Query 017906
Match_columns 364
No_of_seqs 299 out of 1283
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 04:27:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017906hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00601 rad23 UV excision re 100.0 1.3E-75 2.9E-80 581.0 33.5 328 1-364 1-343 (378)
2 KOG0011 Nucleotide excision re 100.0 2.8E-76 6.1E-81 562.3 27.0 303 1-364 1-304 (340)
3 PF09280 XPC-binding: XPC-bind 99.9 4.3E-23 9.3E-28 153.7 6.8 58 277-334 1-58 (59)
4 cd01807 GDX_N ubiquitin-like d 99.8 2.2E-18 4.8E-23 134.0 9.5 73 1-76 1-73 (74)
5 cd01805 RAD23_N Ubiquitin-like 99.7 9.1E-18 2E-22 130.9 10.1 75 1-78 1-77 (77)
6 cd01797 NIRF_N amino-terminal 99.7 1.1E-17 2.4E-22 131.9 9.1 74 1-77 1-76 (78)
7 cd01793 Fubi Fubi ubiquitin-li 99.7 2.7E-17 5.9E-22 127.9 9.3 73 1-78 1-73 (74)
8 cd01791 Ubl5 UBL5 ubiquitin-li 99.7 2.2E-17 4.8E-22 128.6 8.7 71 1-74 2-72 (73)
9 PTZ00044 ubiquitin; Provisiona 99.7 4.8E-17 1E-21 126.6 9.7 74 1-77 1-74 (76)
10 cd01802 AN1_N ubiquitin-like d 99.7 7.8E-17 1.7E-21 133.5 9.5 75 1-78 28-102 (103)
11 cd01804 midnolin_N Ubiquitin-l 99.7 8.2E-17 1.8E-21 126.7 8.9 73 1-77 2-74 (78)
12 cd01806 Nedd8 Nebb8-like ubiq 99.7 2E-16 4.4E-21 122.5 10.2 74 1-77 1-74 (76)
13 cd01810 ISG15_repeat2 ISG15 ub 99.7 1.3E-16 2.8E-21 124.1 8.8 72 3-77 1-72 (74)
14 cd01792 ISG15_repeat1 ISG15 ub 99.7 1.1E-16 2.4E-21 126.5 8.3 74 1-77 3-78 (80)
15 cd01803 Ubiquitin Ubiquitin. U 99.7 2.2E-16 4.8E-21 122.3 9.5 74 1-77 1-74 (76)
16 cd01794 DC_UbP_C dendritic cel 99.7 1.6E-16 3.5E-21 122.6 8.0 69 3-74 1-69 (70)
17 cd01809 Scythe_N Ubiquitin-lik 99.7 3.3E-16 7.2E-21 120.0 9.5 72 1-75 1-72 (72)
18 cd01798 parkin_N amino-termina 99.7 2.5E-16 5.4E-21 121.0 8.1 70 3-75 1-70 (70)
19 cd01808 hPLIC_N Ubiquitin-like 99.7 4.8E-16 1E-20 119.8 8.8 71 1-75 1-71 (71)
20 KOG0010 Ubiquitin-like protein 99.6 1.2E-15 2.7E-20 153.5 13.8 75 1-79 16-90 (493)
21 PF00240 ubiquitin: Ubiquitin 99.6 6.3E-16 1.4E-20 117.9 8.0 69 6-77 1-69 (69)
22 cd01790 Herp_N Homocysteine-re 99.6 6.6E-16 1.4E-20 121.8 8.2 73 1-74 2-78 (79)
23 cd01813 UBP_N UBP ubiquitin pr 99.6 1.2E-15 2.7E-20 119.0 8.2 70 1-74 1-73 (74)
24 cd01796 DDI1_N DNA damage indu 99.6 3.3E-15 7.1E-20 115.5 7.7 68 3-73 1-70 (71)
25 cd01812 BAG1_N Ubiquitin-like 99.6 9.1E-15 2E-19 112.0 8.3 70 1-74 1-70 (71)
26 KOG0005 Ubiquitin-like protein 99.5 6.1E-15 1.3E-19 108.4 5.0 70 1-73 1-70 (70)
27 cd01800 SF3a120_C Ubiquitin-li 99.5 2.2E-14 4.8E-19 112.2 8.4 68 8-78 5-72 (76)
28 KOG0003 Ubiquitin/60s ribosoma 99.5 7E-15 1.5E-19 120.2 -0.0 76 1-79 1-76 (128)
29 cd01763 Sumo Small ubiquitin-r 99.5 4.6E-13 9.9E-18 107.5 10.0 75 1-78 12-86 (87)
30 smart00213 UBQ Ubiquitin homol 99.5 2.8E-13 6.2E-18 100.7 7.9 64 1-68 1-64 (64)
31 KOG0004 Ubiquitin/40S ribosoma 99.4 9.1E-14 2E-18 121.1 4.5 77 1-80 1-77 (156)
32 cd01815 BMSC_UbP_N Ubiquitin-l 99.4 7.2E-13 1.6E-17 103.4 5.4 55 19-74 19-74 (75)
33 cd01769 UBL Ubiquitin-like dom 99.3 1.2E-11 2.6E-16 93.2 8.0 68 4-74 1-68 (69)
34 cd01799 Hoil1_N Ubiquitin-like 99.3 1.4E-11 3E-16 96.5 7.6 65 6-74 8-74 (75)
35 cd01814 NTGP5 Ubiquitin-like N 99.3 1E-11 2.3E-16 103.4 6.9 77 2-78 6-93 (113)
36 PF11976 Rad60-SLD: Ubiquitin- 99.2 5.4E-11 1.2E-15 91.5 8.3 71 1-74 1-72 (72)
37 cd01795 USP48_C USP ubiquitin- 99.0 6.1E-10 1.3E-14 90.6 7.1 62 12-76 16-78 (107)
38 PF00627 UBA: UBA/TS-N domain; 99.0 4.5E-10 9.7E-15 76.0 5.0 36 172-210 2-37 (37)
39 KOG0001 Ubiquitin and ubiquiti 98.9 1.6E-08 3.6E-13 75.5 9.7 72 3-77 2-73 (75)
40 PF13881 Rad60-SLD_2: Ubiquiti 98.9 1.6E-08 3.4E-13 85.0 10.2 68 2-69 4-76 (111)
41 cd01789 Alp11_N Ubiquitin-like 98.8 1.7E-08 3.7E-13 80.6 8.7 71 2-75 3-81 (84)
42 KOG4248 Ubiquitin-like protein 98.8 5.1E-09 1.1E-13 113.3 6.8 70 2-75 4-73 (1143)
43 cd00194 UBA Ubiquitin Associat 98.8 9.7E-09 2.1E-13 69.5 5.1 38 172-212 1-38 (38)
44 PLN02560 enoyl-CoA reductase 98.8 1.6E-08 3.5E-13 99.0 8.6 71 1-73 1-81 (308)
45 smart00165 UBA Ubiquitin assoc 98.8 1.3E-08 2.8E-13 68.6 4.6 37 172-211 1-37 (37)
46 cd01788 ElonginB Ubiquitin-lik 98.7 4.2E-08 9.1E-13 81.8 7.7 73 1-76 1-81 (119)
47 PF14560 Ubiquitin_2: Ubiquiti 98.6 1.1E-07 2.4E-12 76.1 7.9 73 2-77 3-85 (87)
48 cd01801 Tsc13_N Ubiquitin-like 98.6 1.2E-07 2.6E-12 74.3 7.0 69 2-72 2-74 (77)
49 cd00196 UBQ Ubiquitin-like pro 98.4 1.4E-06 3.1E-11 61.5 7.9 67 5-74 2-68 (69)
50 PF11543 UN_NPL4: Nuclear pore 98.4 6E-07 1.3E-11 71.2 5.4 69 1-73 5-78 (80)
51 KOG1872 Ubiquitin-specific pro 98.2 4.2E-06 9.1E-11 84.8 7.7 72 2-77 5-77 (473)
52 KOG0006 E3 ubiquitin-protein l 98.1 3.5E-06 7.5E-11 81.5 5.9 74 1-77 1-77 (446)
53 cd01811 OASL_repeat1 2'-5' oli 98.1 1.4E-05 3E-10 61.9 7.9 71 1-75 1-76 (80)
54 KOG3493 Ubiquitin-like protein 98.0 2.8E-06 6E-11 63.9 1.6 69 2-73 3-71 (73)
55 KOG1769 Ubiquitin-like protein 97.7 0.00025 5.3E-09 58.1 8.6 72 2-76 22-93 (99)
56 KOG4495 RNA polymerase II tran 97.6 7.3E-05 1.6E-09 60.6 4.6 60 3-66 5-66 (110)
57 PF10302 DUF2407: DUF2407 ubiq 97.5 0.00035 7.5E-09 57.4 7.4 60 2-62 2-64 (97)
58 PF02845 CUE: CUE domain; Int 97.1 0.00087 1.9E-08 46.4 4.4 41 172-213 1-41 (42)
59 PF08817 YukD: WXG100 protein 97.1 0.0011 2.4E-08 52.0 5.4 71 2-72 4-78 (79)
60 PF00789 UBX: UBX domain; Int 97.1 0.0038 8.3E-08 48.9 8.5 68 2-72 8-80 (82)
61 KOG4583 Membrane-associated ER 97.1 7.3E-05 1.6E-09 73.0 -1.7 76 2-78 11-90 (391)
62 smart00166 UBX Domain present 97.1 0.0042 9.1E-08 48.7 8.5 68 2-72 6-78 (80)
63 KOG0944 Ubiquitin-specific pro 96.9 0.0006 1.3E-08 72.0 3.1 43 170-215 633-675 (763)
64 cd01767 UBX UBX (ubiquitin reg 96.9 0.0091 2E-07 46.4 8.7 67 2-73 4-75 (77)
65 cd01770 p47_UBX p47-like ubiqu 96.8 0.0092 2E-07 47.1 8.4 67 2-71 6-75 (79)
66 smart00727 STI1 Heat shock cha 96.8 0.0016 3.4E-08 44.7 3.2 36 278-318 6-41 (41)
67 cd01772 SAKS1_UBX SAKS1-like U 96.7 0.014 2.9E-07 46.0 8.7 67 2-72 6-77 (79)
68 KOG0013 Uncharacterized conser 96.6 0.0037 8.1E-08 57.7 5.6 62 9-73 155-216 (231)
69 COG5417 Uncharacterized small 96.6 0.0093 2E-07 46.4 6.8 68 5-72 11-80 (81)
70 PF11470 TUG-UBL1: GLUT4 regul 96.5 0.011 2.4E-07 45.0 6.9 63 7-72 3-65 (65)
71 KOG1639 Steroid reductase requ 96.4 0.0071 1.5E-07 57.3 6.3 71 1-73 1-77 (297)
72 TIGR00601 rad23 UV excision re 96.4 0.0038 8.2E-08 63.1 4.8 40 170-212 335-374 (378)
73 cd01773 Faf1_like1_UBX Faf1 ik 96.3 0.033 7.2E-07 44.4 8.8 69 2-74 7-80 (82)
74 KOG0418 Ubiquitin-protein liga 96.3 0.0046 9.9E-08 56.1 4.3 46 165-213 155-200 (200)
75 COG5227 SMT3 Ubiquitin-like pr 96.2 0.018 3.8E-07 46.5 6.6 68 3-73 27-94 (103)
76 PF13019 Telomere_Sde2: Telome 96.2 0.037 8.1E-07 49.5 9.2 76 1-79 1-88 (162)
77 cd01774 Faf1_like2_UBX Faf1 ik 95.9 0.064 1.4E-06 42.9 8.5 68 2-73 6-83 (85)
78 smart00546 CUE Domain that may 95.9 0.023 5E-07 39.3 5.1 39 172-213 2-42 (43)
79 cd01771 Faf1_UBX Faf1 UBX doma 95.7 0.092 2E-06 41.5 8.5 67 2-72 6-77 (80)
80 KOG3206 Alpha-tubulin folding 94.8 0.072 1.6E-06 49.3 6.2 70 2-74 3-80 (234)
81 KOG0011 Nucleotide excision re 94.6 0.044 9.5E-07 53.9 4.5 40 171-213 297-336 (340)
82 PF15044 CLU_N: Mitochondrial 94.5 0.065 1.4E-06 42.0 4.4 56 17-74 1-57 (76)
83 PF09288 UBA_3: Fungal ubiquit 93.8 0.07 1.5E-06 39.3 3.1 23 173-198 10-32 (55)
84 KOG0012 DNA damage inducible p 93.4 0.12 2.5E-06 51.6 4.9 69 1-72 1-73 (380)
85 PRK06437 hypothetical protein; 93.2 0.63 1.4E-05 35.4 7.7 54 9-74 9-62 (67)
86 PF14453 ThiS-like: ThiS-like 93.1 0.49 1.1E-05 35.2 6.7 55 1-74 1-55 (57)
87 PF11626 Rap1_C: TRF2-interact 93.0 0.15 3.2E-06 40.9 4.2 36 176-214 1-36 (87)
88 PF09379 FERM_N: FERM N-termin 92.8 0.65 1.4E-05 35.7 7.5 68 5-74 1-74 (80)
89 KOG0010 Ubiquitin-like protein 92.7 0.16 3.5E-06 52.5 5.0 42 169-213 451-493 (493)
90 PLN02799 Molybdopterin synthas 92.4 0.52 1.1E-05 36.8 6.6 66 1-73 2-76 (82)
91 PF06972 DUF1296: Protein of u 92.1 0.39 8.3E-06 35.9 5.0 41 172-213 5-45 (60)
92 cd00754 MoaD Ubiquitin domain 91.9 0.77 1.7E-05 35.2 7.0 57 12-73 17-74 (80)
93 PF07499 RuvA_C: RuvA, C-termi 91.8 0.23 5E-06 35.2 3.5 37 172-211 3-39 (47)
94 PRK08364 sulfur carrier protei 91.5 1.3 2.7E-05 33.9 7.6 53 9-73 10-64 (70)
95 KOG2561 Adaptor protein NUB1, 91.4 0.21 4.6E-06 51.2 3.9 58 15-75 54-111 (568)
96 PRK06488 sulfur carrier protei 90.9 0.95 2.1E-05 33.9 6.3 60 1-74 1-60 (65)
97 cd06406 PB1_P67 A PB1 domain i 89.9 1.1 2.3E-05 35.7 5.9 37 12-51 12-48 (80)
98 cd06409 PB1_MUG70 The MUG70 pr 89.6 1.2 2.6E-05 35.9 6.1 74 2-75 2-84 (86)
99 KOG2561 Adaptor protein NUB1, 88.9 0.52 1.1E-05 48.4 4.3 42 173-217 430-471 (568)
100 PF14555 UBA_4: UBA-like domai 88.5 1.3 2.7E-05 30.7 4.9 37 173-212 1-38 (43)
101 cd06407 PB1_NLP A PB1 domain i 88.4 2.9 6.4E-05 33.2 7.6 71 1-75 1-81 (82)
102 PF12754 Blt1: Cell-cycle cont 88.0 0.15 3.3E-06 49.9 0.0 60 2-64 80-159 (309)
103 PF10790 DUF2604: Protein of U 86.9 3 6.5E-05 31.8 6.3 67 9-75 4-71 (76)
104 PRK05863 sulfur carrier protei 86.3 2.7 5.9E-05 31.6 6.0 60 1-74 1-60 (65)
105 smart00295 B41 Band 4.1 homolo 86.1 6.8 0.00015 35.0 9.7 61 2-65 5-72 (207)
106 PF14836 Ubiquitin_3: Ubiquiti 85.9 4.6 9.9E-05 32.7 7.4 62 11-76 14-81 (88)
107 PF02597 ThiS: ThiS family; I 85.4 2 4.3E-05 32.6 5.0 60 12-74 13-72 (77)
108 PRK05659 sulfur carrier protei 85.4 3.9 8.6E-05 30.4 6.5 61 1-74 1-61 (66)
109 TIGR01682 moaD molybdopterin c 84.7 5.3 0.00011 30.9 7.2 58 9-73 13-74 (80)
110 smart00666 PB1 PB1 domain. Pho 84.3 4.8 0.0001 31.0 6.8 45 2-50 3-47 (81)
111 PF11620 GABP-alpha: GA-bindin 83.6 3.2 7E-05 33.3 5.5 62 12-76 4-65 (88)
112 PRK08053 sulfur carrier protei 83.2 6.6 0.00014 29.5 6.9 61 1-74 1-61 (66)
113 COG5207 UBP14 Isopeptidase T [ 82.9 1.7 3.6E-05 45.6 4.6 40 173-215 559-599 (749)
114 KOG0944 Ubiquitin-specific pro 82.3 1.9 4.1E-05 46.5 4.8 42 172-216 571-613 (763)
115 cd06408 PB1_NoxR The PB1 domai 81.9 5.9 0.00013 31.9 6.5 46 2-51 2-48 (86)
116 PF10209 DUF2340: Uncharacteri 81.9 3.6 7.8E-05 35.2 5.5 60 16-75 21-108 (122)
117 PF08938 HBS1_N: HBS1 N-termin 81.8 0.81 1.8E-05 36.0 1.5 27 187-213 43-70 (79)
118 KOG2086 Protein tyrosine phosp 81.7 2.2 4.8E-05 43.1 4.8 65 2-68 307-374 (380)
119 PF11069 DUF2870: Protein of u 81.7 2.2 4.7E-05 35.1 3.9 33 45-77 3-36 (98)
120 TIGR01687 moaD_arch MoaD famil 81.4 10 0.00022 29.8 7.8 58 12-73 17-82 (88)
121 cd01760 RBD Ubiquitin-like dom 81.0 4.7 0.0001 31.3 5.5 45 3-50 2-46 (72)
122 PRK06944 sulfur carrier protei 79.6 12 0.00026 27.6 7.2 60 1-74 1-60 (65)
123 COG5207 UBP14 Isopeptidase T [ 78.8 0.76 1.7E-05 48.0 0.5 38 172-212 621-658 (749)
124 COG2104 ThiS Sulfur transfer p 78.7 11 0.00024 28.9 6.8 62 1-73 1-62 (68)
125 PRK07696 sulfur carrier protei 78.1 11 0.00023 28.6 6.6 61 1-74 1-62 (67)
126 cd00565 ThiS ThiaminS ubiquiti 76.9 9.5 0.00021 28.4 6.0 57 8-74 4-60 (65)
127 PRK07440 hypothetical protein; 76.5 11 0.00024 28.8 6.3 57 8-74 9-65 (70)
128 smart00455 RBD Raf-like Ras-bi 76.4 9.5 0.00021 29.3 5.9 49 3-54 2-52 (70)
129 PF00564 PB1: PB1 domain; Int 75.6 9.7 0.00021 29.3 6.0 45 2-50 3-48 (84)
130 PRK06083 sulfur carrier protei 75.1 13 0.00027 29.8 6.5 57 8-74 23-79 (84)
131 cd05992 PB1 The PB1 domain is 75.0 11 0.00025 28.6 6.2 45 2-50 2-47 (81)
132 cd07922 CarBa CarBa is the A s 74.1 6.5 0.00014 31.3 4.6 28 300-328 6-33 (81)
133 cd01611 GABARAP Ubiquitin doma 73.7 20 0.00043 30.2 7.7 59 15-76 45-107 (112)
134 PF07862 Nif11: Nitrogen fixat 73.4 5.8 0.00013 27.9 3.8 32 300-332 6-39 (49)
135 COG5100 NPL4 Nuclear pore prot 73.3 13 0.00027 38.1 7.4 73 1-75 1-79 (571)
136 PF14732 UAE_UbL: Ubiquitin/SU 73.0 6.9 0.00015 31.3 4.6 52 19-73 7-67 (87)
137 KOG2982 Uncharacterized conser 71.6 4.2 9.2E-05 40.4 3.5 55 16-73 353-415 (418)
138 PRK12332 tsf elongation factor 71.2 6.7 0.00014 36.4 4.6 36 174-212 6-42 (198)
139 PF12616 DUF3775: Protein of u 71.1 5.8 0.00012 31.1 3.6 40 175-215 20-60 (75)
140 PF07223 DUF1421: Protein of u 70.7 4.6 0.0001 40.7 3.7 29 166-197 315-343 (358)
141 TIGR01683 thiS thiamine biosyn 70.1 17 0.00036 27.0 5.8 57 8-74 3-59 (64)
142 TIGR00116 tsf translation elon 69.5 7.1 0.00015 38.3 4.6 36 174-212 6-42 (290)
143 PF10407 Cytokin_check_N: Cdc1 68.7 15 0.00033 28.6 5.4 63 11-76 3-71 (73)
144 PTZ00380 microtubule-associate 68.5 21 0.00046 30.6 6.7 59 15-76 45-106 (121)
145 cd01787 GRB7_RA RA (RAS-associ 68.2 37 0.0008 27.3 7.7 67 3-71 5-81 (85)
146 PRK11840 bifunctional sulfur c 67.3 17 0.00037 36.3 6.8 62 1-75 1-62 (326)
147 cd06398 PB1_Joka2 The PB1 doma 66.1 36 0.00079 27.5 7.4 69 3-75 3-87 (91)
148 PF08337 Plexin_cytopl: Plexin 66.1 19 0.00042 38.3 7.3 65 11-76 202-290 (539)
149 PF02196 RBD: Raf-like Ras-bin 65.4 35 0.00075 26.2 6.9 57 3-62 3-61 (71)
150 PF14451 Ub-Mut7C: Mut7-C ubiq 65.2 26 0.00055 27.8 6.2 52 10-73 22-74 (81)
151 PF02991 Atg8: Autophagy prote 65.2 27 0.00058 29.0 6.6 58 16-76 38-99 (104)
152 smart00144 PI3K_rbd PI3-kinase 65.1 39 0.00085 28.0 7.7 75 3-77 20-106 (108)
153 KOG1364 Predicted ubiquitin re 64.4 7.1 0.00015 39.1 3.5 66 2-69 279-349 (356)
154 CHL00098 tsf elongation factor 64.1 11 0.00024 34.9 4.6 36 174-212 3-39 (200)
155 PRK06369 nac nascent polypepti 63.9 15 0.00033 31.1 5.0 38 173-213 77-115 (115)
156 PRK09377 tsf elongation factor 63.4 11 0.00024 37.0 4.6 36 174-212 7-43 (290)
157 PF00794 PI3K_rbd: PI3-kinase 63.2 26 0.00057 28.6 6.3 75 2-76 18-103 (106)
158 smart00727 STI1 Heat shock cha 63.2 12 0.00026 25.1 3.6 32 289-323 4-36 (41)
159 PF14551 MCM_N: MCM N-terminal 63.0 1.8 3.9E-05 35.6 -0.7 56 277-332 6-65 (121)
160 KOG4250 TANK binding protein k 62.7 23 0.0005 38.7 7.2 43 9-54 323-365 (732)
161 PF08587 UBA_2: Ubiquitin asso 62.5 2.6 5.5E-05 30.0 0.0 21 175-198 5-26 (46)
162 PF00788 RA: Ras association ( 61.5 71 0.0015 24.6 8.3 55 3-58 5-69 (93)
163 PF15652 Tox-SHH: HNH/Endo VII 60.8 10 0.00022 31.3 3.3 31 168-201 67-97 (100)
164 TIGR02958 sec_mycoba_snm4 secr 60.3 57 0.0012 33.9 9.5 72 2-74 4-79 (452)
165 cd06396 PB1_NBR1 The PB1 domai 60.1 38 0.00082 27.0 6.3 35 2-40 2-38 (81)
166 PF02954 HTH_8: Bacterial regu 59.8 8.3 0.00018 26.3 2.3 27 187-215 5-31 (42)
167 cd01768 RA RA (Ras-associating 59.6 80 0.0017 24.4 9.1 50 10-60 12-68 (87)
168 cd06411 PB1_p51 The PB1 domain 59.2 36 0.00079 26.9 6.0 36 12-50 8-43 (78)
169 PF08783 DWNN: DWNN domain; I 59.0 35 0.00076 26.7 5.9 32 4-35 2-35 (74)
170 PF14533 USP7_C2: Ubiquitin-sp 56.8 31 0.00067 32.1 6.2 48 12-62 35-90 (213)
171 PF12053 DUF3534: Domain of un 56.7 71 0.0015 28.3 8.0 74 1-76 1-81 (145)
172 cd01612 APG12_C Ubiquitin-like 55.6 1.1E+02 0.0023 24.6 8.6 60 14-76 19-82 (87)
173 KOG2689 Predicted ubiquitin re 55.0 39 0.00085 32.9 6.6 68 2-72 212-284 (290)
174 PRK13901 ruvA Holliday junctio 55.0 17 0.00037 33.7 4.1 29 171-202 143-171 (196)
175 PF11333 DUF3135: Protein of u 54.3 16 0.00034 29.3 3.3 38 282-325 2-39 (83)
176 PF14327 CSTF2_hinge: Hinge do 54.2 6.7 0.00014 31.2 1.2 31 286-320 35-65 (84)
177 KOG2689 Predicted ubiquitin re 53.8 21 0.00045 34.8 4.6 37 176-215 4-42 (290)
178 PF08825 E2_bind: E2 binding d 53.5 15 0.00033 29.3 3.1 58 15-73 1-69 (84)
179 cd07921 PCA_45_Doxase_A_like S 52.1 28 0.0006 29.2 4.5 27 300-328 16-42 (106)
180 KOG2507 Ubiquitin regulatory p 51.8 26 0.00056 36.2 5.1 73 2-77 316-393 (506)
181 PRK11130 moaD molybdopterin sy 51.6 93 0.002 24.0 7.3 54 15-73 19-75 (81)
182 cd06410 PB1_UP2 Uncharacterize 51.4 55 0.0012 26.8 6.2 40 5-48 17-56 (97)
183 TIGR00264 alpha-NAC-related pr 51.1 31 0.00068 29.3 4.7 36 173-211 79-115 (116)
184 TIGR00084 ruvA Holliday juncti 51.0 18 0.00038 33.3 3.5 29 171-202 146-174 (191)
185 PF09722 DUF2384: Protein of u 50.4 37 0.0008 24.2 4.5 20 194-213 2-21 (54)
186 PF09494 Slx4: Slx4 endonuclea 48.9 12 0.00026 28.1 1.7 19 286-304 2-20 (64)
187 KOG3391 Transcriptional co-rep 46.4 22 0.00047 31.1 3.1 31 51-81 112-142 (151)
188 PF02505 MCR_D: Methyl-coenzym 45.8 40 0.00087 30.0 4.8 48 12-67 76-124 (153)
189 PRK14602 ruvA Holliday junctio 45.5 25 0.00054 32.6 3.7 27 171-200 154-180 (203)
190 PF02017 CIDE-N: CIDE-N domain 44.5 56 0.0012 25.8 5.0 64 3-75 5-71 (78)
191 PF02824 TGS: TGS domain; Int 43.7 65 0.0014 23.6 5.0 59 3-73 1-59 (60)
192 cd01764 Urm1 Urm1-like ubuitin 43.4 72 0.0016 25.8 5.7 54 15-73 23-88 (94)
193 PRK01777 hypothetical protein; 43.2 1.6E+02 0.0034 24.1 7.6 69 1-74 4-75 (95)
194 TIGR03260 met_CoM_red_D methyl 43.1 46 0.001 29.5 4.7 47 12-66 75-121 (150)
195 PF11816 DUF3337: Domain of un 41.7 76 0.0017 31.5 6.7 64 15-78 252-330 (331)
196 PRK08769 DNA polymerase III su 40.8 51 0.0011 32.7 5.3 40 171-213 173-212 (319)
197 PRK14606 ruvA Holliday junctio 40.5 36 0.00077 31.2 3.8 28 171-201 142-169 (188)
198 COG3760 Uncharacterized conser 40.3 42 0.00092 29.9 4.0 60 2-74 47-106 (164)
199 COG0632 RuvA Holliday junction 40.3 32 0.00068 32.0 3.5 34 172-208 156-190 (201)
200 KOG3439 Protein conjugation fa 39.1 1.7E+02 0.0036 24.9 7.1 62 12-76 46-111 (116)
201 PRK14604 ruvA Holliday junctio 38.6 35 0.00076 31.5 3.5 28 172-202 149-176 (195)
202 PF12588 PSDC: Phophatidylseri 38.6 16 0.00035 32.1 1.2 48 283-331 2-54 (141)
203 PF13487 HD_5: HD domain; PDB: 38.3 14 0.0003 27.5 0.7 36 290-325 8-43 (64)
204 cd01817 RGS12_RBD Ubiquitin do 38.2 1E+02 0.0023 24.1 5.5 47 5-54 4-52 (73)
205 COG0089 RplW Ribosomal protein 38.1 1.1E+02 0.0025 25.0 6.0 60 10-72 21-90 (94)
206 cd06397 PB1_UP1 Uncharacterize 37.8 1.1E+02 0.0025 24.4 5.7 57 2-62 2-63 (82)
207 PF07462 MSP1_C: Merozoite sur 37.3 69 0.0015 34.1 5.7 10 323-332 415-424 (574)
208 PRK14600 ruvA Holliday junctio 36.9 41 0.00088 30.8 3.6 27 171-200 144-170 (186)
209 COG0264 Tsf Translation elonga 36.1 57 0.0012 32.1 4.6 36 174-211 7-42 (296)
210 cd02667 Peptidase_C19K A subfa 35.9 44 0.00096 31.8 3.9 51 276-332 14-64 (279)
211 COG4055 McrD Methyl coenzyme M 35.8 83 0.0018 28.0 5.1 50 12-69 84-134 (165)
212 PRK14601 ruvA Holliday junctio 35.6 43 0.00094 30.6 3.6 26 171-199 141-166 (183)
213 cd07321 Extradiol_Dioxygenase_ 35.4 47 0.001 25.9 3.3 20 309-328 13-32 (77)
214 PF14327 CSTF2_hinge: Hinge do 34.8 43 0.00093 26.6 3.0 37 280-318 42-81 (84)
215 PF00276 Ribosomal_L23: Riboso 34.5 78 0.0017 25.4 4.5 41 11-54 21-62 (91)
216 PRK14603 ruvA Holliday junctio 34.3 51 0.0011 30.4 3.9 27 171-200 151-177 (197)
217 KOG4842 Protein involved in si 34.3 10 0.00022 36.5 -0.8 60 9-72 11-70 (278)
218 PF12436 USP7_ICP0_bdg: ICP0-b 34.1 64 0.0014 30.7 4.6 71 2-75 70-152 (249)
219 PF12552 DUF3741: Protein of u 33.9 50 0.0011 23.5 2.9 20 313-332 25-44 (46)
220 smart00266 CAD Domains present 33.8 1.3E+02 0.0029 23.5 5.5 38 21-61 19-58 (74)
221 PF14847 Ras_bdg_2: Ras-bindin 33.7 1.2E+02 0.0026 25.2 5.6 60 3-62 3-70 (105)
222 PF14848 HU-DNA_bdg: DNA-bindi 33.4 93 0.002 26.3 5.1 38 172-215 31-70 (124)
223 cd07923 Gallate_dioxygenase_C 32.8 84 0.0018 25.8 4.4 26 300-327 8-33 (94)
224 PRK07993 DNA polymerase III su 32.8 81 0.0018 31.4 5.3 39 172-213 169-208 (334)
225 PF14483 Cut8_M: Cut8 dimerisa 32.0 40 0.00087 22.9 2.0 25 296-320 11-35 (38)
226 PRK05738 rplW 50S ribosomal pr 30.9 1.2E+02 0.0027 24.4 5.1 40 10-52 20-60 (92)
227 KOG4572 Predicted DNA-binding 30.8 94 0.002 34.9 5.6 63 9-74 3-69 (1424)
228 PF06234 TmoB: Toluene-4-monoo 30.7 1.8E+02 0.004 23.4 5.9 62 13-75 17-84 (85)
229 cd06539 CIDE_N_A CIDE_N domain 30.0 1.2E+02 0.0027 23.9 4.8 48 21-73 21-70 (78)
230 PF04126 Cyclophil_like: Cyclo 29.9 31 0.00068 29.1 1.6 29 1-30 1-29 (120)
231 PRK14109 bifunctional glutamin 29.2 2.9E+02 0.0064 31.8 9.6 86 174-329 9-115 (1007)
232 KOG3321 Mitochondrial ribosoma 28.4 88 0.0019 28.2 4.1 44 290-333 117-173 (175)
233 PF07462 MSP1_C: Merozoite sur 27.9 2.3E+02 0.0049 30.4 7.6 20 164-183 350-369 (574)
234 COG3609 Predicted transcriptio 27.9 75 0.0016 25.4 3.4 31 166-198 7-39 (89)
235 PF12436 USP7_ICP0_bdg: ICP0-b 27.6 1.1E+02 0.0024 29.0 5.1 43 2-47 178-223 (249)
236 PF09469 Cobl: Cordon-bleu ubi 27.3 96 0.0021 24.6 3.7 43 29-77 2-47 (79)
237 KOG4598 Putative ubiquitin-spe 27.0 1.1E+02 0.0024 33.8 5.3 60 12-76 878-943 (1203)
238 cd01775 CYR1_RA Ubiquitin doma 26.8 2.6E+02 0.0056 23.1 6.3 33 3-35 5-37 (97)
239 PF11547 E3_UbLigase_EDD: E3 u 26.7 2.1E+02 0.0045 20.7 4.9 37 173-212 10-48 (53)
240 KOG4147 Uncharacterized conser 26.6 1.2E+02 0.0025 25.7 4.2 59 16-74 28-112 (127)
241 KOG2019 Metalloendoprotease HM 26.4 1.9E+02 0.0042 32.1 6.9 41 273-313 445-486 (998)
242 TIGR03798 ocin_TIGR03798 bacte 26.3 85 0.0018 23.3 3.2 30 302-332 6-37 (64)
243 KOG4248 Ubiquitin-like protein 25.9 34 0.00074 39.0 1.4 61 6-69 330-390 (1143)
244 PRK09814 beta-1,6-galactofuran 25.5 78 0.0017 30.9 3.7 38 178-217 208-264 (333)
245 PF03474 DMA: DMRTA motif; In 25.3 93 0.002 21.4 2.9 25 187-211 15-39 (39)
246 PF11834 DUF3354: Domain of un 24.9 95 0.0021 23.9 3.3 44 21-73 26-69 (69)
247 cd01615 CIDE_N CIDE_N domain, 24.7 1.6E+02 0.0035 23.3 4.6 38 21-61 21-60 (78)
248 PF01988 VIT1: VIT family; In 24.6 1.2E+02 0.0026 28.0 4.6 39 171-213 81-119 (213)
249 PF08169 RBB1NT: RBB1NT (NUC16 24.1 48 0.001 27.3 1.6 21 194-217 75-96 (96)
250 cd01777 SNX27_RA Ubiquitin dom 23.8 1.2E+02 0.0026 24.6 3.7 41 2-45 3-43 (87)
251 cd06404 PB1_aPKC PB1 domain is 23.6 3.8E+02 0.0082 21.5 6.5 44 2-49 2-46 (83)
252 cd05484 retropepsin_like_LTR_2 23.3 1.3E+02 0.0028 23.4 4.0 52 2-54 2-54 (91)
253 PF10346 Con-6: Conidiation pr 23.2 67 0.0015 21.7 1.9 17 188-204 2-18 (36)
254 PF11372 DUF3173: Domain of un 22.7 1E+02 0.0022 23.1 2.9 21 176-199 6-26 (59)
255 TIGR03636 L23_arch archaeal ri 22.4 1.8E+02 0.0039 22.8 4.5 33 11-46 15-47 (77)
256 PF03931 Skp1_POZ: Skp1 family 22.2 65 0.0014 23.7 1.9 32 1-32 1-32 (62)
257 PRK06090 DNA polymerase III su 21.7 1.5E+02 0.0033 29.4 4.9 38 171-213 168-205 (319)
258 PF14533 USP7_C2: Ubiquitin-sp 21.4 81 0.0017 29.3 2.8 51 10-63 132-194 (213)
259 cd01818 TIAM1_RBD Ubiquitin do 21.3 2.6E+02 0.0056 22.1 5.1 39 5-46 4-42 (77)
260 KOG1661 Protein-L-isoaspartate 21.2 97 0.0021 29.4 3.2 29 168-199 6-35 (237)
261 PF14053 DUF4248: Domain of un 21.2 78 0.0017 24.3 2.2 20 286-305 25-44 (69)
262 PF09030 Creb_binding: Creb bi 21.2 71 0.0015 26.6 2.0 31 277-307 60-93 (104)
263 PF10440 WIYLD: Ubiquitin-bind 21.1 1.4E+02 0.003 22.9 3.4 26 170-198 9-34 (65)
264 PF13974 YebO: YebO-like prote 20.8 88 0.0019 24.9 2.4 32 287-318 17-50 (80)
265 cd06536 CIDE_N_ICAD CIDE_N dom 20.8 2.1E+02 0.0046 22.7 4.6 38 21-61 21-62 (80)
266 PRK14605 ruvA Holliday junctio 20.6 1.1E+02 0.0025 28.0 3.5 27 172-201 148-174 (194)
267 cd06537 CIDE_N_B CIDE_N domain 20.3 2.2E+02 0.0049 22.7 4.6 63 3-73 5-69 (81)
268 KOG3073 Protein required for 1 20.2 1.5E+02 0.0033 27.8 4.2 36 39-74 156-193 (236)
No 1
>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=100.00 E-value=1.3e-75 Score=581.01 Aligned_cols=328 Identities=41% Similarity=0.699 Sum_probs=221.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCCCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k~~ 80 (364)
|+|+||+++|++|.|+|++++||.+||++|+...|++.+++++|||||+||+|+|+++|++|+|+++++|+||++|+|..
