities=20% Similarity=0.358 Sum_probs=27.7
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi 44 (136)
+..++++++..+|-.+|-++|+++.+++|+..||.
T Consensus 189 ~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~ 223 (249)
T PF12436_consen 189 DPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFF 223 (249)
T ss_dssp ---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE
T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEE
Confidence 35799999999999999999999999999999886
No 160
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=63.41 E-value=21 Score=23.33 Aligned_cols=35 Identities=11% Similarity=0.231 Sum_probs=30.9
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi 44 (136)
...+.+.|++..+=.++|+.|+..+|+.+...+-+
T Consensus 21 ~n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~ 55 (84)
T PRK14548 21 ENKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTL 55 (84)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 36899999999999999999999999988777553
No 161
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=63.12 E-value=25 Score=22.52 Aligned_cols=48 Identities=19% Similarity=0.400 Sum_probs=34.0
Q ss_pred CcHHHHHHHHhhhhCCCCCCeEEEe--CCEEccCCccccccccCCCCEEEEEE
Q 032678 21 DTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~qrLi~--~Gk~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
.|..+|+.+..++.+++...-+|.. +|..++|+.-+..+ . ..++.|++
T Consensus 19 ~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tL--p-~nt~l~~L 68 (74)
T smart00266 19 SSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTL--P-DNTELMAL 68 (74)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcC--C-CCcEEEEE
Confidence 5899999999999999877666654 78888876544432 2 34444444
No 162
>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=62.99 E-value=11 Score=24.33 Aligned_cols=23 Identities=22% Similarity=0.424 Sum_probs=18.4
Q ss_pred EEEEecCCCcHHHHHHHHhhhhC
Q 032678 13 ITLEVESSDTIDNVKAKIQDKEG 35 (136)
Q Consensus 13 ~~i~v~~~~TV~~LK~~I~~~~g 35 (136)
+.++++.+.|+.++|+.+.+...
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~A~ 24 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEEAK 24 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHHGG
T ss_pred eEEEccCcCcHHHHHHHHHHHHH
Confidence 46889999999999999977643
No 163
>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=61.11 E-value=48 Score=22.37 Aligned_cols=42 Identities=21% Similarity=0.224 Sum_probs=31.9
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCC-CCeEEE
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLI 44 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~-~~qrLi 44 (136)
|.|=-.++.-.++.+..+.||+++-..+.+++.+++ ++-+|.
T Consensus 5 IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~ 47 (97)
T cd01775 5 IRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLS 47 (97)
T ss_pred EEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEE
Confidence 344345666678999999999999999999998876 344443
No 164
>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=59.22 E-value=23 Score=24.36 Aligned_cols=57 Identities=14% Similarity=0.200 Sum_probs=38.0
Q ss_pred EEecCCCcHHHHHHHHhhhhCCCCCCeEEEe-CCEEccCCcccccc----ccCCCCEEEEEEE
Q 032678 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AGKQLEDGRTLADY----NIQKESTLHLVLR 72 (136)
Q Consensus 15 i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~-~Gk~L~D~~tL~~y----gI~~gstI~l~~r 72 (136)
+-|+.+.||+++...|..+.++++++--.+| ++.....+.++++. +- ++.-+++...
T Consensus 45 flVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd-~DGfLyl~Ys 106 (112)
T cd01611 45 YLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKD-EDGFLYMTYS 106 (112)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCC-CCCEEEEEEe
Confidence 4599999999999999999998877644444 44444455565543 22 2456666544
No 165
>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=58.72 E-value=51 Score=21.86 Aligned_cols=71 Identities=23% Similarity=0.377 Sum_probs=43.4
Q ss_pred EEEEEeC-CCCEEEEEecCCCcHHHHHHHHhhh--hCCCCC----CeEEEeCCE--EccCCccccccc-----cCCCCEE
Q 032678 2 QIFVKTL-TGKTITLEVESSDTIDNVKAKIQDK--EGIPPD----QQRLIFAGK--QLEDGRTLADYN-----IQKESTL 67 (136)
Q Consensus 2 qI~Vk~~-~g~~~~i~v~~~~TV~~LK~~I~~~--~gip~~----~qrLi~~Gk--~L~D~~tL~~yg-----I~~gstI 67 (136)
.|.|... ++..+++.++.+.|+.+|-+.+-.+ .+..+. +-.|--.|. -|..+.+|.+|. +..+..+
T Consensus 18 ~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~~EyL~g~~~L~~y~yIr~cl~~~~~~ 97 (106)
T PF00794_consen 18 KVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGREEYLLGDHPLSQYEYIRQCLKRGKDP 97 (106)
T ss_dssp EEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTSSEEE-SSS-GGGBHHHHHHHHCT--E
T ss_pred EEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCceEEeeCCeeeeccHHHHHHHhcCCCc
Confidence 4556655 4567899999999999999888766 222221 445555554 466777888884 3566677
Q ss_pred EEEEE
Q 032678 68 HLVLR 72 (136)
Q Consensus 68 ~l~~r 72 (136)
++++-
T Consensus 98 ~L~Lv 102 (106)
T PF00794_consen 98 HLVLV 102 (106)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 77653
No 166
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=58.04 E-value=26 Score=23.51 Aligned_cols=34 Identities=15% Similarity=0.245 Sum_probs=30.2
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL 43 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL 43 (136)
...+++.|+++.|=.++|+.+++.+|+-+.....
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~VkV~kVNT 54 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFGVKVEKVNT 54 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEE
Confidence 4689999999999999999999999998877644
No 167
>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=57.86 E-value=34 Score=22.17 Aligned_cols=38 Identities=16% Similarity=0.402 Sum_probs=29.5
Q ss_pred CcHHHHHHHHhhhhCCCCCCeEEEe--CCEEccCCccccc
Q 032678 21 DTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLAD 58 (136)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~qrLi~--~Gk~L~D~~tL~~ 58 (136)
.|+.+|+.+..++.+++...-+|+. +|..++|+.-+..
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~t 60 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQT 60 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhc
Confidence 5899999999999999866666654 7888877654433
No 168
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=56.30 E-value=8.6 Score=24.96 Aligned_cols=35 Identities=26% Similarity=0.478 Sum_probs=21.0
Q ss_pred HHhhhhCCCCCCeEEEe---CCEEccCCccccccccCC
Q 032678 29 KIQDKEGIPPDQQRLIF---AGKQLEDGRTLADYNIQK 63 (136)
Q Consensus 29 ~I~~~~gip~~~qrLi~---~Gk~L~D~~tL~~ygI~~ 63 (136)
.|.++..+.|+.-.|+- .+.+|+-+++|.++||.+
T Consensus 2 ~IC~KCEfdp~htvLLrD~~s~e~LdLsKSLndlGirE 39 (79)
T PF09469_consen 2 AICEKCEFDPEHTVLLRDYQSGEELDLSKSLNDLGIRE 39 (79)
T ss_dssp HHHHHTT--TTSEEEES-SS---B--TTS-HHHHT-SE
T ss_pred ccccccccCcceEEEeecCCCCCcccccccHHHhhHHH
Confidence 36778888888888873 566898899999999974
No 169
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=56.05 E-value=15 Score=23.79 Aligned_cols=23 Identities=22% Similarity=0.356 Sum_probs=19.3
Q ss_pred EEEEecCCCcHHHHHHHHhhhhC
Q 032678 13 ITLEVESSDTIDNVKAKIQDKEG 35 (136)
Q Consensus 13 ~~i~v~~~~TV~~LK~~I~~~~g 35 (136)
+.++++.+.|+.++|+.+.+...