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k~k~~ 80 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKPKTG 80 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccCCCC
Confidence 89999999999999999999999999999999988545899999999999999999999999999999999999998874
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCcccc
Q 017906 81 SSGASTVSAAPANQAQTTSSAPPTSTQPTTTSQTPAPTVAPPQSVPESAPPPAAPAPAPAPAPA-PAPAPAPVSSVSDVY 159 (364)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 159 (364)
+...+++...+.+++.++. ..+ .+......++++.++ ..+ .+.+ .+++ +...+.+.+. ....
T Consensus 81 ~~~~~~~~~~~~~~p~~~~-~~~---~~~~~~~~~~~~~~~-----~~~------~~~~-~~~~~~~~~~~~~~~-~~~~ 143 (378)
T TIGR00601 81 TGKSAPPAATPTSAPTPTP-SPP---ASPASGMSAAPASAV-----EEK------SPSE-ESATATAPESPSTSV-PSSG 143 (378)
T ss_pred CCCCCCCCCCCCCCCCCCC-CCC---CCCCCCCCCCCCCCC-----ccc------cccC-CCCCCCCCCCCCccc-cccC
Confidence 3222111101101011100 000 000000000000000 000 0000 0000 0000000000 0001
Q ss_pred ccccccccCCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhCCCCCCCCCccccccCCCCCCCCCCcc
Q 017906 160 GQAASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTAVPPVARASAGGQAGNPPAQT 239 (364)
Q Consensus 160 ~~~~s~l~~g~~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~ 239 (364)
..+.|+||+|++||++|++||+|| |+|+||+|||||||||||||||||++|||++++...+ ... +...
T Consensus 144 ~~~~s~l~~g~~~e~~I~~i~eMG---f~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~----~~~----~~~~- 211 (378)
T TIGR00601 144 SDAASTLVVGSERETTIEEIMEMG---YEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEP----VQQ----TAAS- 211 (378)
T ss_pred CCcccccccchHHHHHHHHHHHhC---CCHHHHHHHHHHHhCCHHHHHHHHHhCCCcccccccc----CCC----cccc-
Confidence 246789999999999999999999 9999999999999999999999999999988652111 100 0000
Q ss_pred ccCCCCCCCCCCCCCCCCCCCcCCCCCCCC------CCCCCCchHhhhCcHHHHHHHHHHHhCccchHHHHHHHhhhCHH
Q 017906 240 QAQQPAAPAPTSGPNANPLDLFPQGLPNMG------SNAGAGTLDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPH 313 (364)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~lf~~~~~~~~------~~~~~~~l~~Lr~~pqf~~lR~~vq~nP~~L~~~Lqql~~~nP~ 313 (364)
. . ....+....+ |||++++.++. .+.|+++|+|||++|||++||++||+||++|++|||||+++||+
T Consensus 212 ~-----~-~~~~~~~~~~-~lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L~~lLqql~~~nP~ 284 (378)
T TIGR00601 212 T-----A-AATTETPQHG-SVFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQQNPQLLPPLLQQIGQENPQ 284 (378)
T ss_pred c-----c-cccCCCCCCc-chhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHHHCHHHHHHHHHHHHhhCHH
Confidence 0 0 0111112222 99998864321 01245699999999999999999999999999999999999999
Q ss_pred HHHHHHHCHHHHHHHhcCCCCC--CCCccc---ccccC-CCCc--ceecCHHHHhhcCC
Q 017906 314 LMRLIQEHQTDFLRLINEPVEG--GEGNVL---GQLAS-AMPQ--AVTVTPEEREAIEP 364 (364)
Q Consensus 314 L~~~I~~n~e~Fl~~l~e~~~~--~~g~~~---~~~~~-~~~~--~i~lT~ee~~AIeR 364 (364)
|+|+|++|||+||+|||++.++ ++++.. ++..+ +.++ .|+||+||++||+|
T Consensus 285 l~q~I~~n~e~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeR 343 (378)
T TIGR00601 285 LLQQISQHPEQFLQMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIER 343 (378)
T ss_pred HHHHHHHCHHHHHHHhcCcccccccccccccccccccccCcccccccccCHHHHHHHHH
Confidence 9999999999999999998532 112111 11111 1112 69999999999998
No 2
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=100.00 E-value=2.8e-76 Score=562.26 Aligned_cols=303 Identities=55% Similarity=0.853 Sum_probs=232.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCCCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k~~ 80 (364)
|+|+||+++|.+|+|+|.+++||.+||++|+...|.+ +|++.|||||+||+|+|+.++.+|+|+++++|+||++|+|..
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~d-yP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~k~~ 79 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPD-YPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKDKSA 79 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCC-CchhhheeeecceeccCCcchhhhccccCceEEEEEecCccc
Confidence 8999999999999999999999999999999999988 999999999999999999999999999999999999999831
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccc
Q 017906 81 SSGASTVSAAPANQAQTTSSAPPTSTQPTTTSQTPAPTVAPPQSVPESAPPPAAPAPAPAPAPAPAPAPAPVSSVSDVYG 160 (364)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (364)
.... ++.+ .+ + ...+..+.+|.. +.+.. ..+ .++ ..++....++
T Consensus 80 ~t~~-----ap~s--~~---~----------~~~p~~~~ap~~-s~a~~-------~s~-~~~-------~~~~~~~~~~ 123 (340)
T KOG0011|consen 80 STQV-----APQS--SA---A----------THLPKAAEAPPS-SAAED-------ASP-ATP-------AQTSQEDTYE 123 (340)
T ss_pred ccCC-----CCCC--cc---c----------cCCCccCCCCCc-ccccc-------CCC-Ccc-------ccccccchhh
Confidence 1110 0000 00 0 000011111100 00000 000 000 0112234467
Q ss_pred cccccccCCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhCCCCCCCCCccccccCCCCCCCCCCccc
Q 017906 161 QAASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTAVPPVARASAGGQAGNPPAQTQ 240 (364)
Q Consensus 161 ~~~s~l~~g~~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (364)
.+.|+|++|.++|.+|.+||+|| |+||+|+|||||||||||||||||++|||+....+.+...++..
T Consensus 124 ~aas~Lv~G~~~e~~V~~Im~MG---y~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~~~~~~~~~---------- 190 (340)
T KOG0011|consen 124 IAASTLVVGSEYEQTVQQIMEMG---YDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPEPEKSTAAA---------- 190 (340)
T ss_pred hhhhhhhccchhHHHHHHHHHhC---ccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCcccCCcccC----------
Confidence 78999999999999999999999 99999999999999999999999999999986655532111100
Q ss_pred cCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCchHhhhCcHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHH
Q 017906 241 AQQPAAPAPTSGPNANPLDLFPQGLPNMGSNAGAGTLDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQE 320 (364)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~lf~~~~~~~~~~~~~~~l~~Lr~~pqf~~lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~ 320 (364)
+....+.++.++|++.+.... |+++|+|||++|||++||++||+||+||++||||||++||+|+|+|++
T Consensus 191 --------~~~p~~~~p~~~~~~~~~~~~---~~~~l~fLr~~~qf~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q~Iq~ 259 (340)
T KOG0011|consen 191 --------AELPANAQPLDLFPQGAVEAS---GGDPLEFLRNQPQFQQLRQMIQQNPELLHPLLQQLGKQNPQLLQLIQE 259 (340)
T ss_pred --------CCCCCCCChhhcCCccchhhh---cCCchhhhhccHHHHHHHHHHhhCHHHHHHHHHHHhhhCHHHHHHHHH
Confidence 000002345788888664443 348999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHhcCCCCCCCCcccccccCCCC-cceecCHHHHhhcCC
Q 017906 321 HQTDFLRLINEPVEGGEGNVLGQLASAMP-QAVTVTPEEREAIEP 364 (364)
Q Consensus 321 n~e~Fl~~l~e~~~~~~g~~~~~~~~~~~-~~i~lT~ee~~AIeR 364 (364)
||++||+|||||.+|+++++.+..+..++ ++|+||+||++||+|
T Consensus 260 nqe~Fl~mlnep~~~~~~~~~~~~~~~~~~~~I~vtpee~eAIeR 304 (340)
T KOG0011|consen 260 NQEAFLQLLNEPVEGGDGGGTGAPAAEGPGHQIQVTPEEKEAIER 304 (340)
T ss_pred HHHHHHHHhhcccccccccccccccccCCcceEecCHHHHHHHHH
Confidence 99999999999998755555555554454 689999999999998
No 3
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=99.88 E-value=4.3e-23 Score=153.74 Aligned_cols=58 Identities=60% Similarity=1.070 Sum_probs=54.6
Q ss_pred hHhhhCcHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHCHHHHHHHhcCCCC
Q 017906 277 LDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVE 334 (364)
Q Consensus 277 l~~Lr~~pqf~~lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~n~e~Fl~~l~e~~~ 334 (364)
|+|||++|+|++||++||+||++|++|||+|+++||+|+++|++|||+|++||+++.+
T Consensus 1 L~~Lr~~Pqf~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~ 58 (59)
T PF09280_consen 1 LEFLRNNPQFQQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEEFLRLLNEPAE 58 (59)
T ss_dssp CGGGTTSHHHHHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHHHHHHHHSTS-
T ss_pred ChHHHcChHHHHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHHHHHHHcCCCC
Confidence 6899999999999999999999999999999999999999999999999999999754
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=99.77 E-value=2.2e-18 Score=133.97 Aligned_cols=73 Identities=27% Similarity=0.403 Sum_probs=71.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEec
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k 76 (364)
|+|+||+++|+++.++|++++||.+||++|+++.| +++++|+|+|+||.|+|+.+|++|||+++++|+++++.
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~g---i~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLN---VPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---CCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence 89999999999999999999999999999999999 99999999999999999999999999999999999863
No 5
>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=99.75 E-value=9.1e-18 Score=130.88 Aligned_cols=75 Identities=55% Similarity=0.790 Sum_probs=72.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCC--CCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVY--PASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~i--p~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k 78 (364)
|+|+||+++|++|.++|++++||.+||++|+...| + ++++|+|+|+|+.|+|+.+|++|||++|++|++++++++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~---i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~~ 77 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG---CDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSKPK 77 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC---CCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEecCC
Confidence 89999999999999999999999999999999999 7 999999999999999999999999999999999998864
No 6
>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=99.73 E-value=1.1e-17 Score=131.87 Aligned_cols=74 Identities=22% Similarity=0.354 Sum_probs=70.4
Q ss_pred CEEEEEeCCCcE-EEEE-eCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 1 MKVFVKTLKGTH-FEIE-VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 1 MkI~VKtl~gk~-~~ie-V~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+|+||+++|++ +.|+ +++++||.+||++|++..| +++++|||+|+||+|+|+.+|++|||+++++|+|+++..
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~g---i~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFN---VEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhC---CCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 899999999997 7895 8999999999999999999 999999999999999999999999999999999998753
No 7
>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=99.72 E-value=2.7e-17 Score=127.90 Aligned_cols=73 Identities=27% Similarity=0.369 Sum_probs=69.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k 78 (364)
|+|+||+. +++.++|++++||.+||.+|+++.| +|+++|+|+|+||.|+|+++|++|+|+++++||++++.+.
T Consensus 1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~G 73 (74)
T cd01793 1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEG---IDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLG 73 (74)
T ss_pred CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhC---CCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence 89999974 7899999999999999999999999 9999999999999999999999999999999999998653
No 8
>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=99.72 E-value=2.2e-17 Score=128.58 Aligned_cols=71 Identities=18% Similarity=0.328 Sum_probs=68.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+||++.|+.+.++|++++||.+||++|+...| +++++|||+|+|++|+|+++|++|||+++++||+..
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~---~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 78999999999999999999999999999999999 999999999999999999999999999999999874
No 9
>PTZ00044 ubiquitin; Provisional
Probab=99.71 E-value=4.8e-17 Score=126.62 Aligned_cols=74 Identities=28% Similarity=0.446 Sum_probs=72.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+|+||+++|+++.++|++++||.+||.+|+...| +|++.|+|+|+|+.|+|+.+|++|+|+++++||++++.+
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~ 74 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG---IDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---CCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999999864
No 10
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.69 E-value=7.8e-17 Score=133.54 Aligned_cols=75 Identities=33% Similarity=0.546 Sum_probs=72.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k 78 (364)
|+|+||+++|+++.|+|++++||.+||++|+...| +++++|||+|+||.|+|+.+|++|+|+++++|+++++.+.
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g---ip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~G 102 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEG---IPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRG 102 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998653
No 11
>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=99.69 E-value=8.2e-17 Score=126.72 Aligned_cols=73 Identities=23% Similarity=0.407 Sum_probs=69.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+|+||+.+|+.+.|+|+++.||.+||++|+++.+ +++++|||+|+||+|+|+ +|++|||+++++|+|+....
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~---~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~ 74 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK---VPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVE 74 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC---CChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeecc
Confidence 89999999999999999999999999999999999 999999999999999998 99999999999999998653
No 12
>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=99.69 E-value=2e-16 Score=122.47 Aligned_cols=74 Identities=36% Similarity=0.557 Sum_probs=71.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+|+||+++|+.+.++|++++||.+||++|+...| ++++.|+|+|+|+.|+|+++|++|+|+++++|+|+++.+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~ 74 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC---CChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998764
No 13
>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=99.68 E-value=1.3e-16 Score=124.08 Aligned_cols=72 Identities=22% Similarity=0.271 Sum_probs=69.5
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+||++.|+++.|+|++++||.+||++|+...| +++++|+|+|+||.|+|+++|++|||+++++|+++++..
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~ 72 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER---VQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLR 72 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 689999999999999999999999999999999 999999999999999999999999999999999998764
No 14
>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=99.68 E-value=1.1e-16 Score=126.48 Aligned_cols=74 Identities=28% Similarity=0.401 Sum_probs=71.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL--if~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+|+||+++|+++.++|++++||.+||++|+...| +++++||| +|+|++|+|+++|++|||+++++|+|++++-
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~---i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~ 78 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG---VPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC 78 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC---CCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 78999999999999999999999999999999999 99999999 9999999999999999999999999999863
No 15
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.68 E-value=2.2e-16 Score=122.26 Aligned_cols=74 Identities=38% Similarity=0.618 Sum_probs=71.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+|+||+.+|+.+.|+|++++||.+||++|+..+| ++++.|+|+|+|+.|+|+++|++|+|+++++|+|+++.+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~ 74 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999999864
No 16
>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=99.67 E-value=1.6e-16 Score=122.65 Aligned_cols=69 Identities=28% Similarity=0.462 Sum_probs=66.7
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
+.||.++|+++.++|++++||.+||.+|++..| +++++|+|+|+|++|+|+.+|++|+|+++++|||++
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g---i~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG---VDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 468999999999999999999999999999999 999999999999999999999999999999999987
No 17
>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=99.67 E-value=3.3e-16 Score=120.04 Aligned_cols=72 Identities=36% Similarity=0.459 Sum_probs=69.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
|+|+||+++|+++.++|++++||.+||++|+..+| ++++.|+|+|+|+.|+|+.+|++|||+++++|+|+.+
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVG---IPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---cCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999864
No 18
>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=99.66 E-value=2.5e-16 Score=121.04 Aligned_cols=70 Identities=30% Similarity=0.546 Sum_probs=67.5
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
|+||++.|+++.++|++++||.+||++|+++.| +++++|+|+|+|+.|+|+.+|++|||+++++|||+.|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---i~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQG---VPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHC---CCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 689999999999999999999999999999999 9999999999999999999999999999999999864
No 19
>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=99.65 E-value=4.8e-16 Score=119.85 Aligned_cols=71 Identities=32% Similarity=0.428 Sum_probs=67.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
|+|+||+.+|+ +.|+|++++||.+||++|++..| ++.++|+|+|+||+|+|+++|++|||+++++||++++
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-EEIEIAEDASVKDFKEAVSKKFK---ANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC---CCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999997 58999999999999999999999 9999999999999999999999999999999999874
No 20
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.65 E-value=1.2e-15 Score=153.49 Aligned_cols=75 Identities=29% Similarity=0.444 Sum_probs=70.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKV 79 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k~ 79 (364)
++|+||+.++ ++.|.|..+.||.+||++|...++ +++++++|||.||+|+|+++|..|||++|.+|||+++....
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-KYEVNVASDSSVLQLKELIAQRFG---APPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPR 90 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcC---CChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCC
Confidence 5799999988 899999999999999999999998 89999999999999999999999999999999999866543
No 21
>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=99.64 E-value=6.3e-16 Score=117.90 Aligned_cols=69 Identities=38% Similarity=0.603 Sum_probs=66.1
Q ss_pred EeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 6 Ktl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|+++|+.|.|+|++++||.+||++|+...+ ++++.|+|+|+|++|+|+.+|++|||+++++|+|+++++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~---~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~ 69 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETG---IPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKPR 69 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHT---STGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccc---cccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence 689999999999999999999999999999 999999999999999999999999999999999988753
No 22
>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=99.64 E-value=6.6e-16 Score=121.79 Aligned_cols=73 Identities=21% Similarity=0.207 Sum_probs=64.6
Q ss_pred CEEEEEeCCCcE--EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhc--cCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTH--FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENK--VAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~--~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~g--Ik~~s~I~v~v 74 (364)
|.|+||+.+|++ |.+++++++||.+||++|+...+.. +++++|||||+||+|+|+.+|++|+ ++++.+|||+.
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~-~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSK-PLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCC-CChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 589999999998 5555689999999999999987522 5689999999999999999999996 99999999985
No 23
>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=99.62 E-value=1.2e-15 Score=118.97 Aligned_cols=70 Identities=29% Similarity=0.414 Sum_probs=67.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH---QGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif---~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+|| ++|++|.|+|++++||.+||++|++.+| +|+++|||+| +||+|+|+.+|++|+|+++++|+||.
T Consensus 1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tg---vp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTG---VLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMG 73 (74)
T ss_pred CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHC---CCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEe
Confidence 689999 7999999999999999999999999999 9999999996 99999999999999999999999985
No 24
>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=99.59 E-value=3.3e-15 Score=115.51 Aligned_cols=68 Identities=34% Similarity=0.435 Sum_probs=64.4
Q ss_pred EEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC-CChhhhccCCCCEEEEE
Q 017906 3 VFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDV-TTLEENKVAENSFVVVM 73 (364)
Q Consensus 3 I~VKtl-~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~-~tL~d~gIk~~s~I~v~ 73 (364)
|+||+. +|+++.|+|++++||.+||.+|+.+.| +|+++|+|+|+||.|+|+ .+|++|||+++++|++.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG---IPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC---CCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 689999 999999999999999999999999999 999999999999999987 68999999999999873
No 25
>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=99.57 E-value=9.1e-15 Score=111.97 Aligned_cols=70 Identities=29% Similarity=0.421 Sum_probs=67.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+||+. |+.+.++|++++||.+||++|+..+| +++++|||+|+|+.|+|+++|++|||++|++|+|+.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTG---VEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhC---CChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999986 89999999999999999999999999 999999999999999999999999999999999984
No 26
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=6.1e-15 Score=108.42 Aligned_cols=70 Identities=36% Similarity=0.548 Sum_probs=68.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
|.|.||+++|+.+.|++++.++|..+|++|+++.| ||+.+|||||.||.+.|+++-++|++.-|+++|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeG---IPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcC---CCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 88999999999999999999999999999999999 99999999999999999999999999999999874
No 27
>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=99.54 E-value=2.2e-14 Score=112.17 Aligned_cols=68 Identities=26% Similarity=0.396 Sum_probs=65.1
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCC
Q 017906 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (364)
Q Consensus 8 l~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k 78 (364)
++|+++.|+|++++||.+||.+|+..+| +|++.|+|+|+|+.|+|+++|++|+|+++++|+|+++.+.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~g---ip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~g 72 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETG---MPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERG 72 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHC---CCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCC
Confidence 5799999999999999999999999999 9999999999999999999999999999999999998754
No 28
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.46 E-value=7e-15 Score=120.21 Aligned_cols=76 Identities=37% Similarity=0.583 Sum_probs=73.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKV 79 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k~ 79 (364)
|.++++++.|++++++|++++||..||.+|....| +|++.|+|+|+||+|+|..||++|||...++||++.+.+..
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~G---i~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG 76 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccC---CCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcC
Confidence 78999999999999999999999999999999999 99999999999999999999999999999999999887764
No 29
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.46 E-value=4.6e-13 Score=107.54 Aligned_cols=75 Identities=16% Similarity=0.265 Sum_probs=71.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k 78 (364)
|.|+|++.+|+.+.|+|.+++||..||.+++++.| +++++++|+|+|+.|+|+.|+.+|+|.++++|+|+++.+.
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~g---i~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~G 86 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQG---LSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTG 86 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhC---CCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEeccc
Confidence 68999999999999999999999999999999999 9999999999999999999999999999999999987653
No 30
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.45 E-value=2.8e-13 Score=100.71 Aligned_cols=64 Identities=42% Similarity=0.649 Sum_probs=61.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENS 68 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s 68 (364)
|+|+||+.+ +.+.++|++++||.+||.+|+..+| ++++.|+|+|+|+.|.|+++|++|||++++
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~---~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTG---IPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHC---CCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 899999998 7999999999999999999999999 999999999999999999999999999875
No 31
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.43 E-value=9.1e-14 Score=121.06 Aligned_cols=77 Identities=35% Similarity=0.553 Sum_probs=73.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecCCCC
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~k~~ 80 (364)
|+|+|+++.++++.++|..++||..+|.+|++..| ||+++|+|||.|+.|+|.++|+||+|+..++|+++++.+...
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~eg---Ip~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~ 77 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGA 77 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccC---CCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999999876544
No 32
>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=99.37 E-value=7.2e-13 Score=103.37 Aligned_cols=55 Identities=25% Similarity=0.237 Sum_probs=49.1
Q ss_pred CCCcHHHHHHHHHHHhCCCCC-CCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 19 PEDKVSDVKKNIETVQGSDVY-PASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 19 ~s~TV~dLK~kI~~~~g~~~i-p~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
.++||.+||++|+++.+.. + ++++|||||+||+|+|+++|++|||+++++|||+.
T Consensus 19 ~~~TV~~LK~kI~~~~~eg-i~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDS-LPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred ccCcHHHHHHHHHHhhccC-CCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 4689999999999996322 5 58999999999999999999999999999999985
No 33
>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=99.29 E-value=1.2e-11 Score=93.15 Aligned_cols=68 Identities=43% Similarity=0.663 Sum_probs=64.4
Q ss_pred EEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 4 FVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 4 ~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
+||..+|+.+.++++++.||.+||++|+..+| ++++.|+|+|+|+.|+|+.+|.+|+|++++.|+++.
T Consensus 1 ~v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~---~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 1 TVKTLTGKTFELEVSPDDTVAELKAKIAAKEG---VPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred CeEccCCCEEEEEECCCChHHHHHHHHHHHHC---cChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 37878899999999999999999999999999 999999999999999999999999999999999875
No 34
>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=99.27 E-value=1.4e-11 Score=96.47 Aligned_cols=65 Identities=18% Similarity=0.274 Sum_probs=59.0
Q ss_pred EeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCChhhhccC-CCCEEEEEE
Q 017906 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLK-DVTTLEENKVA-ENSFVVVML 74 (364)
Q Consensus 6 Ktl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~-D~~tL~d~gIk-~~s~I~v~v 74 (364)
|...|+++.|+|++++||.+||.+|+.+.| +|++.|+| |+|+.|. |+++|++|||+ +|+++++.+
T Consensus 8 ~~~~~~t~~l~v~~~~TV~~lK~kI~~~~g---ip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 8 AQSHTVTIWLTVRPDMTVAQLKDKVFLDYG---FPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred cccCCCeEEEEECCCCcHHHHHHHHHHHHC---cCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 445678999999999999999999999999 99999999 9999985 67999999999 789999875
No 35
>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=99.26 E-value=1e-11 Score=103.38 Aligned_cols=77 Identities=17% Similarity=0.236 Sum_probs=62.6
Q ss_pred EEEEEeCCCcEE-EEEeCCCCcHHHHHHHHHHHhCC--CCCC--CCCeEEEeCCeecCCCCChhhhc------cCCCCEE
Q 017906 2 KVFVKTLKGTHF-EIEVKPEDKVSDVKKNIETVQGS--DVYP--ASQQMLIHQGKVLKDVTTLEENK------VAENSFV 70 (364)
Q Consensus 2 kI~VKtl~gk~~-~ieV~~s~TV~dLK~kI~~~~g~--~~ip--~~~qkLif~GkiL~D~~tL~d~g------Ik~~s~I 70 (364)
.|.||..+|..+ .+.+.+++||.+||++|++..+. ..+| +++|||||+||+|+|++||++|+ +....++
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 577887788543 46778999999999999966642 1144 99999999999999999999999 7777899
Q ss_pred EEEEecCC
Q 017906 71 VVMLTKSK 78 (364)
Q Consensus 71 ~v~v~k~k 78 (364)
||+++.+.
T Consensus 86 Hvvlr~~~ 93 (113)
T cd01814 86 HVVVQPPL 93 (113)
T ss_pred EEEecCCC
Confidence 99887654
No 36
>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=99.21 E-value=5.4e-11 Score=91.48 Aligned_cols=71 Identities=24% Similarity=0.391 Sum_probs=65.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~-~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+|++.+|+.+.+.|.++++|..|++++++..+ ++. +.++|+|+|+.|+++.|+++|||+++++|.|++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~---i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKG---IPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHT---TTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC---CCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 78999999999999999999999999999999999 889 999999999999999999999999999999874
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=99.03 E-value=6.1e-10 Score=90.62 Aligned_cols=62 Identities=21% Similarity=0.238 Sum_probs=57.1
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCChhhhccCCCCEEEEEEec
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLK-DVTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~-D~~tL~d~gIk~~s~I~v~v~k 76 (364)
...++|++++||.+||.+|...++ +++.+|||+|+|+.|. |.++|++|||..++.|.+.+..
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~---V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide 78 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFS---VAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE 78 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhc---CCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence 467889999999999999999999 9999999999999995 5789999999999999998754
No 38
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=99.02 E-value=4.5e-10 Score=76.03 Aligned_cols=36 Identities=50% Similarity=0.723 Sum_probs=33.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHH
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYL 210 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL 210 (364)
+++.|+.|++|| |++++|++||+++.||.|+||+||
T Consensus 2 ~~~~v~~L~~mG---f~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMG---FSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHT---S-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHcCCCHHHHHHhC
Confidence 578999999999 999999999999999999999998
No 39
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.89 E-value=1.6e-08 Score=75.48 Aligned_cols=72 Identities=39% Similarity=0.585 Sum_probs=68.2
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
++++++.|+.+.+++....+|..+|.+|....| ++.+.|+|+|.|+.|.|+.+|.+|+|..++++++..+.+
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~---~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~ 73 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEG---IPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLR 73 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcC---CCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecC
Confidence 678889999999999999999999999999999 999999999999999999999999999999999988764
No 40
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.88 E-value=1.6e-08 Score=85.00 Aligned_cols=68 Identities=22% Similarity=0.283 Sum_probs=52.6
Q ss_pred EEEEEeCCCc-EEEEEeCCCCcHHHHHHHHHHHhCCC----CCCCCCeEEEeCCeecCCCCChhhhccCCCCE
Q 017906 2 KVFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSD----VYPASQQMLIHQGKVLKDVTTLEENKVAENSF 69 (364)
Q Consensus 2 kI~VKtl~gk-~~~ieV~~s~TV~dLK~kI~~~~g~~----~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~ 69 (364)
.|+++..+|+ +-.+.+++++||.+||+.|......+ ...++.+||||.||+|+|+++|++|.+..+++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~ 76 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGET 76 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCC
Confidence 5778888998 78899999999999999999876432 13456889999999999999999999987763
No 41
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=98.84 E-value=1.7e-08 Score=80.59 Aligned_cols=71 Identities=25% Similarity=0.316 Sum_probs=59.1
Q ss_pred EEEEEeCC-CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe-----ec-CCCCChhhhccCCCCEEEEE
Q 017906 2 KVFVKTLK-GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQGK-----VL-KDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 2 kI~VKtl~-gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL-if~Gk-----iL-~D~~tL~d~gIk~~s~I~v~ 73 (364)
+|.|+... ....+..+++++||.+||.+|+..+| ++++.|+| +|.|+ .| +|+++|.+|++++|..|||+
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G---~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVG---TPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHC---CCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 56676533 33445569999999999999999999 99999999 58888 46 67889999999999999998
Q ss_pred Ee
Q 017906 74 LT 75 (364)
Q Consensus 74 v~ 75 (364)
-.
T Consensus 80 D~ 81 (84)
T cd01789 80 DV 81 (84)
T ss_pred eC
Confidence 54
No 42
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.82 E-value=5.1e-09 Score=113.25 Aligned_cols=70 Identities=26% Similarity=0.400 Sum_probs=67.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
.|+|||++.++.+|.|...+||++||.+|.++.+ |+.+.|||||.|++|.|++++++|+| +|.+|||+-|
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~n---i~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVN---IPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcc---cccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 4899999999999999999999999999999999 99999999999999999999999999 8999999877
No 43
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=98.79 E-value=9.7e-09 Score=69.52 Aligned_cols=38 Identities=50% Similarity=0.733 Sum_probs=35.5
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
+++.|++|++|| |+|++|++||+++.||.++|++||+.
T Consensus 1 ~~~~v~~L~~mG---f~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 1 DEEKLEQLLEMG---FSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 367899999999 99999999999999999999999973
No 44
>PLN02560 enoyl-CoA reductase
Probab=98.79 E-value=1.6e-08 Score=99.01 Aligned_cols=71 Identities=32% Similarity=0.427 Sum_probs=62.7
Q ss_pred CEEEEEeCCCcEE---EEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC---C----eecCCCCChhhhccCCCCEE
Q 017906 1 MKVFVKTLKGTHF---EIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---G----KVLKDVTTLEENKVAENSFV 70 (364)
Q Consensus 1 MkI~VKtl~gk~~---~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~---G----kiL~D~~tL~d~gIk~~s~I 70 (364)
|+|+||..+|+.+ +|+|+++.||++||++|+++.+. +++++|||++. | +.|+|+++|++||++++++|
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~--~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstL 78 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKK--YYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTV 78 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCC--CChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceE
Confidence 8999998889887 79999999999999999999872 47899999983 3 48899999999999999988
Q ss_pred EEE
Q 017906 71 VVM 73 (364)
Q Consensus 71 ~v~ 73 (364)
++-
T Consensus 79 y~k 81 (308)
T PLN02560 79 VFK 81 (308)
T ss_pred EEE
Confidence 764
No 45
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.75 E-value=1.3e-08 Score=68.58 Aligned_cols=37 Identities=51% Similarity=0.791 Sum_probs=35.0
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHH
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~ 211 (364)
+++.|++|++|| |++++|.+||+.+.||.++|++||+
T Consensus 1 ~~~~v~~L~~mG---f~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 1 DEEKIDQLLEMG---FSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 367899999999 9999999999999999999999995
No 46
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=98.72 E-value=4.2e-08 Score=81.78 Aligned_cols=73 Identities=21% Similarity=0.276 Sum_probs=61.6
Q ss_pred CEEEEEeCCCc-EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhcc-------CCCCEEEE
Q 017906 1 MKVFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKV-------AENSFVVV 72 (364)
Q Consensus 1 MkI~VKtl~gk-~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gI-------k~~s~I~v 72 (364)
|-++++....| ++.+++.++.||.+||++|+.... .|++.|+|+..+.+|+|+++|+|||+ ....+|-+
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k---~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgL 77 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILK---RPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGL 77 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhc---CChhHheeecCceeecccccHHHcCccccccccCCCCeEEE
Confidence 45555544444 677899999999999999999998 99999999977789999999999999 55777877
Q ss_pred EEec
Q 017906 73 MLTK 76 (364)
Q Consensus 73 ~v~k 76 (364)
.+++
T Consensus 78 a~r~ 81 (119)
T cd01788 78 AFRS 81 (119)
T ss_pred EEec
Confidence 7775
No 47
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.65 E-value=1.1e-07 Score=76.13 Aligned_cols=73 Identities=23% Similarity=0.318 Sum_probs=57.8
Q ss_pred EEEEEeCCC--cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC----C---eec-CCCCChhhhccCCCCEEE
Q 017906 2 KVFVKTLKG--THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----G---KVL-KDVTTLEENKVAENSFVV 71 (364)
Q Consensus 2 kI~VKtl~g--k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~----G---kiL-~D~~tL~d~gIk~~s~I~ 71 (364)
+|+|..... +.++..++.++||.+||.+|+..+| ++++.|+|.|. + ..| +|+++|.+||+++|..||
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~G---i~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~ 79 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTG---IPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIH 79 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHT---S-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhC---CCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEE
Confidence 567775554 4888999999999999999999999 99999999765 2 124 568999999999999999
Q ss_pred EEEecC
Q 017906 72 VMLTKS 77 (364)
Q Consensus 72 v~v~k~ 77 (364)
|.-..+
T Consensus 80 V~D~~p 85 (87)
T PF14560_consen 80 VVDTNP 85 (87)
T ss_dssp EEE-T-
T ss_pred EEeCCC
Confidence 986543
No 48
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=98.61 E-value=1.2e-07 Score=74.25 Aligned_cols=69 Identities=23% Similarity=0.253 Sum_probs=54.6
Q ss_pred EEEEEeCC-CcEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCChhhhccCCCCEEEE
Q 017906 2 KVFVKTLK-GTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~-gk~~~ieV~-~s~TV~dLK~kI~~~~g~~~ip~~~qkL--if~GkiL~D~~tL~d~gIk~~s~I~v 72 (364)
.|.++..+ .....++++ ++.||.+||+.|+...+. +++++|+| .+.|++|.|+.+|.+|||+++++|+|
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~--~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQ--LTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCC--CCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 56666555 333334444 889999999999998652 57899888 58999999999999999999998876
No 49
>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=98.42 E-value=1.4e-06 Score=61.46 Aligned_cols=67 Identities=31% Similarity=0.457 Sum_probs=60.5
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 5 VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+..++..+.+.+..+.||.+||++|..+.| ++++.++|+++|+.+.+...+.+|++.+++.|+++.
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLG---LPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHC---cChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 3444688889999999999999999999999 889999999999999999888999999999998864
No 50
>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=98.38 E-value=6e-07 Score=71.18 Aligned_cols=69 Identities=28% Similarity=0.359 Sum_probs=44.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC---Ceec--CCCCChhhhccCCCCEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---GKVL--KDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~---GkiL--~D~~tL~d~gIk~~s~I~v~ 73 (364)
|-|.||+.+| .+.|+|++++||.+||++|.+..+ ++...+.|..+ ...| .++++|+++||+.|+.|+|.
T Consensus 5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~---~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLS---IPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS------TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcC---CCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 6788888777 889999999999999999999999 88888888533 1234 46899999999999998763
No 51
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=4.2e-06 Score=84.82 Aligned_cols=72 Identities=22% Similarity=0.367 Sum_probs=66.6
Q ss_pred EEEEEeCCCcEEEEE-eCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 2 KVFVKTLKGTHFEIE-VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 2 kI~VKtl~gk~~~ie-V~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
.|.|| +.|+.|.++ ++.++|+..||.+|...+| ++|++||++++|+.|.|+-.+..++||++.+|+||.+.-
T Consensus 5 ~v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTg---V~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e 77 (473)
T KOG1872|consen 5 TVIVK-WGGKKYPVETLSTDETPSVLKAQLFALTG---VPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAE 77 (473)
T ss_pred eEeee-ecCccccceeccCCCchHHHHHHHHHhcC---CCccceeEEEecccccccccccccccCCCCEEEeecccc
Confidence 36677 899999998 9999999999999999999 999999999999999999899999999999999997653
No 52
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=3.5e-06 Score=81.51 Aligned_cols=74 Identities=27% Similarity=0.394 Sum_probs=64.3
Q ss_pred CEEEEEeC---CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 1 MKVFVKTL---KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 1 MkI~VKtl---~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
|.+.|+.- .-..+.|+|+.+..|.+||+.++.+.| +|++++|+||.||.|.|+.++..+.+...+.+|+|..++
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~g---vp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP 77 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQG---VPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRP 77 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhC---CChhheEEEEeccccccCceeecccccccchhhhhccCc
Confidence 67777744 223588999999999999999999999 999999999999999999999999999889999885444
No 53
>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=98.13 E-value=1.4e-05 Score=61.94 Aligned_cols=71 Identities=18% Similarity=0.309 Sum_probs=61.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC---C--eecCCCCChhhhccCCCCEEEEEEe
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---G--KVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~---G--kiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
++|+||-+.+..+.+.|+|..+|..||.+|....+ ++ ..|||.|. | ..|.+..+|++|||-.+-.|.|+-.
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~---~~-g~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT 76 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRN---CS-GLQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLET 76 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhC---cc-cceEEEeecCCcccccccccccHhhhcceeccEEEEEec
Confidence 58999999999999999999999999999999999 54 59999983 3 3578999999999998877777643
No 54
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=2.8e-06 Score=63.95 Aligned_cols=69 Identities=19% Similarity=0.308 Sum_probs=60.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
.+.+...-|++..|.+.+++||+|+|+.|+.++| ..++.+.|---+.+++|.-+|++|.|++|-.+.+.
T Consensus 3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtG---T~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely 71 (73)
T KOG3493|consen 3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY 71 (73)
T ss_pred eehhhhhcCceEEEEeCCcccccCHHHHHHHhhC---CChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence 5667777899999999999999999999999999 66888888766678899999999999999887765
No 55
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=0.00025 Score=58.06 Aligned_cols=72 Identities=14% Similarity=0.234 Sum_probs=64.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEec
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k 76 (364)
+|.|+..++....|.|..+.....|++..++..| +....+|++|+|+.+.+..|-.++++++++.|-++...
T Consensus 22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~G---l~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q 93 (99)
T KOG1769|consen 22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQG---LSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQ 93 (99)
T ss_pred EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcC---CccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeec
Confidence 4666665666778999999999999999999999 88999999999999999999999999999999988654
No 56
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.64 E-value=7.3e-05 Score=60.64 Aligned_cols=60 Identities=22% Similarity=0.298 Sum_probs=49.2
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe-CC-eecCCCCChhhhccCC
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QG-KVLKDVTTLEENKVAE 66 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif-~G-kiL~D~~tL~d~gIk~ 66 (364)
|.|| ....++.++.+++.||.+||.+++.... -|++.|+|+. .- ..|+|.++|+|||...
T Consensus 5 ~~Vr-R~kttif~da~es~tV~elK~~l~gi~~---~Pvn~qrL~kmd~eqlL~D~ktL~d~gfts 66 (110)
T KOG4495|consen 5 LRVR-RHKTTIFTDAKESSTVFELKRKLEGILK---RPVNEQRLYKMDTEQLLDDGKTLGDCGFTS 66 (110)
T ss_pred eeee-ecceeEEeecCccccHHHHHHHHHHHHh---CCCcchheeecCHHHHhhccchhhhccccc
Confidence 4444 2344688899999999999999999998 8999999976 33 6789999999998753
No 57
>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=97.53 E-value=0.00035 Score=57.43 Aligned_cols=60 Identities=17% Similarity=0.228 Sum_probs=47.2
Q ss_pred EEEEEeCCC-cEEEEEeC--CCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhh
Q 017906 2 KVFVKTLKG-THFEIEVK--PEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62 (364)
Q Consensus 2 kI~VKtl~g-k~~~ieV~--~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~ 62 (364)
.|+||..++ ..+.++|. .+.||..||+.|....+.+ ..-.++||||+||+|.|...|...
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 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPE-PSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCC-CccccEEeeecCcccCccchhhhh
Confidence 366776553 34677777 7899999999999998533 666789999999999998877664
No 58
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=97.10 E-value=0.00087 Score=46.38 Aligned_cols=41 Identities=32% Similarity=0.330 Sum_probs=35.1
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
+++.|+.|.+|=- .|+++.+.++|++.-+|.|+||++|+.|
T Consensus 1 ~~~~v~~L~~mFP-~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 1 REEMVQQLQEMFP-DLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp CHHHHHHHHHHSS-SS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHCC-CCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4678999999921 1999999999999999999999999865
No 59
>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=97.09 E-value=0.0011 Score=52.03 Aligned_cols=71 Identities=18% Similarity=0.271 Sum_probs=50.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC---CeEEE-eCCeecCCCCChhhhccCCCCEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPAS---QQMLI-HQGKVLKDVTTLEENKVAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~---~qkLi-f~GkiL~D~~tL~d~gIk~~s~I~v 72 (364)
+|+|..-+|+.+.+.+..+.+|.+|...|.+..+....... ..+|. -+|..|+++.+|.++||.+|+.+++
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 57777655689999999999999999999998873212222 35676 7899999999999999999999986
No 60
>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=97.08 E-value=0.0038 Score=48.92 Aligned_cols=68 Identities=22% Similarity=0.299 Sum_probs=57.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCC-eEEE--eCCeecCCC--CChhhhccCCCCEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLI--HQGKVLKDV--TTLEENKVAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~-qkLi--f~GkiL~D~--~tL~d~gIk~~s~I~v 72 (364)
+|.||..+|+.+...+..++||.+|...|..... .+... .+|+ |-.+.|.++ ++|+++|+..+.+|+|
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~---~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLF---SPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHH---CTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcC---CCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 6899999999999999999999999999998877 33443 7786 677888543 6999999999998876
No 61
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=97.08 E-value=7.3e-05 Score=72.99 Aligned_cols=76 Identities=20% Similarity=0.207 Sum_probs=57.2
Q ss_pred EEEEEeCCCc--EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCC--EEEEEEecC
Q 017906 2 KVFVKTLKGT--HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENS--FVVVMLTKS 77 (364)
Q Consensus 2 kI~VKtl~gk--~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s--~I~v~v~k~ 77 (364)
.++||..+++ ...|..+..+||++||..++.....+ --..+|||||.||.|.|...|.|+-+|... ++||+...+
T Consensus 11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPsk-pl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlvcnsk 89 (391)
T KOG4583|consen 11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSK-PLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLVCNSK 89 (391)
T ss_pred EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCC-CchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHhcCCC
Confidence 4667766554 46677888999999999999997644 335689999999999999999998766543 455554443
Q ss_pred C
Q 017906 78 K 78 (364)
Q Consensus 78 k 78 (364)
.
T Consensus 90 ~ 90 (391)
T KOG4583|consen 90 E 90 (391)
T ss_pred C
Confidence 3
No 62
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.05 E-value=0.0042 Score=48.75 Aligned_cols=68 Identities=13% Similarity=0.135 Sum_probs=55.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCChhhhccCCCCEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~D---~~tL~d~gIk~~s~I~v 72 (364)
+|.||..+|+.+......++||.+|.+.|....+ ......+|+ |-.|.|.+ +++|.++|+....+|+|
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 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT---DGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc---CCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 6899999999999999999999999999966555 445567775 67788854 47999999988887765
No 63
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.0006 Score=72.00 Aligned_cols=43 Identities=40% Similarity=0.652 Sum_probs=40.2
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhCCC
Q 017906 170 SNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIP 215 (364)
Q Consensus 170 ~~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~GIP 215 (364)
+..|+.|..|++|| |.|.|++.||++..||.+|||||+++-+-
T Consensus 633 ~~~e~~v~si~smG---f~~~qa~~aL~~~n~nveravDWif~h~d 675 (763)
T KOG0944|consen 633 EVDEESVASIVSMG---FSRNQAIKALKATNNNVERAVDWIFSHMD 675 (763)
T ss_pred CCChhHheeeeeec---CcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence 46789999999999 99999999999999999999999998855
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=96.85 E-value=0.0091 Score=46.44 Aligned_cols=67 Identities=27% Similarity=0.339 Sum_probs=53.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCChhhhccCCCCEEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVVM 73 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~D---~~tL~d~gIk~~s~I~v~ 73 (364)
+|.||..+|+.+......++||.+|.+-|..... . ....+|+ |-.|.|.| +.+|+++|+. .+.+++.
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~---~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~-~s~~~~~ 75 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP---P-AEPFTLMTSFPRRVLTDLDYELTLQEAGLV-NEVVFQR 75 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC---C-CCCEEEEeCCCCccCCCCCccCcHHHcCCc-cceEEEE
Confidence 6889999999999999999999999999987654 2 4567776 66788854 7899999999 4555443
No 65
>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=96.81 E-value=0.0092 Score=47.10 Aligned_cols=67 Identities=22% Similarity=0.341 Sum_probs=53.8
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCChhhhccCCCCEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD-VTTLEENKVAENSFVV 71 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~D-~~tL~d~gIk~~s~I~ 71 (364)
+|.||..+|+.+...+..++||.+|++.|....+. .......|+ |-.|.|.| +.||+|.|+.+ +.|+
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~--~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~-s~v~ 75 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPE--FAARPFTLMTAFPVKELSDESLTLKEANLLN-AVIV 75 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCC--CCCCCEEEecCCCCcccCCCCCcHHHCCCcC-cEEE
Confidence 68899999999999999999999999999987641 223566776 77888854 78999999986 4443
No 66
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=96.75 E-value=0.0016 Score=44.72 Aligned_cols=36 Identities=47% Similarity=0.652 Sum_probs=31.2
Q ss_pred HhhhCcHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHH
Q 017906 278 DFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLI 318 (364)
Q Consensus 278 ~~Lr~~pqf~~lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I 318 (364)
..|+ +|+|+++.+-+++||+++..+++. ||+++++|
T Consensus 6 ~~l~-~P~~~~~l~~~~~nP~~~~~~~~~----nP~~~~~i 41 (41)
T smart00727 6 LRLQ-NPQVQSLLQDMQQNPDMLAQMLQE----NPQLLQLI 41 (41)
T ss_pred HHHc-CHHHHHHHHHHHHCHHHHHHHHHh----CHHhHhhC
Confidence 3444 999999999999999999998877 99998865
No 67
>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=96.69 E-value=0.014 Score=45.97 Aligned_cols=67 Identities=19% Similarity=0.358 Sum_probs=55.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCChhhhccCCCCEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~D---~~tL~d~gIk~~s~I~v 72 (364)
+|.||..+|+.+......++||.+|++.|....+ . ....+|+ |-.|.+.+ +++|.++|+....+|+|
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 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTG---N-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCC---C-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 6889999999998899999999999999986654 2 2567776 77898853 58999999998887776
No 68
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.61 E-value=0.0037 Score=57.71 Aligned_cols=62 Identities=26% Similarity=0.369 Sum_probs=54.6
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 9 ~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
+++.|.+.+...+||.++|.++....| +.+-.|+++|+|+.|.|...|..|+|..+...+|.
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg---~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlq 216 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEG---VDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQ 216 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhc---cchhhheeeccCCceeccccceeeeecCCCEEEEE
Confidence 466788889999999999999999999 66889999999999999999999999999544443
No 69
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.60 E-value=0.0093 Score=46.43 Aligned_cols=68 Identities=7% Similarity=0.185 Sum_probs=56.0
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCC--CCCCCeEEEeCCeecCCCCChhhhccCCCCEEEE
Q 017906 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDV--YPASQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (364)
Q Consensus 5 VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~--ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v 72 (364)
++..+|++|.+.+....+|+.|-..+.+....+. ..-..+|+.-++++|.++..|.+|+|.+|+.+.+
T Consensus 11 ~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 11 FTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred eEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 4677899999999999999999988887765321 2224678889999999999999999999998875
No 70
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=96.53 E-value=0.011 Score=45.04 Aligned_cols=63 Identities=17% Similarity=0.210 Sum_probs=46.5
Q ss_pred eCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEE
Q 017906 7 TLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (364)
Q Consensus 7 tl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v 72 (364)
..+++.+.|.|.++.++.++-+..+.++| +..++-.|.|++|.|+-+..+.-.|+-+|..+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~---l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFG---LDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT-----GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcC---CCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 36788999999999999999999999999 8889999999999999999999999999988764
No 71
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.43 E-value=0.0071 Score=57.31 Aligned_cols=71 Identities=17% Similarity=0.202 Sum_probs=54.4
Q ss_pred CEEEEEeCCCc-EEE-EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE----EeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 1 MKVFVKTLKGT-HFE-IEVKPEDKVSDVKKNIETVQGSDVYPASQQML----IHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 1 MkI~VKtl~gk-~~~-ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL----if~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
|.|+++..++. ..+ .+.....||.|++++|..+..+ +.+..+|+ --+||.|.|+.+|++|+..++.+|+|-
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k--~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vK 77 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLK--ITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVK 77 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhc--cCccchhheeeccCCCccccchhHHHHhccCCCCEEEEe
Confidence 78999877662 333 6777889999999888877653 55544444 347999999999999999999877663
No 72
>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=96.41 E-value=0.0038 Score=63.10 Aligned_cols=40 Identities=33% Similarity=0.493 Sum_probs=37.0
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 170 SNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 170 ~~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
++-.++|++|++|| |+|..|+.|-.|+..|=+.|+.||+.
T Consensus 335 ~eE~~AIeRL~~LG---F~r~~viqaY~ACdKNEelAAn~Lf~ 374 (378)
T TIGR00601 335 PEEKEAIERLCALG---FDRGLVIQAYFACDKNEELAANYLLS 374 (378)
T ss_pred HHHHHHHHHHHHcC---CCHHHHHHHHHhcCCcHHHHHHHHHh
Confidence 34467999999999 99999999999999999999999985
No 73
>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=96.33 E-value=0.033 Score=44.40 Aligned_cols=69 Identities=19% Similarity=0.338 Sum_probs=59.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC---CCCChhhhccCCCCEEEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLK---DVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~---D~~tL~d~gIk~~s~I~v~v 74 (364)
+|.||..+|+.+.-....++++.+|...|.. .| .+.+..+|+ |--|.|. .+.+|+++|+....+|+|--
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g---~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~ 80 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KG---YPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cC---CCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 6899999999999999999999999999988 56 678899997 6677773 35899999999999888743
No 74
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.32 E-value=0.0046 Score=56.10 Aligned_cols=46 Identities=26% Similarity=0.296 Sum_probs=43.6
Q ss_pred cccCCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 165 NLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 165 ~l~~g~~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
.+..+..+.+.|.+|.+|| |+|+.++.+|+-...|-.+|.|+|++|
T Consensus 155 ~~~~~~~~~~~v~~l~~mG---f~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 155 RLPDDPWDKKKVDSLIEMG---FSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CCCCCchhHHHHHHHHHhc---ccHHHHHHHhhccccchhhhhHhhccC
Confidence 3778899999999999999 999999999999999999999999987
No 75
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=96.23 E-value=0.018 Score=46.52 Aligned_cols=68 Identities=16% Similarity=0.192 Sum_probs=59.1
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
|.|...+|..+.+.|..+.+...|-+..+...|+ ..+.+|++|+|+.++-++|-.|+++.+++.|.++
T Consensus 27 Lkvv~qd~telfFkiKktT~f~klm~af~~rqGK---~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav 94 (103)
T COG5227 27 LKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGK---NMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAV 94 (103)
T ss_pred eEEecCCCCEEEEEEeccchHHHHHHHHHHHhCc---CcceeEEEEcceecCCCCChhhcCCccchHHHHH
Confidence 4455556778889999999999999999999994 4789999999999999999999999999877654
No 76
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=96.17 E-value=0.037 Score=49.50 Aligned_cols=76 Identities=17% Similarity=0.221 Sum_probs=54.7
Q ss_pred CEEEEEeCCC----cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCC-eEEEe-CCeec--CCCCChhhhccCCCC----
Q 017906 1 MKVFVKTLKG----THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIH-QGKVL--KDVTTLEENKVAENS---- 68 (364)
Q Consensus 1 MkI~VKtl~g----k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~-qkLif-~GkiL--~D~~tL~d~gIk~~s---- 68 (364)
|+|+|+++.| .++.+.+..+.||.+|+.+|....+ ++... ..|.+ .++.| .++..+.++.-...+
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~---~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~ 77 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLP---IPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFI 77 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcC---CCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCce
Confidence 7899999999 5889999999999999999999999 66666 33444 34444 456677777544432
Q ss_pred EEEEEEecCCC
Q 017906 69 FVVVMLTKSKV 79 (364)
Q Consensus 69 ~I~v~v~k~k~ 79 (364)
+|.|+++....
T Consensus 78 ~l~l~~rl~GG 88 (162)
T PF13019_consen 78 TLRLSLRLRGG 88 (162)
T ss_pred EEEEEEeccCC
Confidence 45555555443
No 77
>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=95.89 E-value=0.064 Score=42.95 Aligned_cols=68 Identities=16% Similarity=0.170 Sum_probs=55.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC--CeecC--------CCCChhhhccCCCCEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ--GKVLK--------DVTTLEENKVAENSFVV 71 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~--GkiL~--------D~~tL~d~gIk~~s~I~ 71 (364)
+|.||..+|+.+.-....++||.+|..-|.. .+ ..++...|+++ -|.|. .+.||++.||....+|+
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~---~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~ 81 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LK---ETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLF 81 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CC---CCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEE
Confidence 6899999999998899999999999999964 44 45678888854 47775 36799999999877776
Q ss_pred EE
Q 017906 72 VM 73 (364)
Q Consensus 72 v~ 73 (364)
|-
T Consensus 82 V~ 83 (85)
T cd01774 82 VQ 83 (85)
T ss_pred Ee
Confidence 63
No 78
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=95.85 E-value=0.023 Score=39.33 Aligned_cols=39 Identities=26% Similarity=0.406 Sum_probs=35.7
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 172 LEATVQQILDM--GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 172 ~e~~V~~i~~M--G~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
.++.|..|.+| . ++++.|++.|++.-+|.|+|++.|+.|
T Consensus 2 ~~~~v~~L~~mFP~---l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDMFPN---LDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHHCCC---CCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 46789999999 5 899999999999999999999999976
No 79
>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=95.67 E-value=0.092 Score=41.54 Aligned_cols=67 Identities=21% Similarity=0.261 Sum_probs=57.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC---CCCChhhhccCCCCEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLK---DVTTLEENKVAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~---D~~tL~d~gIk~~s~I~v 72 (364)
+|.||..+|+.+.-....++++.+|...|... | ++....+|+ |--|.+. .+.+|++.|+....+|+|
T Consensus 6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~---~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~V 77 (80)
T cd01771 6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-G---YPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLIL 77 (80)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-C---CCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEE
Confidence 68899999999988999999999999999864 6 667788886 7778874 257999999998888876
No 80
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=94.81 E-value=0.072 Score=49.31 Aligned_cols=70 Identities=19% Similarity=0.221 Sum_probs=53.7
Q ss_pred EEEEEeCCCc-EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCC-----eecC-CCCChhhhccCCCCEEEEE
Q 017906 2 KVFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQG-----KVLK-DVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 2 kI~VKtl~gk-~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL-if~G-----kiL~-D~~tL~d~gIk~~s~I~v~ 73 (364)
+|.|.+...+ .+......+.||.+||.|++..+| .+++.++| +|.| ..|. ++..|..|+..+|..||++
T Consensus 3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G---~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihvi 79 (234)
T KOG3206|consen 3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTG---TEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVI 79 (234)
T ss_pred EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhC---CCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEE
Confidence 4555543322 234457789999999999999999 88999998 4665 2454 5789999999999999988
Q ss_pred E
Q 017906 74 L 74 (364)
Q Consensus 74 v 74 (364)
-
T Consensus 80 D 80 (234)
T KOG3206|consen 80 D 80 (234)
T ss_pred e
Confidence 5
No 81
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=94.56 E-value=0.044 Score=53.94 Aligned_cols=40 Identities=30% Similarity=0.429 Sum_probs=37.2
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
+-.++|.+|+.|| |+|.-|+.|--|+..|=+-|.+||+.-
T Consensus 297 ee~eAIeRL~alG---F~ralViqayfACdKNEelAAN~Ll~~ 336 (340)
T KOG0011|consen 297 EEKEAIERLEALG---FPRALVIQAYFACDKNEELAANYLLSH 336 (340)
T ss_pred HHHHHHHHHHHhC---CcHHHHHHHHHhcCccHHHHHHHHHhh
Confidence 4467999999999 999999999999999999999999864
No 82
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=94.47 E-value=0.065 Score=42.03 Aligned_cols=56 Identities=23% Similarity=0.351 Sum_probs=46.3
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhh-ccCCCCEEEEEE
Q 017906 17 VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN-KVAENSFVVVML 74 (364)
Q Consensus 17 V~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~-gIk~~s~I~v~v 74 (364)
|.++++|.+||+.|...... .......|.|+|+.|+|...|+++ |++++..|.|+.