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A~ 24 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQAR 24 (78)
T ss_pred eeEEccccccHHHHHHHHHHHHH
Confidence 46789999999999999977643
No 170
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=55.52 E-value=12 Score=30.82 Aligned_cols=64 Identities=17% Similarity=0.175 Sum_probs=49.5
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhh-CCCCCCeEEEeCC---EEcc--CCccccccccCCCCE
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKE-GIPPDQQRLIFAG---KQLE--DGRTLADYNIQKEST 66 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~-gip~~~qrLi~~G---k~L~--D~~tL~~ygI~~gst 66 (136)
|.||.++|+.....+-++++|..|-.-+.... |.+-+..+|+.+- |.|+ .+.|+.++||.+..+
T Consensus 280 i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 280 IQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 78899999888888888999998887765554 4555677888765 5665 367999999998765
No 171
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=55.02 E-value=44 Score=19.98 Aligned_cols=59 Identities=12% Similarity=0.146 Sum_probs=38.7
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEE
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~ 70 (136)
|.|.+++|+... ++...|+.++=..|....+- ..---..+|+..+-+.. +++|++|.++
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~~l~~--~~~~A~Vng~~vdl~~~-----L~~~d~v~ii 59 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHSSLAK--RAVAAKVNGQLVDLDHP-----LEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHHH--CEEEEEETTEEEETTSB-----B-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHHh--heeEEEEcCEECCCCCC-----cCCCCEEEEE
Confidence 466778998765 77888999999999876531 11122367776655544 4457777764
No 172
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=53.99 E-value=13 Score=26.75 Aligned_cols=55 Identities=15% Similarity=0.310 Sum_probs=38.0
Q ss_pred CCcHHHHHHHHhhh------hCCCCCCeEEEe------------------CCEEccCCccccccccCCCCEEEEEEEecC
Q 032678 20 SDTIDNVKAKIQDK------EGIPPDQQRLIF------------------AGKQLEDGRTLADYNIQKESTLHLVLRLRG 75 (136)
Q Consensus 20 ~~TV~~LK~~I~~~------~gip~~~qrLi~------------------~Gk~L~D~~tL~~ygI~~gstI~l~~r~~g 75 (136)
++|+.+|-..|.+. .|.. -+..++| +-|..+|++||++.+++-|+-|.+.+....
T Consensus 61 datL~ELtsLvkevnpeaR~kgt~-f~fa~Vf~d~~~~~y~~RevG~t~~g~Kg~ddnktL~~~kf~iGD~lDVaI~~p~ 139 (151)
T KOG3391|consen 61 DATLRELTSLVKEVNPEARKKGTS-FDFAVVFPDKKSPRYIVREVGTTCLGRKGIDDNKTLQQTKFEIGDYLDVAITPPN 139 (151)
T ss_pred hhhHHHHHHHHHHcCHHHhccCce-EEEEEEeccCCCCCceeeeecccccCcccCCccchhhhCCccccceEEEEecCcc
Confidence 57888888888663 1111 1233443 224568899999999999999999987543
No 173
>CHL00030 rpl23 ribosomal protein L23
Probab=53.64 E-value=34 Score=22.77 Aligned_cols=40 Identities=20% Similarity=0.131 Sum_probs=32.2
Q ss_pred CCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE-eCCE
Q 032678 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK 48 (136)
Q Consensus 9 ~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi-~~Gk 48 (136)
....+.+.|+++.|=.++|+.|+..+++.+....-+ ..|+
T Consensus 18 e~n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~~~k 58 (93)
T CHL00030 18 EKNQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRLPRK 58 (93)
T ss_pred HCCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEcCCC
Confidence 346899999999999999999999999987766443 3443
No 174
>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=51.20 E-value=55 Score=21.19 Aligned_cols=38 Identities=13% Similarity=0.175 Sum_probs=29.0
Q ss_pred CcHHHHHHHHhhhhCCCCCCeEEE--eCCEEccCCccccc
Q 032678 21 DTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLEDGRTLAD 58 (136)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~D~~tL~~ 58 (136)
.|..+|+.+..+..+++.+.-+|+ -+|..++|+.-+..
T Consensus 21 ~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~EeyF~~ 60 (78)
T cd06539 21 SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQT 60 (78)
T ss_pred cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHHHHhh
Confidence 579999999999999987656664 47888877654433
No 175
>PF06234 TmoB: Toluene-4-monooxygenase system protein B (TmoB); InterPro: IPR009355 This family consists of several Toluene-4-monooxygenase system protein B (TmoB) sequences. Pseudomonas mendocina KR1 metabolises toluene as a carbon source. The initial step of the pathway is hydroxylation of toluene to form p-cresol by a multicomponent toluene-4-monooxygenase (T4MO) system [].; PDB: 3N1Y_C 3RNG_C 3RNA_C 3RN9_C 3RNC_C 3N1X_C 3RNE_C 3RNF_C 3N1Z_C 3N20_C ....
Probab=48.68 E-value=76 Score=20.90 Aligned_cols=59 Identities=24% Similarity=0.381 Sum_probs=41.2
Q ss_pred EEEEecCCCcHHHHHHHHhhh-hC--CCC--C-CeEEEeCC--EEccCCccccccccCCCCEEEEEE
Q 032678 13 ITLEVESSDTIDNVKAKIQDK-EG--IPP--D-QQRLIFAG--KQLEDGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 13 ~~i~v~~~~TV~~LK~~I~~~-~g--ip~--~-~qrLi~~G--k~L~D~~tL~~ygI~~gstI~l~~ 71 (136)
.-+-|+.++|+.++-++++.. .| +++ . ..++-.+| +.+..+.++++-||++-+.|.+..
T Consensus 17 ~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~ 83 (85)
T PF06234_consen 17 QLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRF 83 (85)
T ss_dssp EEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEE
T ss_pred EEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEE
Confidence 446899999999999999765 34 332 3 44666888 899999999999999999888764
No 176
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=48.48 E-value=13 Score=22.38 Aligned_cols=32 Identities=16% Similarity=0.315 Sum_probs=21.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhh
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQD 32 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~ 32 (136)
|.|++.+.+|+.|.++.+.-.--.-|++.++.
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~ 32 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLED 32 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHHC
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHhh
Confidence 67999999999999985443333445555554
No 177
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=48.38 E-value=61 Score=22.42 Aligned_cols=37 Identities=19% Similarity=0.214 Sum_probs=29.2
Q ss_pred CEEEEEeCCCCE--EEEEecCCCcHHHHHHHHhhhhCCC
Q 032678 1 MQIFVKTLTGKT--ITLEVESSDTIDNVKAKIQDKEGIP 37 (136)
Q Consensus 1 MqI~Vk~~~g~~--~~i~v~~~~TV~~LK~~I~~~~gip 37 (136)
|+.+....+++. --+.|+.++|+.++.+.+-+++.+.
T Consensus 24 mrf~~qd~~~k~atK~VrVsS~~tt~eVI~~LLeKFk~d 62 (112)
T cd01782 24 MRFYFQDGGEKVATKCIRVSSTATTRDVIDTLSEKFRPD 62 (112)
T ss_pred EEEEEEcCCCcEEEEEEEEecCCCHHHHHHHHHHHhccc
Confidence 566666666653 3479999999999999999999854
No 178
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=47.88 E-value=66 Score=20.88 Aligned_cols=48 Identities=17% Similarity=0.237 Sum_probs=31.9
Q ss_pred CcHHHHHHHHhhhhCCCCCCeEE--EeCCEEccCCccccccccCCCCEEEEEEE
Q 032678 21 DTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~qrL--i~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
.|+.+|+.+..++.+++. .-+| --+|..++|+.-+..+ ++.++.|++.
T Consensus 21 ~sL~eL~~K~~~~l~l~~-~~~lvL~eDGT~Vd~EeyF~tL---p~nt~l~vL~ 70 (79)
T cd06538 21 DSLEDLLNKVLDALLLDC-ISSLVLDEDGTGVDTEEFFQAL---ADNTVFMVLG 70 (79)
T ss_pred CCHHHHHHHHHHHcCCCC-ccEEEEecCCcEEccHHHHhhC---CCCcEEEEEC
Confidence 589999999999999953 3344 3578888776544432 2345555544
No 179
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 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-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=47.03 E-value=76 Score=20.37 Aligned_cols=57 Identities=18% Similarity=0.290 Sum_probs=42.1
Q ss_pred EEEecCCCcHHHHHHHHhhhhCCCCCCeEEEe-CCEEccCCccccccccCCCCEEEEE
Q 032678 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AGKQLEDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 14 ~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~-~Gk~L~D~~tL~~ygI~~gstI~l~ 70 (136)
.+.|..+.....+-.-.++++++|+..--++- .|--....+|..+.-++.|+.+.++
T Consensus 19 v~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 19 VISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp EEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEEE
T ss_pred EEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeeeC
Confidence 46898888888888888889999998877765 5667777888888778888888763
No 180
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=46.66 E-value=89 Score=21.07 Aligned_cols=57 Identities=25% Similarity=0.332 Sum_probs=36.9
Q ss_pred CCCcHHHHHHHHhhhhCCCCCCeEEEeCCEE------ccCCc---cc--cccccCCCCEEEEEEEecCC
Q 032678 19 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ------LEDGR---TL--ADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 19 ~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~------L~D~~---tL--~~ygI~~gstI~l~~r~~gG 76 (136)
..+||++|-.-|..+.--.+++ -++.+|.. |-++. .| .+|.+++|+.|.++..+-||
T Consensus 34 ~~~tvgdll~yi~~~~ie~r~~-lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYIETRDS-LFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred CcccHHHHHHHHHHHHhcCCcc-eEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEeccCC
Confidence 4589999998888865333333 44455532 21221 22 57899999999998887775
No 181
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=45.04 E-value=49 Score=24.29 Aligned_cols=39 Identities=10% Similarity=0.062 Sum_probs=33.0
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE-eCCE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK 48 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi-~~Gk 48 (136)
...+.+.|+++.|=.++|..|+..+|+.+...+.+ ..|+
T Consensus 22 ~N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~~~~K 61 (158)
T PRK12280 22 KNVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVDKK 61 (158)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEecCCc
Confidence 46799999999999999999999999998777554 4554
No 182
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=44.89 E-value=17 Score=25.08 Aligned_cols=29 Identities=28% Similarity=0.437 Sum_probs=24.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHH
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKI 30 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I 30 (136)
|+|.+. .+++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~-i~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKIT-IGGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEE-ETTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEE-ECCEEEEEEECCCHHHHHHHHhC
Confidence 788887 45889999999999999988876
No 183
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles 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,
Probab=43.46 E-value=93 Score=20.39 Aligned_cols=31 Identities=10% Similarity=0.250 Sum_probs=27.3
Q ss_pred CCCCEEEEEecCCCcHHHHHHHHhhhhCCCC
Q 032678 8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPP 38 (136)
Q Consensus 8 ~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~ 38 (136)
.+|......++++.|.++|.+++.+.+..+.
T Consensus 7 y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~ 37 (83)
T cd06404 7 YNGDIMITSIDPSISLEELCNEVRDMCRFHN 37 (83)
T ss_pred ecCcEEEEEcCCCcCHHHHHHHHHHHhCCCC
Confidence 4678888899999999999999999998754
No 184
>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes. The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.
Probab=41.42 E-value=79 Score=20.15 Aligned_cols=32 Identities=22% Similarity=0.225 Sum_probs=20.7
Q ss_pred EEeCCCC-EEEEEecC-CCcHHHHHHHHhhhhCC
Q 032678 5 VKTLTGK-TITLEVES-SDTIDNVKAKIQDKEGI 36 (136)
Q Consensus 5 Vk~~~g~-~~~i~v~~-~~TV~~LK~~I~~~~gi 36 (136)
-|..+.+ .-.+.++. ..+|.+||.+|..+.+.
T Consensus 3 YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~l 36 (74)
T PF08783_consen 3 YKFKSQKDYDTITFDGTSISVFDLKREIIEKKKL 36 (74)
T ss_dssp EEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT-
T ss_pred EEecccCCccEEEECCCeeEHHHHHHHHHHHhCC
Confidence 3444433 34566664 57999999999777665
No 185
>PF02505 MCR_D: Methyl-coenzyme M reductase operon protein D; InterPro: IPR003901 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein D.; GO: 0015948 methanogenesis
Probab=38.15 E-value=85 Score=22.94 Aligned_cols=44 Identities=30% Similarity=0.437 Sum_probs=31.5
Q ss_pred EEEEEecC-CCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCcccccc
Q 032678 12 TITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59 (136)
Q Consensus 12 ~~~i~v~~-~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y 59 (136)
.+.++++. .+.+..+++..++.+-++-+ +.-|+-+....|++||
T Consensus 76 ri~lele~~~~~ie~I~~iCee~lpf~y~----i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 76 RIILELEDEEDVIEKIREICEEVLPFGYD----IKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEEecCcHHHHHHHHHHHHHhCCCceE----eeeeEEeccCCchhhh
Confidence 35677877 77788888777776533322 2358899999999998
No 186
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=36.56 E-value=81 Score=22.85 Aligned_cols=34 Identities=9% Similarity=0.135 Sum_probs=29.8
Q ss_pred CCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEE
Q 032678 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL 43 (136)
Q Consensus 10 g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL 43 (136)
..++.+.|+...+=.++|+.|+..+++.+....-
T Consensus 82 ~N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNT 115 (145)
T PTZ00191 82 NNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNT 115 (145)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEe
Confidence 4689999999999999999999999998766643
No 187
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=35.68 E-value=22 Score=25.27 Aligned_cols=23 Identities=9% Similarity=-0.051 Sum_probs=20.1
Q ss_pred hcCCCcceeeccccccCCcceeee
Q 032678 88 KYNQDKMICRKYAHVSLFLFFSFI 111 (136)
Q Consensus 88 k~n~~k~~cr~~~ya~~~~~a~~~ 111 (136)
........|..| -...|+|+.+|
T Consensus 43 ~~~~~~~~C~~C-~~~kp~Rs~HC 65 (174)
T PF01529_consen 43 DENGELKYCSTC-KIIKPPRSHHC 65 (174)
T ss_pred ccCCCCEECccc-CCcCCCcceec
Confidence 355678899999 99999999999
No 188
>COG1756 Mra1 Uncharacterized conserved protein [Function unknown]
Probab=35.50 E-value=2.1e+02 Score=22.21 Aligned_cols=112 Identities=17% Similarity=0.243 Sum_probs=63.4
Q ss_pred CEEEEEeCCCCEEEEEecCCC-------cHHHHHHHHhhhhCCCCCCeEEEeCCEEc-c-CCccccccccCCCCEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSD-------TIDNVKAKIQDKEGIPPDQQRLIFAGKQL-E-DGRTLADYNIQKESTLHLVL 71 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~-------TV~~LK~~I~~~~gip~~~qrLi~~Gk~L-~-D~~tL~~ygI~~gstI~l~~ 71 (136)
++|.|.|.++..+. |+|.. ....|.+++.++..||+.. |+.| + -+.+|.++=-..+ ...+..