T Consensus 1 v~~~d~v~dvrq~L~~~~~t--~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve 57 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPET--CYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVE 57 (76)
T ss_pred CChhhHHHHHHHHHHhCccc--cceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEe
Confidence 56789999999999987552 456788999999999998889888 588888888763
No 83
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.76 E-value=0.07 Score=39.28 Aligned_cols=23 Identities=35% Similarity=0.679 Sum_probs=19.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHH
Q 017906 173 EATVQQILDMGGGSWDRETVIRALRA 198 (364)
Q Consensus 173 e~~V~~i~~MG~~~f~r~qv~~ALrA 198 (364)
...|+++++|| |+|+.|+.|||.
T Consensus 10 ~~lVd~F~~mG---F~~dkVvevlrr 32 (55)
T PF09288_consen 10 KDLVDQFENMG---FERDKVVEVLRR 32 (55)
T ss_dssp HHHHHHHHHHT-----HHHHHHHHHH
T ss_pred HHHHHHHHHcC---CcHHHHHHHHHH
Confidence 56899999999 999999999995
No 84
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=93.36 E-value=0.12 Score=51.63 Aligned_cols=69 Identities=14% Similarity=0.141 Sum_probs=60.1
Q ss_pred CEEEEEeC--CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC--CCChhhhccCCCCEEEE
Q 017906 1 MKVFVKTL--KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKD--VTTLEENKVAENSFVVV 72 (364)
Q Consensus 1 MkI~VKtl--~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D--~~tL~d~gIk~~s~I~v 72 (364)
|.++|.+. ..++|.|+|..+-....|+..+....| +..+..-|+|+++.|.+ ...|..||++.+++|.+
T Consensus 1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g---~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~l 73 (380)
T KOG0012|consen 1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTG---IVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLAL 73 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhC---cccchhhcccCCCccccchhhhhhhcccccceeEec
Confidence 67777665 667899999999999999999999999 88999999999999965 46799999999988754
No 85
>PRK06437 hypothetical protein; Provisional
Probab=93.20 E-value=0.63 Score=35.42 Aligned_cols=54 Identities=22% Similarity=0.327 Sum_probs=43.2
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 9 ~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
.++...++++...||.+|-+. .+ ++.....+..+|+++. .++-|++|+.|.++-
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~----Lg---i~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKD----LG---LDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHH----cC---CCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 445677888888999988765 47 7788899999999997 555688899988763
No 86
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=93.11 E-value=0.49 Score=35.17 Aligned_cols=55 Identities=20% Similarity=0.305 Sum_probs=39.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+|. |+. ++++.+.|+.+||+++.. +.-.+||+|-..+++. -++++|.|+++-
T Consensus 1 M~I~vN---~k~--~~~~~~~tl~~lr~~~k~---------~~DI~I~NGF~~~~d~-----~L~e~D~v~~Ik 55 (57)
T PF14453_consen 1 MKIKVN---EKE--IETEENTTLFELRKESKP---------DADIVILNGFPTKEDI-----ELKEGDEVFLIK 55 (57)
T ss_pred CEEEEC---CEE--EEcCCCcCHHHHHHhhCC---------CCCEEEEcCcccCCcc-----ccCCCCEEEEEe
Confidence 667664 554 677788899999987433 2336799999887754 467789998864
No 87
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=93.01 E-value=0.15 Score=40.90 Aligned_cols=36 Identities=28% Similarity=0.482 Sum_probs=31.6
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhCC
Q 017906 176 VQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGI 214 (364)
Q Consensus 176 V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~GI 214 (364)
|+.+.+.| |+++.|.+||+++-.++..|..|+++++
T Consensus 1 i~~~~~~g---~~~~~v~~aL~~tSgd~~~a~~~vl~~l 36 (87)
T PF11626_consen 1 IKHYEELG---YSREFVTHALYATSGDPELARRFVLNFL 36 (87)
T ss_dssp -HHHHHHT---B-HHHHHHHHHHTTTBHHHHHHHHHHCH
T ss_pred CchHHHhC---CCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 56788999 9999999999999999999999999883
No 88
>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=92.76 E-value=0.65 Score=35.73 Aligned_cols=68 Identities=21% Similarity=0.184 Sum_probs=50.6
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe----CC--eecCCCCChhhhccCCCCEEEEEE
Q 017906 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH----QG--KVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 5 VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif----~G--kiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+.++|...+++|+.+.|+.+|=..|+...+. ...+-.-|.| +| .-|+.+++|.+...+......+..
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l--~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~f 74 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGL--KEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYF 74 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTT--SSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCC--CCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEE
Confidence 67789999999999999999999999999993 3455667777 23 346888999998777334333333
No 89
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=92.67 E-value=0.16 Score=52.47 Aligned_cols=42 Identities=36% Similarity=0.522 Sum_probs=38.1
Q ss_pred CcchHHHHHHHHHcCCCCC-CHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 169 GSNLEATVQQILDMGGGSW-DRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 169 g~~~e~~V~~i~~MG~~~f-~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
-..|..-.+++-+|| | +|+.-++||+|.+.+.++|||-|+.+
T Consensus 451 e~r~q~QLeQL~~MG---F~nre~nlqAL~atgGdi~aAverll~s 493 (493)
T KOG0010|consen 451 EERYQTQLEQLNDMG---FLDREANLQALRATGGDINAAVERLLGS 493 (493)
T ss_pred hHHHHHHHHHHHhcC---CccHHHHHHHHHHhcCcHHHHHHHHhcC
Confidence 356788899999999 9 99999999999999999999999853
No 90
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=92.43 E-value=0.52 Score=36.82 Aligned_cols=66 Identities=11% Similarity=0.160 Sum_probs=45.6
Q ss_pred CEEEEEeCC------C-cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCChhhhccCCCCEEE
Q 017906 1 MKVFVKTLK------G-THFEIEVKPEDKVSDVKKNIETVQGSDVYPA--SQQMLIHQGKVLKDVTTLEENKVAENSFVV 71 (364)
Q Consensus 1 MkI~VKtl~------g-k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~--~~qkLif~GkiL~D~~tL~d~gIk~~s~I~ 71 (364)
|+|+|+.+. | ....+++....||.+|++.|...... +.. ....+..+|+...++ +-|++|+.|.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~--l~~~~~~~~vavN~~~v~~~-----~~l~dgDeVa 74 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPS--LEEVRSCCVLALNEEYTTES-----AALKDGDELA 74 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChh--HHHHhhCcEEEECCEEcCCC-----cCcCCCCEEE
Confidence 778888653 4 45677888889999999999876420 111 223466788887533 4578899998
Q ss_pred EE
Q 017906 72 VM 73 (364)
Q Consensus 72 v~ 73 (364)
++
T Consensus 75 i~ 76 (82)
T PLN02799 75 II 76 (82)
T ss_pred Ee
Confidence 86
No 91
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=92.09 E-value=0.39 Score=35.88 Aligned_cols=41 Identities=29% Similarity=0.370 Sum_probs=37.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
.-++|+.|-|.-|+ +..+++-..|+-++++||.||+-||+-
T Consensus 5 ~rk~VQ~iKEiv~~-hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 5 SRKTVQSIKEIVGC-HSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHHHHHhcC-CCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 46799999998766 899999999999999999999999963
No 92
>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=91.94 E-value=0.77 Score=35.25 Aligned_cols=57 Identities=11% Similarity=0.135 Sum_probs=41.5
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCC-CCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGS-DVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~-~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
...++++...||.+|.+.+...++. .........+..+|+.... ++-|++|+.|.++
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~-----~~~l~~gD~v~i~ 74 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRL-----DTPLKDGDEVAII 74 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCC-----CcccCCCCEEEEe
Confidence 4667887789999999999987541 0012345667789998873 4568889999887
No 93
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=91.82 E-value=0.23 Score=35.15 Aligned_cols=37 Identities=22% Similarity=0.463 Sum_probs=29.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHH
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~ 211 (364)
.++.+.-|+.+| |.+.++.+|++....+++.-+|.++
T Consensus 3 ~~d~~~AL~~LG---y~~~e~~~av~~~~~~~~~~~e~~i 39 (47)
T PF07499_consen 3 LEDALEALISLG---YSKAEAQKAVSKLLEKPGMDVEELI 39 (47)
T ss_dssp HHHHHHHHHHTT---S-HHHHHHHHHHHHHSTTS-HHHHH
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhhcCCCCCHHHHH
Confidence 578999999999 9999999999998756666677665
No 94
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=91.49 E-value=1.3 Score=33.93 Aligned_cols=53 Identities=26% Similarity=0.458 Sum_probs=40.7
Q ss_pred CCc--EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 9 KGT--HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 9 ~gk--~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
+|+ ...++++...||.+|.+.+ + ++.....+..+|+++.. +.-+++|+.|.++
T Consensus 10 ng~~~~~~~~~~~~~tv~~ll~~l----~---~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 10 IGRGIEKEIEWRKGMKVADILRAV----G---FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred eccccceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 455 5678888889999998765 5 66677788899999854 4557889988876
No 95
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=91.36 E-value=0.21 Score=51.19 Aligned_cols=58 Identities=21% Similarity=0.166 Sum_probs=49.6
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 15 ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
++.....|-.+|..+|.++.| ++-...|.|.+||+|.-.+||.+-|++.+..+.|++.
T Consensus 54 ~k~sL~i~Gselqa~iakklg---i~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 54 KKCSLHITGSELQALIAKKLG---IKENHVKCIINGKILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hhcccccccHHHHHHHHHHcC---CchhhhheeeccceeecccchhhhhhhhhhHHHHHhc
Confidence 455566788899999999999 8888899999999999999999999988776666554
No 96
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=90.91 E-value=0.95 Score=33.87 Aligned_cols=60 Identities=13% Similarity=0.258 Sum_probs=42.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+| +|+.+.+ + ..||.+|.+.+ + +......+-++++++. .....+.-+++||.|.++-
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~---~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----D---YEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILS 60 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----C---CCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEE
Confidence 56665 4777776 3 35899988764 5 5566677889999986 2334566789999998873
No 97
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=89.85 E-value=1.1 Score=35.69 Aligned_cols=37 Identities=16% Similarity=0.169 Sum_probs=34.4
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGK 51 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~Gk 51 (364)
++.|.|.++.+..+|+.+|.++.+ ++.+..+|.|+..
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLk---l~~e~i~LsYkde 48 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLE---LPAEHITLSYKSE 48 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhC---CCchhcEEEeccC
Confidence 899999999999999999999999 9899999999653
No 98
>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=89.56 E-value=1.2 Score=35.87 Aligned_cols=74 Identities=18% Similarity=0.177 Sum_probs=50.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC----Ceec-CCCCChhhh-c---cCCCCEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----GKVL-KDVTTLEEN-K---VAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~----GkiL-~D~~tL~d~-g---Ik~~s~I~v 72 (364)
.+++|+.+|+.+.|.+.+++.+.+|+..|..+.|.+........|.|- -++| .-+.-|.+| . .....+|.+
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D~DL~e~v~iar~~g~~~v~L 81 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSDSDLVAAVLVARSAGLKKLDL 81 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEeccchHHHHHHHHHHcCCCEEEE
Confidence 468899999999999999999999999999999933122257777773 2333 333444444 2 233445655
Q ss_pred EEe
Q 017906 73 MLT 75 (364)
Q Consensus 73 ~v~ 75 (364)
++.
T Consensus 82 ~v~ 84 (86)
T cd06409 82 HLH 84 (86)
T ss_pred EEe
Confidence 553
No 99
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=88.85 E-value=0.52 Score=48.45 Aligned_cols=42 Identities=21% Similarity=0.389 Sum_probs=38.6
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhCCCCC
Q 017906 173 EATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQ 217 (364)
Q Consensus 173 e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~GIP~~ 217 (364)
...|.+|+.|| |++-..+.||++.-||-|.|.++|+--++..
T Consensus 430 ~~~la~Lv~mG---F~e~~A~~ALe~~gnn~~~a~~~L~~s~~n~ 471 (568)
T KOG2561|consen 430 GISLAELVSMG---FEEGKARSALEAGGNNEDTAQRLLSASVANE 471 (568)
T ss_pred hhhHHHHHHhc---cccchHHHHHHhcCCcHHHHHHHHHHhCCCC
Confidence 45799999999 9999999999999999999999999888754
No 100
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=88.53 E-value=1.3 Score=30.66 Aligned_cols=37 Identities=24% Similarity=0.397 Sum_probs=30.5
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 173 e~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
++.|.+.|+. | -+++.++.-|+.+.+|.++||+.-+.
T Consensus 1 ~e~i~~F~~iTg---~~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 1 DEKIAQFMSITG---ADEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHHHH----SSHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHC---cCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 4678899986 6 79999999999999999999986653
No 101
>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=88.36 E-value=2.9 Score=33.18 Aligned_cols=71 Identities=14% Similarity=0.147 Sum_probs=48.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCeEEEeCCe-----ecCCCCChhh----hccCCCCEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQGK-----VLKDVTTLEE----NKVAENSFV 70 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~-~~qkLif~Gk-----iL~D~~tL~d----~gIk~~s~I 70 (364)
|+|++. .+|..+.|.+.++.+..+|+.+|.++++ +.. ..+.|-|..- .|..+.-|.+ |......+|
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~---~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~~v 76 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFK---LDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSHTI 76 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhC---CCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCCeE
Confidence 455555 4677899999999999999999999998 543 5677777432 1333334444 344455667
Q ss_pred EEEEe
Q 017906 71 VVMLT 75 (364)
Q Consensus 71 ~v~v~ 75 (364)
.+++.
T Consensus 77 ~l~v~ 81 (82)
T cd06407 77 RLLVH 81 (82)
T ss_pred EEEee
Confidence 66653
No 102
>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=88.01 E-value=0.15 Score=49.93 Aligned_cols=60 Identities=25% Similarity=0.390 Sum_probs=0.0
Q ss_pred EEEEEeCCCcEEEEEeC---C--CCcHHHHHHHHHH----------HhCCCCCCCCCeE-----EEeCCeecCCCCChhh
Q 017906 2 KVFVKTLKGTHFEIEVK---P--EDKVSDVKKNIET----------VQGSDVYPASQQM-----LIHQGKVLKDVTTLEE 61 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~---~--s~TV~dLK~kI~~----------~~g~~~ip~~~qk-----Lif~GkiL~D~~tL~d 61 (364)
.|++|.+.+-.+.|.+. + +.+|.+||..++. +.+ +|.+++| |+|+.|.+.|.++|.+
T Consensus 80 tV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~---vp~dKik~~~~~lL~~kkPv~~~ktl~e 156 (309)
T PF12754_consen 80 TVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETR---VPLDKIKNFRCRLLYKKKPVGDSKTLAE 156 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhccccccccccc---CCHHHhhhhhhhheecCccCCCcCcHHH
Confidence 46667666655544332 2 5789999999999 777 9999999 9999999999999988
Q ss_pred hcc
Q 017906 62 NKV 64 (364)
Q Consensus 62 ~gI 64 (364)
+.-
T Consensus 157 ~l~ 159 (309)
T PF12754_consen 157 VLA 159 (309)
T ss_dssp ---
T ss_pred HHh
Confidence 743
No 103
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=86.86 E-value=3 Score=31.84 Aligned_cols=67 Identities=16% Similarity=0.209 Sum_probs=52.8
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE-eCCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI-HQGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 9 ~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi-f~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
+|+...++.+....+.-+..+--+..|...-|++...|- -+|.+|+-++.++|||+.++-++++.++
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLK 71 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLK 71 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEee
Confidence 578888888888888888777777766333567776664 5788999999999999999998887654
No 104
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=86.26 E-value=2.7 Score=31.57 Aligned_cols=60 Identities=17% Similarity=0.255 Sum_probs=42.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+| +|+.+.+ ....||.+|-+. .+ ++.....+.+++.++..+. ...+ +++||.|-++-
T Consensus 1 m~i~v---NG~~~~~--~~~~tl~~ll~~----l~---~~~~~vav~~N~~iv~r~~-~~~~-L~~gD~ieIv~ 60 (65)
T PRK05863 1 MIVVV---NEEQVEV--DEQTTVAALLDS----LG---FPEKGIAVAVDWSVLPRSD-WATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEE---CCEEEEc--CCCCcHHHHHHH----cC---CCCCcEEEEECCcCcChhH-hhhh-cCCCCEEEEEe
Confidence 56665 4776555 467788877664 46 7788999999999885422 2245 89999998864
No 105
>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=86.07 E-value=6.8 Score=34.97 Aligned_cols=61 Identities=21% Similarity=0.214 Sum_probs=46.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCeEEEeC---C---eecCCCCChhhhccC
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQ---G---KVLKDVTTLEENKVA 65 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~-~~qkLif~---G---kiL~D~~tL~d~gIk 65 (364)
.|.|..++|....|.++.+.||.+|...|+.+.| +.. ...-|.+- + .-|+...+|.+...+
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~---l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLG---IRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhC---CCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 5788889999999999999999999999999999 532 33344431 2 346667788877655
No 106
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=85.88 E-value=4.6 Score=32.69 Aligned_cols=62 Identities=13% Similarity=0.198 Sum_probs=42.0
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--e--CCe-ecCC-CCChhhhccCCCCEEEEEEec
Q 017906 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--H--QGK-VLKD-VTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 11 k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f--~Gk-iL~D-~~tL~d~gIk~~s~I~v~v~k 76 (364)
..++..+...+||..+++.+.+.+. + ....||- | ++. .|.+ +.||.|.+|.+|-.|++=.+.
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~---i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFN---I-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT-----TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred cHhHhhccccChHHHHHHHHHHHhC---C-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 3677788999999999999999998 8 6677883 2 222 3644 679999999999877765544
No 107
>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=85.41 E-value=2 Score=32.57 Aligned_cols=60 Identities=15% Similarity=0.150 Sum_probs=47.0
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
...+.+....||.+|.+.+....+.. .......+..+|+.+.+ ...+.-+++++.|.++-
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~-~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~p 72 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPEL-ALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILP 72 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGG-HTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhcccc-ccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEEC
Confidence 66788899999999999999886411 12367888899999987 35666788999998873
No 108
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=85.37 E-value=3.9 Score=30.39 Aligned_cols=61 Identities=13% Similarity=0.251 Sum_probs=43.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+| +|+.+ ++....||.+|-+. .+ ++.....+.++|+++.-. ...+.-+++|+.|-++-
T Consensus 1 m~i~v---NG~~~--~~~~~~tl~~lL~~----l~---~~~~~vav~vNg~iv~r~-~~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 1 MNIQL---NGEPR--ELPDGESVAALLAR----EG---LAGRRVAVEVNGEIVPRS-QHASTALREGDVVEIVH 61 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHh----cC---CCCCeEEEEECCeEeCHH-HcCcccCCCCCEEEEEE
Confidence 55555 47755 55667898888765 46 778888889999888633 23344588999988764
No 109
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=84.71 E-value=5.3 Score=30.94 Aligned_cols=58 Identities=19% Similarity=0.277 Sum_probs=41.9
Q ss_pred CCc-EEEEEeCCC-CcHHHHHHHHHHHhCCCCCC--CCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 9 KGT-HFEIEVKPE-DKVSDVKKNIETVQGSDVYP--ASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 9 ~gk-~~~ieV~~s-~TV~dLK~kI~~~~g~~~ip--~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
.|+ ...+++..+ .||.+|+..+....+. +- .....+..+|+.+.+ +.-|++|+.|.++
T Consensus 13 ~g~~~~~~~~~~~~~tv~~L~~~L~~~~p~--l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 13 AGTDEETLELPDESTTVGELKEHLAKEGPE--LAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred hCCCeEEEECCCCCcCHHHHHHHHHHhCch--hhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 344 357888876 8999999999988641 11 134567789988875 4568889999887
No 110
>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=84.28 E-value=4.8 Score=30.97 Aligned_cols=45 Identities=16% Similarity=0.178 Sum_probs=37.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G 50 (364)
+|.|+. ++..+.+.|..+.|..+|+.+|..+++ +.....+|-|..
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~---~~~~~~~l~Y~D 47 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFG---LDNQSFTLKYQD 47 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhC---CCCCCeEEEEEC
Confidence 456664 667888999999999999999999998 656788888864
No 111
>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=83.57 E-value=3.2 Score=33.33 Aligned_cols=62 Identities=18% Similarity=0.137 Sum_probs=43.5
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEec
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~k 76 (364)
.+...++-...+..||..++.+.+ +.-+.-.+......|+.+++|-+-+|+-...|.+.+--
T Consensus 4 vI~q~mDI~epl~~Lk~lLe~Rl~---~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi 65 (88)
T PF11620_consen 4 VIMQHMDIREPLSTLKKLLERRLG---ISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQI 65 (88)
T ss_dssp EEEEEEESSSBGGGHHHHSHHHH----S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEE
T ss_pred eEEEEEecCCcHHHHHHHHHHhhC---CCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEE
Confidence 345567777899999999999999 66778888888878999999999999998888887654
No 112
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=83.16 E-value=6.6 Score=29.47 Aligned_cols=61 Identities=7% Similarity=0.176 Sum_probs=42.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+|. |+.+.+ ....||.+|.+. .+ +......+-++++++.. ....++-+++|+.|.++-
T Consensus 1 m~i~vN---g~~~~~--~~~~tl~~ll~~----l~---~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 1 MQILFN---DQPMQC--AAGQTVHELLEQ----LN---QLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEEC---CeEEEc--CCCCCHHHHHHH----cC---CCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEE
Confidence 666664 776555 567789988865 34 44566788899999852 223444588999988763
No 113
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=82.90 E-value=1.7 Score=45.56 Aligned_cols=40 Identities=30% Similarity=0.580 Sum_probs=35.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHcC-ChHHHHHHHHhCCC
Q 017906 173 EATVQQILDMGGGSWDRETVIRALRAAYN-NPERAVEYLYSGIP 215 (364)
Q Consensus 173 e~~V~~i~~MG~~~f~r~qv~~ALrAafn-NpdRAvEyL~~GIP 215 (364)
...|.+|++|| |+.+.+.|||-+.-| +-+.|+.||.-.+-
T Consensus 559 qs~I~qL~~mG---fp~~~~~rAL~~tgNqDaEsAMNWLFqHMd 599 (749)
T COG5207 559 QSLIRQLVDMG---FPEEDAARALGITGNQDAESAMNWLFQHMD 599 (749)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHhhccCcchHHHHHHHHhhcc
Confidence 56899999999 999999999998776 68899999997753
No 114
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=82.33 E-value=1.9 Score=46.45 Aligned_cols=42 Identities=24% Similarity=0.408 Sum_probs=36.9
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHH-cCChHHHHHHHHhCCCC
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAA-YNNPERAVEYLYSGIPE 216 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAa-fnNpdRAvEyL~~GIP~ 216 (364)
.+..|.+|++|| |+.+.|.|||... ..+-+-|..||+.-+-+
T Consensus 571 d~s~i~qL~~MG---Fp~eac~rAly~tgN~~aEaA~NWl~~HMdD 613 (763)
T KOG0944|consen 571 DRSVISQLVEMG---FPEEACRRALYYTGNSGAEAASNWLMEHMDD 613 (763)
T ss_pred hHHHHHHHHHcC---CCHHHHHHHHhhhcCccHHHHHHHHHHhccC
Confidence 467899999999 9999999999998 55789999999988643
No 115
>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=81.94 E-value=5.9 Score=31.92 Aligned_cols=46 Identities=17% Similarity=0.262 Sum_probs=36.5
Q ss_pred EEEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 017906 2 KVFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGK 51 (364)
Q Consensus 2 kI~VKtl-~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~Gk 51 (364)
+|+||.. .|..+.|.|.++.+..+|..+|.++++ +. ..++|-|...
T Consensus 2 ~ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~---~~-~~~~iKykDE 48 (86)
T cd06408 2 KIRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFG---FK-RRLKIKMKDD 48 (86)
T ss_pred cEEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhC---CC-CceEEEEEcC
Confidence 3555554 678999999999999999999999999 63 5667766554
No 116
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=81.88 E-value=3.6 Score=35.23 Aligned_cols=60 Identities=17% Similarity=0.174 Sum_probs=44.1
Q ss_pred EeCC-CCcHHHHHHHHHHHhCCC-------CCCCCCeEEEeC-----------------Ceec---CCCCChhhhccCCC
Q 017906 16 EVKP-EDKVSDVKKNIETVQGSD-------VYPASQQMLIHQ-----------------GKVL---KDVTTLEENKVAEN 67 (364)
Q Consensus 16 eV~~-s~TV~dLK~kI~~~~g~~-------~ip~~~qkLif~-----------------GkiL---~D~~tL~d~gIk~~ 67 (364)
.|+. +.||.+|++.|.+..... .+.-+.+||++. ..+| +++++|.+|||.+.
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 4786 899999999998775311 134456677653 2577 77899999999999
Q ss_pred CEEEEEEe
Q 017906 68 SFVVVMLT 75 (364)
Q Consensus 68 s~I~v~v~ 75 (364)
..|-++..
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 88887654
No 117
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=81.83 E-value=0.81 Score=35.97 Aligned_cols=27 Identities=33% Similarity=0.434 Sum_probs=23.7
Q ss_pred C-CHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 187 W-DRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 187 f-~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
. ++.+++.||...|+|+++||.||++-
T Consensus 43 ~~~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 43 VPPEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp C--CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 5 89999999999999999999999987
No 118
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=81.65 E-value=2.2 Score=43.10 Aligned_cols=65 Identities=23% Similarity=0.354 Sum_probs=52.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCChhhhccCCCC
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD-VTTLEENKVAENS 68 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~D-~~tL~d~gIk~~s 68 (364)
.|-||..+|+.+...++.+.||.||+..|...... .....+-|+ |--|.|.| +.||++-|+.+..
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~--~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsv 374 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPG--DSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSV 374 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCC--CcCCceeeeecCCCcccCCcchhHHhccchhhh
Confidence 47889899999999999999999999999998762 333455555 66788855 7899999998743
No 119
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=81.65 E-value=2.2 Score=35.12 Aligned_cols=33 Identities=27% Similarity=0.309 Sum_probs=23.0
Q ss_pred EEEeCCeecCCCCChhhh-ccCCCCEEEEEEecC
Q 017906 45 MLIHQGKVLKDVTTLEEN-KVAENSFVVVMLTKS 77 (364)
Q Consensus 45 kLif~GkiL~D~~tL~d~-gIk~~s~I~v~v~k~ 77 (364)
.|-|.||.|..+++|++| |-.+...|+|-+.++
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~ 36 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKR 36 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcceeEEEEeccC
Confidence 578999999999999999 223344555444443
No 120
>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=81.42 E-value=10 Score=29.77 Aligned_cols=58 Identities=12% Similarity=0.268 Sum_probs=40.2
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCC---CCCC-----CCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGS---DVYP-----ASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~---~~ip-----~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
...++++ ..||.+|.+.|.++++. ..+. .....+..+|+..+++.. .-|++|+.|.++
T Consensus 17 ~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~ 82 (88)
T TIGR01687 17 SEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF 82 (88)
T ss_pred eEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence 5677886 89999999999988541 0011 123566788888765432 458899999887
No 121
>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=80.96 E-value=4.7 Score=31.27 Aligned_cols=45 Identities=20% Similarity=0.158 Sum_probs=38.1
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G 50 (364)
+.|-..+|+.-.+.|.+..||.++-.++.++.| +.++...|.+.|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~---l~~~~~~v~~~~ 46 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRG---LNPECCDVFLLG 46 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEec
Confidence 456677899999999999999999999999999 777777766543
No 122
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=79.65 E-value=12 Score=27.62 Aligned_cols=60 Identities=10% Similarity=0.130 Sum_probs=39.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+| +|+.+ ++....||.+|.+.+ + +. ....+.++|+++..+. ..+.-+++|+.|.++-
T Consensus 1 m~i~v---Ng~~~--~~~~~~tl~~ll~~l----~---~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 1 MDIQL---NQQTL--SLPDGATVADALAAY----G---AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ 60 (65)
T ss_pred CEEEE---CCEEE--ECCCCCcHHHHHHhh----C---CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence 56655 47654 456678999988764 4 32 3456778999885321 2333488899998873
No 123
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=78.76 E-value=0.76 Score=47.99 Aligned_cols=38 Identities=18% Similarity=0.282 Sum_probs=36.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
.|..++.|++|| |.-.+|+.||--..+|.+|+|+|.++
T Consensus 621 dE~~~~Slle~G---ln~n~~Rkal~~~n~d~~r~V~w~~N 658 (749)
T COG5207 621 DESKARSLLENG---LNPNLCRKALMDMNTDSKRRVVWCIN 658 (749)
T ss_pred cHHHHHHHHHcC---CCHHHHHHHHHHccCCchheEEEEEe
Confidence 588999999999 99999999999999999999999998
No 124
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=78.74 E-value=11 Score=28.92 Aligned_cols=62 Identities=16% Similarity=0.314 Sum_probs=43.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
|.++|. ++|+. +++....||.+|-+. .+ ++.+..-+.++|.++..+ -..+.-+++++.|.++
T Consensus 1 ~~m~i~-~ng~~--~e~~~~~tv~dLL~~----l~---~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv 62 (68)
T COG2104 1 MPMTIQ-LNGKE--VEIAEGTTVADLLAQ----LG---LNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVV 62 (68)
T ss_pred CcEEEE-ECCEE--EEcCCCCcHHHHHHH----hC---CCCceEEEEECCEEccch-hhhhccccCCCEEEEE
Confidence 455665 45665 455666899998765 56 778888889999998642 2345567888888775
No 125
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=78.09 E-value=11 Score=28.61 Aligned_cols=61 Identities=10% Similarity=0.238 Sum_probs=41.9
Q ss_pred CEEEEEeCCCcEEEEEeCCC-CcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPE-DKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s-~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|+| +|+.+.+ ... .||.+|-+. .+ +.....-+-++|+++.- ....++-+++||.|.++-
T Consensus 1 m~I~v---NG~~~~~--~~~~~tv~~lL~~----l~---~~~~~vav~vN~~iv~r-~~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 1 MNLKI---NGNQIEV--PESVKTVAELLTH----LE---LDNKIVVVERNKDILQK-DDHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEE---CCEEEEc--CCCcccHHHHHHH----cC---CCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEE
Confidence 56665 4776654 444 578877653 56 66777788899999853 234555689999988764
No 126
>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=76.90 E-value=9.5 Score=28.37 Aligned_cols=57 Identities=9% Similarity=0.242 Sum_probs=40.6
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 8 l~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
++|+.+ +++...||.+|.+++ + ++.+...+.++|+++..+ ...++-|++|+.|.++-
T Consensus 4 iNg~~~--~~~~~~tv~~ll~~l----~---~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 4 VNGEPR--EVEEGATLAELLEEL----G---LDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVT 60 (65)
T ss_pred ECCeEE--EcCCCCCHHHHHHHc----C---CCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 456654 445678999998764 4 567788889999988543 23344588999998763
No 127
>PRK07440 hypothetical protein; Provisional
Probab=76.45 E-value=11 Score=28.80 Aligned_cols=57 Identities=12% Similarity=0.243 Sum_probs=40.8
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 8 l~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
++|+. +++....||.+|-+. .+ +.....-+-++|+++.- ....++-+++||.|.++-
T Consensus 9 vNG~~--~~~~~~~tl~~lL~~----l~---~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 9 VNGET--RTCSSGTSLPDLLQQ----LG---FNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIVT 65 (70)
T ss_pred ECCEE--EEcCCCCCHHHHHHH----cC---CCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEE
Confidence 46776 455667899887753 45 66778888899999852 234555688999988764
No 128
>smart00455 RBD Raf-like Ras-binding domain.