T Consensus 83 L~vYIHT~~~~vI~--v~p~~R~Prny~RFiGLmeqLlk~~~i~~~~------~e~Ll~v~~~~l~d~l~~~~-~~~ill 153 (223)
T COG1756 83 LRVYIHTRNDYVIE--VNPETRLPRNYNRFIGLMEQLLKKGRIPSNG------GETLLEVEKNPLTDLLPENN-KVTILL 153 (223)
T ss_pred eeEEEEecCCEEEE--ECCCccCCCCHHHHHHHHHHHHhcCCcCCCC------CcEeeeeecCcHHHhccccC-ceEEEE
Confidence 57889888876544 55443 3467777888888888754 2322 1 2445666532333 555667
Q ss_pred EecCCccCCchHHHHhhcCCCcceeeccccccCCcceeeeee-ecceeeeeeee
Q 032678 72 RLRGGIIEPSLMALARKYNQDKMICRKYAHVSLFLFFSFIFI-NAISFYVSVVS 124 (136)
Q Consensus 72 r~~gG~~~~s~~~~a~k~n~~k~~cr~~~ya~~~~~a~~~~~-~~~~~~~~~~~ 124 (136)
+..|..+.|+.-. ..-...-.++-+| ++|=..+-.-.++ ...+.|..|.|
T Consensus 154 ~e~G~~~~p~~~~--~~l~~~i~v~iG~-fp~Gdf~~~~~~~~~~~si~~~pL~ 204 (223)
T COG1756 154 HEKGELIPPKELI--SLLLKGIAVIIGG-FPHGDFREETEFVAEKYSIYDEPLS 204 (223)
T ss_pred cCCCCccCHHHHH--hhhccCceEEEec-cCCCcchhhhhhhcceeeecCCCcc
Confidence 7778775554333 2222224577777 6665555444433 34555555554
No 189
>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=34.74 E-value=1.2e+02 Score=19.69 Aligned_cols=58 Identities=3% Similarity=0.188 Sum_probs=36.5
Q ss_pred EEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEE-cc-CCccccccc--cCCCCEEEEEE
Q 032678 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ-LE-DGRTLADYN--IQKESTLHLVL 71 (136)
Q Consensus 14 ~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~-L~-D~~tL~~yg--I~~gstI~l~~ 71 (136)
.+-|+.+.|++++..-|.++.++++++--.+|=+.. +. .+.++++.= -.++..+++..
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Y 80 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSY 80 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEE
Confidence 456999999999999999999988766444443332 32 334544321 13455665544
No 190
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=34.63 E-value=1.5e+02 Score=20.15 Aligned_cols=56 Identities=23% Similarity=0.242 Sum_probs=42.3
Q ss_pred cCCCcHHHHHHHHhhhhCC---CCCCeEEEeCCEEccCCc-cccccccCCCCEEEEEEEec
Q 032678 18 ESSDTIDNVKAKIQDKEGI---PPDQQRLIFAGKQLEDGR-TLADYNIQKESTLHLVLRLR 74 (136)
Q Consensus 18 ~~~~TV~~LK~~I~~~~gi---p~~~qrLi~~Gk~L~D~~-tL~~ygI~~gstI~l~~r~~ 74 (136)
.+..|+.++-+.+.++.++ .+-.+..++.++.+.++. .|-.+.+..+ ++.+.+|-.
T Consensus 28 ~~~~t~~~~l~~l~~~l~lh~VevIg~E~I~A~~ll~~~~~~L~H~~~~~~-~l~l~vrs~ 87 (104)
T PF14807_consen 28 SSQRTLPEFLQRLQQKLRLHVVEVIGNEGIFACQLLNSSPVCLLHCRVNAG-TLDLWVRSS 87 (104)
T ss_pred cCcCCHHHHHHHHHHhcCceEEEEeCccceeeeeccCCCCeEEEEEEecCC-eEEEEEEcC
Confidence 4567888888888887774 333457889999998777 8888888766 888887743
No 191
>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=34.10 E-value=97 Score=20.14 Aligned_cols=49 Identities=16% Similarity=0.257 Sum_probs=32.7
Q ss_pred CcHHHHHHHHhhhhCCCCC--CeEEE--eCCEEccCCccccccccCCCCEEEEEEE
Q 032678 21 DTIDNVKAKIQDKEGIPPD--QQRLI--FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (136)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~--~qrLi--~~Gk~L~D~~tL~~ygI~~gstI~l~~r 72 (136)
.|+.+|+.+..++..++.+ .-+|. -+|..++|+.-+..+ . ..|..|++.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEeyF~tL--p-~nT~l~~L~ 73 (80)
T cd06536 21 SSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFLCL--P-PNTKFVLLA 73 (80)
T ss_pred CCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHHHHhhC--C-CCcEEEEEC
Confidence 5899999999999999843 24554 478888776544432 2 344444443
No 192
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=33.42 E-value=1.1e+02 Score=19.56 Aligned_cols=55 Identities=9% Similarity=0.196 Sum_probs=32.4
Q ss_pred cCCCcHHHHHHHHhhhhC---CCCCCeEEE--eCCEEccCCccccccccCCCCEEEEEEEecCC
Q 032678 18 ESSDTIDNVKAKIQDKEG---IPPDQQRLI--FAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 18 ~~~~TV~~LK~~I~~~~g---ip~~~qrLi--~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
....|+++|.+.+.++.. ..-..+.++ .+...+.+. +.-+++|++|.+.....||
T Consensus 25 ~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~----~t~L~dGDeVa~~PPVsGG 84 (84)
T COG1977 25 TVGATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGL----DTPLKDGDEVAFFPPVSGG 84 (84)
T ss_pred cHHHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccc----cccCCCCCEEEEeCCCCCC
Confidence 335799999999866653 111112211 222334332 2246679999998887776
No 193
>PF01376 Enterotoxin_b: Heat-labile enterotoxin beta chain; InterPro: IPR001835 Escherichia coli heat-labile enterotoxin is a bacterial protein toxin with an AB5 multimer structure, in which the B pentamer has a membrane-binding function and the A chain (IPR001144 from INTERPRO) is needed for enzymatic activity []. The B subunits are arranged as a donut-shaped pentamer, each subunit participating in ~30 hydrogen bonds and 6 salt bridges with its two neighbours []. The A subunit has a less well-defined secondary structure. It predominantly interacts with the pentamer via the C-terminal A2 fragment, which runs through the charged central pore of the B subunits. A putative catalytic residue in the A1 fragment (Glu112) lies close to a hydrophobic region, which packs two loops together. It is thought that this region might be important for catalysis and membrane translocation [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1LTA_D 2XRS_O 1LTS_E 1LTT_H 1TET_P 1JQY_Y 1PZI_D 1DJR_E 1EEF_D 1LTB_E ....
Probab=33.11 E-value=62 Score=21.33 Aligned_cols=31 Identities=29% Similarity=0.423 Sum_probs=21.3
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhh
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDK 33 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~ 33 (136)
+.+...+|.+|.++|+.+.-+..-|..|+..
T Consensus 38 ~iitf~ngatfqvevpgsqhi~sqkk~ierm 68 (102)
T PF01376_consen 38 VIITFKNGATFQVEVPGSQHIDSQKKAIERM 68 (102)
T ss_dssp EEEEETTS-EEEE--SSTTSTTTHHHHHHHH
T ss_pred EEEEecCCcEEEEecCCccchhhhHHHHHHH
Confidence 3455678999999999998887777777654
No 194
>TIGR03260 met_CoM_red_D methyl-coenzyme M reductase operon protein D. Members of this protein family are protein D, a non-structural protein, of the operon for methyl coenzyme M reductase, also called coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). That enzyme, with alpha, beta, and gamma subunits, catalyzes the last step in methanogenesis; it has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this model does not separate the isozymes. Proteins in this family are expressed at much lower levels than the methyl-coenzyme M reductase itself and associate and have been shown to form at least transient associations. The precise function is unknown.
Probab=32.89 E-value=1.1e+02 Score=22.26 Aligned_cols=43 Identities=26% Similarity=0.415 Sum_probs=30.5
Q ss_pred EEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCcccccc
Q 032678 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59 (136)
Q Consensus 13 ~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y 59 (136)
+.+++...+.+.++++...+.+-++-+ +..|+-+.+..|++||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~pF~y~----i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLPFGYE----VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCCCceE----eeeeeEeecCCchhhh
Confidence 556666778888888877776543322 2357788899999988
No 195
>KOG3784 consensus Sorting nexin protein SNX27 [General function prediction only; Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=31.66 E-value=1.7e+02 Score=24.79 Aligned_cols=31 Identities=32% Similarity=0.389 Sum_probs=28.4
Q ss_pred eCCCCEEEEEecCCCcHHHHHHHHhhhhCCC
Q 032678 7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIP 37 (136)
Q Consensus 7 ~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip 37 (136)
-++|...++++.-++|-+.+-+.+..+.|.+
T Consensus 114 lpng~~i~i~~~~s~tt~~vl~~v~~kl~l~ 144 (407)
T KOG3784|consen 114 LPNGEKITINCLVSDTASLVLKSVCRKLGLP 144 (407)
T ss_pred ccCCceEEEEEEecccHHHHHHHHHhhcCCc
Confidence 3799999999999999999999999999987
No 196
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=30.94 E-value=41 Score=27.57 Aligned_cols=47 Identities=19% Similarity=0.262 Sum_probs=38.3
Q ss_pred EEEEecCCCcHHHHHHHHhhhhC-CC-CCCeEEEeCCEEccCCcccccc
Q 032678 13 ITLEVESSDTIDNVKAKIQDKEG-IP-PDQQRLIFAGKQLEDGRTLADY 59 (136)
Q Consensus 13 ~~i~v~~~~TV~~LK~~I~~~~g-ip-~~~qrLi~~Gk~L~D~~tL~~y 59 (136)
-.+.++...||.+||.-+..+.+ .+ ..+.-+++++..|.+..||.+.
T Consensus 166 ~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i 214 (331)
T KOG2660|consen 166 RFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDI 214 (331)
T ss_pred ceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhh
Confidence 34678888999999999999998 43 3455788999999999998854
No 197
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=30.39 E-value=1e+02 Score=19.01 Aligned_cols=55 Identities=18% Similarity=0.291 Sum_probs=37.2
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCEEccCCcccccc--ccCCCCEEEEEEEe
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY--NIQKESTLHLVLRL 73 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y--gI~~gstI~l~~r~ 73 (136)
.....+|.+... +.+.|+.+.+.-+-.+|+...+...+..+ ....|+++.+.+.-
T Consensus 15 g~~V~~V~~~sp--------A~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R 71 (82)
T PF13180_consen 15 GVVVVSVIPGSP--------AAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLR 71 (82)
T ss_dssp SEEEEEESTTSH--------HHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEE
T ss_pred eEEEEEeCCCCc--------HHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEE
Confidence 344445665543 34568889999999999999766555443 35778999888763
No 198
>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=29.88 E-value=1.4e+02 Score=19.66 Aligned_cols=36 Identities=17% Similarity=0.338 Sum_probs=25.0
Q ss_pred EEEEecCCCcHHHHHHHHhhhhCCCCCCeEEEeCCE
Q 032678 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK 48 (136)
Q Consensus 13 ~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk 48 (136)
-.+.++.++|++.+-+-+.++.++.+++.-.+|=..
T Consensus 18 ~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~ 53 (87)
T PF04110_consen 18 KKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINN 53 (87)
T ss_dssp -EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEE
T ss_pred cEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcC
Confidence 467899999999999999999998776666665444
No 199
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=29.16 E-value=69 Score=28.48 Aligned_cols=36 Identities=19% Similarity=0.368 Sum_probs=26.9
Q ss_pred EEEEEeCCCCEEEEEecCC---------CcHHHHHHHHhhhhCCC
Q 032678 2 QIFVKTLTGKTITLEVESS---------DTIDNVKAKIQDKEGIP 37 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~---------~TV~~LK~~I~~~~gip 37 (136)
.|+|+..+|++..+..... .|+.+||.+|++++|+.
T Consensus 250 ~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~~~ 294 (603)
T PRK05841 250 NITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTGLD 294 (603)
T ss_pred EEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhccccc
Confidence 5777777788766544333 57899999999998864
No 200
>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=29.00 E-value=2.2e+02 Score=23.05 Aligned_cols=60 Identities=18% Similarity=0.218 Sum_probs=42.2
Q ss_pred EEEecCCCcHHHHHHHHhhhh--------------C-CCCCCeEEEeCCEEccCCcccccccc---CCCCEEEEEEEe
Q 032678 14 TLEVESSDTIDNVKAKIQDKE--------------G-IPPDQQRLIFAGKQLEDGRTLADYNI---QKESTLHLVLRL 73 (136)
Q Consensus 14 ~i~v~~~~TV~~LK~~I~~~~--------------g-ip~~~qrLi~~Gk~L~D~~tL~~ygI---~~gstI~l~~r~ 73 (136)
.+....-..|.-++..|.++. . -|.+...|+.+|+.|+.+.||+...- +.++-|.|..|.