Probab=76.41 E-value=9.5 Score=29.26 Aligned_cols=49 Identities=18% Similarity=0.202 Sum_probs=41.2
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--KVLK 54 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G--kiL~ 54 (364)
+.|-..+|+...+.+.+..||.++-.+|.++.| +.++...|++.| |.|+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~---l~~~~~~v~~~g~~k~ld 52 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRG---LNPECCVVRLRGEKKPLD 52 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccee
Confidence 345667899999999999999999999999999 888888888755 4553
No 129
>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=75.63 E-value=9.7 Score=29.27 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=35.1
Q ss_pred EEEEEeCCCcEEE-EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 017906 2 KVFVKTLKGTHFE-IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (364)
Q Consensus 2 kI~VKtl~gk~~~-ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G 50 (364)
+|.++ .++..+. +.+..+.+..+|+.+|...++ ......+|.|..
T Consensus 3 ~vK~~-~~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~Y~D 48 (84)
T PF00564_consen 3 RVKVR-YGGDIRRIISLPSDVSFDDLRSKIREKFG---LLDEDFQLKYKD 48 (84)
T ss_dssp EEEEE-ETTEEEEEEEECSTSHHHHHHHHHHHHHT---TSTSSEEEEEEE
T ss_pred EEEEE-ECCeeEEEEEcCCCCCHHHHHHHHHHHhC---CCCccEEEEeeC
Confidence 34444 3455555 899999999999999999999 666888998853
No 130
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=75.13 E-value=13 Score=29.75 Aligned_cols=57 Identities=5% Similarity=0.161 Sum_probs=40.9
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 8 l~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
++|+.+. ++...||.+|-+. .+ ++....-+-++|.++. .....++-+++||.|.++-
T Consensus 23 VNG~~~~--~~~~~tl~~LL~~----l~---~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 23 INDQSIQ--VDISSSLAQIIAQ----LS---LPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred ECCeEEE--cCCCCcHHHHHHH----cC---CCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence 4576544 4567788887765 45 7777778889999994 3345666789999998864
No 131
>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=75.04 E-value=11 Score=28.65 Aligned_cols=45 Identities=22% Similarity=0.145 Sum_probs=34.8
Q ss_pred EEEEEeCCCcEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 017906 2 KVFVKTLKGTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~-~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G 50 (364)
+|.++ .+|..+.+.+. .+.|..+|+.+|..+.+ +.....+|-|..
T Consensus 2 ~vK~~-~~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVK-YGGEIRRFVVVSRSISFEDLRSKIAEKFG---LDAVSFKLKYPD 47 (81)
T ss_pred cEEEE-ecCCCEEEEEecCCCCHHHHHHHHHHHhC---CCCCcEEEEeeC
Confidence 45566 34678888888 89999999999999998 544567777754
No 132
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=74.14 E-value=6.5 Score=31.30 Aligned_cols=28 Identities=21% Similarity=0.411 Sum_probs=23.5
Q ss_pred hHHHHHHHhhhCHHHHHHHHHCHHHHHHH
Q 017906 300 LQPMLQELGKQNPHLMRLIQEHQTDFLRL 328 (364)
Q Consensus 300 L~~~Lqql~~~nP~L~~~I~~n~e~Fl~~ 328 (364)
|+.+|++|+ ++|.+.+...++|+.|+.-
T Consensus 6 ~nrli~~L~-~dp~~rerF~~DPea~~~~ 33 (81)
T cd07922 6 VNRLIQELF-KDPGLIERFQDDPSAVFEE 33 (81)
T ss_pred HHHHHHHHh-cCHHHHHHHHHCHHHHHHH
Confidence 467888865 7999999999999999753
No 133
>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=73.66 E-value=20 Score=30.17 Aligned_cols=59 Identities=12% Similarity=0.113 Sum_probs=42.7
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCChhhh--ccC-CCCEEEEEEec
Q 017906 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIHQGKVLKDVTTLEEN--KVA-ENSFVVVMLTK 76 (364)
Q Consensus 15 ieV~~s~TV~dLK~kI~~~~g~~~ip~~~-qkLif~GkiL~D~~tL~d~--gIk-~~s~I~v~v~k 76 (364)
+-|..+.||.+|...|..... +.+++ +-|+.++.....+.+|.++ ..+ ++.+++|..+.
T Consensus 45 flVp~~~tv~~f~~~irk~l~---l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyl~Ys~ 107 (112)
T cd01611 45 YLVPSDLTVGQFVYIIRKRIQ---LRPEKALFLFVNNSLPPTSATMSQLYEEHKDEDGFLYMTYSS 107 (112)
T ss_pred EEecCCCCHHHHHHHHHHHhC---CCccceEEEEECCccCCchhHHHHHHHHhCCCCCEEEEEEec
Confidence 348999999999999999987 55555 5555666555667777765 223 47789887754
No 134
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=73.35 E-value=5.8 Score=27.93 Aligned_cols=32 Identities=22% Similarity=0.495 Sum_probs=26.3
Q ss_pred hHHHHHHHhhhCHHHHHHHHH--CHHHHHHHhcCC
Q 017906 300 LQPMLQELGKQNPHLMRLIQE--HQTDFLRLINEP 332 (364)
Q Consensus 300 L~~~Lqql~~~nP~L~~~I~~--n~e~Fl~~l~e~ 332 (364)
|..+|+.+ ++||+|.+.+.+ |+++|+.+..+.
T Consensus 6 l~~Fl~~~-~~d~~l~~~l~~~~~~~e~~~lA~~~ 39 (49)
T PF07862_consen 6 LKAFLEKV-KSDPELREQLKACQNPEEVVALAREA 39 (49)
T ss_pred HHHHHHHH-hcCHHHHHHHHhcCCHHHHHHHHHHc
Confidence 55666666 689999999998 999999998753
No 135
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=73.31 E-value=13 Score=38.12 Aligned_cols=73 Identities=15% Similarity=0.233 Sum_probs=58.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe----CCee--cCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH----QGKV--LKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif----~Gki--L~D~~tL~d~gIk~~s~I~v~v 74 (364)
|.|.||.-.| ...++|.++++..-|-.+|-.-...+ +.++.+.++- .|.+ +..++++.|+|++.|..++|-.
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 MIFRFRSKEG-QRRVEVQESDVLGMLSPKLLAFFEVN-YSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEecCCC-ceeeeccccchhhhhhHHHHhhhccC-CCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 7788997666 67899999999999999888776654 7788888764 2443 3457999999999999999877
Q ss_pred e
Q 017906 75 T 75 (364)
Q Consensus 75 ~ 75 (364)
+
T Consensus 79 s 79 (571)
T COG5100 79 S 79 (571)
T ss_pred c
Confidence 3
No 136
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=73.03 E-value=6.9 Score=31.32 Aligned_cols=52 Identities=12% Similarity=0.100 Sum_probs=27.8
Q ss_pred CCCcHHHHHHHHHH-HhCCCCCCCC----CeEEEeCCee----cCCCCChhhhccCCCCEEEEE
Q 017906 19 PEDKVSDVKKNIET-VQGSDVYPAS----QQMLIHQGKV----LKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 19 ~s~TV~dLK~kI~~-~~g~~~ip~~----~qkLif~Gki----L~D~~tL~d~gIk~~s~I~v~ 73 (364)
..+|+.+|-++|-+ +.| +..- .-+++|.... -..+++|+++||++|++|.|.
T Consensus 7 ~~~TL~~lv~~Vlk~~Lg---~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 7 KKMTLGDLVEKVLKKKLG---MNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp TT-BHHHHHHHCCCCCS-----SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hhCcHHHHHHHHHHhccC---CCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 36799999988754 445 2211 2234443322 112578999999999998774
No 137
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.57 E-value=4.2 Score=40.42 Aligned_cols=55 Identities=16% Similarity=0.134 Sum_probs=44.0
Q ss_pred EeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe---CCee-----cCCCCChhhhccCCCCEEEEE
Q 017906 16 EVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH---QGKV-----LKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 16 eV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif---~Gki-----L~D~~tL~d~gIk~~s~I~v~ 73 (364)
-|.-.-||.|+|+++..+.| +.+.++||+| .||. .+.++.|-.|+|.+|+.+.|-
T Consensus 353 ~I~~~~TV~D~~~~Ld~~VG---vk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 353 LICMTRTVLDFMKILDPKVG---VKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred EEEeehHHHHHHHHhccccc---cccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 34556799999999999999 8899999987 4543 234678888999999988764
No 138
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=71.17 E-value=6.7 Score=36.36 Aligned_cols=36 Identities=25% Similarity=0.341 Sum_probs=32.0
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 174 ~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
.+|.+|-++ | +.=-+|..||..+-+|-|.|++||--
T Consensus 6 ~~ik~LR~~tg---a~~~~ck~AL~~~~gd~~~A~~~lr~ 42 (198)
T PRK12332 6 KLVKELREKTG---AGMMDCKKALEEANGDMEKAIEWLRE 42 (198)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 468888887 6 88889999999999999999999974
No 139
>PF12616 DUF3775: Protein of unknown function (DUF3775); InterPro: IPR022254 This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=71.08 E-value=5.8 Score=31.13 Aligned_cols=40 Identities=25% Similarity=0.494 Sum_probs=31.9
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHcCC-hHHHHHHHHhCCC
Q 017906 175 TVQQILDMGGGSWDRETVIRALRAAYNN-PERAVEYLYSGIP 215 (364)
Q Consensus 175 ~V~~i~~MG~~~f~r~qv~~ALrAafnN-pdRAvEyL~~GIP 215 (364)
-+--||=+|+|.|+-++-..|++-|-.+ -.+.++||+ |.|
T Consensus 20 eLvALmwiGRGd~~~eew~~a~~~A~~~~~~~ta~YLl-~~p 60 (75)
T PF12616_consen 20 ELVALMWIGRGDFEAEEWEEAVAEARERASARTADYLL-GTP 60 (75)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHhccchHHHHHH-cCC
Confidence 3556788999999999999999888555 457889997 555
No 140
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=70.71 E-value=4.6 Score=40.72 Aligned_cols=29 Identities=17% Similarity=0.365 Sum_probs=23.7
Q ss_pred ccCCcchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 017906 166 LVAGSNLEATVQQILDMGGGSWDRETVIRALR 197 (364)
Q Consensus 166 l~~g~~~e~~V~~i~~MG~~~f~r~qv~~ALr 197 (364)
++..--++++|+.++.|| |.||+|+.-.|
T Consensus 315 ~~~~~p~ddvidKv~~MG---f~rDqV~a~v~ 343 (358)
T PF07223_consen 315 SGNRHPYDDVIDKVASMG---FRRDQVRATVR 343 (358)
T ss_pred ccccCcHHHHHHHHHHcC---CcHHHHHHHHH
Confidence 444556899999999999 99999987444
No 141
>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=70.10 E-value=17 Score=27.00 Aligned_cols=57 Identities=9% Similarity=0.233 Sum_probs=40.2
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 8 l~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
++|+.+.+ ....||.+|.+. .+ ++++...+.++|+++..+ ...++-|++||.|.++-
T Consensus 3 iNg~~~~~--~~~~tv~~ll~~----l~---~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 3 VNGEPVEV--EDGLTLAALLES----LG---LDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT 59 (64)
T ss_pred ECCeEEEc--CCCCcHHHHHHH----cC---CCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 46766554 567799999886 45 666777888999988422 23345688999988763
No 142
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=69.48 E-value=7.1 Score=38.32 Aligned_cols=36 Identities=22% Similarity=0.249 Sum_probs=32.0
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 174 ~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
..|.+|-++ | +.=-+|..||..+-+|-|+|++||--
T Consensus 6 ~~IK~LRe~Tg---agm~dCKkAL~e~~gDiekAi~~LRk 42 (290)
T TIGR00116 6 QLVKELRERTG---AGMMDCKKALTEANGDFEKAIKNLRE 42 (290)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 468888887 7 88889999999999999999999973
No 143
>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=68.73 E-value=15 Score=28.65 Aligned_cols=63 Identities=21% Similarity=0.221 Sum_probs=40.7
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe------CCeecCCCCChhhhccCCCCEEEEEEec
Q 017906 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH------QGKVLKDVTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 11 k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif------~GkiL~D~~tL~d~gIk~~s~I~v~v~k 76 (364)
++|-+=.+++.|+.+|+..|.+++.+ +.|....|.. .|--|+.+-.+++. +..++.|.|+++.
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~k--LYP~~~~~~I~~LQD~~~cDLD~d~~V~DV-f~~~~~vrvi~~n 71 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFKK--LYPNEPELEILSLQDSDGCDLDPDFLVKDV-FNSNNVVRVILKN 71 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHHH--HCCCCCCceEEEeecCCCCCCCcccEeeee-eccCCEEEEEecC
Confidence 46666688999999999999999874 3334334432 23334444555554 3467788777753
No 144
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=68.53 E-value=21 Score=30.56 Aligned_cols=59 Identities=14% Similarity=0.248 Sum_probs=45.6
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhh---ccCCCCEEEEEEec
Q 017906 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN---KVAENSFVVVMLTK 76 (364)
Q Consensus 15 ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~---gIk~~s~I~v~v~k 76 (364)
+-|..+.||.++...|..+.+ +.+++.-|+.++.++..+.+++++ .-.++.++++..+.
T Consensus 45 llVP~d~tV~qF~~iIRkrl~---l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys~ 106 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALG---TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVRT 106 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcC---CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEcc
Confidence 368999999999999999998 778886666677666777788776 12357788887653
No 145
>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=68.15 E-value=37 Score=27.31 Aligned_cols=67 Identities=21% Similarity=0.193 Sum_probs=45.3
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE------eCCeecCCCCChhhh----ccCCCCEEE
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI------HQGKVLKDVTTLEEN----KVAENSFVV 71 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi------f~GkiL~D~~tL~d~----gIk~~s~I~ 71 (364)
|.|...+|....|.|+..+|+.++-+.+..+.++. +...--|+ +=-+.|+|...|-++ ++..++.|+
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~--~~~~W~LvE~~P~l~lER~~EDHE~vvdvl~~W~~~~~n~l~ 81 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQ--DDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVLF 81 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCC--CCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEEE
Confidence 45556789999999999999999999999998852 22233332 124567777655444 454444443
No 146
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=67.27 E-value=17 Score=36.27 Aligned_cols=62 Identities=8% Similarity=0.135 Sum_probs=45.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
|+|+| +|+.+ ++....||.+|-+. .+ ++.+...+.+||+++.- ....++-|++||.|.++--
T Consensus 1 M~I~V---NGk~~--el~e~~TL~dLL~~----L~---i~~~~VAVeVNgeIVpr-~~w~~t~LkeGD~IEII~~ 62 (326)
T PRK11840 1 MRIRL---NGEPR--QVPAGLTIAALLAE----LG---LAPKKVAVERNLEIVPR-SEYGQVALEEGDELEIVHF 62 (326)
T ss_pred CEEEE---CCEEE--ecCCCCcHHHHHHH----cC---CCCCeEEEEECCEECCH-HHcCccccCCCCEEEEEEE
Confidence 56655 47764 45667888888765 46 77889999999999952 3345666899999988754
No 147
>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=66.11 E-value=36 Score=27.51 Aligned_cols=69 Identities=16% Similarity=0.154 Sum_probs=45.2
Q ss_pred EEEEeCCCcEEEEEeC-----CCCcHHHHHHHHHHHhCCCCCCC-CCeEEEeCC---e--ecCCCCChhhh-----ccCC
Q 017906 3 VFVKTLKGTHFEIEVK-----PEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQG---K--VLKDVTTLEEN-----KVAE 66 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~-----~s~TV~dLK~kI~~~~g~~~ip~-~~qkLif~G---k--iL~D~~tL~d~-----gIk~ 66 (364)
|+|+ .+|....|.+. ++.+..+|+.+|.+.++ ++. ....|.|.. . .|.++.-|.++ ....
T Consensus 3 vKv~-y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~---l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~ 78 (91)
T cd06398 3 VKVK-YGGTLRRFTFPVAENQLDLNMDGLREKVEELFS---LSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSR 78 (91)
T ss_pred EEEE-eCCEEEEEEeccccccCCCCHHHHHHHHHHHhC---CCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCC
Confidence 4444 35666666666 47999999999999998 766 677777753 2 24444444443 2235
Q ss_pred CCEEEEEEe
Q 017906 67 NSFVVVMLT 75 (364)
Q Consensus 67 ~s~I~v~v~ 75 (364)
..+|.+.++
T Consensus 79 ~~~lrl~v~ 87 (91)
T cd06398 79 LNPLRIDVT 87 (91)
T ss_pred CceEEEEEE
Confidence 677777765
No 148
>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=66.09 E-value=19 Score=38.26 Aligned_cols=65 Identities=25% Similarity=0.340 Sum_probs=42.2
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCC------CCCeEEEe--C--Ce-ecCCC-------------CChhhhccCC
Q 017906 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYP------ASQQMLIH--Q--GK-VLKDV-------------TTLEENKVAE 66 (364)
Q Consensus 11 k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip------~~~qkLif--~--Gk-iL~D~-------------~tL~d~gIk~ 66 (364)
..+.+.|-..|||.++|+||-+..=++ .| +++.-|-+ + |+ +|.|. .||..|+|.+
T Consensus 202 ~~i~VkVLdCDTItQVKeKiLDavyk~-~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~d 280 (539)
T PF08337_consen 202 EEIPVKVLDCDTITQVKEKILDAVYKN-TPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPD 280 (539)
T ss_dssp TCEEEEEETTSBHHHHHHHHHHHHTTT-S-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--T
T ss_pred ceEEEEEEecCcccHHHHHHHHHHHcC-CCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCC
Confidence 457888989999999999998775332 32 23344432 2 33 56553 3789999999
Q ss_pred CCEEEEEEec
Q 017906 67 NSFVVVMLTK 76 (364)
Q Consensus 67 ~s~I~v~v~k 76 (364)
|++|.++.+.
T Consensus 281 ga~vaLv~k~ 290 (539)
T PF08337_consen 281 GATVALVPKQ 290 (539)
T ss_dssp TEEEEEEES-
T ss_pred CceEEEeecc
Confidence 9988877654
No 149
>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=65.38 E-value=35 Score=26.15 Aligned_cols=57 Identities=14% Similarity=0.050 Sum_probs=40.5
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCChhhh
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEEN 62 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif--~GkiL~D~~tL~d~ 62 (364)
+.|--.+|+...+.|.+..||.++-.++.++.| +.++...+.. ..+.|+-+.....+
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~---L~~~~~~V~~~~~~k~l~~~~d~~~L 61 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRG---LNPECCDVRLVGEKKPLDWDQDSSSL 61 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT-----CCCEEEEEEEEEEEE-TTSBGGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccccCCCceeee
Confidence 456667899999999999999999999999999 7777766654 34556655555443
No 150
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=65.25 E-value=26 Score=27.80 Aligned_cols=52 Identities=23% Similarity=0.333 Sum_probs=41.0
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCChhhhccCCCCEEEEE
Q 017906 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 10 gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif-~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
+..+.+.++...||+++-+. .| +|..+..+|+ +|+...= +|-+++|+.|.|.
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LG---VP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LG---VPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVY 74 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cC---CChHHeEEEEECCEECCC-----cccCCCCCEEEEE
Confidence 45678899999999887664 78 9999998874 8887654 3667889999886
No 151
>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=65.23 E-value=27 Score=29.04 Aligned_cols=58 Identities=14% Similarity=0.110 Sum_probs=41.9
Q ss_pred EeCCCCcHHHHHHHHHHHhCCCCCCCC-CeEEEeCCeecCCCCChhhh---ccCCCCEEEEEEec
Q 017906 16 EVKPEDKVSDVKKNIETVQGSDVYPAS-QQMLIHQGKVLKDVTTLEEN---KVAENSFVVVMLTK 76 (364)
Q Consensus 16 eV~~s~TV~dLK~kI~~~~g~~~ip~~-~qkLif~GkiL~D~~tL~d~---gIk~~s~I~v~v~k 76 (364)
=|..+.||.+|...|..... +.++ .+-|+.++..+..+.+|+++ .-.++.+++|....
T Consensus 38 Lvp~~~tv~qf~~~ir~rl~---l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys~ 99 (104)
T PF02991_consen 38 LVPKDLTVGQFVYIIRKRLQ---LSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYSS 99 (104)
T ss_dssp EEETTSBHHHHHHHHHHHTT-----TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEES
T ss_pred EEcCCCchhhHHHHhhhhhc---CCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEecc
Confidence 36788999999999999987 5454 35667788777888898876 22467789887653
No 152
>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=65.07 E-value=39 Score=27.96 Aligned_cols=75 Identities=19% Similarity=0.086 Sum_probs=45.9
Q ss_pred EEEEeCC-CcEEEEEeCCCCcHHHHHHHHHHHh--CCCC-CCCC-CeEEEeCCee--cCCCCChhhh-----ccCCCCEE
Q 017906 3 VFVKTLK-GTHFEIEVKPEDKVSDVKKNIETVQ--GSDV-YPAS-QQMLIHQGKV--LKDVTTLEEN-----KVAENSFV 70 (364)
Q Consensus 3 I~VKtl~-gk~~~ieV~~s~TV~dLK~kI~~~~--g~~~-ip~~-~qkLif~Gki--L~D~~tL~d~-----gIk~~s~I 70 (364)
|.|...+ ...+++.|+.++|+.+|.+.+-.+. ..+. -+.+ +..|--.|+. |..+..|.+| .++.+..+
T Consensus 20 v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~ 99 (108)
T smart00144 20 IVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREP 99 (108)
T ss_pred EEEEEccCceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCc
Confidence 4444333 3579999999999999998887762 1110 1222 4555445542 4455556555 36778888
Q ss_pred EEEEecC
Q 017906 71 VVMLTKS 77 (364)
Q Consensus 71 ~v~v~k~ 77 (364)
+|++..+
T Consensus 100 ~L~L~~~ 106 (108)
T smart00144 100 HLVLMTL 106 (108)
T ss_pred eEEEEec
Confidence 8877543
No 153
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=64.39 E-value=7.1 Score=39.07 Aligned_cols=66 Identities=14% Similarity=0.062 Sum_probs=52.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eecC--CCCChhhhccCCCCE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG---KVLK--DVTTLEENKVAENSF 69 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G---kiL~--D~~tL~d~gIk~~s~ 69 (364)
.|.||..+|+.+...+-.+++|.-|-..+...... .+-+.+||+++= |.|. .+.||.++||.+..+
T Consensus 279 ~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg--~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 279 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDG--SDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcc--cccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 48899999988777778899999888877766542 667889999876 6664 478999999998664
No 154
>CHL00098 tsf elongation factor Ts
Probab=64.08 E-value=11 Score=34.95 Aligned_cols=36 Identities=28% Similarity=0.293 Sum_probs=31.7
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 174 ~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
.+|.+|-++ | ..=-+|..||-.+-+|-|.|++||--
T Consensus 3 ~~ik~LR~~Tg---ag~~dck~AL~e~~gd~~~A~~~Lr~ 39 (200)
T CHL00098 3 ELVKELRDKTG---AGMMDCKKALQEANGDFEKALESLRQ 39 (200)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 367888876 6 77889999999999999999999975
No 155
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=63.91 E-value=15 Score=31.13 Aligned_cols=38 Identities=24% Similarity=0.281 Sum_probs=33.7
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 173 e~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
++.|.-+|+- | -+|+.+++||+.+.++.-.|+-||..+
T Consensus 77 ~edI~lv~~q~g---vs~~~A~~AL~~~~gDl~~AI~~L~~~ 115 (115)
T PRK06369 77 EEDIELVAEQTG---VSEEEARKALEEANGDLAEAILKLSSE 115 (115)
T ss_pred HHHHHHHHHHHC---cCHHHHHHHHHHcCCcHHHHHHHHhcC
Confidence 6678888885 6 899999999999999999999999753
No 156
>PRK09377 tsf elongation factor Ts; Provisional
Probab=63.35 E-value=11 Score=36.99 Aligned_cols=36 Identities=28% Similarity=0.343 Sum_probs=32.1
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 174 ~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
..|.+|-++ | +.=-+|..||..+.+|-|.|++||-.
T Consensus 7 ~~IK~LR~~Tg---agm~dCKkAL~e~~gD~ekAi~~Lrk 43 (290)
T PRK09377 7 ALVKELRERTG---AGMMDCKKALTEADGDIEKAIEWLRK 43 (290)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 478888887 6 88889999999999999999999974
No 157
>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=63.24 E-value=26 Score=28.59 Aligned_cols=75 Identities=15% Similarity=0.090 Sum_probs=45.2
Q ss_pred EEEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHh--CCCCCCCC-CeEEEeCCe--ecCCCCChhhh-----ccCCCCEE
Q 017906 2 KVFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQ--GSDVYPAS-QQMLIHQGK--VLKDVTTLEEN-----KVAENSFV 70 (364)
Q Consensus 2 kI~VKtl-~gk~~~ieV~~s~TV~dLK~kI~~~~--g~~~ip~~-~qkLif~Gk--iL~D~~tL~d~-----gIk~~s~I 70 (364)
.|.|... .+..++|.|+.+.|+.+|...+-.+. +....... +..|--.|+ -|..+..|.+| .++.+..+
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 4666666 45689999999999999998888772 21101111 445545554 25677778877 35667777
Q ss_pred EEEEec
Q 017906 71 VVMLTK 76 (364)
Q Consensus 71 ~v~v~k 76 (364)
+|++..
T Consensus 98 ~L~Lv~ 103 (106)
T PF00794_consen 98 HLVLVH 103 (106)
T ss_dssp EEEEEE
T ss_pred EEEEEe
Confidence 777654
No 158
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=63.22 E-value=12 Score=25.13 Aligned_cols=32 Identities=28% Similarity=0.602 Sum_probs=16.1
Q ss_pred HHHHHHhCccchHHHHHHHhhhCHHHHHHHHH-CHH
Q 017906 289 LRTMVQANPQILQPMLQELGKQNPHLMRLIQE-HQT 323 (364)
Q Consensus 289 lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~-n~e 323 (364)
++++++ ||.+. .++++| .+||++++.+-+ ||.
T Consensus 4 ~~~~l~-~P~~~-~~l~~~-~~nP~~~~~~~~~nP~ 36 (41)
T smart00727 4 MALRLQ-NPQVQ-SLLQDM-QQNPDMLAQMLQENPQ 36 (41)
T ss_pred HHHHHc-CHHHH-HHHHHH-HHCHHHHHHHHHhCHH
Confidence 445555 66333 333332 356665555555 654
No 159
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=63.05 E-value=1.8 Score=35.60 Aligned_cols=56 Identities=30% Similarity=0.466 Sum_probs=45.6
Q ss_pred hHhhhCc----HHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHCHHHHHHHhcCC
Q 017906 277 LDFLRNS----QQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEP 332 (364)
Q Consensus 277 l~~Lr~~----pqf~~lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~n~e~Fl~~l~e~ 332 (364)
.+||++. ---.+|+++++.+-.-|.-=+..|..-+|+|+..|..||..|+.+|.+.
T Consensus 6 ~~Fl~~f~~~~~Y~~~l~~~~~~~~~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~~a 65 (121)
T PF14551_consen 6 REFLREFKEEPKYMDQLREMIQRNKKSLYVDLDDLREFDPDLAEALIENPYRYLPLFEEA 65 (121)
T ss_dssp HHHCCCH-TS-CCHHHHHHHHHHT-SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHHHH
T ss_pred HHHHHcCCCchHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577663 2357899999999888888899999999999999999999999998764
No 160
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=62.75 E-value=23 Score=38.72 Aligned_cols=43 Identities=21% Similarity=0.390 Sum_probs=38.2
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC
Q 017906 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLK 54 (364)
Q Consensus 9 ~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~ 54 (364)
++..+.+-|+++.|+..|+..|...+| +|...|-|+|.|....
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tg---ipe~~qeLL~e~~~~h 365 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTG---IPEGKQELLFEGGLSH 365 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhC---CCCccceeeeecCccc
Confidence 456788899999999999999999999 9999999999987643
No 161
>PF08587 UBA_2: Ubiquitin associated domain (UBA) ; InterPro: IPR013896 This is a UBA (ubiquitin associated) protein []. Ubiquitin is involved in intracellular proteolysis. ; GO: 0004674 protein serine/threonine kinase activity; PDB: 3H4J_B.
Probab=62.46 E-value=2.6 Score=30.01 Aligned_cols=21 Identities=29% Similarity=0.659 Sum_probs=13.5
Q ss_pred HHHHHH-HcCCCCCCHHHHHHHHHH
Q 017906 175 TVQQIL-DMGGGSWDRETVIRALRA 198 (364)
Q Consensus 175 ~V~~i~-~MG~~~f~r~qv~~ALrA 198 (364)
.|..|- .|| |+|++|..||+.
T Consensus 5 vv~~Ls~tMG---Y~kdeI~eaL~~ 26 (46)
T PF08587_consen 5 VVSKLSKTMG---YDKDEIYEALES 26 (46)
T ss_dssp CHHHHHCTT------HHHHHHHCCS
T ss_pred HHHHHHHHhC---CCHHHHHHHHHc
Confidence 344444 499 999999999996
No 162
>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=61.51 E-value=71 Score=24.58 Aligned_cols=55 Identities=20% Similarity=0.134 Sum_probs=38.0
Q ss_pred EEEEeCCCc----EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE-e---CC--eecCCCCC
Q 017906 3 VFVKTLKGT----HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI-H---QG--KVLKDVTT 58 (364)
Q Consensus 3 I~VKtl~gk----~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi-f---~G--kiL~D~~t 58 (364)
|.|-..++. ..+|.|..++|+.+|-..+.++++.. -.+....|+ + .| +.|.|+..
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~-~~~~~y~L~~~~~~~~~er~L~~~E~ 69 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLA-EDPSDYCLVEVEESGGEERPLDDDEC 69 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTS-SSGGGEEEEEEECTTTEEEEETTTSB
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCC-CCCCCEEEEEEEcCCCEEEEcCCCCc
Confidence 455555665 77899999999999999999999931 244556663 2 23 56765443
No 163
>PF15652 Tox-SHH: HNH/Endo VII superfamily toxin with a SHH signature
Probab=60.83 E-value=10 Score=31.35 Aligned_cols=31 Identities=23% Similarity=0.457 Sum_probs=27.9
Q ss_pred CCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHcC
Q 017906 168 AGSNLEATVQQILDMGGGSWDRETVIRALRAAYN 201 (364)
Q Consensus 168 ~g~~~e~~V~~i~~MG~~~f~r~qv~~ALrAafn 201 (364)
.-.|+..++.+|.+-| |+++....+||++|+
T Consensus 67 ~~~Ef~~~~~eM~dAG---V~~~~~~~~l~~~Yk 97 (100)
T PF15652_consen 67 LQEEFNNSYREMFDAG---VSKECRKKALKAQYK 97 (100)
T ss_pred HHHHHHHHHHHHHHcC---CCHHHHHHHHHHHHh
Confidence 3467889999999999 999999999999886
No 164
>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=60.26 E-value=57 Score=33.95 Aligned_cols=72 Identities=15% Similarity=0.212 Sum_probs=54.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCC---CCCCCCeEEE-eCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSD---VYPASQQMLI-HQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~---~ip~~~qkLi-f~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
+|+|...+ +...+-+..+..|.+|--.|-+..+.+ ......-.|. -+|..|+.+++|.+.+|.||+.+++.-
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence 57777543 457777888899999999999988732 0122333443 478899999999999999999998864
No 165
>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=60.07 E-value=38 Score=26.99 Aligned_cols=35 Identities=14% Similarity=0.163 Sum_probs=28.4
Q ss_pred EEEEEeCCCcEEEEEeCC--CCcHHHHHHHHHHHhCCCCCC
Q 017906 2 KVFVKTLKGTHFEIEVKP--EDKVSDVKKNIETVQGSDVYP 40 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~--s~TV~dLK~kI~~~~g~~~ip 40 (364)
+|++. .+|.+..+.+++ +.+..+|++.|...++ +.
T Consensus 2 ~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~---l~ 38 (81)
T cd06396 2 NLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFG---LN 38 (81)
T ss_pred EEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhC---CC
Confidence 34444 467788889988 7799999999999999 66
No 166
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=59.83 E-value=8.3 Score=26.32 Aligned_cols=27 Identities=26% Similarity=0.464 Sum_probs=22.9
Q ss_pred CCHHHHHHHHHHHcCChHHHHHHHHhCCC
Q 017906 187 WDRETVIRALRAAYNNPERAVEYLYSGIP 215 (364)
Q Consensus 187 f~r~qv~~ALrAafnNpdRAvEyL~~GIP 215 (364)
|+|+-+..||+.+-+|..+|.+.| ||+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L--gis 31 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL--GIS 31 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH--TS-
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH--CCC
Confidence 788999999999999999999999 554
No 167
>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=59.63 E-value=80 Score=24.40 Aligned_cols=50 Identities=20% Similarity=0.233 Sum_probs=35.2
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCC----eecCC-CCChh
Q 017906 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQG----KVLKD-VTTLE 60 (364)
Q Consensus 10 gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~G----kiL~D-~~tL~ 60 (364)
+...+|.|+.++|..+|-..+.++++.+. .+....|+ +.+ +.|.| +..+.
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~-~~~~y~L~ev~~~~~~er~L~~~e~pl~ 68 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDD-DPEDYALVEVLGDGGLERLLLPDECPLQ 68 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcC-CcccEEEEEEECCceEEEEeCCCCChHH
Confidence 55678999999999999999999999431 35566664 232 45655 44543
No 168
>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=59.21 E-value=36 Score=26.93 Aligned_cols=36 Identities=11% Similarity=0.098 Sum_probs=32.3
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G 50 (364)
++.|.|.+..+..+|..+|+++.. .+++..+|.|.-
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~---l~~~~~~LSY~~ 43 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALP---QQAQRGQLSYRA 43 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhc---CChhhcEEEecC
Confidence 566788999999999999999999 889999999953
No 169
>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=58.99 E-value=35 Score=26.68 Aligned_cols=32 Identities=19% Similarity=0.054 Sum_probs=21.9
Q ss_pred EEEeCCCc-EEEEEeC-CCCcHHHHHHHHHHHhC
Q 017906 4 FVKTLKGT-HFEIEVK-PEDKVSDVKKNIETVQG 35 (364)
Q Consensus 4 ~VKtl~gk-~~~ieV~-~s~TV~dLK~kI~~~~g 35 (364)
+.|..+.+ ...|.++ ...+|.+||..|..+.+
T Consensus 2 ~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~ 35 (74)
T PF08783_consen 2 HYKFKSQKDYDTITFDGTSISVFDLKREIIEKKK 35 (74)
T ss_dssp EEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT
T ss_pred eEEecccCCccEEEECCCeeEHHHHHHHHHHHhC
Confidence 44544444 3456666 46899999999988766
No 170
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=56.77 E-value=31 Score=32.06 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=31.2
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC---CeEE--EeCCee---cCCCCChhhh
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPAS---QQML--IHQGKV---LKDVTTLEEN 62 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~---~qkL--if~Gki---L~D~~tL~d~ 62 (364)
.+.+-|..+.||.||..++..+.+ ++.+ .+|| ++++|+ +..+..|.++
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~---~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVG---FSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT-------TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcC---CCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 577889999999999999999988 5443 5555 578876 5778888876
No 171
>PF12053 DUF3534: Domain of unknown function (DUF3534); InterPro: IPR021922 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 150 amino acids in length. This domain is found associated with PF00595 from PFAM. This domain has a conserved GILD sequence motif. ; PDB: 2NS5_A.
Probab=56.70 E-value=71 Score=28.25 Aligned_cols=74 Identities=16% Similarity=0.094 Sum_probs=39.4
Q ss_pred CEEEEEeCCCcEEEEEeC-CCCcHHHHHHHHHHHhCCC-CCCCC-Ce---EEE-eCCeecCCCCChhhhccCCCCEEEEE
Q 017906 1 MKVFVKTLKGTHFEIEVK-PEDKVSDVKKNIETVQGSD-VYPAS-QQ---MLI-HQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~-~s~TV~dLK~kI~~~~g~~-~ip~~-~q---kLi-f~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
|||+|.. ....+.|-+. .+.||.+|-++--.++.+- ...++ +. +|- ..|-+|+.+..|.+. +.+.++|+.+
T Consensus 1 mkvtV~f-g~~~vvVPC~dg~~tV~~L~~~A~~RY~K~~~~~~~~~v~V~~l~~~dggiLd~DD~l~dV-~dd~d~liAv 78 (145)
T PF12053_consen 1 MKVTVCF-GRTRVVVPCGDGQLTVRDLIQQALRRYRKAKEKDPDYWVVVHHLEYTDGGILDPDDVLCDV-VDDRDQLIAV 78 (145)
T ss_dssp -EEEEEE-TTEEEEEEESSS---HHHHHHHHHHHHHHHTT--TTS-EEEEEEE-SSS-EE-TTS-HHHH-S-TTEEEEEE
T ss_pred CeEEEEe-CCeEEEEEeCCCCccHHHHHHHHhHhHHHhhccCCCceEEEeeEEecCCceeccccceeEe-ccChhhhhee
Confidence 8999995 4445667666 5589999876655443210 02223 22 222 256699888888886 5677777777
Q ss_pred Eec
Q 017906 74 LTK 76 (364)
Q Consensus 74 v~k 76 (364)
..-
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 654
No 172
>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=55.65 E-value=1.1e+02 Score=24.57 Aligned_cols=60 Identities=12% Similarity=0.066 Sum_probs=41.5
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeec-CCCCChhhh--ccCCCCEEEEEEec
Q 017906 14 EIEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIHQGKVL-KDVTTLEEN--KVAENSFVVVMLTK 76 (364)
Q Consensus 14 ~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~-qkLif~GkiL-~D~~tL~d~--gIk~~s~I~v~v~k 76 (364)
.+-|..+.||.+|...|..+.+ +.+++ +-|..+...+ ..+.++.++ ..+++.+++|..+.
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~---l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Ys~ 82 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLK---LKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSYCK 82 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhC---CCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEEeC
Confidence 3558999999999999999988 55554 4555555433 445666554 22678899887754
No 173
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=55.02 E-value=39 Score=32.92 Aligned_cols=68 Identities=9% Similarity=0.217 Sum_probs=51.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecC--C-CCChhhhccCCCCEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLK--D-VTTLEENKVAENSFVVV 72 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL--if~GkiL~--D-~~tL~d~gIk~~s~I~v 72 (364)
.|.||..+|+++...+....|+..|+..|....+. ..+-..| -|--+.+. | .++|..+++....+|++
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 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGD---GLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccC---CCCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 57899889999999999999999999999999883 2323333 24445553 2 47899999988776654
No 174
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=54.97 E-value=17 Score=33.68 Aligned_cols=29 Identities=28% Similarity=0.424 Sum_probs=25.6
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHcCC
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnN 202 (364)
..++.|.-|+++| |.|.++.+|++...++
T Consensus 143 ~~~ea~~AL~~LG---y~~~ea~~al~~v~~~ 171 (196)
T PRK13901 143 KFKELEQSIVNMG---FDRKLVNSAIKEIMLL 171 (196)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhcc
Confidence 3688999999999 9999999999986663
No 175
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=54.27 E-value=16 Score=29.25 Aligned_cols=38 Identities=21% Similarity=0.469 Sum_probs=28.5
Q ss_pred CcHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHCHHHH
Q 017906 282 NSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDF 325 (364)
Q Consensus 282 ~~pqf~~lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~n~e~F 325 (364)
..|.|..|+.+.+.||+.|..+-+++-+ ++|.+-++++
T Consensus 2 ~lp~FD~L~~LA~~dPe~fe~lr~~~~e------e~I~~a~~~~ 39 (83)
T PF11333_consen 2 ELPDFDELKELAQNDPEAFEQLRQELIE------EMIESAPEEM 39 (83)
T ss_pred CCCCHHHHHHHHHhCHHHHHHHHHHHHH------HHHHhCCHHH
Confidence 3588999999999999999998887643 3455544444
No 176
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=54.16 E-value=6.7 Score=31.20 Aligned_cols=31 Identities=26% Similarity=0.538 Sum_probs=15.0
Q ss_pred HHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHH
Q 017906 286 FQALRTMVQANPQILQPMLQELGKQNPHLMRLIQE 320 (364)
Q Consensus 286 f~~lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~ 320 (364)
+.+|+.++++||+....|| ..||+|.-.+-|
T Consensus 35 l~~mK~l~~~~p~~ar~lL----~~nPqLa~Al~q 65 (84)
T PF14327_consen 35 LSQMKQLAQQNPEQARQLL----QQNPQLAYALFQ 65 (84)
T ss_dssp HHHHHHHHC----HHHHHH----HS-THHHHHHHH
T ss_pred HHHHHHHHHhCHHHHHHHH----HHCcHHHHHHHH
Confidence 4566777777775544433 457777665533
No 177
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=53.81 E-value=21 Score=34.79 Aligned_cols=37 Identities=22% Similarity=0.323 Sum_probs=29.9
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHH-cCChHHHHHHH-HhCCC
Q 017906 176 VQQILDMGGGSWDRETVIRALRAA-YNNPERAVEYL-YSGIP 215 (364)
Q Consensus 176 V~~i~~MG~~~f~r~qv~~ALrAa-fnNpdRAvEyL-~~GIP 215 (364)
++.+|+|| |++.-+.+||--. .-+-+-|++|| +.+.-
T Consensus 4 ~~~l~~mg---fps~k~e~al~~~~n~~~e~al~wl~~d~~~ 42 (290)
T KOG2689|consen 4 AQSLEEMG---FPSGKAEKALAVYGNRGIEQALDWLEMDHAG 42 (290)
T ss_pred HHHHHHhc---CchhhhhhHhhhhccccHHHHHHHHHhcccC
Confidence 37899999 9999999998765 55678899999 66533
No 178
>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=53.55 E-value=15 Score=29.33 Aligned_cols=58 Identities=19% Similarity=0.212 Sum_probs=38.2
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCC----CCCCCCeEEEeCCe-ec------CCCCChhhhccCCCCEEEEE
Q 017906 15 IEVKPEDKVSDVKKNIETVQGSD----VYPASQQMLIHQGK-VL------KDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 15 ieV~~s~TV~dLK~kI~~~~g~~----~ip~~~qkLif~Gk-iL------~D~~tL~d~gIk~~s~I~v~ 73 (364)
|+|++++|+.+|-+.+++..... .+....-.|++.+- .| +=+++|.++ +.+|..|+|.
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 68999999999999999874300 01222334444332 12 126889999 9999988874
No 179
>cd07921 PCA_45_Doxase_A_like Subunit A of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and similar enzymes. This subfamily includes the A subunit of protocatechuate (PCA) 4,5-dioxygenase (LigAB) and two subfamilies of unknown function. The A subunit is the smaller, non-catalytic subunit of LigAB. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit.
Probab=52.10 E-value=28 Score=29.18 Aligned_cols=27 Identities=11% Similarity=0.149 Sum_probs=22.8
Q ss_pred hHHHHHHHhhhCHHHHHHHHHCHHHHHHH
Q 017906 300 LQPMLQELGKQNPHLMRLIQEHQTDFLRL 328 (364)
Q Consensus 300 L~~~Lqql~~~nP~L~~~I~~n~e~Fl~~ 328 (364)
|..++.+|. .|++++...+||+++++-
T Consensus 16 LN~f~~sL~--~a~~Re~F~aD~eAy~~~ 42 (106)
T cd07921 16 LNKMCMSLN--KAENREAFKADEEAYCDK 42 (106)
T ss_pred HHHHHHHHC--CHHHHHHHHhCHHHHHHH
Confidence 667888885 999999999999998863
No 180
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=51.82 E-value=26 Score=36.21 Aligned_cols=73 Identities=16% Similarity=0.162 Sum_probs=58.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCC---CCChhhhccCCCCEEEEEEec
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKD---VTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL--if~GkiL~D---~~tL~d~gIk~~s~I~v~v~k 76 (364)
+|.||..+|..|+=.+..++-+..+|..|....+ +....+-| .|--|+..| +++|.++.+.+...|+|+-++
T Consensus 316 rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~---i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlpk~ 392 (506)
T KOG2507|consen 316 RLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQT---IGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLPKK 392 (506)
T ss_pred EEEEecCCccchhhcCCcchHHHHHHHHHHhccc---ccccceeeccccccccccchhhhhhHHHhccCCcceEEEEecC
Confidence 6889989999998888888888999999987777 66666666 588888743 589999999998877776544
Q ss_pred C
Q 017906 77 S 77 (364)
Q Consensus 77 ~ 77 (364)
+
T Consensus 393 r 393 (506)
T KOG2507|consen 393 R 393 (506)
T ss_pred C
Confidence 3
No 181
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=51.62 E-value=93 Score=24.04 Aligned_cols=54 Identities=6% Similarity=0.114 Sum_probs=32.9
Q ss_pred EEeCC-CCcHHHHHHHHHHHhCC--CCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 15 IEVKP-EDKVSDVKKNIETVQGS--DVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 15 ieV~~-s~TV~dLK~kI~~~~g~--~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
++++. ..||.+|++.|.+++.. ........++..+++...+ +.-|++|+.|.++
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~ 75 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFF 75 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEe
Confidence 44443 47999999999888531 0012233444556654433 2348889999886
No 182
>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=51.37 E-value=55 Score=26.81 Aligned_cols=40 Identities=10% Similarity=0.101 Sum_probs=32.0
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe
Q 017906 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH 48 (364)
Q Consensus 5 VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif 48 (364)
++...|.+..+.|+.+.+..+|+.++.+..+ +... +.|-|
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~---~~~~-~~lky 56 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFG---AGVV-VTLKY 56 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhC---CCCc-eEEEE
Confidence 4566788888999999999999999999998 5544 44433
No 183
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=51.12 E-value=31 Score=29.32 Aligned_cols=36 Identities=19% Similarity=0.238 Sum_probs=32.2
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHH
Q 017906 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLY 211 (364)
Q Consensus 173 e~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~ 211 (364)
++.|.-+++- | -+|+.+++||+.+.++.-.|+-||.
T Consensus 79 ~eDI~lV~eq~g---vs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 79 EDDIELVMKQCN---VSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred HHHHHHHHHHhC---cCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 6678888885 6 8999999999999999999999985
No 184
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=50.97 E-value=18 Score=33.27 Aligned_cols=29 Identities=14% Similarity=0.385 Sum_probs=25.6
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHcCC
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnN 202 (364)
..++.+..|+.+| |++.++.+|++....+
T Consensus 146 ~~~e~~~aL~~LG---y~~~e~~~ai~~~~~~ 174 (191)
T TIGR00084 146 ARDELFEALVSLG---YKPQEIQQALKKIKNK 174 (191)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHhhc
Confidence 3578999999999 9999999999998653
No 185
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=50.37 E-value=37 Score=24.20 Aligned_cols=20 Identities=10% Similarity=0.358 Sum_probs=16.2
Q ss_pred HHHHHHcCChHHHHHHHHhC
Q 017906 194 RALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 194 ~ALrAafnNpdRAvEyL~~G 213 (364)
++++.-|.|+++|..||-+-
T Consensus 2 ~~a~~vfgd~~~a~~Wl~~p 21 (54)
T PF09722_consen 2 KQAEEVFGDEDKARRWLRTP 21 (54)
T ss_pred hHHHHHHCCHHHHHHHHHCh
Confidence 45677789999999999744
No 186
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=48.85 E-value=12 Score=28.11 Aligned_cols=19 Identities=26% Similarity=0.796 Sum_probs=13.0
Q ss_pred HHHHHHHHHhCccchHHHH
Q 017906 286 FQALRTMVQANPQILQPML 304 (364)
Q Consensus 286 f~~lR~~vq~nP~~L~~~L 304 (364)
|++|+.+|++||++.+.+|
T Consensus 2 ~~~lt~~I~~~p~l~ekIL 20 (64)
T PF09494_consen 2 FEALTKLIRSDPELYEKIL 20 (64)
T ss_pred HHHHHHHHHcCHHHHHHHH
Confidence 6788888887766555444
No 187
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=46.38 E-value=22 Score=31.15 Aligned_cols=31 Identities=23% Similarity=0.308 Sum_probs=25.8
Q ss_pred eecCCCCChhhhccCCCCEEEEEEecCCCCC
Q 017906 51 KVLKDVTTLEENKVAENSFVVVMLTKSKVSS 81 (364)
Q Consensus 51 kiL~D~~tL~d~gIk~~s~I~v~v~k~k~~~ 81 (364)
|-.+|+++|..++++-|++|.|.+..++..+
T Consensus 112 Kg~ddnktL~~~kf~iGD~lDVaI~~p~~~~ 142 (151)
T KOG3391|consen 112 KGIDDNKTLQQTKFEIGDYLDVAITPPNRRP 142 (151)
T ss_pred ccCCccchhhhCCccccceEEEEecCcccCC
Confidence 3458899999999999999999998766543
No 188
>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=45.84 E-value=40 Score=30.00 Aligned_cols=48 Identities=19% Similarity=0.325 Sum_probs=32.0
Q ss_pred EEEEEeCC-CCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCC
Q 017906 12 HFEIEVKP-EDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAEN 67 (364)
Q Consensus 12 ~~~ieV~~-s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~ 67 (364)
.+.++++. .+.+..+++...+.+. ++ .. ++.|+-++...|+.|| +|.|
T Consensus 76 ri~lele~~~~~ie~I~~iCee~lp---f~---y~-i~~G~f~r~~~TvtDY-~KyG 124 (153)
T PF02505_consen 76 RIILELEDEEDVIEKIREICEEVLP---FG---YD-IKEGKFIRTKPTVTDY-AKYG 124 (153)
T ss_pred EEEEEecCcHHHHHHHHHHHHHhCC---Cc---eE-eeeeEEeccCCchhhh-hhcC
Confidence 46677877 6666666665444433 22 22 4579999999999999 4544
No 189
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=45.48 E-value=25 Score=32.62 Aligned_cols=27 Identities=11% Similarity=0.324 Sum_probs=24.6
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHc
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAaf 200 (364)
..++.+.-|+.+| |.|.++.+|++...
T Consensus 154 ~~~ea~~AL~~LG---y~~~ea~~av~~~~ 180 (203)
T PRK14602 154 VFRDALAGLANLG---YGEEEARPVLKEVL 180 (203)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 3688999999999 99999999999885
No 190
>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=44.53 E-value=56 Score=25.84 Aligned_cols=64 Identities=11% Similarity=0.203 Sum_probs=40.1
Q ss_pred EEEEeCCC-cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCChhhhccCCCCEEEEEEe
Q 017906 3 VFVKTLKG-THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 3 I~VKtl~g-k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif--~GkiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
+.|++.+. .++=|-. .++.+|+.|..+..+ ++.+..+|+. .|-+++|+.-+.. +.+ +++.|++.
T Consensus 5 ~kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~---~~~~~~~lvL~eDGT~VddEeyF~t--Lp~-nT~lm~L~ 71 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAA---SSLEELLEKACDKLQ---LPEEPVRLVLEEDGTEVDDEEYFQT--LPD-NTVLMLLE 71 (78)
T ss_dssp EEEEETTSSCEEEEEE---SSHHHHHHHHHHHHT----SSSTCEEEETTTTCBESSCHHHCC--SSS-SEEEEEEE
T ss_pred EEEecCCCCceEeEEc---CCHHHHHHHHHHHhC---CCCcCcEEEEeCCCcEEccHHHHhh--CCC-CCEEEEEC
Confidence 34555443 3444544 489999999999999 7767777765 7888877644433 333 44444444
No 191
>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=43.71 E-value=65 Score=23.64 Aligned_cols=59 Identities=15% Similarity=0.151 Sum_probs=39.6
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
|+|.+.+|+... +....|+.|+=..|....++ .-..-..+|+..+-+. -|+++++|.++
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-----RAVAAKVNGQLVDLDH-----PLEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHHH-----CEEEEEETTEEEETTS-----BB-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHHh-----heeEEEEcCEECCCCC-----CcCCCCEEEEE
Confidence 466667888755 67788999999999988772 1223346887665443 45667777664
No 192
>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=43.43 E-value=72 Score=25.78 Aligned_cols=54 Identities=20% Similarity=0.220 Sum_probs=32.5
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe-CC------eecCCCC---Ch--hhhccCCCCEEEEE
Q 017906 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QG------KVLKDVT---TL--EENKVAENSFVVVM 73 (364)
Q Consensus 15 ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif-~G------kiL~D~~---tL--~d~gIk~~s~I~v~ 73 (364)
++++...||.+|-..|...+. ..+-+|+. +| .+|-|+. .+ .++-+++|+.|.++
T Consensus 23 ~~~~~~~tV~dll~~L~~~~~-----~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNLL-----EERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhCc-----hhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEE
Confidence 344456799999999988753 23333332 22 1232222 23 35678999999887
No 193
>PRK01777 hypothetical protein; Validated
Probab=43.23 E-value=1.6e+02 Score=24.05 Aligned_cols=69 Identities=7% Similarity=-0.038 Sum_probs=40.2
Q ss_pred CEEEEEeCC---CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 1 MKVFVKTLK---GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 1 MkI~VKtl~---gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
|+|.|-... .+.+.++|....||.++-+...-......+..+..++.-+||...-+. -+++|+.|-++-
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~d~-----~L~dGDRVeIyr 75 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKLTD-----VLRDGDRVEIYR 75 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCCCC-----cCCCCCEEEEec
Confidence 466665432 234668899999999987764221110001112235556777665433 477899998874
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=43.14 E-value=46 Score=29.51 Aligned_cols=47 Identities=17% Similarity=0.311 Sum_probs=31.5
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCC
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAE 66 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~ 66 (364)
.+.|++...+.+..+++...+.+. ++ .. +..|+-+.+..|+.|| +|.
T Consensus 75 rI~le~~~~~~i~~I~eiC~e~~p---F~---y~-i~~g~f~r~~~TvtDY-~Ky 121 (150)
T TIGR03260 75 RIILELEDEDIVEEIEEICKEMLP---FG---YE-VRVGKFLRTKPTVTDY-IKY 121 (150)
T ss_pred EEEEEecCHHHHHHHHHHHHhhCC---Cc---eE-eeeeeEeecCCchhhh-hhh
Confidence 455677777777777765554433 22 22 4679999999999999 444
No 195
>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=41.67 E-value=76 Score=31.50 Aligned_cols=64 Identities=16% Similarity=0.173 Sum_probs=46.0
Q ss_pred EEeCCCCcHHHHHHHHHHHh----CCC--------CCCCCCeEEEeCCeecCCCCChhhhc---cCCCCEEEEEEecCC
Q 017906 15 IEVKPEDKVSDVKKNIETVQ----GSD--------VYPASQQMLIHQGKVLKDVTTLEENK---VAENSFVVVMLTKSK 78 (364)
Q Consensus 15 ieV~~s~TV~dLK~kI~~~~----g~~--------~ip~~~qkLif~GkiL~D~~tL~d~g---Ik~~s~I~v~v~k~k 78 (364)
|....-.-|..|+..|.++. ... ..+.+.+.|+|+|.+|+.+.||..+. -|.++-|+|..|.+.
T Consensus 252 L~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~k~ 330 (331)
T PF11816_consen 252 LNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRRKG 330 (331)
T ss_pred ecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEecC
Confidence 44444456888888888887 100 14567889999999999999887764 467777888877653
No 196
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=40.82 E-value=51 Score=32.70 Aligned_cols=40 Identities=23% Similarity=0.284 Sum_probs=34.9
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
..++.++-|.+-| ++.+++..+++.+.++|.+|++|+..+
T Consensus 173 ~~~~~~~~L~~~~---~~~~~a~~~~~l~~G~p~~A~~~~~~~ 212 (319)
T PRK08769 173 PAHEALAWLLAQG---VSERAAQEALDAARGHPGLAAQWLRED 212 (319)
T ss_pred CHHHHHHHHHHcC---CChHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 3577888888889 999999999999999999999999654
No 197
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=40.53 E-value=36 Score=31.24 Aligned_cols=28 Identities=11% Similarity=0.409 Sum_probs=25.1
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHcC
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAYN 201 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAafn 201 (364)
..++.+.-|+.+| |.+.++.+|++....
T Consensus 142 ~~~e~~~AL~~LG---y~~~ea~~av~~~~~ 169 (188)
T PRK14606 142 IYHESLEALVSLG---YPEKQAREAVKHVYR 169 (188)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 3688999999999 999999999998854
No 198
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=40.35 E-value=42 Score=29.87 Aligned_cols=60 Identities=28% Similarity=0.325 Sum_probs=42.8
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
.+++|.-+++.|-|.|+.. ++-||| .|.+..| .. ||.|.- .++.++-+|+..|++-.+-+
T Consensus 47 nLfLkdkK~q~~lv~~~e~-~~vDLk-~ih~~IG-----~~--RlsFg~----~E~l~E~LGv~pG~VT~Fgl 106 (164)
T COG3760 47 NLFLKDKKDQFFLVTVDED-AVVDLK-SIHETIG-----AA--RLSFGS----PERLMEYLGVIPGSVTVFGL 106 (164)
T ss_pred eeEeecCCCCEEEEEeccc-ceecHH-HHHHHhc-----ee--eeecCC----HHHHHHHhCCCcCceeEeee
Confidence 4789988888888888754 677898 5888877 33 787764 34556667888888655543
No 199
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=40.25 E-value=32 Score=32.04 Aligned_cols=34 Identities=24% Similarity=0.602 Sum_probs=27.0
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCC-hHHHHH
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNN-PERAVE 208 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnN-pdRAvE 208 (364)
.+++|.-|+.|| |.+.++.+|++...-+ ++--++
T Consensus 156 ~~~~v~AL~~LG---y~~~e~~~av~~v~~~~~~~~~~ 190 (201)
T COG0632 156 LEEAVEALVALG---YKEKEIKKAVKKVLKENPDADVE 190 (201)
T ss_pred hhHHHHHHHHcC---CCHHHHHHHHHHHHhcCCCCCHH
Confidence 455699999999 9999999999988765 443333
No 200
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=39.10 E-value=1.7e+02 Score=24.87 Aligned_cols=62 Identities=8% Similarity=0.102 Sum_probs=41.9
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--CCCCChhhh--ccCCCCEEEEEEec
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVL--KDVTTLEEN--KVAENSFVVVMLTK 76 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL--~D~~tL~d~--gIk~~s~I~v~v~k 76 (364)
+-.+.|++++|+..+-..|.+..+ ++..++-++|=..-. ..|..+.++ +..-++.++|...+
T Consensus 46 ~~k~~i~~t~tfa~vi~Flkk~Lk---l~as~slflYVN~sFAPsPDq~v~~Ly~cf~~d~~Lvl~Yc~ 111 (116)
T KOG3439|consen 46 KSKFKINPTQTFAKVILFLKKFLK---LQASDSLFLYVNNSFAPSPDQIVGNLYECFGTDGKLVLNYCI 111 (116)
T ss_pred cceEEeCcchhhHHHHHHHHHHhC---CcccCeEEEEEcCccCCCchhHHHHHHHhcCCCCEEEEEEee
Confidence 345788999999999999999999 888888887755444 234444433 13334455555443
No 201
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=38.61 E-value=35 Score=31.47 Aligned_cols=28 Identities=11% Similarity=0.214 Sum_probs=24.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCC
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafnN 202 (364)
.++.+.-|+.+| |.+.++.+|++....+
T Consensus 149 ~~e~~~aL~~LG---y~~~ea~~ai~~i~~~ 176 (195)
T PRK14604 149 DRELSEILISLG---YSAAEAAAAIAALPSD 176 (195)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHhhc
Confidence 578999999999 9999999999987543
No 202
>PF12588 PSDC: Phophatidylserine decarboxylase ; InterPro: IPR022237 This domain family is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF02666 from PFAM. Phosphatidylserine decarboxylase (PSD) is an important enzyme in the synthesis of phosphatidylethanolamine in both prokaryotes and eukaryotes.