T Consensus 251 rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 251 RLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred eecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 344555567777888887777 2 34456789999999999999877642 556666666664
No 201
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=28.71 E-value=77 Score=29.17 Aligned_cols=57 Identities=16% Similarity=0.253 Sum_probs=42.1
Q ss_pred EEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE--e--CCEEc--cCCccccccccCCCCEEEEE
Q 032678 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--F--AGKQL--EDGRTLADYNIQKESTLHLV 70 (136)
Q Consensus 12 ~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi--~--~Gk~L--~D~~tL~~ygI~~gstI~l~ 70 (136)
-+.+.|+..+++..+|+.|++..+++.+..+++ + +|..+ .++.||+.+ -++.+|.+-
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~V~~~HFKi~R~~~~N~~~~S~~~NetLs~~--~~~~~iTI~ 940 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLEVDKDHFKIVRHASDNGSEASFMDNETLSGA--FQSCFITIK 940 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhCcChhHeEEEEEecCCcchhhhccchhhhhh--cccceEEEE
Confidence 456789999999999999999999999988886 2 33333 356677654 345666543
No 202
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=28.39 E-value=1.7e+02 Score=19.03 Aligned_cols=37 Identities=11% Similarity=0.108 Sum_probs=26.9
Q ss_pred CcHHHHHHHHhhhhCCCCCCeEEE--eCCEEccCCccccc
Q 032678 21 DTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLEDGRTLAD 58 (136)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~qrLi--~~Gk~L~D~~tL~~ 58 (136)
.|..+|+.+..+..+++. .-+|+ -+|..++|+.-+..
T Consensus 21 ~sL~EL~~K~~~~L~~~~-~~~lvLeeDGT~Vd~EeyF~t 59 (81)
T cd06537 21 ASLQELLAKALETLLLSG-VLTLVLEEDGTAVDSEDFFEL 59 (81)
T ss_pred cCHHHHHHHHHHHhCCCC-ceEEEEecCCCEEccHHHHhh
Confidence 579999999999999863 35554 46888877654433
No 203
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=27.87 E-value=1.7e+02 Score=18.62 Aligned_cols=46 Identities=7% Similarity=0.138 Sum_probs=30.9
Q ss_pred HHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEE
Q 032678 24 DNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (136)
Q Consensus 24 ~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l 69 (136)
..++..++..+|.+.+.-|+-.+...=.-...+..-.+.-|+.|++
T Consensus 4 ~~~r~~~e~~~G~dl~~Vrvh~~~~a~~~~~~~~A~A~T~G~~I~f 49 (79)
T PF13699_consen 4 ESIRSRLERAFGADLSDVRVHTGPAASRAAAALGARAFTVGNDIYF 49 (79)
T ss_pred HHHHHHHHHHhCCCccceEEEeCCchhhhhhccCCeEEEECCEEEE
Confidence 3688999999999988889877743211122333334566888877
No 204
>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=26.80 E-value=27 Score=21.70 Aligned_cols=20 Identities=15% Similarity=0.361 Sum_probs=14.3
Q ss_pred cHHHHHHHHhhhhCCCCCCe
Q 032678 22 TIDNVKAKIQDKEGIPPDQQ 41 (136)
Q Consensus 22 TV~~LK~~I~~~~gip~~~q 41 (136)
|++++.+.+++.+|+++++.
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 68899999999999987553
No 205
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=26.41 E-value=93 Score=21.69 Aligned_cols=59 Identities=22% Similarity=0.447 Sum_probs=35.0
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhCCCCC-------CeEEEe-----------------CCEE-ccCCccccccccCCCC
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEGIPPD-------QQRLIF-----------------AGKQ-LEDGRTLADYNIQKES 65 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~-------~qrLi~-----------------~Gk~-L~D~~tL~~ygI~~gs 65 (136)
..+.|-.-.+.|+.||-..|.+.. ++. ..+++| .|+. -+|++||++.+.+-|+
T Consensus 37 ~elqIYtW~d~TLrEL~~Lik~~~--~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGD 114 (120)
T PF06487_consen 37 NELQIYTWMDATLRELADLIKDVN--PPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGD 114 (120)
T ss_dssp TEEEEEE-TT-BHHHHHHHHHHH---HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-
T ss_pred CeeEEEEcccCCHHHHHHHHHHhC--cccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCC
Confidence 456677778999999998887731 111 123344 2222 3678899999999999
Q ss_pred EEEEEE
Q 032678 66 TLHLVL 71 (136)
Q Consensus 66 tI~l~~ 71 (136)
-|.+.+
T Consensus 115 yidvaI 120 (120)
T PF06487_consen 115 YIDVAI 120 (120)
T ss_dssp EEEEEE
T ss_pred EEEEeC
Confidence 887653
No 206
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.03 E-value=1.9e+02 Score=18.76 Aligned_cols=61 Identities=18% Similarity=0.227 Sum_probs=42.5
Q ss_pred EecCCCcHHHHHHHHhhhhCCCCCCeEEEeCC-EEccCCccccccccCCCCEEEEEEEecCC
Q 032678 16 EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG-KQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (136)
Q Consensus 16 ~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~G-k~L~D~~tL~~ygI~~gstI~l~~r~~gG 76 (136)
+|..+...-.+-.--++++.+|+..--++-++ --+...++-...=++.|+.+.++.|-+-|
T Consensus 32 svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgselr~iprdrvg 93 (94)
T KOG3483|consen 32 SVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVG 93 (94)
T ss_pred cCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCCEEEeccccccC
Confidence 55556666555555677888998877777654 45555667777677899999988776544
No 207
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=25.86 E-value=34 Score=27.63 Aligned_cols=23 Identities=4% Similarity=-0.136 Sum_probs=19.8
Q ss_pred hcCCCcceeeccccccCCcceeee
Q 032678 88 KYNQDKMICRKYAHVSLFLFFSFI 111 (136)
Q Consensus 88 k~n~~k~~cr~~~ya~~~~~a~~~ 111 (136)
.....+..|.+| ...-|+|+.+|
T Consensus 104 ~~~~~~~~C~~C-~~~KP~RS~HC 126 (309)
T COG5273 104 GKFGTENFCSTC-NIYKPPRSHHC 126 (309)
T ss_pred Cccccceecccc-ccccCCCCccc
Confidence 344567899999 99999999999
No 208
>KOG3073 consensus Protein required for 18S rRNA maturation and 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=25.11 E-value=1.8e+02 Score=22.53 Aligned_cols=42 Identities=21% Similarity=0.362 Sum_probs=23.5
Q ss_pred CCCCCe--EEEeCCEEccCCccccccccCCCCEEEEEEEecCCc
Q 032678 36 IPPDQQ--RLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (136)
Q Consensus 36 ip~~~q--rLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~ 77 (136)
+|+... .+.|.|..+.+.+.|-.-.-.+.+.+.++--.+-|+
T Consensus 156 lPv~~~Ki~lSf~~p~l~~~~~lv~~~~~~~~~v~~Iga~ahg~ 199 (236)
T KOG3073|consen 156 LPVNSRKIGLSFSGPKLSNVRDLVASLDDDDSVVFVIGAMAHGK 199 (236)
T ss_pred CCCCccEEeecCCCcccccHHhhccccCCCCCEEEEEecccccc
Confidence 455544 556888888876554443222334666665555553
No 209
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=24.53 E-value=1.7e+02 Score=19.94 Aligned_cols=26 Identities=8% Similarity=0.105 Sum_probs=21.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHH
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNV 26 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~L 26 (136)
++|++...+|+..++++.+..|+.+.
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl~a 26 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLLEA 26 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHHHH
Confidence 46788778999999999988887665
No 210
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=24.37 E-value=1.6e+02 Score=18.84 Aligned_cols=34 Identities=26% Similarity=0.332 Sum_probs=24.8
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhC
Q 032678 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG 35 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~g 35 (136)
|+|.|=-. ....++.++.+.|-.++.+++.+...
T Consensus 1 MeIkIGi~-~~~REl~ies~~s~dev~~~v~~Al~ 34 (74)
T PF11305_consen 1 MEIKIGIQ-NVARELVIESDQSADEVEAAVTDALA 34 (74)
T ss_pred CeEEEeee-cCCceEEEecCCCHHHHHHHHHHHHh
Confidence 67777433 34556777778899999999988754
No 211
>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=24.37 E-value=2e+02 Score=18.42 Aligned_cols=42 Identities=19% Similarity=0.210 Sum_probs=33.6
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHhhhhCCCCCCeEEE
Q 032678 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (136)
Q Consensus 3 I~Vk~~~g~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrLi 44 (136)
|.+--++.+...++|.|.+|+.+--.+.-+.-|+.|+.-...
T Consensus 2 ir~~LPnqQrT~V~vrpG~tl~daL~KaLk~R~l~pe~C~V~ 43 (74)
T cd01816 2 IRVFLPNKQRTVVNVRPGMTLRDALAKALKVRGLQPECCAVF 43 (74)
T ss_pred eeEECCCCCeEEEEecCCcCHHHHHHHHHHHcCCChhHeEEE
Confidence 345556777788999999999998888888999988766554
No 212
>KOG2827 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.96 E-value=45 Score=26.99 Aligned_cols=70 Identities=23% Similarity=0.181 Sum_probs=42.8
Q ss_pred HHHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCCCEEEEEEEecCCc--cCCchHHH--HhhcCCCcceeec
Q 032678 23 IDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI--IEPSLMAL--ARKYNQDKMICRK 98 (136)
Q Consensus 23 V~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~gG~--~~~s~~~~--a~k~n~~k~~cr~ 98 (136)
+.+.-+.++..+..++....++.+|+.|++..+-.+-+ ++...+..||+ +..-+++. +.....++..||-
T Consensus 23 ~De~~~~~~~~tn~qs~e~y~~~nlKklEnk~~sgd~N------~~~~lRVlGGKGGFGS~LRA~g~~~NestN~~~cRD 96 (322)
T KOG2827|consen 23 ADERLQEWKDGTNGQSLEKYALENLKKLENKVKSGDGN------GATQLRVLGGKGGFGSCLRAVGLALNESTNNGKCRD 96 (322)
T ss_pred cHHHHHHHHhcccCCCcchhHHhhhHhhcCcccccccc------ceEEEEeccCCcchHHHHHHHHHHHhhhhhhhhHhh
Confidence 34455566666777777777778888887765543322 66778888886 33445554 3333345555654
No 213
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=23.87 E-value=44 Score=20.75 Aligned_cols=16 Identities=13% Similarity=0.308 Sum_probs=10.7
Q ss_pred ccccccccCCCCEEEE
Q 032678 54 RTLADYNIQKESTLHL 69 (136)
Q Consensus 54 ~tL~~ygI~~gstI~l 69 (136)
+.|.+.|+++|++|.+
T Consensus 47 ~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 47 KALRKAGAKEGDTVRI 62 (69)
T ss_dssp HHHHTTT--TT-EEEE
T ss_pred HHHHHcCCCCCCEEEE
Confidence 5688899999999975
No 214
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=23.54 E-value=39 Score=16.78 Aligned_cols=18 Identities=17% Similarity=0.215 Sum_probs=12.2
Q ss_pred cceeeccccccCCcceeee
Q 032678 93 KMICRKYAHVSLFLFFSFI 111 (136)
Q Consensus 93 k~~cr~~~ya~~~~~a~~~ 111 (136)
.+.|..| -+.++..+.+|
T Consensus 2 ~~~Cp~C-g~~~~~~~~fC 19 (26)
T PF13248_consen 2 EMFCPNC-GAEIDPDAKFC 19 (26)
T ss_pred cCCCccc-CCcCCcccccC
Confidence 3567888 55677777766
No 215
>KOG3486 consensus 40S ribosomal protein S21 [Translation, ribosomal structure and biogenesis]
Probab=23.34 E-value=38 Score=22.12 Aligned_cols=14 Identities=29% Similarity=0.150 Sum_probs=9.7
Q ss_pred eeeccccccCCcceeeeeeec
Q 032678 95 ICRKYAHVSLFLFFSFIFINA 115 (136)
Q Consensus 95 ~cr~~~ya~~~~~a~~~~~~~ 115 (136)
+-||| .|+||+|++
T Consensus 13 vPrKc-------S~sNriI~a 26 (83)
T KOG3486|consen 13 VPRKC-------SATNRIITA 26 (83)
T ss_pred ecccc-------cccceeeec
Confidence 45667 788997754
No 216
>TIGR02008 fdx_plant ferredoxin [2Fe-2S]. This model represents single domain 2Fe-2S (also called plant type) ferredoxins. In general, these occur as a single domain proteins or with a chloroplast transit peptide. Species tend to be photosynthetic, but several forms may occur in one species and individually may not be associated with photocynthesis. Halobacterial forms differ somewhat in architecture; they score between trusted and noise cutoffs. Sequences scoring below the noise cutoff tend to be ferredoxin-related domains of larger proteins.
Probab=23.17 E-value=1.7e+02 Score=19.05 Aligned_cols=26 Identities=15% Similarity=0.178 Sum_probs=20.3
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHH
Q 032678 2 QIFVKTLTGKTITLEVESSDTIDNVK 27 (136)
Q Consensus 2 qI~Vk~~~g~~~~i~v~~~~TV~~LK 27 (136)
+|++...+|+...+++++..|+.+.-
T Consensus 4 ~v~~~~~~~~~~~~~~~~g~tLLda~ 29 (97)
T TIGR02008 4 KVTLVNPDGGEETIECPDDQYILDAA 29 (97)
T ss_pred EEEEEECCCCEEEEEECCCCcHHHHH
Confidence 56666678888889999999987653
No 217
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=22.96 E-value=93 Score=20.91 Aligned_cols=27 Identities=26% Similarity=0.634 Sum_probs=14.7
Q ss_pred HHHHHHHhhhhCCCCCCeEEEeCCEEcc
Q 032678 24 DNVKAKIQDKEGIPPDQQRLIFAGKQLE 51 (136)
Q Consensus 24 ~~LK~~I~~~~gip~~~qrLi~~Gk~L~ 51 (136)
...|+.+.+ .|+++++..++++|-.++
T Consensus 148 ~~~~~~l~~-~~~~~~ki~vI~ngid~~ 174 (177)
T PF13439_consen 148 ESTKDELIK-FGIPPEKIHVIYNGIDTD 174 (177)
T ss_dssp HHHHHHHHH-HT--SS-EEE----B-CC
T ss_pred HHHHHHHHH-hCCcccCCEEEECCccHH
Confidence 467778888 899999999999996543
No 218
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=22.73 E-value=41 Score=22.59 Aligned_cols=29 Identities=17% Similarity=0.119 Sum_probs=18.9
Q ss_pred CcceeeccccccCC--cc-eeee------eeecceeee
Q 032678 92 DKMICRKYAHVSLF--LF-FSFI------FINAISFYV 120 (136)
Q Consensus 92 ~k~~cr~~~ya~~~--~~-a~~~------~~~~~~~~~ 120 (136)
.+..|++|+|.=.+ .+ ++.| -|.+-+||.