Probab=38.56 E-value=16 Score=32.10 Aligned_cols=48 Identities=17% Similarity=0.383 Sum_probs=36.1
Q ss_pred cHHHHHHHHHHHhCccchHHHHHHHhh----hCHHHHH-HHHHCHHHHHHHhcC
Q 017906 283 SQQFQALRTMVQANPQILQPMLQELGK----QNPHLMR-LIQEHQTDFLRLINE 331 (364)
Q Consensus 283 ~pqf~~lR~~vq~nP~~L~~~Lqql~~----~nP~L~~-~I~~n~e~Fl~~l~e 331 (364)
+|-.++++.+|..||.+-.-+=+.+.| .+|.=.. .|+ |=++||++||.
T Consensus 2 ~p~vqefk~lIe~dp~l~ml~~~Mf~q~~~~~~p~g~~~~i~-~~~~mL~~ln~ 54 (141)
T PF12588_consen 2 HPVVQEFKDLIESDPRLYMLFTQMFDQPPYNADPTGNPPQIR-DYDEMLQLLNH 54 (141)
T ss_pred ChHHHHHHHHHhcCHHHHHHHHHHHhCcccccCCCCCccccc-cHHHHHHHHHH
Confidence 577899999999999988877777777 4555444 454 44788888875
No 203
>PF13487 HD_5: HD domain; PDB: 3TMD_A 3TM8_B 3TMC_A 3TMB_B.
Probab=38.34 E-value=14 Score=27.47 Aligned_cols=36 Identities=19% Similarity=0.514 Sum_probs=27.3
Q ss_pred HHHHHhCccchHHHHHHHhhhCHHHHHHHHHCHHHH
Q 017906 290 RTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDF 325 (364)
Q Consensus 290 R~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~n~e~F 325 (364)
|++++++|..-..+|.++..-.+.+.+.|.+|.|.|
T Consensus 8 ~~~~~~Hp~~~~~~l~~~~~l~~~v~~~i~~hhEr~ 43 (64)
T PF13487_consen 8 REIIQQHPEYGAELLSQIPRLSPEVADIILQHHERW 43 (64)
T ss_dssp HHHHHHHHHHHHHHHTT-TTS-HHHHHHHHHTT--T
T ss_pred HHHHHHHHHHHHHHHHcchhhHHHHHHHHHHhccCC
Confidence 567888899999999999877889999999987654
No 204
>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=38.23 E-value=1e+02 Score=24.05 Aligned_cols=47 Identities=19% Similarity=0.251 Sum_probs=37.9
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC
Q 017906 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--KVLK 54 (364)
Q Consensus 5 VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G--kiL~ 54 (364)
|--.+|..-.+.+.+..||.++-.++.++.| +..+...+++-| |.|+
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRg---l~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRG---INYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcC---CChhHEEEEEecCCcccc
Confidence 3446788888999999999999999999999 777777776555 4453
No 205
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=38.08 E-value=1.1e+02 Score=24.97 Aligned_cols=60 Identities=15% Similarity=0.209 Sum_probs=42.6
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCCee---------cCCCCChhhhccCCCCEEEE
Q 017906 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQGKV---------LKDVTTLEENKVAENSFVVV 72 (364)
Q Consensus 10 gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL-if~Gki---------L~D~~tL~d~gIk~~s~I~v 72 (364)
..++.|.|+++.|=.++|..|++.+| +-+..... +..|+. +..+..-...-+..|..|.+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~---VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V~l~~G~~i~~ 90 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFG---VKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 46899999999999999999999999 76777654 455431 34444455555566666544
No 206
>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=37.79 E-value=1.1e+02 Score=24.35 Aligned_cols=57 Identities=11% Similarity=0.079 Sum_probs=39.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC---e--ecCCCCChhhh
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG---K--VLKDVTTLEEN 62 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G---k--iL~D~~tL~d~ 62 (364)
+.+|| ..|.+..|.++..-|-..|+.||...+. ++....-|.|-. - -|.++.-|.++
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~---lp~~~~~vtYiDeD~D~ITlssd~eL~d~ 63 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYN---LPEIKVGVTYIDNDNDEITLSSNKELQDF 63 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhC---CChhHeEEEEEcCCCCEEEecchHHHHHH
Confidence 45565 4566777777777789999999999999 888777776622 1 24455555554
No 207
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=37.33 E-value=69 Score=34.10 Aligned_cols=10 Identities=30% Similarity=0.544 Sum_probs=7.3
Q ss_pred HHHHHHhcCC
Q 017906 323 TDFLRLINEP 332 (364)
Q Consensus 323 e~Fl~~l~e~ 332 (364)
..||..|+-.
T Consensus 415 nyFL~VLnsD 424 (574)
T PF07462_consen 415 NYFLDVLNSD 424 (574)
T ss_pred HHHHHHHhhh
Confidence 5788888764
No 208
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=36.91 E-value=41 Score=30.83 Aligned_cols=27 Identities=7% Similarity=0.352 Sum_probs=24.4
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHc
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAaf 200 (364)
..++.+.-|+.+| |.|.++.+|++...
T Consensus 144 ~~~e~~~aL~~LG---y~~~ea~~al~~v~ 170 (186)
T PRK14600 144 INDDALAALISLG---YEKTKAFNAIQKIK 170 (186)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHhh
Confidence 3578999999999 99999999999874
No 209
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=36.05 E-value=57 Score=32.12 Aligned_cols=36 Identities=28% Similarity=0.353 Sum_probs=29.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHH
Q 017906 174 ATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (364)
Q Consensus 174 ~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~ 211 (364)
.+|.+|-++-| =.=-+|.+||-.+.+|-|.|+|||-
T Consensus 7 ~~VKeLRe~Tg--AGMmdCKkAL~E~~Gd~EkAie~LR 42 (296)
T COG0264 7 ALVKELREKTG--AGMMDCKKALEEANGDIEKAIEWLR 42 (296)
T ss_pred HHHHHHHHHhC--CcHHHHHHHHHHcCCCHHHHHHHHH
Confidence 47888888733 2345799999999999999999996
No 210
>cd02667 Peptidase_C19K A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=35.91 E-value=44 Score=31.79 Aligned_cols=51 Identities=14% Similarity=0.410 Sum_probs=40.7
Q ss_pred chHhhhCcHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHCHHHHHHHhcCC
Q 017906 276 TLDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEP 332 (364)
Q Consensus 276 ~l~~Lr~~pqf~~lR~~vq~nP~~L~~~Lqql~~~nP~L~~~I~~n~e~Fl~~l~e~ 332 (364)
.|+.|.+.|.| |+.+..+| ..++..|...+|++.--.||+-.+|+..|..-
T Consensus 14 vLQ~L~~~~~~---~~~~l~~P---~~~~~~l~~~~~~f~~~~QqDA~Efl~~lld~ 64 (279)
T cd02667 14 VMQNLSQTPAL---RELLSETP---KELFSQVCRKAPQFKGYQQQDSHELLRYLLDG 64 (279)
T ss_pred HHHHHhcCHHH---HHHHHHCH---HHHHHHHHHhhHhhcCCchhhHHHHHHHHHHH
Confidence 58889888875 55666677 46788899999998888899999999888753
No 211
>COG4055 McrD Methyl coenzyme M reductase, subunit D [Coenzyme metabolism]
Probab=35.77 E-value=83 Score=27.95 Aligned_cols=50 Identities=12% Similarity=0.188 Sum_probs=32.6
Q ss_pred EEEEEeCCCC-cHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCE
Q 017906 12 HFEIEVKPED-KVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSF 69 (364)
Q Consensus 12 ~~~ieV~~s~-TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~ 69 (364)
.+.|+++..+ ++..+++...+... .... ++-|+.+.+..|+.|| +|.|..
T Consensus 84 ri~~eie~e~~~~e~ie~ic~e~lP------f~y~-v~vG~F~r~kpTVTDy-~KyG~~ 134 (165)
T COG4055 84 RIILEIEDEDETMEKIEEICDEMLP------FGYE-VRVGKFTRRKPTVTDY-IKYGED 134 (165)
T ss_pred EEEEEecCcHhHHHHHHHHHHHhCC------Ccee-eeeeeeeccCCcchhh-hhhCcc
Confidence 3556777664 77777754444433 3333 4789999999999998 555553
No 212
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=35.61 E-value=43 Score=30.58 Aligned_cols=26 Identities=19% Similarity=0.548 Sum_probs=23.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHH
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAA 199 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAa 199 (364)
..++.+.-|+++| |.|.++.+|++..
T Consensus 141 ~~~ea~~AL~~LG---y~~~ea~~a~~~~ 166 (183)
T PRK14601 141 DKSEALAALLTLG---FKQEKIIKVLASC 166 (183)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHhc
Confidence 3588999999999 9999999999976
No 213
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=35.38 E-value=47 Score=25.93 Aligned_cols=20 Identities=10% Similarity=0.115 Sum_probs=16.8
Q ss_pred hhCHHHHHHHHHCHHHHHHH
Q 017906 309 KQNPHLMRLIQEHQTDFLRL 328 (364)
Q Consensus 309 ~~nP~L~~~I~~n~e~Fl~~ 328 (364)
..+|++++...+||++|+.=
T Consensus 13 ~~~~~~re~f~~dp~a~~~~ 32 (77)
T cd07321 13 LVKPEVKERFKADPEAVLAE 32 (77)
T ss_pred hcCHHHHHHHHhCHHHHHHH
Confidence 46899999999999998863
No 214
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=34.77 E-value=43 Score=26.56 Aligned_cols=37 Identities=27% Similarity=0.519 Sum_probs=23.0
Q ss_pred hhCcHHHHHHHHHHHhCccchHHHHH---HHhhhCHHHHHHH
Q 017906 280 LRNSQQFQALRTMVQANPQILQPMLQ---ELGKQNPHLMRLI 318 (364)
Q Consensus 280 Lr~~pqf~~lR~~vq~nP~~L~~~Lq---ql~~~nP~L~~~I 318 (364)
..++| .++|+++++||++.-.++| .+|-.||+.+..|
T Consensus 42 ~~~~p--~~ar~lL~~nPqLa~Al~qa~l~lg~vd~~v~~~~ 81 (84)
T PF14327_consen 42 AQQNP--EQARQLLQQNPQLAYALFQALLLLGMVDPDVVQSI 81 (84)
T ss_dssp HC------HHHHHHHS-THHHHHHHHHHHHTSS-SSSCHHH-
T ss_pred HHhCH--HHHHHHHHHCcHHHHHHHHHHHHhCCCCHHHHHhh
Confidence 34566 6899999999999999888 4466666665554
No 215
>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=34.55 E-value=78 Score=25.41 Aligned_cols=41 Identities=22% Similarity=0.383 Sum_probs=34.6
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCCeecC
Q 017906 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQGKVLK 54 (364)
Q Consensus 11 k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL-if~GkiL~ 54 (364)
..+.|.|+.+.|=.++|+.|+..+| +.+...+. ++.||.-.
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~---V~V~~Vnt~~~~gk~kR 62 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYG---VKVKKVNTMNYPGKKKR 62 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHT---SEEEEEEEEEETSEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcC---CCeeEEEEeEeCCCceE
Confidence 5799999999999999999999999 77777754 67887554
No 216
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=34.31 E-value=51 Score=30.42 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=24.4
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHc
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAaf 200 (364)
.+++.+.-|+.+| |.+.++.+|++...
T Consensus 151 ~~~ea~~AL~~LG---y~~~ea~~al~~i~ 177 (197)
T PRK14603 151 AAEDAVLALLALG---FREAQVRSVVAELL 177 (197)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHH
Confidence 3678999999999 99999999999874
No 217
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=34.27 E-value=10 Score=36.53 Aligned_cols=60 Identities=17% Similarity=0.317 Sum_probs=46.7
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEE
Q 017906 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (364)
Q Consensus 9 ~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v 72 (364)
.|..+.++++..++|.|.+.++.+..+ +.+...||++.+ .|++...|.++=.++..+.++
T Consensus 11 ~gn~i~ls~~~~~ri~D~~~~l~K~~~---vss~~~kll~~~-llk~iahl~~p~mkEh~f~vt 70 (278)
T KOG4842|consen 11 SGNAIYLSMAGSQRIPDKNPHLQKVAV---VSSKPNKLLALN-LLKEIAHLVSPLMKEHHFKVT 70 (278)
T ss_pred cCcEEEEEeccccccCCCCcccceeee---eccchHHHHhhh-hhhhhhhhhhhhhccccceeE
Confidence 577899999999999999999999988 878888988877 455556666665555554444
No 218
>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=34.14 E-value=64 Score=30.69 Aligned_cols=71 Identities=18% Similarity=0.356 Sum_probs=45.7
Q ss_pred EEEEEeCC--CcEEE----EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC----Cee--cCCCCChhhhccCCCCE
Q 017906 2 KVFVKTLK--GTHFE----IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----GKV--LKDVTTLEENKVAENSF 69 (364)
Q Consensus 2 kI~VKtl~--gk~~~----ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~----Gki--L~D~~tL~d~gIk~~s~ 69 (364)
-|+||..+ .+++. +-|+.+++|.+|-..|.+..| ++.+.--++|. +++ |+...++....|.+|+.
T Consensus 70 LlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g---~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdI 146 (249)
T PF12436_consen 70 LLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAG---LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDI 146 (249)
T ss_dssp EEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT-----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEE
T ss_pred EEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcC---CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCE
Confidence 36777553 23332 578899999999999999999 88876655553 443 67889999999999998
Q ss_pred EEEEEe
Q 017906 70 VVVMLT 75 (364)
Q Consensus 70 I~v~v~ 75 (364)
|.+-..
T Consensus 147 i~fQ~~ 152 (249)
T PF12436_consen 147 ICFQRA 152 (249)
T ss_dssp EEEEE-
T ss_pred EEEEec
Confidence 877553
No 219
>PF12552 DUF3741: Protein of unknown function (DUF3741); InterPro: IPR022212 This domain family is found in eukaryotes, and is approximately 50 amino acids in length.
Probab=33.93 E-value=50 Score=23.47 Aligned_cols=20 Identities=15% Similarity=0.610 Sum_probs=14.3
Q ss_pred HHHHHHHHCHHHHHHHhcCC
Q 017906 313 HLMRLIQEHQTDFLRLINEP 332 (364)
Q Consensus 313 ~L~~~I~~n~e~Fl~~l~e~ 332 (364)
+.+++|+.|-|-||.+|.+|
T Consensus 25 DaLeiL~sNkdlflk~LqdP 44 (46)
T PF12552_consen 25 DALEILSSNKDLFLKFLQDP 44 (46)
T ss_pred HHHHHHHhCHHHHHHHHhCC
Confidence 34567777778888887765
No 220
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=33.75 E-value=1.3e+02 Score=23.54 Aligned_cols=38 Identities=13% Similarity=0.311 Sum_probs=28.9
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCCCCChhh
Q 017906 21 DKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKDVTTLEE 61 (364)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~D~~tL~d 61 (364)
.+..+|+.|..+..+ ++....+|+ -.|-.++|+.-+..
T Consensus 19 ~sL~eL~~K~~~~l~---l~~~~~~l~L~eDGT~VddEeyF~t 58 (74)
T smart00266 19 SSLEELLSKVCDKLA---LPDSPVTLVLEEDGTIVDDEEYFQT 58 (74)
T ss_pred CCHHHHHHHHHHHhC---CCCCCcEEEEecCCcEEccHHHHhc
Confidence 479999999999999 775566664 37988887654443
No 221
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=33.65 E-value=1.2e+02 Score=25.24 Aligned_cols=60 Identities=15% Similarity=0.163 Sum_probs=36.6
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC--------eecCCCCChhhh
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--------KVLKDVTTLEEN 62 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~G--------kiL~D~~tL~d~ 62 (364)
|+|-.-+|.+..|+|....+-.++|.++-+++|...........+.+| +.|.|...+.=|
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~~~~~~~~~v~d~~~~~~~~~~~LsD~EL~~IC 70 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPEHPRNYCFYVLDGESPDPSNCRPLSDVELVTIC 70 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS--CCCEEEEEE-S-----SSEEEE-SSHHHHHH
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCccccccceEEEecccccccccceECcHHHHHHHH
Confidence 567778899999999999999999999999999321111334455566 445555444433
No 222
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=33.38 E-value=93 Score=26.32 Aligned_cols=38 Identities=24% Similarity=0.319 Sum_probs=30.8
Q ss_pred hHHHHHHHHH--cCCCCCCHHHHHHHHHHHcCChHHHHHHHHhCCC
Q 017906 172 LEATVQQILD--MGGGSWDRETVIRALRAAYNNPERAVEYLYSGIP 215 (364)
Q Consensus 172 ~e~~V~~i~~--MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~GIP 215 (364)
.++.+++|.. .+ |.|++|..+|.+-+ +..++||++|--
T Consensus 31 l~~Ia~~i~~~~s~---~t~~di~~vl~~~~---~~~~~~l~~G~s 70 (124)
T PF14848_consen 31 LEDIAEEIAKEGST---LTRADIEAVLNALK---DEMIEALMNGYS 70 (124)
T ss_pred HHHHHHHHHHhCCC---CCHHHHHHHHHHHH---HHHHHHHhCCCE
Confidence 6777788874 56 99999999999854 578899999943
No 223
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=32.84 E-value=84 Score=25.77 Aligned_cols=26 Identities=15% Similarity=0.234 Sum_probs=21.2
Q ss_pred hHHHHHHHhhhCHHHHHHHHHCHHHHHH
Q 017906 300 LQPMLQELGKQNPHLMRLIQEHQTDFLR 327 (364)
Q Consensus 300 L~~~Lqql~~~nP~L~~~I~~n~e~Fl~ 327 (364)
|..++-+|. .|++++...+||+++++
T Consensus 8 LN~f~~sL~--~a~~RerF~~D~ea~~~ 33 (94)
T cd07923 8 INRFLHRLI--EPAHRERFLEDPEALFD 33 (94)
T ss_pred HHHHHHHHC--CHHHHHHHHhCHHHHHH
Confidence 567788884 89999999999988775
No 224
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=32.77 E-value=81 Score=31.39 Aligned_cols=39 Identities=15% Similarity=0.200 Sum_probs=31.6
Q ss_pred hHHHHHHHHHc-CCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 172 LEATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 172 ~e~~V~~i~~M-G~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
.+...+-|.+- | .+.+++..++|.+-++|.+|.+||..|
T Consensus 169 ~~~~~~~L~~~~~---~~~~~a~~~~~la~G~~~~Al~l~~~~ 208 (334)
T PRK07993 169 EQYALTWLSREVT---MSQDALLAALRLSAGAPGAALALLQPE 208 (334)
T ss_pred HHHHHHHHHHccC---CCHHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 35555556664 7 999999999999999999999998654
No 225
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=31.99 E-value=40 Score=22.91 Aligned_cols=25 Identities=28% Similarity=0.501 Sum_probs=19.0
Q ss_pred CccchHHHHHHHhhhCHHHHHHHHH
Q 017906 296 NPQILQPMLQELGKQNPHLMRLIQE 320 (364)
Q Consensus 296 nP~~L~~~Lqql~~~nP~L~~~I~~ 320 (364)
|.+-|+.+|+.|-..||++.+-|..
T Consensus 11 d~~qL~~lL~~l~~~HPei~~~i~~ 35 (38)
T PF14483_consen 11 DKDQLQSLLQSLCERHPEIQQEIRS 35 (38)
T ss_dssp -HHHHHHHHHHHHHHSTHHHHHHHT
T ss_pred CHHHHHHHHHHHHHhChhHHHHHHh
Confidence 4556778888899999998887753
No 226
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=30.90 E-value=1.2e+02 Score=24.41 Aligned_cols=40 Identities=23% Similarity=0.386 Sum_probs=33.4
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeE-EEeCCee
Q 017906 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQM-LIHQGKV 52 (364)
Q Consensus 10 gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qk-Lif~Gki 52 (364)
..++.|.|+...|=.++|+.|+..++ +.+...+ +++.||.
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~---VkV~~VnT~~~~gk~ 60 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFG---VKVESVNTLNVKGKT 60 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcC---CceeEEEEEEeCCce
Confidence 46899999999999999999999999 7777775 3566654
No 227
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=30.83 E-value=94 Score=34.87 Aligned_cols=63 Identities=13% Similarity=0.280 Sum_probs=46.3
Q ss_pred CCcEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCChhhhcc--CCCCEEEEEE
Q 017906 9 KGTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQMLIH-QGKVLKDVTTLEENKV--AENSFVVVML 74 (364)
Q Consensus 9 ~gk~~~ieV~-~s~TV~dLK~kI~~~~g~~~ip~~~qkLif-~GkiL~D~~tL~d~gI--k~~s~I~v~v 74 (364)
.|+.++|+.+ ...|+.+||..|..+.| +....+.|+- +|..+.-++.|..|.- .+-+-|+++.
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~---~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffFn 69 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVG---HAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFFN 69 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhc---hhhceeeeeecCCcCcccccchhhhccccCCCCceEEee
Confidence 4777778777 45799999999999999 6667776654 5677888888888862 3444565553
No 228
>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=30.65 E-value=1.8e+02 Score=23.38 Aligned_cols=62 Identities=18% Similarity=0.220 Sum_probs=42.9
Q ss_pred EEEEeCCCCcHHHHHHHHHHH-hCCCCCCC--C-CeEEEeCC--eecCCCCChhhhccCCCCEEEEEEe
Q 017906 13 FEIEVKPEDKVSDVKKNIETV-QGSDVYPA--S-QQMLIHQG--KVLKDVTTLEENKVAENSFVVVMLT 75 (364)
Q Consensus 13 ~~ieV~~s~TV~dLK~kI~~~-~g~~~ip~--~-~qkLif~G--kiL~D~~tL~d~gIk~~s~I~v~v~ 75 (364)
.-+-|+..+|+.++-.+++.- .|.. +++ . ..++-+.| ..+..+.++.+-||+.-+.|.++..
T Consensus 17 ~Lv~VDt~dTmdqVA~k~A~HsVGrR-V~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~~ 84 (85)
T PF06234_consen 17 QLVPVDTEDTMDQVAAKVAHHSVGRR-VAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRFE 84 (85)
T ss_dssp EEEEEETT-BHHHHHHHHHTTTTTTS-S---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEEE
T ss_pred EEEEeCCCCcHHHHHHHHhhhhccee-cCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEEc
Confidence 446899999999999999854 3433 222 2 45666888 8899999999999999998888754
No 229
>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=30.00 E-value=1.2e+02 Score=23.94 Aligned_cols=48 Identities=10% Similarity=0.192 Sum_probs=32.4
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 21 DKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~qkL--if~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
.+..+|+.|..+..+ ++....+| .-.|.+++|+.-+.. +.++..++++
T Consensus 21 ~sL~EL~~K~~~~l~---~~~~~~~lvL~eDGT~Vd~EeyF~~--LpdnT~lm~L 70 (78)
T cd06539 21 SSLQELISKTLDALV---ITSGLVTLVLEEDGTVVDTEEFFQT--LGDNTHFMVL 70 (78)
T ss_pred cCHHHHHHHHHHHhC---CCCCCcEEEEeCCCCEEccHHHHhh--CCCCCEEEEE
Confidence 379999999999999 66544444 568888877655444 3444444433
No 230
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=29.93 E-value=31 Score=29.14 Aligned_cols=29 Identities=17% Similarity=0.352 Sum_probs=24.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHH
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNI 30 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI 30 (364)
|+|.|. .+++.+..++..+.|..+|.+++
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 789998 46889999999998888888764
No 231
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=29.22 E-value=2.9e+02 Score=31.83 Aligned_cols=86 Identities=16% Similarity=0.278 Sum_probs=0.0
Q ss_pred HHHHHHHHcCCCCC-CHHHHHHHHHH--------------------HcCChHHHHHHHHhCCCCCCCCCccccccCCCCC
Q 017906 174 ATVQQILDMGGGSW-DRETVIRALRA--------------------AYNNPERAVEYLYSGIPEQTAVPPVARASAGGQA 232 (364)
Q Consensus 174 ~~V~~i~~MG~~~f-~r~qv~~ALrA--------------------afnNpdRAvEyL~~GIP~~~~~~~~~~~~~~~~~ 232 (364)
.++..|..+| | +-+.|.+-|++ ...|||.|+.+|.
T Consensus 9 ~~~~~l~~~G---~~~p~~~~~~l~~~~~~~~~~~~~~p~ll~~l~~~~dpd~al~~~~--------------------- 64 (1007)
T PRK14109 9 SSLPSLARLG---FTDPDRAAALLAELGLAGVDDDDAHADLLWALSRAADPDLALLALV--------------------- 64 (1007)
T ss_pred chHHHHHHhC---CCCHHHHHHHHHhhhccCcccccchHHHHHHHhhCCCHHHHHHHHH---------------------
Q ss_pred CCCCCccccCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCchHhhhCcHHHHHHHHHHHhCccchHHHHHHHhhhCH
Q 017906 233 GNPPAQTQAQQPAAPAPTSGPNANPLDLFPQGLPNMGSNAGAGTLDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNP 312 (364)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lf~~~~~~~~~~~~~~~l~~Lr~~pqf~~lR~~vq~nP~~L~~~Lqql~~~nP 312 (364)
.||-..+.=-++=.++..||.+|.. |-.|-...|
T Consensus 65 ---------------------------------------------~~~~~~~~~~~~l~ll~~~p~~~~~-l~~~~~~S~ 98 (1007)
T PRK14109 65 ---------------------------------------------RLAEALEDWAELLAALRADPGLRGR-LLAVLGASS 98 (1007)
T ss_pred ---------------------------------------------HHHHhcCCHHHHHHHHHhCHHHHHH-HHHHHHhCH
Q ss_pred HHHHHHHHCHHHHHHHh
Q 017906 313 HLMRLIQEHQTDFLRLI 329 (364)
Q Consensus 313 ~L~~~I~~n~e~Fl~~l 329 (364)
-|.+++..+|+-|-.+|
T Consensus 99 ~la~~l~~~p~~l~~ll 115 (1007)
T PRK14109 99 ALGDHLVAHPEDWRALL 115 (1007)
T ss_pred HHHHHHHHCHHHHHHHh
No 232
>KOG3321 consensus Mitochondrial ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=28.38 E-value=88 Score=28.25 Aligned_cols=44 Identities=16% Similarity=0.325 Sum_probs=37.4
Q ss_pred HHHHHhCccchHHHHHHHhhhCHH-------------HHHHHHHCHHHHHHHhcCCC
Q 017906 290 RTMVQANPQILQPMLQELGKQNPH-------------LMRLIQEHQTDFLRLINEPV 333 (364)
Q Consensus 290 R~~vq~nP~~L~~~Lqql~~~nP~-------------L~~~I~~n~e~Fl~~l~e~~ 333 (364)
-++..-||..|+-+|.=|.+.+|+ |=.-|++|.++|+.++|++.
T Consensus 117 i~l~~~tgsTl~tfleYI~rn~pegV~mq~~~tele~ip~~lkk~~de~~sl~n~~s 173 (175)
T KOG3321|consen 117 IELYSVTGSTLDTFLEYIQRNLPEGVGMQAKFTELEEIPLHLKKNIDEFKSLLNGPS 173 (175)
T ss_pred HHHhhcCchHHHHHHHHHHhhChhhhcceeceeecccchHhHhcCHHHHHHHhcCcc
Confidence 355668999999999999999996 33478999999999999863
No 233
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=27.91 E-value=2.3e+02 Score=30.38 Aligned_cols=20 Identities=20% Similarity=0.350 Sum_probs=15.4
Q ss_pred ccccCCcchHHHHHHHHHcC
Q 017906 164 SNLVAGSNLEATVQQILDMG 183 (364)
Q Consensus 164 s~l~~g~~~e~~V~~i~~MG 183 (364)
....+|+.-+....+|+.-|
T Consensus 350 dQV~tGeae~~~~e~Iv~~~ 369 (574)
T PF07462_consen 350 DQVTTGEAENAQPENIVPEG 369 (574)
T ss_pred ccceeccccccchhhhhcCc
Confidence 45778888777788888766
No 234
>COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]
Probab=27.89 E-value=75 Score=25.42 Aligned_cols=31 Identities=29% Similarity=0.508 Sum_probs=24.9
Q ss_pred ccCCcchHHHHHHHHHcCCCCC-CHHHHHH-HHHH
Q 017906 166 LVAGSNLEATVQQILDMGGGSW-DRETVIR-ALRA 198 (364)
Q Consensus 166 l~~g~~~e~~V~~i~~MG~~~f-~r~qv~~-ALrA 198 (364)
+-.+..+...|+++++.| -| .|++|+| |||.
T Consensus 7 V~lp~~~~~~i~~lV~~G--~y~s~SeviR~alr~ 39 (89)
T COG3609 7 VRLPEQLVEFIDELVESG--RYKSRSEVIRAALRL 39 (89)
T ss_pred EeCCHHHHHHHHHHHHcC--CCCCHHHHHHHHHHH
Confidence 345778999999999997 45 9999988 5664
No 235
>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=27.58 E-value=1.1e+02 Score=29.03 Aligned_cols=43 Identities=7% Similarity=0.089 Sum_probs=31.0
Q ss_pred EEEEEeCC---CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE
Q 017906 2 KVFVKTLK---GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI 47 (364)
Q Consensus 2 kI~VKtl~---gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLi 47 (364)
.|+|+... +..|.++++..+|-.+|-++|++..+ +.+..+||.