T Consensus 57 ~Pa~CkkCGfef~~~~ik~pSRCP~CKSE~Ie~prF~i 94 (97)
T COG3357 57 RPARCKKCGFEFRDDKIKKPSRCPKCKSEWIEEPRFVI 94 (97)
T ss_pred cChhhcccCccccccccCCcccCCcchhhcccCCceee
Confidence 35579999876554 33 5566 567777765
No 219
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=22.29 E-value=50 Score=19.59 Aligned_cols=20 Identities=20% Similarity=0.484 Sum_probs=16.5
Q ss_pred cHHHHHHHHhhhhCCCCCCe
Q 032678 22 TIDNVKAKIQDKEGIPPDQQ 41 (136)
Q Consensus 22 TV~~LK~~I~~~~gip~~~q 41 (136)
|+.++.+.+++.+|+++++.
T Consensus 1 ~~~~I~~~Va~~~~i~~~~i 20 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPEDL 20 (60)
T ss_pred CHHHHHHHHHHHhCCCHHHH
Confidence 57889999999999987664
No 220
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.75 E-value=2.3e+02 Score=22.96 Aligned_cols=27 Identities=22% Similarity=0.366 Sum_probs=23.2
Q ss_pred ecCCCcHHHHHHHHhhhhCCCCCCeEE
Q 032678 17 VESSDTIDNVKAKIQDKEGIPPDQQRL 43 (136)
Q Consensus 17 v~~~~TV~~LK~~I~~~~gip~~~qrL 43 (136)
++.-.+|.+|-++|++-+.|++++.-.
T Consensus 69 Ie~fsnv~ELY~kIAe~F~Is~~dIlf 95 (334)
T KOG3938|consen 69 IEGFSNVRELYQKIAEAFDISPDDILF 95 (334)
T ss_pred ecccccHHHHHHHHHHHhcCCccceEE
Confidence 556678999999999999999988754
No 221
>PRK04171 ribosome biogenesis protein; Provisional
Probab=20.85 E-value=1.7e+02 Score=22.62 Aligned_cols=94 Identities=13% Similarity=0.235 Sum_probs=49.0
Q ss_pred CEEEEEeCCCCEEEEEecCCCcH-------HHHHHHHhhhhCCCCCCeEEEeCCEEccCCccccccccCCC--CEEEEEE
Q 032678 1 MQIFVKTLTGKTITLEVESSDTI-------DNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKE--STLHLVL 71 (136)
Q Consensus 1 MqI~Vk~~~g~~~~i~v~~~~TV-------~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g--stI~l~~ 71 (136)
++|.|+|.+|+.+. |+|...| ..|.+++-.+..|+++.+.|+- . -..+|.++ +..+ +.+ +.+
T Consensus 82 L~VYIhT~~~~lI~--V~P~~RiPR~y~rF~gLM~qLL~k~~I~~~~~~Llk---v--~k~~l~~~-l~~~~~~~~-i~l 152 (222)
T PRK04171 82 LRVYIHTRDDKVIY--VNPETRLPKNYNRFVGLMEQLLKEGRVPPNGEPLLE---I--ENKSLEEL-LEEIGPDRI-ILL 152 (222)
T ss_pred eEEEEEecCCEEEE--ECCCCcCCCCHHHHHHHHHHHHHhCccCCCCcchhe---e--ecCcHHHh-ccccCCCcE-EEE
Confidence 47899999887654 5554333 4555666677778886554421 1 12345554 3332 333 233
Q ss_pred EecCCccCCchHHHHhhcCCCcceeeccccccCCcc
Q 032678 72 RLRGGIIEPSLMALARKYNQDKMICRKYAHVSLFLF 107 (136)
Q Consensus 72 r~~gG~~~~s~~~~a~k~n~~k~~cr~~~ya~~~~~ 107 (136)
. ..|. ..++...++ .+.+-.++-++ .++=...
T Consensus 153 S-~~g~-~~~~~~~~~-~~~~~~~vIGa-f~hG~f~ 184 (222)
T PRK04171 153 S-EKGE-LVKPKELGK-ENENIAVGIGG-FPHGDFS 184 (222)
T ss_pred C-CCCc-ccCHHHHhh-ccCCcEEEEcc-ccCCCcc
Confidence 3 2332 233455544 45555566666 5555433
No 222
>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=20.84 E-value=2.8e+02 Score=18.68 Aligned_cols=33 Identities=6% Similarity=0.170 Sum_probs=22.0
Q ss_pred CEEEEEecCCCcHHHHHHHHhhhhC-CCCCCeEE
Q 032678 11 KTITLEVESSDTIDNVKAKIQDKEG-IPPDQQRL 43 (136)
Q Consensus 11 ~~~~i~v~~~~TV~~LK~~I~~~~g-ip~~~qrL 43 (136)
....+.+.+.++..++++++++... ++.+++.|
T Consensus 29 ~i~~i~~~~~~~~~~~~~~l~~~i~~~~~~~~vi 62 (116)
T TIGR00824 29 NVGAVPFVPGENAETLQEKYNAALADLDTEEEVL 62 (116)
T ss_pred CeEEEEcCCCcCHHHHHHHHHHHHHhcCCCCCEE
Confidence 3566788888888888888876543 44344444
No 223
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=20.39 E-value=61 Score=20.14 Aligned_cols=18 Identities=11% Similarity=0.130 Sum_probs=14.7
Q ss_pred CccccccccCCCCEEEEE
Q 032678 53 GRTLADYNIQKESTLHLV 70 (136)
Q Consensus 53 ~~tL~~ygI~~gstI~l~ 70 (136)
...|.+.|+++|++|.+-
T Consensus 46 ~~~L~~~G~~~GD~V~Ig 63 (69)
T TIGR03595 46 EDALRKAGAKDGDTVRIG 63 (69)
T ss_pred HHHHHHcCCCCCCEEEEc
Confidence 357889999999999763
No 224
>KOG2070 consensus Guanine nucleotide exchange factor [Nucleotide transport and metabolism]
Probab=20.20 E-value=1.2e+02 Score=26.62 Aligned_cols=27 Identities=19% Similarity=0.266 Sum_probs=22.7
Q ss_pred ccccCCCCEEEEEEEecCCccCCchHH
Q 032678 58 DYNIQKESTLHLVLRLRGGIIEPSLMA 84 (136)
Q Consensus 58 ~ygI~~gstI~l~~r~~gG~~~~s~~~ 84 (136)
++....|+.|++.-...|||+++++..
T Consensus 33 ELsf~KgDvItVTq~eeGGWWEGTlng 59 (661)
T KOG2070|consen 33 ELSFSKGDVITVTQVEEGGWWEGTLNG 59 (661)
T ss_pred eeccccCCEEEEEEeccCcceeccccC
Confidence 445678999999999999999988765
Done!