T Consensus 178 ~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~---~dP~~lr~~ 223 (249)
T PF12436_consen 178 EVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLN---VDPEHLRFF 223 (249)
T ss_dssp EEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHT---S-GGGEEEE
T ss_pred EEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHC---CChHHEEEE
Confidence 45555432 34799999999999999999999999 778888885
No 236
>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=27.27 E-value=96 Score=24.59 Aligned_cols=43 Identities=16% Similarity=0.207 Sum_probs=24.5
Q ss_pred HHHHHhCCCCCCCCCeEEE---eCCeecCCCCChhhhccCCCCEEEEEEecC
Q 017906 29 NIETVQGSDVYPASQQMLI---HQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (364)
Q Consensus 29 kI~~~~g~~~ip~~~qkLi---f~GkiL~D~~tL~d~gIk~~s~I~v~v~k~ 77 (364)
.|+++.. +.++...|+ .++..|+-+++|.+|||++ ++++-.++
T Consensus 2 ~IC~KCE---fdp~htvLLrD~~s~e~LdLsKSLndlGirE---LYA~D~~~ 47 (79)
T PF09469_consen 2 AICEKCE---FDPEHTVLLRDYQSGEELDLSKSLNDLGIRE---LYAWDTSR 47 (79)
T ss_dssp HHHHHTT-----TTSEEEES-SS---B--TTS-HHHHT-SE---EEEEE---
T ss_pred ccccccc---cCcceEEEeecCCCCCcccccccHHHhhHHH---HHhhcccc
Confidence 4777765 778888776 3567899899999999986 77776654
No 237
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=27.04 E-value=1.1e+02 Score=33.80 Aligned_cols=60 Identities=18% Similarity=0.281 Sum_probs=45.4
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe----CCeec--CCCCChhhhccCCCCEEEEEEec
Q 017906 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH----QGKVL--KDVTTLEENKVAENSFVVVMLTK 76 (364)
Q Consensus 12 ~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif----~GkiL--~D~~tL~d~gIk~~s~I~v~v~k 76 (364)
-+.+.|+..+++..+|++|+...+ ++.+.+||+- +|..+ .++.+|.. .-++++|.+-+.+
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~---V~~~HFKi~R~~~~N~~~~S~~~NetLs~--~~~~~~iTI~LG~ 943 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLE---VDKDHFKIVRHASDNGSEASFMDNETLSG--AFQSCFITIKLGA 943 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhC---cChhHeEEEEEecCCcchhhhccchhhhh--hcccceEEEEecC
Confidence 467899999999999999999999 8899999862 34444 45667765 4567777765543
No 238
>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=26.81 E-value=2.6e+02 Score=23.11 Aligned_cols=33 Identities=15% Similarity=0.090 Sum_probs=26.2
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhC
Q 017906 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQG 35 (364)
Q Consensus 3 I~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g 35 (364)
|.|-..++.-.++.+..+.||.+|-..+..+..
T Consensus 5 IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~ 37 (97)
T cd01775 5 IRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFY 37 (97)
T ss_pred EEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhc
Confidence 344444565567899999999999999999987
No 239
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=26.74 E-value=2.1e+02 Score=20.71 Aligned_cols=37 Identities=30% Similarity=0.316 Sum_probs=30.0
Q ss_pred HHHHHHHHH--cCCCCCCHHHHHHHHHHHcCChHHHHHHHHh
Q 017906 173 EATVQQILD--MGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (364)
Q Consensus 173 e~~V~~i~~--MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~ 212 (364)
|..|.+... -| -.|+-++|-|+-..-|.+.||.-|++
T Consensus 10 edlI~q~q~VLqg---ksR~vIirELqrTnLdVN~AvNNlLs 48 (53)
T PF11547_consen 10 EDLINQAQVVLQG---KSRNVIIRELQRTNLDVNLAVNNLLS 48 (53)
T ss_dssp HHHHHHHHHHSTT---S-HHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHcC---CcHHHHHHHHHHhcccHHHHHHHHhc
Confidence 667776655 47 99999999999999999999999986
No 240
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.55 E-value=1.2e+02 Score=25.74 Aligned_cols=59 Identities=15% Similarity=0.170 Sum_probs=36.6
Q ss_pred EeCC-CCcHHHHHHHHHHHhCCC-------CCCCCCeEEEeC-----------------CeecC-CCCChhhhccCCCCE
Q 017906 16 EVKP-EDKVSDVKKNIETVQGSD-------VYPASQQMLIHQ-----------------GKVLK-DVTTLEENKVAENSF 69 (364)
Q Consensus 16 eV~~-s~TV~dLK~kI~~~~g~~-------~ip~~~qkLif~-----------------GkiL~-D~~tL~d~gIk~~s~ 69 (364)
+|+. +.||.+++..|......+ .+.-+..|+++. ..+|+ ++++|+.|||.+...
T Consensus 28 d~dLad~Tvk~f~~~~~~~Iq~~~sl~pfRn~kfDtLKIy~~Ah~sKT~nLvinldhDd~w~L~d~~ktL~~~GIenETE 107 (127)
T KOG4147|consen 28 DVDLADQTVKEFIVFLKQDIQLRTSLPPFRNYKFDTLKIYHQAHKSKTNNLVINLDHDDRWLLKDEDKTLKAAGIENETE 107 (127)
T ss_pred ccchhHhhHHHHHHHHHHhcccCCCCCccccccccceeeehhhhhcccceEEEeccCCcceeecCccchHHHhccCcchh
Confidence 5665 789999888777664311 122233444321 24565 468999999998777
Q ss_pred EEEEE
Q 017906 70 VVVML 74 (364)
Q Consensus 70 I~v~v 74 (364)
|-++.
T Consensus 108 is~F~ 112 (127)
T KOG4147|consen 108 ISFFC 112 (127)
T ss_pred hhhhh
Confidence 66543
No 241
>KOG2019 consensus Metalloendoprotease HMP1 (insulinase superfamily) [General function prediction only; Posttranslational modification, protein turnover, chaperones]
Probab=26.36 E-value=1.9e+02 Score=32.15 Aligned_cols=41 Identities=20% Similarity=0.449 Sum_probs=36.1
Q ss_pred CCCchHhhhCcHHHHHHHHHHHh-CccchHHHHHHHhhhCHH
Q 017906 273 GAGTLDFLRNSQQFQALRTMVQA-NPQILQPMLQELGKQNPH 313 (364)
Q Consensus 273 ~~~~l~~Lr~~pqf~~lR~~vq~-nP~~L~~~Lqql~~~nP~ 313 (364)
+.+|.+.|....+++.+|+-++. ++.+++++|.+.--.||.
T Consensus 445 d~DPfE~Lk~~~~L~~lk~~l~ek~~~lfq~lIkkYilnn~h 486 (998)
T KOG2019|consen 445 DMDPFEPLKFEEQLKKLKQRLAEKSKKLFQPLIKKYILNNPH 486 (998)
T ss_pred CCCccchhhhhhHHHHHHHHHhhhchhHHHHHHHHHHhcCCc
Confidence 35788999999999999999998 999999999988777773
No 242
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=26.28 E-value=85 Score=23.34 Aligned_cols=30 Identities=20% Similarity=0.335 Sum_probs=23.4
Q ss_pred HHHHHHhhhCHHHHHHHHH--CHHHHHHHhcCC
Q 017906 302 PMLQELGKQNPHLMRLIQE--HQTDFLRLINEP 332 (364)
Q Consensus 302 ~~Lqql~~~nP~L~~~I~~--n~e~Fl~~l~e~ 332 (364)
.+|+ ..++||+|.+.+++ ++++|+.+..+.
T Consensus 6 ~Fl~-~~~~d~~L~~~l~~~~~~e~~~~lA~~~ 37 (64)
T TIGR03798 6 AFLE-KVKTDPDLREKLKAAEDPEDRVAIAKEA 37 (64)
T ss_pred HHHH-HHHcCHHHHHHHHHcCCHHHHHHHHHHc
Confidence 3444 34678899999888 899999999765
No 243
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=25.94 E-value=34 Score=38.98 Aligned_cols=61 Identities=8% Similarity=-0.096 Sum_probs=49.0
Q ss_pred EeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCE
Q 017906 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSF 69 (364)
Q Consensus 6 Ktl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~ 69 (364)
+++....|...+....++...|.+|..++| |+...++|++-|..++++..+..|+....-.
T Consensus 330 ~~l~~p~~~~~~~~~~~~~~~~p~~~~qtg---ipi~~~~l~~vg~~~n~d~P~s~~~~e~~~~ 390 (1143)
T KOG4248|consen 330 CNLACPPPRHLHVVRPMSHYTTPMVLQQTG---IPIQINVLTTVGMTGNGDRPPSTPNAEAPPP 390 (1143)
T ss_pred hcccCCCCceeeecchhhhccCceeeeccc---ccccccceeeecccccCCCCCCccccccCCC
Confidence 445555666666677788888999999999 9999999999999999999988776654433
No 244
>PRK09814 beta-1,6-galactofuranosyltransferase; Provisional
Probab=25.47 E-value=78 Score=30.86 Aligned_cols=38 Identities=34% Similarity=0.528 Sum_probs=28.9
Q ss_pred HHHHcCCCCCCHHHHHHHHHH-------------------HcCChHHHHHHHHhCCCCC
Q 017906 178 QILDMGGGSWDRETVIRALRA-------------------AYNNPERAVEYLYSGIPEQ 217 (364)
Q Consensus 178 ~i~~MG~~~f~r~qv~~ALrA-------------------afnNpdRAvEyL~~GIP~~ 217 (364)
++.=+| .++++++.+.|+. -||+|.+..+||..|+|--
T Consensus 208 ~V~f~G--~~~~eel~~~l~~~~gLv~~~~~~~~~~~~y~~~~~P~K~~~ymA~G~PVI 264 (333)
T PRK09814 208 NISYKG--WFDPEELPNELSKGFGLVWDGDTNDGEYGEYYKYNNPHKLSLYLAAGLPVI 264 (333)
T ss_pred CeEEec--CCCHHHHHHHHhcCcCeEEcCCCCCccchhhhhccchHHHHHHHHCCCCEE
Confidence 333355 2388888887775 3899999999999999953
No 245
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=25.28 E-value=93 Score=21.40 Aligned_cols=25 Identities=16% Similarity=0.170 Sum_probs=22.7
Q ss_pred CCHHHHHHHHHHHcCChHHHHHHHH
Q 017906 187 WDRETVIRALRAAYNNPERAVEYLY 211 (364)
Q Consensus 187 f~r~qv~~ALrAafnNpdRAvEyL~ 211 (364)
..|+.++..|+..-.|.-+|+|.++
T Consensus 15 ~kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 15 QKRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred CChHHHHHHHHHcCCcHHHHHHHhC
Confidence 4799999999999999999999874
No 246
>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=24.94 E-value=95 Score=23.91 Aligned_cols=44 Identities=14% Similarity=0.359 Sum_probs=27.8
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 21 DKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
.|+.+|++..++++| +. ....+.-.|-.++|=. -|.+|+.++++
T Consensus 26 ~SleeLl~ia~~kfg---~~-~~~v~~~dgaeIdDI~-----~IRDgD~L~~~ 69 (69)
T PF11834_consen 26 DSLEELLKIASEKFG---FS-ATKVLNEDGAEIDDID-----VIRDGDHLYLV 69 (69)
T ss_pred ccHHHHHHHHHHHhC---CC-ceEEEcCCCCEEeEEE-----EEEcCCEEEEC
Confidence 699999999999999 54 2222333444443311 25678877763
No 247
>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=24.74 E-value=1.6e+02 Score=23.27 Aligned_cols=38 Identities=11% Similarity=0.221 Sum_probs=28.5
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCCCCChhh
Q 017906 21 DKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKDVTTLEE 61 (364)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~qkLi--f~GkiL~D~~tL~d 61 (364)
.+..+|+.|..++.+ ++....+|+ -.|-.++|+.-+..
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~~lvL~eDGTeVddEeYF~t 60 (78)
T cd01615 21 SSLEELLSKACEKLK---LPSAPVTLVLEEDGTEVDDEEYFQT 60 (78)
T ss_pred CCHHHHHHHHHHHcC---CCCCCeEEEEeCCCcEEccHHHHhc
Confidence 479999999999999 755555554 47888877654443
No 248
>PF01988 VIT1: VIT family; InterPro: IPR008217 Proteins containing this entry have no known function and are predicted to be integral membrane proteins. They include the Ccc1 protein from Saccharomyces cerevisiae (Baker's yeast) (P47818 from SWISSPROT) that may have a role in regulating calcium levels [].
Probab=24.57 E-value=1.2e+02 Score=27.96 Aligned_cols=39 Identities=10% Similarity=0.164 Sum_probs=34.5
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
+.+++++-+.+.| |++++..+..+.-+.|+|. ++.++.-
T Consensus 81 e~~el~~iy~~~G---l~~~~a~~i~~~l~~~~~~-~~~m~~e 119 (213)
T PF01988_consen 81 EKEELVEIYRAKG---LSEEDAEEIAEELSKDKDA-LDFMMRE 119 (213)
T ss_pred HHHHHHHHHHHCC---CCHHHHHHHHHHHHhCchH-HHHHHhh
Confidence 4567888888999 9999999999999999999 9999854
No 249
>PF08169 RBB1NT: RBB1NT (NUC162) domain; InterPro: IPR012603 This domain is found N-terminal to the ARID/BRIGHT domain in DNA-binding proteins of the Retinoblastoma-binding protein 1 family [].; PDB: 2YRV_A.
Probab=24.13 E-value=48 Score=27.28 Aligned_cols=21 Identities=29% Similarity=0.733 Sum_probs=12.9
Q ss_pred HHHHHHcCChHHHHHHHHhC-CCCC
Q 017906 194 RALRAAYNNPERAVEYLYSG-IPEQ 217 (364)
Q Consensus 194 ~ALrAafnNpdRAvEyL~~G-IP~~ 217 (364)
..+|.++ |+|++||-+| ||++
T Consensus 75 ~s~k~al---~~A~~Fl~~~~vP~~ 96 (96)
T PF08169_consen 75 SSLKPAL---DKASTFLKTGVVPDN 96 (96)
T ss_dssp HHH-HHH---HHHHHHHHS----TT
T ss_pred chhhHHH---HHHHHHHhcCCCCCC
Confidence 4566664 7899999999 8864
No 250
>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=23.75 E-value=1.2e+02 Score=24.56 Aligned_cols=41 Identities=10% Similarity=0.142 Sum_probs=35.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeE
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQM 45 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qk 45 (364)
.|.|--.+|..+.+.|..+++..+|-+.+..+.| ++.+..+
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~---L~~e~~~ 43 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAG---MDSYTQN 43 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhC---CCHHHHh
Confidence 4566667899999999999999999999999999 7766554
No 251
>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=23.59 E-value=3.8e+02 Score=21.51 Aligned_cols=44 Identities=9% Similarity=0.161 Sum_probs=32.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC-CeEEEeC
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPAS-QQMLIHQ 49 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~-~qkLif~ 49 (364)
+|++. .+|..+.+.++.+.|-.+|.+++.+... +..+ .+.+.|.
T Consensus 2 ~~K~~-y~gdi~it~~d~~~s~e~L~~~v~~~c~---~~~~q~ft~kw~ 46 (83)
T cd06404 2 RVKAA-YNGDIMITSIDPSISLEELCNEVRDMCR---FHNDQPFTLKWI 46 (83)
T ss_pred eEEEE-ecCcEEEEEcCCCcCHHHHHHHHHHHhC---CCCCCcEEEEEE
Confidence 44444 4677888899999999999999999987 4332 4455553
No 252
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=23.32 E-value=1.3e+02 Score=23.41 Aligned_cols=52 Identities=13% Similarity=0.231 Sum_probs=36.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCCeecC
Q 017906 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQGKVLK 54 (364)
Q Consensus 2 kI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL-if~GkiL~ 54 (364)
.++++ .+|+.+.+.||...++.-|-.+...+.+...+.+...++ .|+|..+.
T Consensus 2 ~~~~~-Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~ 54 (91)
T cd05484 2 TVTLL-VNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLS 54 (91)
T ss_pred EEEEE-ECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEee
Confidence 35555 679999999999888888888888888833233344555 47776654
No 253
>PF10346 Con-6: Conidiation protein 6; InterPro: IPR018824 This entry represents a conserved region found in fungal conidiation-specific protein 6 []. This protein is expressed approximately 6 hours after the induction of development and is induced just prior to major constriction-chain growth [].
Probab=23.22 E-value=67 Score=21.71 Aligned_cols=17 Identities=35% Similarity=0.556 Sum_probs=14.5
Q ss_pred CHHHHHHHHHHHcCChH
Q 017906 188 DRETVIRALRAAYNNPE 204 (364)
Q Consensus 188 ~r~qv~~ALrAafnNpd 204 (364)
+...|.+-|+|+.+||.
T Consensus 2 ~~~~V~~G~KAal~NPn 18 (36)
T PF10346_consen 2 DPNNVAGGYKAALHNPN 18 (36)
T ss_pred cHHHHHHHHHHHhcCCC
Confidence 45679999999999994
No 254
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=22.70 E-value=1e+02 Score=23.14 Aligned_cols=21 Identities=19% Similarity=0.507 Sum_probs=18.0
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHH
Q 017906 176 VQQILDMGGGSWDRETVIRALRAA 199 (364)
Q Consensus 176 V~~i~~MG~~~f~r~qv~~ALrAa 199 (364)
-+.||+|| |...+..+=+|-|
T Consensus 6 k~dLi~lG---f~~~tA~~IIrqA 26 (59)
T PF11372_consen 6 KKDLIELG---FSESTARDIIRQA 26 (59)
T ss_pred HHHHHHcC---CCHHHHHHHHHHH
Confidence 46799999 9999998888865
No 255
>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=22.41 E-value=1.8e+02 Score=22.82 Aligned_cols=33 Identities=12% Similarity=0.190 Sum_probs=28.9
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE
Q 017906 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML 46 (364)
Q Consensus 11 k~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL 46 (364)
.+|.|.|+.+.|=.++|+.|+..++ +.+...+.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~---VkV~~Vnt 47 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFD---VKVEKVNT 47 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhC---CceEEEEe
Confidence 5899999999999999999999999 66666654
No 256
>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=22.22 E-value=65 Score=23.70 Aligned_cols=32 Identities=22% Similarity=0.367 Sum_probs=21.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHH
Q 017906 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIET 32 (364)
Q Consensus 1 MkI~VKtl~gk~~~ieV~~s~TV~dLK~kI~~ 32 (364)
|.|++++.+|+.|.++.+.-.--.-||..|..
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 78999999999999985533333445555554
No 257
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=21.70 E-value=1.5e+02 Score=29.38 Aligned_cols=38 Identities=16% Similarity=0.227 Sum_probs=31.5
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHcCChHHHHHHHHhC
Q 017906 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (364)
Q Consensus 171 ~~e~~V~~i~~MG~~~f~r~qv~~ALrAafnNpdRAvEyL~~G 213 (364)
..+..++-|.+.| .+. ...+|+.+-++|.+|.+|+..|
T Consensus 168 ~~~~~~~~L~~~~---~~~--~~~~l~l~~G~p~~A~~~~~~~ 205 (319)
T PRK06090 168 STAQAMQWLKGQG---ITV--PAYALKLNMGSPLKTLAMMKEG 205 (319)
T ss_pred CHHHHHHHHHHcC---Cch--HHHHHHHcCCCHHHHHHHhCCC
Confidence 3577888888899 873 4578999999999999998755
No 258
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=21.39 E-value=81 Score=29.26 Aligned_cols=51 Identities=24% Similarity=0.376 Sum_probs=28.4
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC---CCeEE--EeCC-----eecCCCC--Chhhhc
Q 017906 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA---SQQML--IHQG-----KVLKDVT--TLEENK 63 (364)
Q Consensus 10 gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~---~~qkL--if~G-----kiL~D~~--tL~d~g 63 (364)
|-.|.|.|.+..|..++|++|.++.| ++- ++.|+ +..+ +-|+|+. .|.+..
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlg---v~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~ 194 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLG---VSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEI 194 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH------HHHHTT-EEEEEETTEE---EE--TT-T----GGG
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhC---CChhhheeEEEEEEecCCcccceeccccchhhhhhhh
Confidence 55688999999999999999999998 433 34444 4444 3566654 555543
No 259
>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=21.32 E-value=2.6e+02 Score=22.11 Aligned_cols=39 Identities=13% Similarity=0.065 Sum_probs=32.1
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE
Q 017906 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML 46 (364)
Q Consensus 5 VKtl~gk~~~ieV~~s~TV~dLK~kI~~~~g~~~ip~~~qkL 46 (364)
|-..+|+...+-|.+++||.++-..++++.+ +.+..--|
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~---ldp~eh~L 42 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQ---LDPMEHYL 42 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcC---CChhHhee
Confidence 4456888889999999999999999999999 65665433
No 260
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=21.20 E-value=97 Score=29.41 Aligned_cols=29 Identities=21% Similarity=0.322 Sum_probs=25.0
Q ss_pred CCcchHHHHHHHHHcCCCCC-CHHHHHHHHHHH
Q 017906 168 AGSNLEATVQQILDMGGGSW-DRETVIRALRAA 199 (364)
Q Consensus 168 ~g~~~e~~V~~i~~MG~~~f-~r~qv~~ALrAa 199 (364)
.|++.+..|++|.+-+ | -++-|++||||-
T Consensus 6 ~gs~n~~LId~L~~~~---~Ir~~~v~~A~~a~ 35 (237)
T KOG1661|consen 6 SGSDNDDLIDNLRENK---IIRTRRVEQAMRAT 35 (237)
T ss_pred cCcchHHHHHHHHhcc---hhHHHHHHHHHHhh
Confidence 4778899999999999 8 777799999983
No 261
>PF14053 DUF4248: Domain of unknown function (DUF4248)
Probab=21.18 E-value=78 Score=24.31 Aligned_cols=20 Identities=25% Similarity=0.561 Sum_probs=16.4
Q ss_pred HHHHHHHHHhCccchHHHHH
Q 017906 286 FQALRTMVQANPQILQPMLQ 305 (364)
Q Consensus 286 f~~lR~~vq~nP~~L~~~Lq 305 (364)
...||+.|..||+|+..|..
T Consensus 25 ~r~L~rwI~~~~~L~~~L~~ 44 (69)
T PF14053_consen 25 VRKLRRWIRRNPELLEELEA 44 (69)
T ss_pred HHHHHHHHHHCHHHHHHHHH
Confidence 67899999999888877654
No 262
>PF09030 Creb_binding: Creb binding; InterPro: IPR014744 This entry represents the interlocking domain of the eukaryotic nuclear receptor coactivators CREBP and p300. The interlocking domain forms a 3-helical non-globular array that forms interlocked heterodimers with its target. Nuclear receptors are ligand-activated transcription factors involved in the regulation of many processes, including development, reproduction and homeostasis. Nuclear receptor coactivators act to modulate the function of nuclear receptors. Coactivators associate with promoters and enhancers primarily through protein-protein contacts to facilitate the interaction between DNA-bound transcription factors and the transcription machinery. Many of these coactivators are structurally related, including CBP (CREB-binding protein) and p300 []. CBP and p300 both have histone acetyltransferase activity (2.3.1.48 from EC). CBP/p300 proteins function synergistically to activate transcription, acting to remodel chromatin and to recruit RNA polymerase II and the basal transcription machinery. CBP is required for proper cell cycle control, differentiation and apoptosis. The interaction of CBP/p300 with transcription factors involves several small domains. The IBiD domain in the C-terminal of CBP is responsible for CBP interaction with IRF-3, as well as with the adenoviral oncoprotein E1A, TIF-2 coactivator, and the IRF homologue KSHV IRF-1 []. ; GO: 0003713 transcription coactivator activity, 0004402 histone acetyltransferase activity, 0006355 regulation of transcription, DNA-dependent, 0016573 histone acetylation, 0000123 histone acetyltransferase complex, 0005634 nucleus; PDB: 2KKJ_A 2C52_A 1JJS_A 2L14_A 1KBH_B 1ZOQ_C.
Probab=21.17 E-value=71 Score=26.65 Aligned_cols=31 Identities=26% Similarity=0.506 Sum_probs=18.3
Q ss_pred hHhhhCc---HHHHHHHHHHHhCccchHHHHHHH
Q 017906 277 LDFLRNS---QQFQALRTMVQANPQILQPMLQEL 307 (364)
Q Consensus 277 l~~Lr~~---pqf~~lR~~vq~nP~~L~~~Lqql 307 (364)
|..||+. -+=+++=.|+++||+|+-.||.|-
T Consensus 60 LrTLkSPsSP~QQQQVLnILkSNPqLMAAFIKQR 93 (104)
T PF09030_consen 60 LRTLKSPSSPQQQQQVLNILKSNPQLMAAFIKQR 93 (104)
T ss_dssp HHCHCSSSSCHHHHHHHHHHHTSHHHHHHHHHHC
T ss_pred HHHhcCCCCHHHHHHHHHHHhhCHHHHHHHHHHH
Confidence 4445543 255666666777777776666553
No 263
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=21.08 E-value=1.4e+02 Score=22.86 Aligned_cols=26 Identities=15% Similarity=0.472 Sum_probs=22.0
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 017906 170 SNLEATVQQILDMGGGSWDRETVIRALRA 198 (364)
Q Consensus 170 ~~~e~~V~~i~~MG~~~f~r~qv~~ALrA 198 (364)
...+.++..|..|| |++.+|..-|+-
T Consensus 9 ~R~daA~dam~~lG---~~~~~v~~vl~~ 34 (65)
T PF10440_consen 9 ERIDAALDAMRQLG---FSKKQVRPVLKN 34 (65)
T ss_pred HHHHHHHHHHHHcC---CCHHHHHHHHHH
Confidence 45788999999999 999999887763
No 264
>PF13974 YebO: YebO-like protein
Probab=20.82 E-value=88 Score=24.90 Aligned_cols=32 Identities=34% Similarity=0.453 Sum_probs=19.0
Q ss_pred HHHHHHHHhCc--cchHHHHHHHhhhCHHHHHHH
Q 017906 287 QALRTMVQANP--QILQPMLQELGKQNPHLMRLI 318 (364)
Q Consensus 287 ~~lR~~vq~nP--~~L~~~Lqql~~~nP~L~~~I 318 (364)
=-.|--++.|- ++|+.+|+|-.++|-=|.+++
T Consensus 17 FVnRaSvRANEQI~LL~~ileqQKrQn~LL~rL~ 50 (80)
T PF13974_consen 17 FVNRASVRANEQIELLEEILEQQKRQNALLRRLC 50 (80)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555555554 367788887777774333333
No 265
>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=20.79 E-value=2.1e+02 Score=22.74 Aligned_cols=38 Identities=13% Similarity=0.247 Sum_probs=27.5
Q ss_pred CcHHHHHHHHHHHhCCCCCCCC--CeEE--EeCCeecCCCCChhh
Q 017906 21 DKVSDVKKNIETVQGSDVYPAS--QQML--IHQGKVLKDVTTLEE 61 (364)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~--~qkL--if~GkiL~D~~tL~d 61 (364)
.+..+|+.|..+..+ ++.. ..+| --.|-.++|+.-+..
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~~~~lvL~eDGT~VddEeyF~t 62 (80)
T cd06536 21 SSLEELRIKACESLG---FDSSSAPITLVLAEDGTIVEDEDYFLC 62 (80)
T ss_pred CCHHHHHHHHHHHhC---CCCCCCceEEEEecCCcEEccHHHHhh
Confidence 379999999999998 6632 2454 457888887655544
No 266
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.60 E-value=1.1e+02 Score=27.98 Aligned_cols=27 Identities=7% Similarity=0.225 Sum_probs=24.2
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcC
Q 017906 172 LEATVQQILDMGGGSWDRETVIRALRAAYN 201 (364)
Q Consensus 172 ~e~~V~~i~~MG~~~f~r~qv~~ALrAafn 201 (364)
.++.+..|+++| |.+.++.+|++....
T Consensus 148 ~~e~~~aL~~LG---y~~~~a~~ai~~~~~ 174 (194)
T PRK14605 148 NSDILATLTALG---YSSSEAAKAISSLGD 174 (194)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhhc
Confidence 578999999999 999999999998753
No 267
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=20.29 E-value=2.2e+02 Score=22.69 Aligned_cols=63 Identities=11% Similarity=0.112 Sum_probs=37.2
Q ss_pred EEEEeCCCc-EEEEEeCCCCcHHHHHHHHHHHhCCCCCC-CCCeEEEeCCeecCCCCChhhhccCCCCEEEEE
Q 017906 3 VFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSDVYP-ASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (364)
Q Consensus 3 I~VKtl~gk-~~~ieV~~s~TV~dLK~kI~~~~g~~~ip-~~~qkLif~GkiL~D~~tL~d~gIk~~s~I~v~ 73 (364)
+.|++.+.. ++-|-. .+..+|+.|..+..+ ++ +..+.|.-.|..++|+.-+.. +.++..++++
T Consensus 5 fkv~~~~r~~kkGV~A---~sL~EL~~K~~~~L~---~~~~~~lvLeeDGT~Vd~EeyF~t--LpdnT~lm~L 69 (81)
T cd06537 5 FRVCDHKRTVRKGLTA---ASLQELLAKALETLL---LSGVLTLVLEEDGTAVDSEDFFEL--LEDDTCLMVL 69 (81)
T ss_pred eEEecCCCCeeEeEEc---cCHHHHHHHHHHHhC---CCCceEEEEecCCCEEccHHHHhh--CCCCCEEEEE
Confidence 455555432 233332 379999999999988 54 233444457888877655443 3444444443
No 268
>KOG3073 consensus Protein required for 18S rRNA maturation and 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=20.17 E-value=1.5e+02 Score=27.81 Aligned_cols=36 Identities=25% Similarity=0.274 Sum_probs=20.5
Q ss_pred CCCCC--eEEEeCCeecCCCCChhhhccCCCCEEEEEE
Q 017906 39 YPASQ--QMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (364)
Q Consensus 39 ip~~~--qkLif~GkiL~D~~tL~d~gIk~~s~I~v~v 74 (364)
+|+.. ..|.|+|..|.+.+.|-.-.-.+.++++++.
T Consensus 156 lPv~~~Ki~lSf~~p~l~~~~~lv~~~~~~~~~v~~Ig 193 (236)
T KOG3073|consen 156 LPVNSRKIGLSFSGPKLSNVRDLVASLDDDDSVVFVIG 193 (236)
T ss_pred CCCCccEEeecCCCcccccHHhhccccCCCCCEEEEEe
Confidence 45554 4567899999876555443323334555554
Done!